Mercurial > repos > iuc > mothur_get_oturep

annotate tool_test_output_all.html @ 4:f45e7f3675e2 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
author iuc
date Wed, 14 Feb 2018 12:03:33 -0500
parents 899ef1660676
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
3
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
1 <!DOCTYPE html>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
2 <html lang="en">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
3 <head>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
4 <meta charset="utf-8">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
5 <meta http-equiv="X-UA-Compatible" content="IE=edge">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
6 <meta name="viewport" content="width=device-width, initial-scale=1">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
7 <title>Tool Test Results (powered by Planemo)</title>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
8
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
9 <!-- Bootstrap -->
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
10 <style>/*!
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
11 * Bootstrap v3.3.1 (http://getbootstrap.com)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
12 * Copyright 2011-2014 Twitter, Inc.
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
13 * Licensed under MIT (https://github.com/twbs/bootstrap/blob/master/LICENSE)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
14 *//*! normalize.css v3.0.2 | MIT License | git.io/normalize */html{font-family:sans-serif;-webkit-text-size-adjust:100%;-ms-text-size-adjust:100%}body{margin:0}article,aside,details,figcaption,figure,footer,header,hgroup,main,menu,nav,section,summary{display:block}audio,canvas,progress,video{display:inline-block;vertical-align:baseline}audio:not([controls]){display:none;height:0}[hidden],template{display:none}a{background-color:transparent}a:active,a:hover{outline:0}abbr[title]{border-bottom:1px dotted}b,strong{font-weight:700}dfn{font-style:italic}h1{margin:.67em 0;font-size:2em}mark{color:#000;background:#ff0}small{font-size:80%}sub,sup{position:relative;font-size:75%;line-height:0;vertical-align:baseline}sup{top:-.5em}sub{bottom:-.25em}img{border:0}svg:not(:root){overflow:hidden}figure{margin:1em 40px}hr{height:0;-webkit-box-sizing:content-box;-moz-box-sizing:content-box;box-sizing:content-box}pre{overflow:auto}code,kbd,pre,samp{font-family:monospace,monospace;font-size:1em}button,input,optgroup,select,textarea{margin:0;font:inherit;color:inherit}button{overflow:visible}button,select{text-transform:none}button,html input[type=button],input[type=reset],input[type=submit]{-webkit-appearance:button;cursor:pointer}button[disabled],html input[disabled]{cursor:default}button::-moz-focus-inner,input::-moz-focus-inner{padding:0;border:0}input{line-height:normal}input[type=checkbox],input[type=radio]{-webkit-box-sizing:border-box;-moz-box-sizing:border-box;box-sizing:border-box;padding:0}input[type=number]::-webkit-inner-spin-button,input[type=number]::-webkit-outer-spin-button{height:auto}input[type=search]{-webkit-box-sizing:content-box;-moz-box-sizing:content-box;box-sizing:content-box;-webkit-appearance:textfield}input[type=search]::-webkit-search-cancel-button,input[type=search]::-webkit-search-decoration{-webkit-appearance:none}fieldset{padding:.35em .625em .75em;margin:0 2px;border:1px solid silver}legend{padding:0;border:0}textarea{overflow:auto}optgroup{font-weight:700}table{border-spacing:0;border-collapse:collapse}td,th{padding:0}/*! Source: https://github.com/h5bp/html5-boilerplate/blob/master/src/css/main.css */@media print{*,:before,:after{color:#000!important;text-shadow:none!important;background:transparent!important;-webkit-box-shadow:none!important;box-shadow:none!important}a,a:visited{text-decoration:underline}a[href]:after{content:" (" attr(href) ")"}abbr[title]:after{content:" (" attr(title) ")"}a[href^="#"]:after,a[href^="javascript:"]:after{content:""}pre,blockquote{border:1px solid #999;page-break-inside:avoid}thead{display:table-header-group}tr,img{page-break-inside:avoid}img{max-width:100%!important}p,h2,h3{orphans:3;widows:3}h2,h3{page-break-after:avoid}select{background:#fff!important}.navbar{display:none}.btn>.caret,.dropup>.btn>.caret{border-top-color:#000!important}.label{border:1px solid #000}.table{border-collapse:collapse!important}.table td,.table th{background-color:#fff!important}.table-bordered th,.table-bordered td{border:1px solid #ddd!important}}@font-face{font-family:'Glyphicons Halflings';src:url(../fonts/glyphicons-halflings-regular.eot);src:url(../fonts/glyphicons-halflings-regular.eot?#iefix) format('embedded-opentype'),url(../fonts/glyphicons-halflings-regular.woff) format('woff'),url(../fonts/glyphicons-halflings-regular.ttf) format('truetype'),url(../fonts/glyphicons-halflings-regular.svg#glyphicons_halflingsregular) format('svg')}.glyphicon{position:relative;top:1px;display:inline-block;font-family:'Glyphicons Halflings';font-style:normal;font-weight:400;line-height:1;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}.glyphicon-asterisk:before{content:"\2a"}.glyphicon-plus:before{content:"\2b"}.glyphicon-euro:before,.glyphicon-eur:before{content:"\20ac"}.glyphicon-minus:before{content:"\2212"}.glyphicon-cloud:before{content:"\2601"}.glyphicon-envelope:before{content:"\2709"}.glyphicon-pencil:before{content:"\270f"}.glyphicon-glass:before{content:"\e001"}.glyphicon-music:before{content:"\e002"}.glyphicon-search:before{content:"\e003"}.glyphicon-heart:before{content:"\e005"}.glyphicon-star:before{content:"\e006"}.glyphicon-star-empty:before{content:"\e007"}.glyphicon-user:before{content:"\e008"}.glyphicon-film:before{content:"\e009"}.glyphicon-th-large:before{content:"\e010"}.glyphicon-th:before{content:"\e011"}.glyphicon-th-list:before{content:"\e012"}.glyphicon-ok:before{content:"\e013"}.glyphicon-remove:before{content:"\e014"}.glyphicon-zoom-in:before{content:"\e015"}.glyphicon-zoom-out:before{content:"\e016"}.glyphicon-off:before{content:"\e017"}.glyphicon-signal:before{content:"\e018"}.glyphicon-cog:before{content:"\e019"}.glyphicon-trash:before{content:"\e020"}.glyphicon-home:before{content:"\e021"}.glyphicon-file:before{content:"\e022"}.glyphicon-time:before{content:"\e023"}.glyphicon-road:before{content:"\e024"}.glyphicon-download-alt:before{content:"\e025"}.glyphicon-download:before{content:"\e026"}.glyphicon-upload:before{content:"\e027"}.glyphicon-inbox:before{content:"\e028"}.glyphicon-play-circle:before{content:"\e029"}.glyphicon-repeat:before{content:"\e030"}.glyphicon-refresh:before{content:"\e031"}.glyphicon-list-alt:before{content:"\e032"}.glyphicon-lock:before{content:"\e033"}.glyphicon-flag:before{content:"\e034"}.glyphicon-headphones:before{content:"\e035"}.glyphicon-volume-off:before{content:"\e036"}.glyphicon-volume-down:before{content:"\e037"}.glyphicon-volume-up:before{content:"\e038"}.glyphicon-qrcode:before{content:"\e039"}.glyphicon-barcode:before{content:"\e040"}.glyphicon-tag:before{content:"\e041"}.glyphicon-tags:before{content:"\e042"}.glyphicon-book:before{content:"\e043"}.glyphicon-bookmark:before{content:"\e044"}.glyphicon-print:before{content:"\e045"}.glyphicon-camera:before{content:"\e046"}.glyphicon-font:before{content:"\e047"}.glyphicon-bold:before{content:"\e048"}.glyphicon-italic:before{content:"\e049"}.glyphicon-text-height:before{content:"\e050"}.glyphicon-text-width:before{content:"\e051"}.glyphicon-align-left:before{content:"\e052"}.glyphicon-align-center:before{content:"\e053"}.glyphicon-align-right:before{content:"\e054"}.glyphicon-align-justify:before{content:"\e055"}.glyphicon-list:before{content:"\e056"}.glyphicon-indent-left:before{content:"\e057"}.glyphicon-indent-right:before{content:"\e058"}.glyphicon-facetime-video:before{content:"\e059"}.glyphicon-picture:before{content:"\e060"}.glyphicon-map-marker:before{content:"\e062"}.glyphicon-adjust:before{content:"\e063"}.glyphicon-tint:before{content:"\e064"}.glyphicon-edit:before{content:"\e065"}.glyphicon-share:before{content:"\e066"}.glyphicon-check:before{content:"\e067"}.glyphicon-move:before{content:"\e068"}.glyphicon-step-backward:before{content:"\e069"}.glyphicon-fast-backward:before{content:"\e070"}.glyphicon-backward:before{content:"\e071"}.glyphicon-play:before{content:"\e072"}.glyphicon-pause:before{content:"\e073"}.glyphicon-stop:before{content:"\e074"}.glyphicon-forward:before{content:"\e075"}.glyphicon-fast-forward:before{content:"\e076"}.glyphicon-step-forward:before{content:"\e077"}.glyphicon-eject:before{content:"\e078"}.glyphicon-chevron-left:before{content:"\e079"}.glyphicon-chevron-right:before{content:"\e080"}.glyphicon-plus-sign:before{content:"\e081"}.glyphicon-minus-sign:before{content:"\e082"}.glyphicon-remove-sign:before{content:"\e083"}.glyphicon-ok-sign:before{content:"\e084"}.glyphicon-question-sign:before{content:"\e085"}.glyphicon-info-sign:before{content:"\e086"}.glyphicon-screenshot:before{content:"\e087"}.glyphicon-remove-circle:before{content:"\e088"}.glyphicon-ok-circle:before{content:"\e089"}.glyphicon-ban-circle:before{content:"\e090"}.glyphicon-arrow-left:before{content:"\e091"}.glyphicon-arrow-right:before{content:"\e092"}.glyphicon-arrow-up:before{content:"\e093"}.glyphicon-arrow-down:before{content:"\e094"}.glyphicon-share-alt:before{content:"\e095"}.glyphicon-resize-full:before{content:"\e096"}.glyphicon-resize-small:before{content:"\e097"}.glyphicon-exclamation-sign:before{content:"\e101"}.glyphicon-gift:before{content:"\e102"}.glyphicon-leaf:before{content:"\e103"}.glyphicon-fire:before{content:"\e104"}.glyphicon-eye-open:before{content:"\e105"}.glyphicon-eye-close:before{content:"\e106"}.glyphicon-warning-sign:before{content:"\e107"}.glyphicon-plane:before{content:"\e108"}.glyphicon-calendar:before{content:"\e109"}.glyphicon-random:before{content:"\e110"}.glyphicon-comment:before{content:"\e111"}.glyphicon-magnet:before{content:"\e112"}.glyphicon-chevron-up:before{content:"\e113"}.glyphicon-chevron-down:before{content:"\e114"}.glyphicon-retweet:before{content:"\e115"}.glyphicon-shopping-cart:before{content:"\e116"}.glyphicon-folder-close:before{content:"\e117"}.glyphicon-folder-open:before{content:"\e118"}.glyphicon-resize-vertical:before{content:"\e119"}.glyphicon-resize-horizontal:before{content:"\e120"}.glyphicon-hdd:before{content:"\e121"}.glyphicon-bullhorn:before{content:"\e122"}.glyphicon-bell:before{content:"\e123"}.glyphicon-certificate:before{content:"\e124"}.glyphicon-thumbs-up:before{content:"\e125"}.glyphicon-thumbs-down:before{content:"\e126"}.glyphicon-hand-right:before{content:"\e127"}.glyphicon-hand-left:before{content:"\e128"}.glyphicon-hand-up:before{content:"\e129"}.glyphicon-hand-down:before{content:"\e130"}.glyphicon-circle-arrow-right:before{content:"\e131"}.glyphicon-circle-arrow-left:before{content:"\e132"}.glyphicon-circle-arrow-up:before{content:"\e133"}.glyphicon-circle-arrow-down:before{content:"\e134"}.glyphicon-globe:before{content:"\e135"}.glyphicon-wrench:before{content:"\e136"}.glyphicon-tasks:before{content:"\e137"}.glyphicon-filter:before{content:"\e138"}.glyphicon-briefcase:before{content:"\e139"}.glyphicon-fullscreen:before{content:"\e140"}.glyphicon-dashboard:before{content:"\e141"}.glyphicon-paperclip:before{content:"\e142"}.glyphicon-heart-empty:before{content:"\e143"}.glyphicon-link:before{content:"\e144"}.glyphicon-phone:before{content:"\e145"}.glyphicon-pushpin:before{content:"\e146"}.glyphicon-usd:before{content:"\e148"}.glyphicon-gbp:before{content:"\e149"}.glyphicon-sort:before{content:"\e150"}.glyphicon-sort-by-alphabet:before{content:"\e151"}.glyphicon-sort-by-alphabet-alt:before{content:"\e152"}.glyphicon-sort-by-order:before{content:"\e153"}.glyphicon-sort-by-order-alt:before{content:"\e154"}.glyphicon-sort-by-attributes:before{content:"\e155"}.glyphicon-sort-by-attributes-alt:before{content:"\e156"}.glyphicon-unchecked:before{content:"\e157"}.glyphicon-expand:before{content:"\e158"}.glyphicon-collapse-down:before{content:"\e159"}.glyphicon-collapse-up:before{content:"\e160"}.glyphicon-log-in:before{content:"\e161"}.glyphicon-flash:before{content:"\e162"}.glyphicon-log-out:before{content:"\e163"}.glyphicon-new-window:before{content:"\e164"}.glyphicon-record:before{content:"\e165"}.glyphicon-save:before{content:"\e166"}.glyphicon-open:before{content:"\e167"}.glyphicon-saved:before{content:"\e168"}.glyphicon-import:before{content:"\e169"}.glyphicon-export:before{content:"\e170"}.glyphicon-send:before{content:"\e171"}.glyphicon-floppy-disk:before{content:"\e172"}.glyphicon-floppy-saved:before{content:"\e173"}.glyphicon-floppy-remove:before{content:"\e174"}.glyphicon-floppy-save:before{content:"\e175"}.glyphicon-floppy-open:before{content:"\e176"}.glyphicon-credit-card:before{content:"\e177"}.glyphicon-transfer:before{content:"\e178"}.glyphicon-cutlery:before{content:"\e179"}.glyphicon-header:before{content:"\e180"}.glyphicon-compressed:before{content:"\e181"}.glyphicon-earphone:before{content:"\e182"}.glyphicon-phone-alt:before{content:"\e183"}.glyphicon-tower:before{content:"\e184"}.glyphicon-stats:before{content:"\e185"}.glyphicon-sd-video:before{content:"\e186"}.glyphicon-hd-video:before{content:"\e187"}.glyphicon-subtitles:before{content:"\e188"}.glyphicon-sound-stereo:before{content:"\e189"}.glyphicon-sound-dolby:before{content:"\e190"}.glyphicon-sound-5-1:before{content:"\e191"}.glyphicon-sound-6-1:before{content:"\e192"}.glyphicon-sound-7-1:before{content:"\e193"}.glyphicon-copyright-mark:before{content:"\e194"}.glyphicon-registration-mark:before{content:"\e195"}.glyphicon-cloud-download:before{content:"\e197"}.glyphicon-cloud-upload:before{content:"\e198"}.glyphicon-tree-conifer:before{content:"\e199"}.glyphicon-tree-deciduous:before{content:"\e200"}*{-webkit-box-sizing:border-box;-moz-box-sizing:border-box;box-sizing:border-box}:before,:after{-webkit-box-sizing:border-box;-moz-box-sizing:border-box;box-sizing:border-box}html{font-size:10px;-webkit-tap-highlight-color:rgba(0,0,0,0)}body{font-family:"Helvetica Neue",Helvetica,Arial,sans-serif;font-size:14px;line-height:1.42857143;color:#333;background-color:#fff}input,button,select,textarea{font-family:inherit;font-size:inherit;line-height:inherit}a{color:#337ab7;text-decoration:none}a:hover,a:focus{color:#23527c;text-decoration:underline}a:focus{outline:thin dotted;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}figure{margin:0}img{vertical-align:middle}.img-responsive,.thumbnail>img,.thumbnail a>img,.carousel-inner>.item>img,.carousel-inner>.item>a>img{display:block;max-width:100%;height:auto}.img-rounded{border-radius:6px}.img-thumbnail{display:inline-block;max-width:100%;height:auto;padding:4px;line-height:1.42857143;background-color:#fff;border:1px solid #ddd;border-radius:4px;-webkit-transition:all .2s ease-in-out;-o-transition:all .2s ease-in-out;transition:all .2s ease-in-out}.img-circle{border-radius:50%}hr{margin-top:20px;margin-bottom:20px;border:0;border-top:1px solid #eee}.sr-only{position:absolute;width:1px;height:1px;padding:0;margin:-1px;overflow:hidden;clip:rect(0,0,0,0);border:0}.sr-only-focusable:active,.sr-only-focusable:focus{position:static;width:auto;height:auto;margin:0;overflow:visible;clip:auto}h1,h2,h3,h4,h5,h6,.h1,.h2,.h3,.h4,.h5,.h6{font-family:inherit;font-weight:500;line-height:1.1;color:inherit}h1 small,h2 small,h3 small,h4 small,h5 small,h6 small,.h1 small,.h2 small,.h3 small,.h4 small,.h5 small,.h6 small,h1 .small,h2 .small,h3 .small,h4 .small,h5 .small,h6 .small,.h1 .small,.h2 .small,.h3 .small,.h4 .small,.h5 .small,.h6 .small{font-weight:400;line-height:1;color:#777}h1,.h1,h2,.h2,h3,.h3{margin-top:20px;margin-bottom:10px}h1 small,.h1 small,h2 small,.h2 small,h3 small,.h3 small,h1 .small,.h1 .small,h2 .small,.h2 .small,h3 .small,.h3 .small{font-size:65%}h4,.h4,h5,.h5,h6,.h6{margin-top:10px;margin-bottom:10px}h4 small,.h4 small,h5 small,.h5 small,h6 small,.h6 small,h4 .small,.h4 .small,h5 .small,.h5 .small,h6 .small,.h6 .small{font-size:75%}h1,.h1{font-size:36px}h2,.h2{font-size:30px}h3,.h3{font-size:24px}h4,.h4{font-size:18px}h5,.h5{font-size:14px}h6,.h6{font-size:12px}p{margin:0 0 10px}.lead{margin-bottom:20px;font-size:16px;font-weight:300;line-height:1.4}@media (min-width:768px){.lead{font-size:21px}}small,.small{font-size:85%}mark,.mark{padding:.2em;background-color:#fcf8e3}.text-left{text-align:left}.text-right{text-align:right}.text-center{text-align:center}.text-justify{text-align:justify}.text-nowrap{white-space:nowrap}.text-lowercase{text-transform:lowercase}.text-uppercase{text-transform:uppercase}.text-capitalize{text-transform:capitalize}.text-muted{color:#777}.text-primary{color:#337ab7}a.text-primary:hover{color:#286090}.text-success{color:#3c763d}a.text-success:hover{color:#2b542c}.text-info{color:#31708f}a.text-info:hover{color:#245269}.text-warning{color:#8a6d3b}a.text-warning:hover{color:#66512c}.text-danger{color:#a94442}a.text-danger:hover{color:#843534}.bg-primary{color:#fff;background-color:#337ab7}a.bg-primary:hover{background-color:#286090}.bg-success{background-color:#dff0d8}a.bg-success:hover{background-color:#c1e2b3}.bg-info{background-color:#d9edf7}a.bg-info:hover{background-color:#afd9ee}.bg-warning{background-color:#fcf8e3}a.bg-warning:hover{background-color:#f7ecb5}.bg-danger{background-color:#f2dede}a.bg-danger:hover{background-color:#e4b9b9}.page-header{padding-bottom:9px;margin:40px 0 20px;border-bottom:1px solid #eee}ul,ol{margin-top:0;margin-bottom:10px}ul ul,ol ul,ul ol,ol ol{margin-bottom:0}.list-unstyled{padding-left:0;list-style:none}.list-inline{padding-left:0;margin-left:-5px;list-style:none}.list-inline>li{display:inline-block;padding-right:5px;padding-left:5px}dl{margin-top:0;margin-bottom:20px}dt,dd{line-height:1.42857143}dt{font-weight:700}dd{margin-left:0}@media (min-width:768px){.dl-horizontal dt{float:left;width:160px;overflow:hidden;clear:left;text-align:right;text-overflow:ellipsis;white-space:nowrap}.dl-horizontal dd{margin-left:180px}}abbr[title],abbr[data-original-title]{cursor:help;border-bottom:1px dotted #777}.initialism{font-size:90%;text-transform:uppercase}blockquote{padding:10px 20px;margin:0 0 20px;font-size:17.5px;border-left:5px solid #eee}blockquote p:last-child,blockquote ul:last-child,blockquote ol:last-child{margin-bottom:0}blockquote footer,blockquote small,blockquote .small{display:block;font-size:80%;line-height:1.42857143;color:#777}blockquote footer:before,blockquote small:before,blockquote .small:before{content:'\2014 \00A0'}.blockquote-reverse,blockquote.pull-right{padding-right:15px;padding-left:0;text-align:right;border-right:5px solid #eee;border-left:0}.blockquote-reverse footer:before,blockquote.pull-right footer:before,.blockquote-reverse small:before,blockquote.pull-right small:before,.blockquote-reverse .small:before,blockquote.pull-right .small:before{content:''}.blockquote-reverse footer:after,blockquote.pull-right footer:after,.blockquote-reverse small:after,blockquote.pull-right small:after,.blockquote-reverse .small:after,blockquote.pull-right .small:after{content:'\00A0 \2014'}address{margin-bottom:20px;font-style:normal;line-height:1.42857143}code,kbd,pre,samp{font-family:Menlo,Monaco,Consolas,"Courier New",monospace}code{padding:2px 4px;font-size:90%;color:#c7254e;background-color:#f9f2f4;border-radius:4px}kbd{padding:2px 4px;font-size:90%;color:#fff;background-color:#333;border-radius:3px;-webkit-box-shadow:inset 0 -1px 0 rgba(0,0,0,.25);box-shadow:inset 0 -1px 0 rgba(0,0,0,.25)}kbd kbd{padding:0;font-size:100%;font-weight:700;-webkit-box-shadow:none;box-shadow:none}pre{display:block;padding:9.5px;margin:0 0 10px;font-size:13px;line-height:1.42857143;color:#333;word-break:break-all;word-wrap:break-word;background-color:#f5f5f5;border:1px solid #ccc;border-radius:4px}pre code{padding:0;font-size:inherit;color:inherit;white-space:pre-wrap;background-color:transparent;border-radius:0}.pre-scrollable{max-height:340px;overflow-y:scroll}.container{padding-right:15px;padding-left:15px;margin-right:auto;margin-left:auto}@media (min-width:768px){.container{width:750px}}@media (min-width:992px){.container{width:970px}}@media (min-width:1200px){.container{width:1170px}}.container-fluid{padding-right:15px;padding-left:15px;margin-right:auto;margin-left:auto}.row{margin-right:-15px;margin-left:-15px}.col-xs-1,.col-sm-1,.col-md-1,.col-lg-1,.col-xs-2,.col-sm-2,.col-md-2,.col-lg-2,.col-xs-3,.col-sm-3,.col-md-3,.col-lg-3,.col-xs-4,.col-sm-4,.col-md-4,.col-lg-4,.col-xs-5,.col-sm-5,.col-md-5,.col-lg-5,.col-xs-6,.col-sm-6,.col-md-6,.col-lg-6,.col-xs-7,.col-sm-7,.col-md-7,.col-lg-7,.col-xs-8,.col-sm-8,.col-md-8,.col-lg-8,.col-xs-9,.col-sm-9,.col-md-9,.col-lg-9,.col-xs-10,.col-sm-10,.col-md-10,.col-lg-10,.col-xs-11,.col-sm-11,.col-md-11,.col-lg-11,.col-xs-12,.col-sm-12,.col-md-12,.col-lg-12{position:relative;min-height:1px;padding-right:15px;padding-left:15px}.col-xs-1,.col-xs-2,.col-xs-3,.col-xs-4,.col-xs-5,.col-xs-6,.col-xs-7,.col-xs-8,.col-xs-9,.col-xs-10,.col-xs-11,.col-xs-12{float:left}.col-xs-12{width:100%}.col-xs-11{width:91.66666667%}.col-xs-10{width:83.33333333%}.col-xs-9{width:75%}.col-xs-8{width:66.66666667%}.col-xs-7{width:58.33333333%}.col-xs-6{width:50%}.col-xs-5{width:41.66666667%}.col-xs-4{width:33.33333333%}.col-xs-3{width:25%}.col-xs-2{width:16.66666667%}.col-xs-1{width:8.33333333%}.col-xs-pull-12{right:100%}.col-xs-pull-11{right:91.66666667%}.col-xs-pull-10{right:83.33333333%}.col-xs-pull-9{right:75%}.col-xs-pull-8{right:66.66666667%}.col-xs-pull-7{right:58.33333333%}.col-xs-pull-6{right:50%}.col-xs-pull-5{right:41.66666667%}.col-xs-pull-4{right:33.33333333%}.col-xs-pull-3{right:25%}.col-xs-pull-2{right:16.66666667%}.col-xs-pull-1{right:8.33333333%}.col-xs-pull-0{right:auto}.col-xs-push-12{left:100%}.col-xs-push-11{left:91.66666667%}.col-xs-push-10{left:83.33333333%}.col-xs-push-9{left:75%}.col-xs-push-8{left:66.66666667%}.col-xs-push-7{left:58.33333333%}.col-xs-push-6{left:50%}.col-xs-push-5{left:41.66666667%}.col-xs-push-4{left:33.33333333%}.col-xs-push-3{left:25%}.col-xs-push-2{left:16.66666667%}.col-xs-push-1{left:8.33333333%}.col-xs-push-0{left:auto}.col-xs-offset-12{margin-left:100%}.col-xs-offset-11{margin-left:91.66666667%}.col-xs-offset-10{margin-left:83.33333333%}.col-xs-offset-9{margin-left:75%}.col-xs-offset-8{margin-left:66.66666667%}.col-xs-offset-7{margin-left:58.33333333%}.col-xs-offset-6{margin-left:50%}.col-xs-offset-5{margin-left:41.66666667%}.col-xs-offset-4{margin-left:33.33333333%}.col-xs-offset-3{margin-left:25%}.col-xs-offset-2{margin-left:16.66666667%}.col-xs-offset-1{margin-left:8.33333333%}.col-xs-offset-0{margin-left:0}@media (min-width:768px){.col-sm-1,.col-sm-2,.col-sm-3,.col-sm-4,.col-sm-5,.col-sm-6,.col-sm-7,.col-sm-8,.col-sm-9,.col-sm-10,.col-sm-11,.col-sm-12{float:left}.col-sm-12{width:100%}.col-sm-11{width:91.66666667%}.col-sm-10{width:83.33333333%}.col-sm-9{width:75%}.col-sm-8{width:66.66666667%}.col-sm-7{width:58.33333333%}.col-sm-6{width:50%}.col-sm-5{width:41.66666667%}.col-sm-4{width:33.33333333%}.col-sm-3{width:25%}.col-sm-2{width:16.66666667%}.col-sm-1{width:8.33333333%}.col-sm-pull-12{right:100%}.col-sm-pull-11{right:91.66666667%}.col-sm-pull-10{right:83.33333333%}.col-sm-pull-9{right:75%}.col-sm-pull-8{right:66.66666667%}.col-sm-pull-7{right:58.33333333%}.col-sm-pull-6{right:50%}.col-sm-pull-5{right:41.66666667%}.col-sm-pull-4{right:33.33333333%}.col-sm-pull-3{right:25%}.col-sm-pull-2{right:16.66666667%}.col-sm-pull-1{right:8.33333333%}.col-sm-pull-0{right:auto}.col-sm-push-12{left:100%}.col-sm-push-11{left:91.66666667%}.col-sm-push-10{left:83.33333333%}.col-sm-push-9{left:75%}.col-sm-push-8{left:66.66666667%}.col-sm-push-7{left:58.33333333%}.col-sm-push-6{left:50%}.col-sm-push-5{left:41.66666667%}.col-sm-push-4{left:33.33333333%}.col-sm-push-3{left:25%}.col-sm-push-2{left:16.66666667%}.col-sm-push-1{left:8.33333333%}.col-sm-push-0{left:auto}.col-sm-offset-12{margin-left:100%}.col-sm-offset-11{margin-left:91.66666667%}.col-sm-offset-10{margin-left:83.33333333%}.col-sm-offset-9{margin-left:75%}.col-sm-offset-8{margin-left:66.66666667%}.col-sm-offset-7{margin-left:58.33333333%}.col-sm-offset-6{margin-left:50%}.col-sm-offset-5{margin-left:41.66666667%}.col-sm-offset-4{margin-left:33.33333333%}.col-sm-offset-3{margin-left:25%}.col-sm-offset-2{margin-left:16.66666667%}.col-sm-offset-1{margin-left:8.33333333%}.col-sm-offset-0{margin-left:0}}@media (min-width:992px){.col-md-1,.col-md-2,.col-md-3,.col-md-4,.col-md-5,.col-md-6,.col-md-7,.col-md-8,.col-md-9,.col-md-10,.col-md-11,.col-md-12{float:left}.col-md-12{width:100%}.col-md-11{width:91.66666667%}.col-md-10{width:83.33333333%}.col-md-9{width:75%}.col-md-8{width:66.66666667%}.col-md-7{width:58.33333333%}.col-md-6{width:50%}.col-md-5{width:41.66666667%}.col-md-4{width:33.33333333%}.col-md-3{width:25%}.col-md-2{width:16.66666667%}.col-md-1{width:8.33333333%}.col-md-pull-12{right:100%}.col-md-pull-11{right:91.66666667%}.col-md-pull-10{right:83.33333333%}.col-md-pull-9{right:75%}.col-md-pull-8{right:66.66666667%}.col-md-pull-7{right:58.33333333%}.col-md-pull-6{right:50%}.col-md-pull-5{right:41.66666667%}.col-md-pull-4{right:33.33333333%}.col-md-pull-3{right:25%}.col-md-pull-2{right:16.66666667%}.col-md-pull-1{right:8.33333333%}.col-md-pull-0{right:auto}.col-md-push-12{left:100%}.col-md-push-11{left:91.66666667%}.col-md-push-10{left:83.33333333%}.col-md-push-9{left:75%}.col-md-push-8{left:66.66666667%}.col-md-push-7{left:58.33333333%}.col-md-push-6{left:50%}.col-md-push-5{left:41.66666667%}.col-md-push-4{left:33.33333333%}.col-md-push-3{left:25%}.col-md-push-2{left:16.66666667%}.col-md-push-1{left:8.33333333%}.col-md-push-0{left:auto}.col-md-offset-12{margin-left:100%}.col-md-offset-11{margin-left:91.66666667%}.col-md-offset-10{margin-left:83.33333333%}.col-md-offset-9{margin-left:75%}.col-md-offset-8{margin-left:66.66666667%}.col-md-offset-7{margin-left:58.33333333%}.col-md-offset-6{margin-left:50%}.col-md-offset-5{margin-left:41.66666667%}.col-md-offset-4{margin-left:33.33333333%}.col-md-offset-3{margin-left:25%}.col-md-offset-2{margin-left:16.66666667%}.col-md-offset-1{margin-left:8.33333333%}.col-md-offset-0{margin-left:0}}@media (min-width:1200px){.col-lg-1,.col-lg-2,.col-lg-3,.col-lg-4,.col-lg-5,.col-lg-6,.col-lg-7,.col-lg-8,.col-lg-9,.col-lg-10,.col-lg-11,.col-lg-12{float:left}.col-lg-12{width:100%}.col-lg-11{width:91.66666667%}.col-lg-10{width:83.33333333%}.col-lg-9{width:75%}.col-lg-8{width:66.66666667%}.col-lg-7{width:58.33333333%}.col-lg-6{width:50%}.col-lg-5{width:41.66666667%}.col-lg-4{width:33.33333333%}.col-lg-3{width:25%}.col-lg-2{width:16.66666667%}.col-lg-1{width:8.33333333%}.col-lg-pull-12{right:100%}.col-lg-pull-11{right:91.66666667%}.col-lg-pull-10{right:83.33333333%}.col-lg-pull-9{right:75%}.col-lg-pull-8{right:66.66666667%}.col-lg-pull-7{right:58.33333333%}.col-lg-pull-6{right:50%}.col-lg-pull-5{right:41.66666667%}.col-lg-pull-4{right:33.33333333%}.col-lg-pull-3{right:25%}.col-lg-pull-2{right:16.66666667%}.col-lg-pull-1{right:8.33333333%}.col-lg-pull-0{right:auto}.col-lg-push-12{left:100%}.col-lg-push-11{left:91.66666667%}.col-lg-push-10{left:83.33333333%}.col-lg-push-9{left:75%}.col-lg-push-8{left:66.66666667%}.col-lg-push-7{left:58.33333333%}.col-lg-push-6{left:50%}.col-lg-push-5{left:41.66666667%}.col-lg-push-4{left:33.33333333%}.col-lg-push-3{left:25%}.col-lg-push-2{left:16.66666667%}.col-lg-push-1{left:8.33333333%}.col-lg-push-0{left:auto}.col-lg-offset-12{margin-left:100%}.col-lg-offset-11{margin-left:91.66666667%}.col-lg-offset-10{margin-left:83.33333333%}.col-lg-offset-9{margin-left:75%}.col-lg-offset-8{margin-left:66.66666667%}.col-lg-offset-7{margin-left:58.33333333%}.col-lg-offset-6{margin-left:50%}.col-lg-offset-5{margin-left:41.66666667%}.col-lg-offset-4{margin-left:33.33333333%}.col-lg-offset-3{margin-left:25%}.col-lg-offset-2{margin-left:16.66666667%}.col-lg-offset-1{margin-left:8.33333333%}.col-lg-offset-0{margin-left:0}}table{background-color:transparent}caption{padding-top:8px;padding-bottom:8px;color:#777;text-align:left}th{text-align:left}.table{width:100%;max-width:100%;margin-bottom:20px}.table>thead>tr>th,.table>tbody>tr>th,.table>tfoot>tr>th,.table>thead>tr>td,.table>tbody>tr>td,.table>tfoot>tr>td{padding:8px;line-height:1.42857143;vertical-align:top;border-top:1px solid #ddd}.table>thead>tr>th{vertical-align:bottom;border-bottom:2px solid #ddd}.table>caption+thead>tr:first-child>th,.table>colgroup+thead>tr:first-child>th,.table>thead:first-child>tr:first-child>th,.table>caption+thead>tr:first-child>td,.table>colgroup+thead>tr:first-child>td,.table>thead:first-child>tr:first-child>td{border-top:0}.table>tbody+tbody{border-top:2px solid #ddd}.table .table{background-color:#fff}.table-condensed>thead>tr>th,.table-condensed>tbody>tr>th,.table-condensed>tfoot>tr>th,.table-condensed>thead>tr>td,.table-condensed>tbody>tr>td,.table-condensed>tfoot>tr>td{padding:5px}.table-bordered{border:1px solid #ddd}.table-bordered>thead>tr>th,.table-bordered>tbody>tr>th,.table-bordered>tfoot>tr>th,.table-bordered>thead>tr>td,.table-bordered>tbody>tr>td,.table-bordered>tfoot>tr>td{border:1px solid #ddd}.table-bordered>thead>tr>th,.table-bordered>thead>tr>td{border-bottom-width:2px}.table-striped>tbody>tr:nth-child(odd){background-color:#f9f9f9}.table-hover>tbody>tr:hover{background-color:#f5f5f5}table col[class*=col-]{position:static;display:table-column;float:none}table td[class*=col-],table th[class*=col-]{position:static;display:table-cell;float:none}.table>thead>tr>td.active,.table>tbody>tr>td.active,.table>tfoot>tr>td.active,.table>thead>tr>th.active,.table>tbody>tr>th.active,.table>tfoot>tr>th.active,.table>thead>tr.active>td,.table>tbody>tr.active>td,.table>tfoot>tr.active>td,.table>thead>tr.active>th,.table>tbody>tr.active>th,.table>tfoot>tr.active>th{background-color:#f5f5f5}.table-hover>tbody>tr>td.active:hover,.table-hover>tbody>tr>th.active:hover,.table-hover>tbody>tr.active:hover>td,.table-hover>tbody>tr:hover>.active,.table-hover>tbody>tr.active:hover>th{background-color:#e8e8e8}.table>thead>tr>td.success,.table>tbody>tr>td.success,.table>tfoot>tr>td.success,.table>thead>tr>th.success,.table>tbody>tr>th.success,.table>tfoot>tr>th.success,.table>thead>tr.success>td,.table>tbody>tr.success>td,.table>tfoot>tr.success>td,.table>thead>tr.success>th,.table>tbody>tr.success>th,.table>tfoot>tr.success>th{background-color:#dff0d8}.table-hover>tbody>tr>td.success:hover,.table-hover>tbody>tr>th.success:hover,.table-hover>tbody>tr.success:hover>td,.table-hover>tbody>tr:hover>.success,.table-hover>tbody>tr.success:hover>th{background-color:#d0e9c6}.table>thead>tr>td.info,.table>tbody>tr>td.info,.table>tfoot>tr>td.info,.table>thead>tr>th.info,.table>tbody>tr>th.info,.table>tfoot>tr>th.info,.table>thead>tr.info>td,.table>tbody>tr.info>td,.table>tfoot>tr.info>td,.table>thead>tr.info>th,.table>tbody>tr.info>th,.table>tfoot>tr.info>th{background-color:#d9edf7}.table-hover>tbody>tr>td.info:hover,.table-hover>tbody>tr>th.info:hover,.table-hover>tbody>tr.info:hover>td,.table-hover>tbody>tr:hover>.info,.table-hover>tbody>tr.info:hover>th{background-color:#c4e3f3}.table>thead>tr>td.warning,.table>tbody>tr>td.warning,.table>tfoot>tr>td.warning,.table>thead>tr>th.warning,.table>tbody>tr>th.warning,.table>tfoot>tr>th.warning,.table>thead>tr.warning>td,.table>tbody>tr.warning>td,.table>tfoot>tr.warning>td,.table>thead>tr.warning>th,.table>tbody>tr.warning>th,.table>tfoot>tr.warning>th{background-color:#fcf8e3}.table-hover>tbody>tr>td.warning:hover,.table-hover>tbody>tr>th.warning:hover,.table-hover>tbody>tr.warning:hover>td,.table-hover>tbody>tr:hover>.warning,.table-hover>tbody>tr.warning:hover>th{background-color:#faf2cc}.table>thead>tr>td.danger,.table>tbody>tr>td.danger,.table>tfoot>tr>td.danger,.table>thead>tr>th.danger,.table>tbody>tr>th.danger,.table>tfoot>tr>th.danger,.table>thead>tr.danger>td,.table>tbody>tr.danger>td,.table>tfoot>tr.danger>td,.table>thead>tr.danger>th,.table>tbody>tr.danger>th,.table>tfoot>tr.danger>th{background-color:#f2dede}.table-hover>tbody>tr>td.danger:hover,.table-hover>tbody>tr>th.danger:hover,.table-hover>tbody>tr.danger:hover>td,.table-hover>tbody>tr:hover>.danger,.table-hover>tbody>tr.danger:hover>th{background-color:#ebcccc}.table-responsive{min-height:.01%;overflow-x:auto}@media screen and (max-width:767px){.table-responsive{width:100%;margin-bottom:15px;overflow-y:hidden;-ms-overflow-style:-ms-autohiding-scrollbar;border:1px solid #ddd}.table-responsive>.table{margin-bottom:0}.table-responsive>.table>thead>tr>th,.table-responsive>.table>tbody>tr>th,.table-responsive>.table>tfoot>tr>th,.table-responsive>.table>thead>tr>td,.table-responsive>.table>tbody>tr>td,.table-responsive>.table>tfoot>tr>td{white-space:nowrap}.table-responsive>.table-bordered{border:0}.table-responsive>.table-bordered>thead>tr>th:first-child,.table-responsive>.table-bordered>tbody>tr>th:first-child,.table-responsive>.table-bordered>tfoot>tr>th:first-child,.table-responsive>.table-bordered>thead>tr>td:first-child,.table-responsive>.table-bordered>tbody>tr>td:first-child,.table-responsive>.table-bordered>tfoot>tr>td:first-child{border-left:0}.table-responsive>.table-bordered>thead>tr>th:last-child,.table-responsive>.table-bordered>tbody>tr>th:last-child,.table-responsive>.table-bordered>tfoot>tr>th:last-child,.table-responsive>.table-bordered>thead>tr>td:last-child,.table-responsive>.table-bordered>tbody>tr>td:last-child,.table-responsive>.table-bordered>tfoot>tr>td:last-child{border-right:0}.table-responsive>.table-bordered>tbody>tr:last-child>th,.table-responsive>.table-bordered>tfoot>tr:last-child>th,.table-responsive>.table-bordered>tbody>tr:last-child>td,.table-responsive>.table-bordered>tfoot>tr:last-child>td{border-bottom:0}}fieldset{min-width:0;padding:0;margin:0;border:0}legend{display:block;width:100%;padding:0;margin-bottom:20px;font-size:21px;line-height:inherit;color:#333;border:0;border-bottom:1px solid #e5e5e5}label{display:inline-block;max-width:100%;margin-bottom:5px;font-weight:700}input[type=search]{-webkit-box-sizing:border-box;-moz-box-sizing:border-box;box-sizing:border-box}input[type=radio],input[type=checkbox]{margin:4px 0 0;margin-top:1px \9;line-height:normal}input[type=file]{display:block}input[type=range]{display:block;width:100%}select[multiple],select[size]{height:auto}input[type=file]:focus,input[type=radio]:focus,input[type=checkbox]:focus{outline:thin dotted;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}output{display:block;padding-top:7px;font-size:14px;line-height:1.42857143;color:#555}.form-control{display:block;width:100%;height:34px;padding:6px 12px;font-size:14px;line-height:1.42857143;color:#555;background-color:#fff;background-image:none;border:1px solid #ccc;border-radius:4px;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075);box-shadow:inset 0 1px 1px rgba(0,0,0,.075);-webkit-transition:border-color ease-in-out .15s,-webkit-box-shadow ease-in-out .15s;-o-transition:border-color ease-in-out .15s,box-shadow ease-in-out .15s;transition:border-color ease-in-out .15s,box-shadow ease-in-out .15s}.form-control:focus{border-color:#66afe9;outline:0;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 8px rgba(102,175,233,.6);box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 8px rgba(102,175,233,.6)}.form-control::-moz-placeholder{color:#999;opacity:1}.form-control:-ms-input-placeholder{color:#999}.form-control::-webkit-input-placeholder{color:#999}.form-control[disabled],.form-control[readonly],fieldset[disabled] .form-control{cursor:not-allowed;background-color:#eee;opacity:1}textarea.form-control{height:auto}input[type=search]{-webkit-appearance:none}@media screen and (-webkit-min-device-pixel-ratio:0){input[type=date],input[type=time],input[type=datetime-local],input[type=month]{line-height:34px}input[type=date].input-sm,input[type=time].input-sm,input[type=datetime-local].input-sm,input[type=month].input-sm{line-height:30px}input[type=date].input-lg,input[type=time].input-lg,input[type=datetime-local].input-lg,input[type=month].input-lg{line-height:46px}}.form-group{margin-bottom:15px}.radio,.checkbox{position:relative;display:block;margin-top:10px;margin-bottom:10px}.radio label,.checkbox label{min-height:20px;padding-left:20px;margin-bottom:0;font-weight:400;cursor:pointer}.radio input[type=radio],.radio-inline input[type=radio],.checkbox input[type=checkbox],.checkbox-inline input[type=checkbox]{position:absolute;margin-top:4px \9;margin-left:-20px}.radio+.radio,.checkbox+.checkbox{margin-top:-5px}.radio-inline,.checkbox-inline{display:inline-block;padding-left:20px;margin-bottom:0;font-weight:400;vertical-align:middle;cursor:pointer}.radio-inline+.radio-inline,.checkbox-inline+.checkbox-inline{margin-top:0;margin-left:10px}input[type=radio][disabled],input[type=checkbox][disabled],input[type=radio].disabled,input[type=checkbox].disabled,fieldset[disabled] input[type=radio],fieldset[disabled] input[type=checkbox]{cursor:not-allowed}.radio-inline.disabled,.checkbox-inline.disabled,fieldset[disabled] .radio-inline,fieldset[disabled] .checkbox-inline{cursor:not-allowed}.radio.disabled label,.checkbox.disabled label,fieldset[disabled] .radio label,fieldset[disabled] .checkbox label{cursor:not-allowed}.form-control-static{padding-top:7px;padding-bottom:7px;margin-bottom:0}.form-control-static.input-lg,.form-control-static.input-sm{padding-right:0;padding-left:0}.input-sm,.form-group-sm .form-control{height:30px;padding:5px 10px;font-size:12px;line-height:1.5;border-radius:3px}select.input-sm,select.form-group-sm .form-control{height:30px;line-height:30px}textarea.input-sm,textarea.form-group-sm .form-control,select[multiple].input-sm,select[multiple].form-group-sm .form-control{height:auto}.input-lg,.form-group-lg .form-control{height:46px;padding:10px 16px;font-size:18px;line-height:1.33;border-radius:6px}select.input-lg,select.form-group-lg .form-control{height:46px;line-height:46px}textarea.input-lg,textarea.form-group-lg .form-control,select[multiple].input-lg,select[multiple].form-group-lg .form-control{height:auto}.has-feedback{position:relative}.has-feedback .form-control{padding-right:42.5px}.form-control-feedback{position:absolute;top:0;right:0;z-index:2;display:block;width:34px;height:34px;line-height:34px;text-align:center;pointer-events:none}.input-lg+.form-control-feedback{width:46px;height:46px;line-height:46px}.input-sm+.form-control-feedback{width:30px;height:30px;line-height:30px}.has-success .help-block,.has-success .control-label,.has-success .radio,.has-success .checkbox,.has-success .radio-inline,.has-success .checkbox-inline,.has-success.radio label,.has-success.checkbox label,.has-success.radio-inline label,.has-success.checkbox-inline label{color:#3c763d}.has-success .form-control{border-color:#3c763d;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075);box-shadow:inset 0 1px 1px rgba(0,0,0,.075)}.has-success .form-control:focus{border-color:#2b542c;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 6px #67b168;box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 6px #67b168}.has-success .input-group-addon{color:#3c763d;background-color:#dff0d8;border-color:#3c763d}.has-success .form-control-feedback{color:#3c763d}.has-warning .help-block,.has-warning .control-label,.has-warning .radio,.has-warning .checkbox,.has-warning .radio-inline,.has-warning .checkbox-inline,.has-warning.radio label,.has-warning.checkbox label,.has-warning.radio-inline label,.has-warning.checkbox-inline label{color:#8a6d3b}.has-warning .form-control{border-color:#8a6d3b;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075);box-shadow:inset 0 1px 1px rgba(0,0,0,.075)}.has-warning .form-control:focus{border-color:#66512c;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 6px #c0a16b;box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 6px #c0a16b}.has-warning .input-group-addon{color:#8a6d3b;background-color:#fcf8e3;border-color:#8a6d3b}.has-warning .form-control-feedback{color:#8a6d3b}.has-error .help-block,.has-error .control-label,.has-error .radio,.has-error .checkbox,.has-error .radio-inline,.has-error .checkbox-inline,.has-error.radio label,.has-error.checkbox label,.has-error.radio-inline label,.has-error.checkbox-inline label{color:#a94442}.has-error .form-control{border-color:#a94442;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075);box-shadow:inset 0 1px 1px rgba(0,0,0,.075)}.has-error .form-control:focus{border-color:#843534;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 6px #ce8483;box-shadow:inset 0 1px 1px rgba(0,0,0,.075),0 0 6px #ce8483}.has-error .input-group-addon{color:#a94442;background-color:#f2dede;border-color:#a94442}.has-error .form-control-feedback{color:#a94442}.has-feedback label~.form-control-feedback{top:25px}.has-feedback label.sr-only~.form-control-feedback{top:0}.help-block{display:block;margin-top:5px;margin-bottom:10px;color:#737373}@media (min-width:768px){.form-inline .form-group{display:inline-block;margin-bottom:0;vertical-align:middle}.form-inline .form-control{display:inline-block;width:auto;vertical-align:middle}.form-inline .form-control-static{display:inline-block}.form-inline .input-group{display:inline-table;vertical-align:middle}.form-inline .input-group .input-group-addon,.form-inline .input-group .input-group-btn,.form-inline .input-group .form-control{width:auto}.form-inline .input-group>.form-control{width:100%}.form-inline .control-label{margin-bottom:0;vertical-align:middle}.form-inline .radio,.form-inline .checkbox{display:inline-block;margin-top:0;margin-bottom:0;vertical-align:middle}.form-inline .radio label,.form-inline .checkbox label{padding-left:0}.form-inline .radio input[type=radio],.form-inline .checkbox input[type=checkbox]{position:relative;margin-left:0}.form-inline .has-feedback .form-control-feedback{top:0}}.form-horizontal .radio,.form-horizontal .checkbox,.form-horizontal .radio-inline,.form-horizontal .checkbox-inline{padding-top:7px;margin-top:0;margin-bottom:0}.form-horizontal .radio,.form-horizontal .checkbox{min-height:27px}.form-horizontal .form-group{margin-right:-15px;margin-left:-15px}@media (min-width:768px){.form-horizontal .control-label{padding-top:7px;margin-bottom:0;text-align:right}}.form-horizontal .has-feedback .form-control-feedback{right:15px}@media (min-width:768px){.form-horizontal .form-group-lg .control-label{padding-top:14.3px}}@media (min-width:768px){.form-horizontal .form-group-sm .control-label{padding-top:6px}}.btn{display:inline-block;padding:6px 12px;margin-bottom:0;font-size:14px;font-weight:400;line-height:1.42857143;text-align:center;white-space:nowrap;vertical-align:middle;-ms-touch-action:manipulation;touch-action:manipulation;cursor:pointer;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;user-select:none;background-image:none;border:1px solid transparent;border-radius:4px}.btn:focus,.btn:active:focus,.btn.active:focus,.btn.focus,.btn:active.focus,.btn.active.focus{outline:thin dotted;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}.btn:hover,.btn:focus,.btn.focus{color:#333;text-decoration:none}.btn:active,.btn.active{background-image:none;outline:0;-webkit-box-shadow:inset 0 3px 5px rgba(0,0,0,.125);box-shadow:inset 0 3px 5px rgba(0,0,0,.125)}.btn.disabled,.btn[disabled],fieldset[disabled] .btn{pointer-events:none;cursor:not-allowed;filter:alpha(opacity=65);-webkit-box-shadow:none;box-shadow:none;opacity:.65}.btn-default{color:#333;background-color:#fff;border-color:#ccc}.btn-default:hover,.btn-default:focus,.btn-default.focus,.btn-default:active,.btn-default.active,.open>.dropdown-toggle.btn-default{color:#333;background-color:#e6e6e6;border-color:#adadad}.btn-default:active,.btn-default.active,.open>.dropdown-toggle.btn-default{background-image:none}.btn-default.disabled,.btn-default[disabled],fieldset[disabled] .btn-default,.btn-default.disabled:hover,.btn-default[disabled]:hover,fieldset[disabled] .btn-default:hover,.btn-default.disabled:focus,.btn-default[disabled]:focus,fieldset[disabled] .btn-default:focus,.btn-default.disabled.focus,.btn-default[disabled].focus,fieldset[disabled] .btn-default.focus,.btn-default.disabled:active,.btn-default[disabled]:active,fieldset[disabled] .btn-default:active,.btn-default.disabled.active,.btn-default[disabled].active,fieldset[disabled] .btn-default.active{background-color:#fff;border-color:#ccc}.btn-default .badge{color:#fff;background-color:#333}.btn-primary{color:#fff;background-color:#337ab7;border-color:#2e6da4}.btn-primary:hover,.btn-primary:focus,.btn-primary.focus,.btn-primary:active,.btn-primary.active,.open>.dropdown-toggle.btn-primary{color:#fff;background-color:#286090;border-color:#204d74}.btn-primary:active,.btn-primary.active,.open>.dropdown-toggle.btn-primary{background-image:none}.btn-primary.disabled,.btn-primary[disabled],fieldset[disabled] .btn-primary,.btn-primary.disabled:hover,.btn-primary[disabled]:hover,fieldset[disabled] .btn-primary:hover,.btn-primary.disabled:focus,.btn-primary[disabled]:focus,fieldset[disabled] .btn-primary:focus,.btn-primary.disabled.focus,.btn-primary[disabled].focus,fieldset[disabled] .btn-primary.focus,.btn-primary.disabled:active,.btn-primary[disabled]:active,fieldset[disabled] .btn-primary:active,.btn-primary.disabled.active,.btn-primary[disabled].active,fieldset[disabled] .btn-primary.active{background-color:#337ab7;border-color:#2e6da4}.btn-primary .badge{color:#337ab7;background-color:#fff}.btn-success{color:#fff;background-color:#5cb85c;border-color:#4cae4c}.btn-success:hover,.btn-success:focus,.btn-success.focus,.btn-success:active,.btn-success.active,.open>.dropdown-toggle.btn-success{color:#fff;background-color:#449d44;border-color:#398439}.btn-success:active,.btn-success.active,.open>.dropdown-toggle.btn-success{background-image:none}.btn-success.disabled,.btn-success[disabled],fieldset[disabled] .btn-success,.btn-success.disabled:hover,.btn-success[disabled]:hover,fieldset[disabled] .btn-success:hover,.btn-success.disabled:focus,.btn-success[disabled]:focus,fieldset[disabled] .btn-success:focus,.btn-success.disabled.focus,.btn-success[disabled].focus,fieldset[disabled] .btn-success.focus,.btn-success.disabled:active,.btn-success[disabled]:active,fieldset[disabled] .btn-success:active,.btn-success.disabled.active,.btn-success[disabled].active,fieldset[disabled] .btn-success.active{background-color:#5cb85c;border-color:#4cae4c}.btn-success .badge{color:#5cb85c;background-color:#fff}.btn-info{color:#fff;background-color:#5bc0de;border-color:#46b8da}.btn-info:hover,.btn-info:focus,.btn-info.focus,.btn-info:active,.btn-info.active,.open>.dropdown-toggle.btn-info{color:#fff;background-color:#31b0d5;border-color:#269abc}.btn-info:active,.btn-info.active,.open>.dropdown-toggle.btn-info{background-image:none}.btn-info.disabled,.btn-info[disabled],fieldset[disabled] .btn-info,.btn-info.disabled:hover,.btn-info[disabled]:hover,fieldset[disabled] .btn-info:hover,.btn-info.disabled:focus,.btn-info[disabled]:focus,fieldset[disabled] .btn-info:focus,.btn-info.disabled.focus,.btn-info[disabled].focus,fieldset[disabled] .btn-info.focus,.btn-info.disabled:active,.btn-info[disabled]:active,fieldset[disabled] .btn-info:active,.btn-info.disabled.active,.btn-info[disabled].active,fieldset[disabled] .btn-info.active{background-color:#5bc0de;border-color:#46b8da}.btn-info .badge{color:#5bc0de;background-color:#fff}.btn-warning{color:#fff;background-color:#f0ad4e;border-color:#eea236}.btn-warning:hover,.btn-warning:focus,.btn-warning.focus,.btn-warning:active,.btn-warning.active,.open>.dropdown-toggle.btn-warning{color:#fff;background-color:#ec971f;border-color:#d58512}.btn-warning:active,.btn-warning.active,.open>.dropdown-toggle.btn-warning{background-image:none}.btn-warning.disabled,.btn-warning[disabled],fieldset[disabled] .btn-warning,.btn-warning.disabled:hover,.btn-warning[disabled]:hover,fieldset[disabled] .btn-warning:hover,.btn-warning.disabled:focus,.btn-warning[disabled]:focus,fieldset[disabled] .btn-warning:focus,.btn-warning.disabled.focus,.btn-warning[disabled].focus,fieldset[disabled] .btn-warning.focus,.btn-warning.disabled:active,.btn-warning[disabled]:active,fieldset[disabled] .btn-warning:active,.btn-warning.disabled.active,.btn-warning[disabled].active,fieldset[disabled] .btn-warning.active{background-color:#f0ad4e;border-color:#eea236}.btn-warning .badge{color:#f0ad4e;background-color:#fff}.btn-danger{color:#fff;background-color:#d9534f;border-color:#d43f3a}.btn-danger:hover,.btn-danger:focus,.btn-danger.focus,.btn-danger:active,.btn-danger.active,.open>.dropdown-toggle.btn-danger{color:#fff;background-color:#c9302c;border-color:#ac2925}.btn-danger:active,.btn-danger.active,.open>.dropdown-toggle.btn-danger{background-image:none}.btn-danger.disabled,.btn-danger[disabled],fieldset[disabled] .btn-danger,.btn-danger.disabled:hover,.btn-danger[disabled]:hover,fieldset[disabled] .btn-danger:hover,.btn-danger.disabled:focus,.btn-danger[disabled]:focus,fieldset[disabled] .btn-danger:focus,.btn-danger.disabled.focus,.btn-danger[disabled].focus,fieldset[disabled] .btn-danger.focus,.btn-danger.disabled:active,.btn-danger[disabled]:active,fieldset[disabled] .btn-danger:active,.btn-danger.disabled.active,.btn-danger[disabled].active,fieldset[disabled] .btn-danger.active{background-color:#d9534f;border-color:#d43f3a}.btn-danger .badge{color:#d9534f;background-color:#fff}.btn-link{font-weight:400;color:#337ab7;border-radius:0}.btn-link,.btn-link:active,.btn-link.active,.btn-link[disabled],fieldset[disabled] .btn-link{background-color:transparent;-webkit-box-shadow:none;box-shadow:none}.btn-link,.btn-link:hover,.btn-link:focus,.btn-link:active{border-color:transparent}.btn-link:hover,.btn-link:focus{color:#23527c;text-decoration:underline;background-color:transparent}.btn-link[disabled]:hover,fieldset[disabled] .btn-link:hover,.btn-link[disabled]:focus,fieldset[disabled] .btn-link:focus{color:#777;text-decoration:none}.btn-lg,.btn-group-lg>.btn{padding:10px 16px;font-size:18px;line-height:1.33;border-radius:6px}.btn-sm,.btn-group-sm>.btn{padding:5px 10px;font-size:12px;line-height:1.5;border-radius:3px}.btn-xs,.btn-group-xs>.btn{padding:1px 5px;font-size:12px;line-height:1.5;border-radius:3px}.btn-block{display:block;width:100%}.btn-block+.btn-block{margin-top:5px}input[type=submit].btn-block,input[type=reset].btn-block,input[type=button].btn-block{width:100%}.fade{opacity:0;-webkit-transition:opacity .15s linear;-o-transition:opacity .15s linear;transition:opacity .15s linear}.fade.in{opacity:1}.collapse{display:none;visibility:hidden}.collapse.in{display:block;visibility:visible}tr.collapse.in{display:table-row}tbody.collapse.in{display:table-row-group}.collapsing{position:relative;height:0;overflow:hidden;-webkit-transition-timing-function:ease;-o-transition-timing-function:ease;transition-timing-function:ease;-webkit-transition-duration:.35s;-o-transition-duration:.35s;transition-duration:.35s;-webkit-transition-property:height,visibility;-o-transition-property:height,visibility;transition-property:height,visibility}.caret{display:inline-block;width:0;height:0;margin-left:2px;vertical-align:middle;border-top:4px solid;border-right:4px solid transparent;border-left:4px solid transparent}.dropdown{position:relative}.dropdown-toggle:focus{outline:0}.dropdown-menu{position:absolute;top:100%;left:0;z-index:1000;display:none;float:left;min-width:160px;padding:5px 0;margin:2px 0 0;font-size:14px;text-align:left;list-style:none;background-color:#fff;-webkit-background-clip:padding-box;background-clip:padding-box;border:1px solid #ccc;border:1px solid rgba(0,0,0,.15);border-radius:4px;-webkit-box-shadow:0 6px 12px rgba(0,0,0,.175);box-shadow:0 6px 12px rgba(0,0,0,.175)}.dropdown-menu.pull-right{right:0;left:auto}.dropdown-menu .divider{height:1px;margin:9px 0;overflow:hidden;background-color:#e5e5e5}.dropdown-menu>li>a{display:block;padding:3px 20px;clear:both;font-weight:400;line-height:1.42857143;color:#333;white-space:nowrap}.dropdown-menu>li>a:hover,.dropdown-menu>li>a:focus{color:#262626;text-decoration:none;background-color:#f5f5f5}.dropdown-menu>.active>a,.dropdown-menu>.active>a:hover,.dropdown-menu>.active>a:focus{color:#fff;text-decoration:none;background-color:#337ab7;outline:0}.dropdown-menu>.disabled>a,.dropdown-menu>.disabled>a:hover,.dropdown-menu>.disabled>a:focus{color:#777}.dropdown-menu>.disabled>a:hover,.dropdown-menu>.disabled>a:focus{text-decoration:none;cursor:not-allowed;background-color:transparent;background-image:none;filter:progid:DXImageTransform.Microsoft.gradient(enabled=false)}.open>.dropdown-menu{display:block}.open>a{outline:0}.dropdown-menu-right{right:0;left:auto}.dropdown-menu-left{right:auto;left:0}.dropdown-header{display:block;padding:3px 20px;font-size:12px;line-height:1.42857143;color:#777;white-space:nowrap}.dropdown-backdrop{position:fixed;top:0;right:0;bottom:0;left:0;z-index:990}.pull-right>.dropdown-menu{right:0;left:auto}.dropup .caret,.navbar-fixed-bottom .dropdown .caret{content:"";border-top:0;border-bottom:4px solid}.dropup .dropdown-menu,.navbar-fixed-bottom .dropdown .dropdown-menu{top:auto;bottom:100%;margin-bottom:1px}@media (min-width:768px){.navbar-right .dropdown-menu{right:0;left:auto}.navbar-right .dropdown-menu-left{right:auto;left:0}}.btn-group,.btn-group-vertical{position:relative;display:inline-block;vertical-align:middle}.btn-group>.btn,.btn-group-vertical>.btn{position:relative;float:left}.btn-group>.btn:hover,.btn-group-vertical>.btn:hover,.btn-group>.btn:focus,.btn-group-vertical>.btn:focus,.btn-group>.btn:active,.btn-group-vertical>.btn:active,.btn-group>.btn.active,.btn-group-vertical>.btn.active{z-index:2}.btn-group .btn+.btn,.btn-group .btn+.btn-group,.btn-group .btn-group+.btn,.btn-group .btn-group+.btn-group{margin-left:-1px}.btn-toolbar{margin-left:-5px}.btn-toolbar .btn-group,.btn-toolbar .input-group{float:left}.btn-toolbar>.btn,.btn-toolbar>.btn-group,.btn-toolbar>.input-group{margin-left:5px}.btn-group>.btn:not(:first-child):not(:last-child):not(.dropdown-toggle){border-radius:0}.btn-group>.btn:first-child{margin-left:0}.btn-group>.btn:first-child:not(:last-child):not(.dropdown-toggle){border-top-right-radius:0;border-bottom-right-radius:0}.btn-group>.btn:last-child:not(:first-child),.btn-group>.dropdown-toggle:not(:first-child){border-top-left-radius:0;border-bottom-left-radius:0}.btn-group>.btn-group{float:left}.btn-group>.btn-group:not(:first-child):not(:last-child)>.btn{border-radius:0}.btn-group>.btn-group:first-child>.btn:last-child,.btn-group>.btn-group:first-child>.dropdown-toggle{border-top-right-radius:0;border-bottom-right-radius:0}.btn-group>.btn-group:last-child>.btn:first-child{border-top-left-radius:0;border-bottom-left-radius:0}.btn-group .dropdown-toggle:active,.btn-group.open .dropdown-toggle{outline:0}.btn-group>.btn+.dropdown-toggle{padding-right:8px;padding-left:8px}.btn-group>.btn-lg+.dropdown-toggle{padding-right:12px;padding-left:12px}.btn-group.open .dropdown-toggle{-webkit-box-shadow:inset 0 3px 5px rgba(0,0,0,.125);box-shadow:inset 0 3px 5px rgba(0,0,0,.125)}.btn-group.open .dropdown-toggle.btn-link{-webkit-box-shadow:none;box-shadow:none}.btn .caret{margin-left:0}.btn-lg .caret{border-width:5px 5px 0;border-bottom-width:0}.dropup .btn-lg .caret{border-width:0 5px 5px}.btn-group-vertical>.btn,.btn-group-vertical>.btn-group,.btn-group-vertical>.btn-group>.btn{display:block;float:none;width:100%;max-width:100%}.btn-group-vertical>.btn-group>.btn{float:none}.btn-group-vertical>.btn+.btn,.btn-group-vertical>.btn+.btn-group,.btn-group-vertical>.btn-group+.btn,.btn-group-vertical>.btn-group+.btn-group{margin-top:-1px;margin-left:0}.btn-group-vertical>.btn:not(:first-child):not(:last-child){border-radius:0}.btn-group-vertical>.btn:first-child:not(:last-child){border-top-right-radius:4px;border-bottom-right-radius:0;border-bottom-left-radius:0}.btn-group-vertical>.btn:last-child:not(:first-child){border-top-left-radius:0;border-top-right-radius:0;border-bottom-left-radius:4px}.btn-group-vertical>.btn-group:not(:first-child):not(:last-child)>.btn{border-radius:0}.btn-group-vertical>.btn-group:first-child:not(:last-child)>.btn:last-child,.btn-group-vertical>.btn-group:first-child:not(:last-child)>.dropdown-toggle{border-bottom-right-radius:0;border-bottom-left-radius:0}.btn-group-vertical>.btn-group:last-child:not(:first-child)>.btn:first-child{border-top-left-radius:0;border-top-right-radius:0}.btn-group-justified{display:table;width:100%;table-layout:fixed;border-collapse:separate}.btn-group-justified>.btn,.btn-group-justified>.btn-group{display:table-cell;float:none;width:1%}.btn-group-justified>.btn-group .btn{width:100%}.btn-group-justified>.btn-group .dropdown-menu{left:auto}[data-toggle=buttons]>.btn input[type=radio],[data-toggle=buttons]>.btn-group>.btn input[type=radio],[data-toggle=buttons]>.btn input[type=checkbox],[data-toggle=buttons]>.btn-group>.btn input[type=checkbox]{position:absolute;clip:rect(0,0,0,0);pointer-events:none}.input-group{position:relative;display:table;border-collapse:separate}.input-group[class*=col-]{float:none;padding-right:0;padding-left:0}.input-group .form-control{position:relative;z-index:2;float:left;width:100%;margin-bottom:0}.input-group-lg>.form-control,.input-group-lg>.input-group-addon,.input-group-lg>.input-group-btn>.btn{height:46px;padding:10px 16px;font-size:18px;line-height:1.33;border-radius:6px}select.input-group-lg>.form-control,select.input-group-lg>.input-group-addon,select.input-group-lg>.input-group-btn>.btn{height:46px;line-height:46px}textarea.input-group-lg>.form-control,textarea.input-group-lg>.input-group-addon,textarea.input-group-lg>.input-group-btn>.btn,select[multiple].input-group-lg>.form-control,select[multiple].input-group-lg>.input-group-addon,select[multiple].input-group-lg>.input-group-btn>.btn{height:auto}.input-group-sm>.form-control,.input-group-sm>.input-group-addon,.input-group-sm>.input-group-btn>.btn{height:30px;padding:5px 10px;font-size:12px;line-height:1.5;border-radius:3px}select.input-group-sm>.form-control,select.input-group-sm>.input-group-addon,select.input-group-sm>.input-group-btn>.btn{height:30px;line-height:30px}textarea.input-group-sm>.form-control,textarea.input-group-sm>.input-group-addon,textarea.input-group-sm>.input-group-btn>.btn,select[multiple].input-group-sm>.form-control,select[multiple].input-group-sm>.input-group-addon,select[multiple].input-group-sm>.input-group-btn>.btn{height:auto}.input-group-addon,.input-group-btn,.input-group .form-control{display:table-cell}.input-group-addon:not(:first-child):not(:last-child),.input-group-btn:not(:first-child):not(:last-child),.input-group .form-control:not(:first-child):not(:last-child){border-radius:0}.input-group-addon,.input-group-btn{width:1%;white-space:nowrap;vertical-align:middle}.input-group-addon{padding:6px 12px;font-size:14px;font-weight:400;line-height:1;color:#555;text-align:center;background-color:#eee;border:1px solid #ccc;border-radius:4px}.input-group-addon.input-sm{padding:5px 10px;font-size:12px;border-radius:3px}.input-group-addon.input-lg{padding:10px 16px;font-size:18px;border-radius:6px}.input-group-addon input[type=radio],.input-group-addon input[type=checkbox]{margin-top:0}.input-group .form-control:first-child,.input-group-addon:first-child,.input-group-btn:first-child>.btn,.input-group-btn:first-child>.btn-group>.btn,.input-group-btn:first-child>.dropdown-toggle,.input-group-btn:last-child>.btn:not(:last-child):not(.dropdown-toggle),.input-group-btn:last-child>.btn-group:not(:last-child)>.btn{border-top-right-radius:0;border-bottom-right-radius:0}.input-group-addon:first-child{border-right:0}.input-group .form-control:last-child,.input-group-addon:last-child,.input-group-btn:last-child>.btn,.input-group-btn:last-child>.btn-group>.btn,.input-group-btn:last-child>.dropdown-toggle,.input-group-btn:first-child>.btn:not(:first-child),.input-group-btn:first-child>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-bottom-left-radius:0}.input-group-addon:last-child{border-left:0}.input-group-btn{position:relative;font-size:0;white-space:nowrap}.input-group-btn>.btn{position:relative}.input-group-btn>.btn+.btn{margin-left:-1px}.input-group-btn>.btn:hover,.input-group-btn>.btn:focus,.input-group-btn>.btn:active{z-index:2}.input-group-btn:first-child>.btn,.input-group-btn:first-child>.btn-group{margin-right:-1px}.input-group-btn:last-child>.btn,.input-group-btn:last-child>.btn-group{margin-left:-1px}.nav{padding-left:0;margin-bottom:0;list-style:none}.nav>li{position:relative;display:block}.nav>li>a{position:relative;display:block;padding:10px 15px}.nav>li>a:hover,.nav>li>a:focus{text-decoration:none;background-color:#eee}.nav>li.disabled>a{color:#777}.nav>li.disabled>a:hover,.nav>li.disabled>a:focus{color:#777;text-decoration:none;cursor:not-allowed;background-color:transparent}.nav .open>a,.nav .open>a:hover,.nav .open>a:focus{background-color:#eee;border-color:#337ab7}.nav .nav-divider{height:1px;margin:9px 0;overflow:hidden;background-color:#e5e5e5}.nav>li>a>img{max-width:none}.nav-tabs{border-bottom:1px solid #ddd}.nav-tabs>li{float:left;margin-bottom:-1px}.nav-tabs>li>a{margin-right:2px;line-height:1.42857143;border:1px solid transparent;border-radius:4px 4px 0 0}.nav-tabs>li>a:hover{border-color:#eee #eee #ddd}.nav-tabs>li.active>a,.nav-tabs>li.active>a:hover,.nav-tabs>li.active>a:focus{color:#555;cursor:default;background-color:#fff;border:1px solid #ddd;border-bottom-color:transparent}.nav-tabs.nav-justified{width:100%;border-bottom:0}.nav-tabs.nav-justified>li{float:none}.nav-tabs.nav-justified>li>a{margin-bottom:5px;text-align:center}.nav-tabs.nav-justified>.dropdown .dropdown-menu{top:auto;left:auto}@media (min-width:768px){.nav-tabs.nav-justified>li{display:table-cell;width:1%}.nav-tabs.nav-justified>li>a{margin-bottom:0}}.nav-tabs.nav-justified>li>a{margin-right:0;border-radius:4px}.nav-tabs.nav-justified>.active>a,.nav-tabs.nav-justified>.active>a:hover,.nav-tabs.nav-justified>.active>a:focus{border:1px solid #ddd}@media (min-width:768px){.nav-tabs.nav-justified>li>a{border-bottom:1px solid #ddd;border-radius:4px 4px 0 0}.nav-tabs.nav-justified>.active>a,.nav-tabs.nav-justified>.active>a:hover,.nav-tabs.nav-justified>.active>a:focus{border-bottom-color:#fff}}.nav-pills>li{float:left}.nav-pills>li>a{border-radius:4px}.nav-pills>li+li{margin-left:2px}.nav-pills>li.active>a,.nav-pills>li.active>a:hover,.nav-pills>li.active>a:focus{color:#fff;background-color:#337ab7}.nav-stacked>li{float:none}.nav-stacked>li+li{margin-top:2px;margin-left:0}.nav-justified{width:100%}.nav-justified>li{float:none}.nav-justified>li>a{margin-bottom:5px;text-align:center}.nav-justified>.dropdown .dropdown-menu{top:auto;left:auto}@media (min-width:768px){.nav-justified>li{display:table-cell;width:1%}.nav-justified>li>a{margin-bottom:0}}.nav-tabs-justified{border-bottom:0}.nav-tabs-justified>li>a{margin-right:0;border-radius:4px}.nav-tabs-justified>.active>a,.nav-tabs-justified>.active>a:hover,.nav-tabs-justified>.active>a:focus{border:1px solid #ddd}@media (min-width:768px){.nav-tabs-justified>li>a{border-bottom:1px solid #ddd;border-radius:4px 4px 0 0}.nav-tabs-justified>.active>a,.nav-tabs-justified>.active>a:hover,.nav-tabs-justified>.active>a:focus{border-bottom-color:#fff}}.tab-content>.tab-pane{display:none;visibility:hidden}.tab-content>.active{display:block;visibility:visible}.nav-tabs .dropdown-menu{margin-top:-1px;border-top-left-radius:0;border-top-right-radius:0}.navbar{position:relative;min-height:50px;margin-bottom:20px;border:1px solid transparent}@media (min-width:768px){.navbar{border-radius:4px}}@media (min-width:768px){.navbar-header{float:left}}.navbar-collapse{padding-right:15px;padding-left:15px;overflow-x:visible;-webkit-overflow-scrolling:touch;border-top:1px solid transparent;-webkit-box-shadow:inset 0 1px 0 rgba(255,255,255,.1);box-shadow:inset 0 1px 0 rgba(255,255,255,.1)}.navbar-collapse.in{overflow-y:auto}@media (min-width:768px){.navbar-collapse{width:auto;border-top:0;-webkit-box-shadow:none;box-shadow:none}.navbar-collapse.collapse{display:block!important;height:auto!important;padding-bottom:0;overflow:visible!important;visibility:visible!important}.navbar-collapse.in{overflow-y:visible}.navbar-fixed-top .navbar-collapse,.navbar-static-top .navbar-collapse,.navbar-fixed-bottom .navbar-collapse{padding-right:0;padding-left:0}}.navbar-fixed-top .navbar-collapse,.navbar-fixed-bottom .navbar-collapse{max-height:340px}@media (max-device-width:480px) and (orientation:landscape){.navbar-fixed-top .navbar-collapse,.navbar-fixed-bottom .navbar-collapse{max-height:200px}}.container>.navbar-header,.container-fluid>.navbar-header,.container>.navbar-collapse,.container-fluid>.navbar-collapse{margin-right:-15px;margin-left:-15px}@media (min-width:768px){.container>.navbar-header,.container-fluid>.navbar-header,.container>.navbar-collapse,.container-fluid>.navbar-collapse{margin-right:0;margin-left:0}}.navbar-static-top{z-index:1000;border-width:0 0 1px}@media (min-width:768px){.navbar-static-top{border-radius:0}}.navbar-fixed-top,.navbar-fixed-bottom{position:fixed;right:0;left:0;z-index:1030}@media (min-width:768px){.navbar-fixed-top,.navbar-fixed-bottom{border-radius:0}}.navbar-fixed-top{top:0;border-width:0 0 1px}.navbar-fixed-bottom{bottom:0;margin-bottom:0;border-width:1px 0 0}.navbar-brand{float:left;height:50px;padding:15px 15px;font-size:18px;line-height:20px}.navbar-brand:hover,.navbar-brand:focus{text-decoration:none}.navbar-brand>img{display:block}@media (min-width:768px){.navbar>.container .navbar-brand,.navbar>.container-fluid .navbar-brand{margin-left:-15px}}.navbar-toggle{position:relative;float:right;padding:9px 10px;margin-top:8px;margin-right:15px;margin-bottom:8px;background-color:transparent;background-image:none;border:1px solid transparent;border-radius:4px}.navbar-toggle:focus{outline:0}.navbar-toggle .icon-bar{display:block;width:22px;height:2px;border-radius:1px}.navbar-toggle .icon-bar+.icon-bar{margin-top:4px}@media (min-width:768px){.navbar-toggle{display:none}}.navbar-nav{margin:7.5px -15px}.navbar-nav>li>a{padding-top:10px;padding-bottom:10px;line-height:20px}@media (max-width:767px){.navbar-nav .open .dropdown-menu{position:static;float:none;width:auto;margin-top:0;background-color:transparent;border:0;-webkit-box-shadow:none;box-shadow:none}.navbar-nav .open .dropdown-menu>li>a,.navbar-nav .open .dropdown-menu .dropdown-header{padding:5px 15px 5px 25px}.navbar-nav .open .dropdown-menu>li>a{line-height:20px}.navbar-nav .open .dropdown-menu>li>a:hover,.navbar-nav .open .dropdown-menu>li>a:focus{background-image:none}}@media (min-width:768px){.navbar-nav{float:left;margin:0}.navbar-nav>li{float:left}.navbar-nav>li>a{padding-top:15px;padding-bottom:15px}}.navbar-form{padding:10px 15px;margin-top:8px;margin-right:-15px;margin-bottom:8px;margin-left:-15px;border-top:1px solid transparent;border-bottom:1px solid transparent;-webkit-box-shadow:inset 0 1px 0 rgba(255,255,255,.1),0 1px 0 rgba(255,255,255,.1);box-shadow:inset 0 1px 0 rgba(255,255,255,.1),0 1px 0 rgba(255,255,255,.1)}@media (min-width:768px){.navbar-form .form-group{display:inline-block;margin-bottom:0;vertical-align:middle}.navbar-form .form-control{display:inline-block;width:auto;vertical-align:middle}.navbar-form .form-control-static{display:inline-block}.navbar-form .input-group{display:inline-table;vertical-align:middle}.navbar-form .input-group .input-group-addon,.navbar-form .input-group .input-group-btn,.navbar-form .input-group .form-control{width:auto}.navbar-form .input-group>.form-control{width:100%}.navbar-form .control-label{margin-bottom:0;vertical-align:middle}.navbar-form .radio,.navbar-form .checkbox{display:inline-block;margin-top:0;margin-bottom:0;vertical-align:middle}.navbar-form .radio label,.navbar-form .checkbox label{padding-left:0}.navbar-form .radio input[type=radio],.navbar-form .checkbox input[type=checkbox]{position:relative;margin-left:0}.navbar-form .has-feedback .form-control-feedback{top:0}}@media (max-width:767px){.navbar-form .form-group{margin-bottom:5px}.navbar-form .form-group:last-child{margin-bottom:0}}@media (min-width:768px){.navbar-form{width:auto;padding-top:0;padding-bottom:0;margin-right:0;margin-left:0;border:0;-webkit-box-shadow:none;box-shadow:none}}.navbar-nav>li>.dropdown-menu{margin-top:0;border-top-left-radius:0;border-top-right-radius:0}.navbar-fixed-bottom .navbar-nav>li>.dropdown-menu{border-top-left-radius:4px;border-top-right-radius:4px;border-bottom-right-radius:0;border-bottom-left-radius:0}.navbar-btn{margin-top:8px;margin-bottom:8px}.navbar-btn.btn-sm{margin-top:10px;margin-bottom:10px}.navbar-btn.btn-xs{margin-top:14px;margin-bottom:14px}.navbar-text{margin-top:15px;margin-bottom:15px}@media (min-width:768px){.navbar-text{float:left;margin-right:15px;margin-left:15px}}@media (min-width:768px){.navbar-left{float:left!important}.navbar-right{float:right!important;margin-right:-15px}.navbar-right~.navbar-right{margin-right:0}}.navbar-default{background-color:#f8f8f8;border-color:#e7e7e7}.navbar-default .navbar-brand{color:#777}.navbar-default .navbar-brand:hover,.navbar-default .navbar-brand:focus{color:#5e5e5e;background-color:transparent}.navbar-default .navbar-text{color:#777}.navbar-default .navbar-nav>li>a{color:#777}.navbar-default .navbar-nav>li>a:hover,.navbar-default .navbar-nav>li>a:focus{color:#333;background-color:transparent}.navbar-default .navbar-nav>.active>a,.navbar-default .navbar-nav>.active>a:hover,.navbar-default .navbar-nav>.active>a:focus{color:#555;background-color:#e7e7e7}.navbar-default .navbar-nav>.disabled>a,.navbar-default .navbar-nav>.disabled>a:hover,.navbar-default .navbar-nav>.disabled>a:focus{color:#ccc;background-color:transparent}.navbar-default .navbar-toggle{border-color:#ddd}.navbar-default .navbar-toggle:hover,.navbar-default .navbar-toggle:focus{background-color:#ddd}.navbar-default .navbar-toggle .icon-bar{background-color:#888}.navbar-default .navbar-collapse,.navbar-default .navbar-form{border-color:#e7e7e7}.navbar-default .navbar-nav>.open>a,.navbar-default .navbar-nav>.open>a:hover,.navbar-default .navbar-nav>.open>a:focus{color:#555;background-color:#e7e7e7}@media (max-width:767px){.navbar-default .navbar-nav .open .dropdown-menu>li>a{color:#777}.navbar-default .navbar-nav .open .dropdown-menu>li>a:hover,.navbar-default .navbar-nav .open .dropdown-menu>li>a:focus{color:#333;background-color:transparent}.navbar-default .navbar-nav .open .dropdown-menu>.active>a,.navbar-default .navbar-nav .open .dropdown-menu>.active>a:hover,.navbar-default .navbar-nav .open .dropdown-menu>.active>a:focus{color:#555;background-color:#e7e7e7}.navbar-default .navbar-nav .open .dropdown-menu>.disabled>a,.navbar-default .navbar-nav .open .dropdown-menu>.disabled>a:hover,.navbar-default .navbar-nav .open .dropdown-menu>.disabled>a:focus{color:#ccc;background-color:transparent}}.navbar-default .navbar-link{color:#777}.navbar-default .navbar-link:hover{color:#333}.navbar-default .btn-link{color:#777}.navbar-default .btn-link:hover,.navbar-default .btn-link:focus{color:#333}.navbar-default .btn-link[disabled]:hover,fieldset[disabled] .navbar-default .btn-link:hover,.navbar-default .btn-link[disabled]:focus,fieldset[disabled] .navbar-default .btn-link:focus{color:#ccc}.navbar-inverse{background-color:#222;border-color:#080808}.navbar-inverse .navbar-brand{color:#9d9d9d}.navbar-inverse .navbar-brand:hover,.navbar-inverse .navbar-brand:focus{color:#fff;background-color:transparent}.navbar-inverse .navbar-text{color:#9d9d9d}.navbar-inverse .navbar-nav>li>a{color:#9d9d9d}.navbar-inverse .navbar-nav>li>a:hover,.navbar-inverse .navbar-nav>li>a:focus{color:#fff;background-color:transparent}.navbar-inverse .navbar-nav>.active>a,.navbar-inverse .navbar-nav>.active>a:hover,.navbar-inverse .navbar-nav>.active>a:focus{color:#fff;background-color:#080808}.navbar-inverse .navbar-nav>.disabled>a,.navbar-inverse .navbar-nav>.disabled>a:hover,.navbar-inverse .navbar-nav>.disabled>a:focus{color:#444;background-color:transparent}.navbar-inverse .navbar-toggle{border-color:#333}.navbar-inverse .navbar-toggle:hover,.navbar-inverse .navbar-toggle:focus{background-color:#333}.navbar-inverse .navbar-toggle .icon-bar{background-color:#fff}.navbar-inverse .navbar-collapse,.navbar-inverse .navbar-form{border-color:#101010}.navbar-inverse .navbar-nav>.open>a,.navbar-inverse .navbar-nav>.open>a:hover,.navbar-inverse .navbar-nav>.open>a:focus{color:#fff;background-color:#080808}@media (max-width:767px){.navbar-inverse .navbar-nav .open .dropdown-menu>.dropdown-header{border-color:#080808}.navbar-inverse .navbar-nav .open .dropdown-menu .divider{background-color:#080808}.navbar-inverse .navbar-nav .open .dropdown-menu>li>a{color:#9d9d9d}.navbar-inverse .navbar-nav .open .dropdown-menu>li>a:hover,.navbar-inverse .navbar-nav .open .dropdown-menu>li>a:focus{color:#fff;background-color:transparent}.navbar-inverse .navbar-nav .open .dropdown-menu>.active>a,.navbar-inverse .navbar-nav .open .dropdown-menu>.active>a:hover,.navbar-inverse .navbar-nav .open .dropdown-menu>.active>a:focus{color:#fff;background-color:#080808}.navbar-inverse .navbar-nav .open .dropdown-menu>.disabled>a,.navbar-inverse .navbar-nav .open .dropdown-menu>.disabled>a:hover,.navbar-inverse .navbar-nav .open .dropdown-menu>.disabled>a:focus{color:#444;background-color:transparent}}.navbar-inverse .navbar-link{color:#9d9d9d}.navbar-inverse .navbar-link:hover{color:#fff}.navbar-inverse .btn-link{color:#9d9d9d}.navbar-inverse .btn-link:hover,.navbar-inverse .btn-link:focus{color:#fff}.navbar-inverse .btn-link[disabled]:hover,fieldset[disabled] .navbar-inverse .btn-link:hover,.navbar-inverse .btn-link[disabled]:focus,fieldset[disabled] .navbar-inverse .btn-link:focus{color:#444}.breadcrumb{padding:8px 15px;margin-bottom:20px;list-style:none;background-color:#f5f5f5;border-radius:4px}.breadcrumb>li{display:inline-block}.breadcrumb>li+li:before{padding:0 5px;color:#ccc;content:"/\00a0"}.breadcrumb>.active{color:#777}.pagination{display:inline-block;padding-left:0;margin:20px 0;border-radius:4px}.pagination>li{display:inline}.pagination>li>a,.pagination>li>span{position:relative;float:left;padding:6px 12px;margin-left:-1px;line-height:1.42857143;color:#337ab7;text-decoration:none;background-color:#fff;border:1px solid #ddd}.pagination>li:first-child>a,.pagination>li:first-child>span{margin-left:0;border-top-left-radius:4px;border-bottom-left-radius:4px}.pagination>li:last-child>a,.pagination>li:last-child>span{border-top-right-radius:4px;border-bottom-right-radius:4px}.pagination>li>a:hover,.pagination>li>span:hover,.pagination>li>a:focus,.pagination>li>span:focus{color:#23527c;background-color:#eee;border-color:#ddd}.pagination>.active>a,.pagination>.active>span,.pagination>.active>a:hover,.pagination>.active>span:hover,.pagination>.active>a:focus,.pagination>.active>span:focus{z-index:2;color:#fff;cursor:default;background-color:#337ab7;border-color:#337ab7}.pagination>.disabled>span,.pagination>.disabled>span:hover,.pagination>.disabled>span:focus,.pagination>.disabled>a,.pagination>.disabled>a:hover,.pagination>.disabled>a:focus{color:#777;cursor:not-allowed;background-color:#fff;border-color:#ddd}.pagination-lg>li>a,.pagination-lg>li>span{padding:10px 16px;font-size:18px}.pagination-lg>li:first-child>a,.pagination-lg>li:first-child>span{border-top-left-radius:6px;border-bottom-left-radius:6px}.pagination-lg>li:last-child>a,.pagination-lg>li:last-child>span{border-top-right-radius:6px;border-bottom-right-radius:6px}.pagination-sm>li>a,.pagination-sm>li>span{padding:5px 10px;font-size:12px}.pagination-sm>li:first-child>a,.pagination-sm>li:first-child>span{border-top-left-radius:3px;border-bottom-left-radius:3px}.pagination-sm>li:last-child>a,.pagination-sm>li:last-child>span{border-top-right-radius:3px;border-bottom-right-radius:3px}.pager{padding-left:0;margin:20px 0;text-align:center;list-style:none}.pager li{display:inline}.pager li>a,.pager li>span{display:inline-block;padding:5px 14px;background-color:#fff;border:1px solid #ddd;border-radius:15px}.pager li>a:hover,.pager li>a:focus{text-decoration:none;background-color:#eee}.pager .next>a,.pager .next>span{float:right}.pager .previous>a,.pager .previous>span{float:left}.pager .disabled>a,.pager .disabled>a:hover,.pager .disabled>a:focus,.pager .disabled>span{color:#777;cursor:not-allowed;background-color:#fff}.label{display:inline;padding:.2em .6em .3em;font-size:75%;font-weight:700;line-height:1;color:#fff;text-align:center;white-space:nowrap;vertical-align:baseline;border-radius:.25em}a.label:hover,a.label:focus{color:#fff;text-decoration:none;cursor:pointer}.label:empty{display:none}.btn .label{position:relative;top:-1px}.label-default{background-color:#777}.label-default[href]:hover,.label-default[href]:focus{background-color:#5e5e5e}.label-primary{background-color:#337ab7}.label-primary[href]:hover,.label-primary[href]:focus{background-color:#286090}.label-success{background-color:#5cb85c}.label-success[href]:hover,.label-success[href]:focus{background-color:#449d44}.label-info{background-color:#5bc0de}.label-info[href]:hover,.label-info[href]:focus{background-color:#31b0d5}.label-warning{background-color:#f0ad4e}.label-warning[href]:hover,.label-warning[href]:focus{background-color:#ec971f}.label-danger{background-color:#d9534f}.label-danger[href]:hover,.label-danger[href]:focus{background-color:#c9302c}.badge{display:inline-block;min-width:10px;padding:3px 7px;font-size:12px;font-weight:700;line-height:1;color:#fff;text-align:center;white-space:nowrap;vertical-align:baseline;background-color:#777;border-radius:10px}.badge:empty{display:none}.btn .badge{position:relative;top:-1px}.btn-xs .badge{top:0;padding:1px 5px}a.badge:hover,a.badge:focus{color:#fff;text-decoration:none;cursor:pointer}.list-group-item.active>.badge,.nav-pills>.active>a>.badge{color:#337ab7;background-color:#fff}.list-group-item>.badge{float:right}.list-group-item>.badge+.badge{margin-right:5px}.nav-pills>li>a>.badge{margin-left:3px}.jumbotron{padding:30px 15px;margin-bottom:30px;color:inherit;background-color:#eee}.jumbotron h1,.jumbotron .h1{color:inherit}.jumbotron p{margin-bottom:15px;font-size:21px;font-weight:200}.jumbotron>hr{border-top-color:#d5d5d5}.container .jumbotron,.container-fluid .jumbotron{border-radius:6px}.jumbotron .container{max-width:100%}@media screen and (min-width:768px){.jumbotron{padding:48px 0}.container .jumbotron,.container-fluid .jumbotron{padding-right:60px;padding-left:60px}.jumbotron h1,.jumbotron .h1{font-size:63px}}.thumbnail{display:block;padding:4px;margin-bottom:20px;line-height:1.42857143;background-color:#fff;border:1px solid #ddd;border-radius:4px;-webkit-transition:border .2s ease-in-out;-o-transition:border .2s ease-in-out;transition:border .2s ease-in-out}.thumbnail>img,.thumbnail a>img{margin-right:auto;margin-left:auto}a.thumbnail:hover,a.thumbnail:focus,a.thumbnail.active{border-color:#337ab7}.thumbnail .caption{padding:9px;color:#333}.alert{padding:15px;margin-bottom:20px;border:1px solid transparent;border-radius:4px}.alert h4{margin-top:0;color:inherit}.alert .alert-link{font-weight:700}.alert>p,.alert>ul{margin-bottom:0}.alert>p+p{margin-top:5px}.alert-dismissable,.alert-dismissible{padding-right:35px}.alert-dismissable .close,.alert-dismissible .close{position:relative;top:-2px;right:-21px;color:inherit}.alert-success{color:#3c763d;background-color:#dff0d8;border-color:#d6e9c6}.alert-success hr{border-top-color:#c9e2b3}.alert-success .alert-link{color:#2b542c}.alert-info{color:#31708f;background-color:#d9edf7;border-color:#bce8f1}.alert-info hr{border-top-color:#a6e1ec}.alert-info .alert-link{color:#245269}.alert-warning{color:#8a6d3b;background-color:#fcf8e3;border-color:#faebcc}.alert-warning hr{border-top-color:#f7e1b5}.alert-warning .alert-link{color:#66512c}.alert-danger{color:#a94442;background-color:#f2dede;border-color:#ebccd1}.alert-danger hr{border-top-color:#e4b9c0}.alert-danger .alert-link{color:#843534}@-webkit-keyframes progress-bar-stripes{from{background-position:40px 0}to{background-position:0 0}}@-o-keyframes progress-bar-stripes{from{background-position:40px 0}to{background-position:0 0}}@keyframes progress-bar-stripes{from{background-position:40px 0}to{background-position:0 0}}.progress{height:20px;margin-bottom:20px;overflow:hidden;background-color:#f5f5f5;border-radius:4px;-webkit-box-shadow:inset 0 1px 2px rgba(0,0,0,.1);box-shadow:inset 0 1px 2px rgba(0,0,0,.1)}.progress-bar{float:left;width:0;height:100%;font-size:12px;line-height:20px;color:#fff;text-align:center;background-color:#337ab7;-webkit-box-shadow:inset 0 -1px 0 rgba(0,0,0,.15);box-shadow:inset 0 -1px 0 rgba(0,0,0,.15);-webkit-transition:width .6s ease;-o-transition:width .6s ease;transition:width .6s ease}.progress-striped .progress-bar,.progress-bar-striped{background-image:-webkit-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:-o-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);-webkit-background-size:40px 40px;background-size:40px 40px}.progress.active .progress-bar,.progress-bar.active{-webkit-animation:progress-bar-stripes 2s linear infinite;-o-animation:progress-bar-stripes 2s linear infinite;animation:progress-bar-stripes 2s linear infinite}.progress-bar-success{background-color:#5cb85c}.progress-striped .progress-bar-success{background-image:-webkit-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:-o-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent)}.progress-bar-info{background-color:#5bc0de}.progress-striped .progress-bar-info{background-image:-webkit-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:-o-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent)}.progress-bar-warning{background-color:#f0ad4e}.progress-striped .progress-bar-warning{background-image:-webkit-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:-o-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent)}.progress-bar-danger{background-color:#d9534f}.progress-striped .progress-bar-danger{background-image:-webkit-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:-o-linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent);background-image:linear-gradient(45deg,rgba(255,255,255,.15) 25%,transparent 25%,transparent 50%,rgba(255,255,255,.15) 50%,rgba(255,255,255,.15) 75%,transparent 75%,transparent)}.media{margin-top:15px}.media:first-child{margin-top:0}.media-right,.media>.pull-right{padding-left:10px}.media-left,.media>.pull-left{padding-right:10px}.media-left,.media-right,.media-body{display:table-cell;vertical-align:top}.media-middle{vertical-align:middle}.media-bottom{vertical-align:bottom}.media-heading{margin-top:0;margin-bottom:5px}.media-list{padding-left:0;list-style:none}.list-group{padding-left:0;margin-bottom:20px}.list-group-item{position:relative;display:block;padding:10px 15px;margin-bottom:-1px;background-color:#fff;border:1px solid #ddd}.list-group-item:first-child{border-top-left-radius:4px;border-top-right-radius:4px}.list-group-item:last-child{margin-bottom:0;border-bottom-right-radius:4px;border-bottom-left-radius:4px}a.list-group-item{color:#555}a.list-group-item .list-group-item-heading{color:#333}a.list-group-item:hover,a.list-group-item:focus{color:#555;text-decoration:none;background-color:#f5f5f5}.list-group-item.disabled,.list-group-item.disabled:hover,.list-group-item.disabled:focus{color:#777;cursor:not-allowed;background-color:#eee}.list-group-item.disabled .list-group-item-heading,.list-group-item.disabled:hover .list-group-item-heading,.list-group-item.disabled:focus .list-group-item-heading{color:inherit}.list-group-item.disabled .list-group-item-text,.list-group-item.disabled:hover .list-group-item-text,.list-group-item.disabled:focus .list-group-item-text{color:#777}.list-group-item.active,.list-group-item.active:hover,.list-group-item.active:focus{z-index:2;color:#fff;background-color:#337ab7;border-color:#337ab7}.list-group-item.active .list-group-item-heading,.list-group-item.active:hover .list-group-item-heading,.list-group-item.active:focus .list-group-item-heading,.list-group-item.active .list-group-item-heading>small,.list-group-item.active:hover .list-group-item-heading>small,.list-group-item.active:focus .list-group-item-heading>small,.list-group-item.active .list-group-item-heading>.small,.list-group-item.active:hover .list-group-item-heading>.small,.list-group-item.active:focus .list-group-item-heading>.small{color:inherit}.list-group-item.active .list-group-item-text,.list-group-item.active:hover .list-group-item-text,.list-group-item.active:focus .list-group-item-text{color:#c7ddef}.list-group-item-success{color:#3c763d;background-color:#dff0d8}a.list-group-item-success{color:#3c763d}a.list-group-item-success .list-group-item-heading{color:inherit}a.list-group-item-success:hover,a.list-group-item-success:focus{color:#3c763d;background-color:#d0e9c6}a.list-group-item-success.active,a.list-group-item-success.active:hover,a.list-group-item-success.active:focus{color:#fff;background-color:#3c763d;border-color:#3c763d}.list-group-item-info{color:#31708f;background-color:#d9edf7}a.list-group-item-info{color:#31708f}a.list-group-item-info .list-group-item-heading{color:inherit}a.list-group-item-info:hover,a.list-group-item-info:focus{color:#31708f;background-color:#c4e3f3}a.list-group-item-info.active,a.list-group-item-info.active:hover,a.list-group-item-info.active:focus{color:#fff;background-color:#31708f;border-color:#31708f}.list-group-item-warning{color:#8a6d3b;background-color:#fcf8e3}a.list-group-item-warning{color:#8a6d3b}a.list-group-item-warning .list-group-item-heading{color:inherit}a.list-group-item-warning:hover,a.list-group-item-warning:focus{color:#8a6d3b;background-color:#faf2cc}a.list-group-item-warning.active,a.list-group-item-warning.active:hover,a.list-group-item-warning.active:focus{color:#fff;background-color:#8a6d3b;border-color:#8a6d3b}.list-group-item-danger{color:#a94442;background-color:#f2dede}a.list-group-item-danger{color:#a94442}a.list-group-item-danger .list-group-item-heading{color:inherit}a.list-group-item-danger:hover,a.list-group-item-danger:focus{color:#a94442;background-color:#ebcccc}a.list-group-item-danger.active,a.list-group-item-danger.active:hover,a.list-group-item-danger.active:focus{color:#fff;background-color:#a94442;border-color:#a94442}.list-group-item-heading{margin-top:0;margin-bottom:5px}.list-group-item-text{margin-bottom:0;line-height:1.3}.panel{margin-bottom:20px;background-color:#fff;border:1px solid transparent;border-radius:4px;-webkit-box-shadow:0 1px 1px rgba(0,0,0,.05);box-shadow:0 1px 1px rgba(0,0,0,.05)}.panel-body{padding:15px}.panel-heading{padding:10px 15px;border-bottom:1px solid transparent;border-top-left-radius:3px;border-top-right-radius:3px}.panel-heading>.dropdown .dropdown-toggle{color:inherit}.panel-title{margin-top:0;margin-bottom:0;font-size:16px;color:inherit}.panel-title>a{color:inherit}.panel-footer{padding:10px 15px;background-color:#f5f5f5;border-top:1px solid #ddd;border-bottom-right-radius:3px;border-bottom-left-radius:3px}.panel>.list-group,.panel>.panel-collapse>.list-group{margin-bottom:0}.panel>.list-group .list-group-item,.panel>.panel-collapse>.list-group .list-group-item{border-width:1px 0;border-radius:0}.panel>.list-group:first-child .list-group-item:first-child,.panel>.panel-collapse>.list-group:first-child .list-group-item:first-child{border-top:0;border-top-left-radius:3px;border-top-right-radius:3px}.panel>.list-group:last-child .list-group-item:last-child,.panel>.panel-collapse>.list-group:last-child .list-group-item:last-child{border-bottom:0;border-bottom-right-radius:3px;border-bottom-left-radius:3px}.panel-heading+.list-group .list-group-item:first-child{border-top-width:0}.list-group+.panel-footer{border-top-width:0}.panel>.table,.panel>.table-responsive>.table,.panel>.panel-collapse>.table{margin-bottom:0}.panel>.table caption,.panel>.table-responsive>.table caption,.panel>.panel-collapse>.table caption{padding-right:15px;padding-left:15px}.panel>.table:first-child,.panel>.table-responsive:first-child>.table:first-child{border-top-left-radius:3px;border-top-right-radius:3px}.panel>.table:first-child>thead:first-child>tr:first-child,.panel>.table-responsive:first-child>.table:first-child>thead:first-child>tr:first-child,.panel>.table:first-child>tbody:first-child>tr:first-child,.panel>.table-responsive:first-child>.table:first-child>tbody:first-child>tr:first-child{border-top-left-radius:3px;border-top-right-radius:3px}.panel>.table:first-child>thead:first-child>tr:first-child td:first-child,.panel>.table-responsive:first-child>.table:first-child>thead:first-child>tr:first-child td:first-child,.panel>.table:first-child>tbody:first-child>tr:first-child td:first-child,.panel>.table-responsive:first-child>.table:first-child>tbody:first-child>tr:first-child td:first-child,.panel>.table:first-child>thead:first-child>tr:first-child th:first-child,.panel>.table-responsive:first-child>.table:first-child>thead:first-child>tr:first-child th:first-child,.panel>.table:first-child>tbody:first-child>tr:first-child th:first-child,.panel>.table-responsive:first-child>.table:first-child>tbody:first-child>tr:first-child th:first-child{border-top-left-radius:3px}.panel>.table:first-child>thead:first-child>tr:first-child td:last-child,.panel>.table-responsive:first-child>.table:first-child>thead:first-child>tr:first-child td:last-child,.panel>.table:first-child>tbody:first-child>tr:first-child td:last-child,.panel>.table-responsive:first-child>.table:first-child>tbody:first-child>tr:first-child td:last-child,.panel>.table:first-child>thead:first-child>tr:first-child th:last-child,.panel>.table-responsive:first-child>.table:first-child>thead:first-child>tr:first-child th:last-child,.panel>.table:first-child>tbody:first-child>tr:first-child th:last-child,.panel>.table-responsive:first-child>.table:first-child>tbody:first-child>tr:first-child th:last-child{border-top-right-radius:3px}.panel>.table:last-child,.panel>.table-responsive:last-child>.table:last-child{border-bottom-right-radius:3px;border-bottom-left-radius:3px}.panel>.table:last-child>tbody:last-child>tr:last-child,.panel>.table-responsive:last-child>.table:last-child>tbody:last-child>tr:last-child,.panel>.table:last-child>tfoot:last-child>tr:last-child,.panel>.table-responsive:last-child>.table:last-child>tfoot:last-child>tr:last-child{border-bottom-right-radius:3px;border-bottom-left-radius:3px}.panel>.table:last-child>tbody:last-child>tr:last-child td:first-child,.panel>.table-responsive:last-child>.table:last-child>tbody:last-child>tr:last-child td:first-child,.panel>.table:last-child>tfoot:last-child>tr:last-child td:first-child,.panel>.table-responsive:last-child>.table:last-child>tfoot:last-child>tr:last-child td:first-child,.panel>.table:last-child>tbody:last-child>tr:last-child th:first-child,.panel>.table-responsive:last-child>.table:last-child>tbody:last-child>tr:last-child th:first-child,.panel>.table:last-child>tfoot:last-child>tr:last-child th:first-child,.panel>.table-responsive:last-child>.table:last-child>tfoot:last-child>tr:last-child th:first-child{border-bottom-left-radius:3px}.panel>.table:last-child>tbody:last-child>tr:last-child td:last-child,.panel>.table-responsive:last-child>.table:last-child>tbody:last-child>tr:last-child td:last-child,.panel>.table:last-child>tfoot:last-child>tr:last-child td:last-child,.panel>.table-responsive:last-child>.table:last-child>tfoot:last-child>tr:last-child td:last-child,.panel>.table:last-child>tbody:last-child>tr:last-child th:last-child,.panel>.table-responsive:last-child>.table:last-child>tbody:last-child>tr:last-child th:last-child,.panel>.table:last-child>tfoot:last-child>tr:last-child th:last-child,.panel>.table-responsive:last-child>.table:last-child>tfoot:last-child>tr:last-child th:last-child{border-bottom-right-radius:3px}.panel>.panel-body+.table,.panel>.panel-body+.table-responsive,.panel>.table+.panel-body,.panel>.table-responsive+.panel-body{border-top:1px solid #ddd}.panel>.table>tbody:first-child>tr:first-child th,.panel>.table>tbody:first-child>tr:first-child td{border-top:0}.panel>.table-bordered,.panel>.table-responsive>.table-bordered{border:0}.panel>.table-bordered>thead>tr>th:first-child,.panel>.table-responsive>.table-bordered>thead>tr>th:first-child,.panel>.table-bordered>tbody>tr>th:first-child,.panel>.table-responsive>.table-bordered>tbody>tr>th:first-child,.panel>.table-bordered>tfoot>tr>th:first-child,.panel>.table-responsive>.table-bordered>tfoot>tr>th:first-child,.panel>.table-bordered>thead>tr>td:first-child,.panel>.table-responsive>.table-bordered>thead>tr>td:first-child,.panel>.table-bordered>tbody>tr>td:first-child,.panel>.table-responsive>.table-bordered>tbody>tr>td:first-child,.panel>.table-bordered>tfoot>tr>td:first-child,.panel>.table-responsive>.table-bordered>tfoot>tr>td:first-child{border-left:0}.panel>.table-bordered>thead>tr>th:last-child,.panel>.table-responsive>.table-bordered>thead>tr>th:last-child,.panel>.table-bordered>tbody>tr>th:last-child,.panel>.table-responsive>.table-bordered>tbody>tr>th:last-child,.panel>.table-bordered>tfoot>tr>th:last-child,.panel>.table-responsive>.table-bordered>tfoot>tr>th:last-child,.panel>.table-bordered>thead>tr>td:last-child,.panel>.table-responsive>.table-bordered>thead>tr>td:last-child,.panel>.table-bordered>tbody>tr>td:last-child,.panel>.table-responsive>.table-bordered>tbody>tr>td:last-child,.panel>.table-bordered>tfoot>tr>td:last-child,.panel>.table-responsive>.table-bordered>tfoot>tr>td:last-child{border-right:0}.panel>.table-bordered>thead>tr:first-child>td,.panel>.table-responsive>.table-bordered>thead>tr:first-child>td,.panel>.table-bordered>tbody>tr:first-child>td,.panel>.table-responsive>.table-bordered>tbody>tr:first-child>td,.panel>.table-bordered>thead>tr:first-child>th,.panel>.table-responsive>.table-bordered>thead>tr:first-child>th,.panel>.table-bordered>tbody>tr:first-child>th,.panel>.table-responsive>.table-bordered>tbody>tr:first-child>th{border-bottom:0}.panel>.table-bordered>tbody>tr:last-child>td,.panel>.table-responsive>.table-bordered>tbody>tr:last-child>td,.panel>.table-bordered>tfoot>tr:last-child>td,.panel>.table-responsive>.table-bordered>tfoot>tr:last-child>td,.panel>.table-bordered>tbody>tr:last-child>th,.panel>.table-responsive>.table-bordered>tbody>tr:last-child>th,.panel>.table-bordered>tfoot>tr:last-child>th,.panel>.table-responsive>.table-bordered>tfoot>tr:last-child>th{border-bottom:0}.panel>.table-responsive{margin-bottom:0;border:0}.panel-group{margin-bottom:20px}.panel-group .panel{margin-bottom:0;border-radius:4px}.panel-group .panel+.panel{margin-top:5px}.panel-group .panel-heading{border-bottom:0}.panel-group .panel-heading+.panel-collapse>.panel-body,.panel-group .panel-heading+.panel-collapse>.list-group{border-top:1px solid #ddd}.panel-group .panel-footer{border-top:0}.panel-group .panel-footer+.panel-collapse .panel-body{border-bottom:1px solid #ddd}.panel-default{border-color:#ddd}.panel-default>.panel-heading{color:#333;background-color:#f5f5f5;border-color:#ddd}.panel-default>.panel-heading+.panel-collapse>.panel-body{border-top-color:#ddd}.panel-default>.panel-heading .badge{color:#f5f5f5;background-color:#333}.panel-default>.panel-footer+.panel-collapse>.panel-body{border-bottom-color:#ddd}.panel-primary{border-color:#337ab7}.panel-primary>.panel-heading{color:#fff;background-color:#337ab7;border-color:#337ab7}.panel-primary>.panel-heading+.panel-collapse>.panel-body{border-top-color:#337ab7}.panel-primary>.panel-heading .badge{color:#337ab7;background-color:#fff}.panel-primary>.panel-footer+.panel-collapse>.panel-body{border-bottom-color:#337ab7}.panel-success{border-color:#d6e9c6}.panel-success>.panel-heading{color:#3c763d;background-color:#dff0d8;border-color:#d6e9c6}.panel-success>.panel-heading+.panel-collapse>.panel-body{border-top-color:#d6e9c6}.panel-success>.panel-heading .badge{color:#dff0d8;background-color:#3c763d}.panel-success>.panel-footer+.panel-collapse>.panel-body{border-bottom-color:#d6e9c6}.panel-info{border-color:#bce8f1}.panel-info>.panel-heading{color:#31708f;background-color:#d9edf7;border-color:#bce8f1}.panel-info>.panel-heading+.panel-collapse>.panel-body{border-top-color:#bce8f1}.panel-info>.panel-heading .badge{color:#d9edf7;background-color:#31708f}.panel-info>.panel-footer+.panel-collapse>.panel-body{border-bottom-color:#bce8f1}.panel-warning{border-color:#faebcc}.panel-warning>.panel-heading{color:#8a6d3b;background-color:#fcf8e3;border-color:#faebcc}.panel-warning>.panel-heading+.panel-collapse>.panel-body{border-top-color:#faebcc}.panel-warning>.panel-heading .badge{color:#fcf8e3;background-color:#8a6d3b}.panel-warning>.panel-footer+.panel-collapse>.panel-body{border-bottom-color:#faebcc}.panel-danger{border-color:#ebccd1}.panel-danger>.panel-heading{color:#a94442;background-color:#f2dede;border-color:#ebccd1}.panel-danger>.panel-heading+.panel-collapse>.panel-body{border-top-color:#ebccd1}.panel-danger>.panel-heading .badge{color:#f2dede;background-color:#a94442}.panel-danger>.panel-footer+.panel-collapse>.panel-body{border-bottom-color:#ebccd1}.embed-responsive{position:relative;display:block;height:0;padding:0;overflow:hidden}.embed-responsive .embed-responsive-item,.embed-responsive iframe,.embed-responsive embed,.embed-responsive object,.embed-responsive video{position:absolute;top:0;bottom:0;left:0;width:100%;height:100%;border:0}.embed-responsive.embed-responsive-16by9{padding-bottom:56.25%}.embed-responsive.embed-responsive-4by3{padding-bottom:75%}.well{min-height:20px;padding:19px;margin-bottom:20px;background-color:#f5f5f5;border:1px solid #e3e3e3;border-radius:4px;-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,.05);box-shadow:inset 0 1px 1px rgba(0,0,0,.05)}.well blockquote{border-color:#ddd;border-color:rgba(0,0,0,.15)}.well-lg{padding:24px;border-radius:6px}.well-sm{padding:9px;border-radius:3px}.close{float:right;font-size:21px;font-weight:700;line-height:1;color:#000;text-shadow:0 1px 0 #fff;filter:alpha(opacity=20);opacity:.2}.close:hover,.close:focus{color:#000;text-decoration:none;cursor:pointer;filter:alpha(opacity=50);opacity:.5}button.close{-webkit-appearance:none;padding:0;cursor:pointer;background:0 0;border:0}.modal-open{overflow:hidden}.modal{position:fixed;top:0;right:0;bottom:0;left:0;z-index:1040;display:none;overflow:hidden;-webkit-overflow-scrolling:touch;outline:0}.modal.fade .modal-dialog{-webkit-transition:-webkit-transform .3s ease-out;-o-transition:-o-transform .3s ease-out;transition:transform .3s ease-out;-webkit-transform:translate(0,-25%);-ms-transform:translate(0,-25%);-o-transform:translate(0,-25%);transform:translate(0,-25%)}.modal.in .modal-dialog{-webkit-transform:translate(0,0);-ms-transform:translate(0,0);-o-transform:translate(0,0);transform:translate(0,0)}.modal-open .modal{overflow-x:hidden;overflow-y:auto}.modal-dialog{position:relative;width:auto;margin:10px}.modal-content{position:relative;background-color:#fff;-webkit-background-clip:padding-box;background-clip:padding-box;border:1px solid #999;border:1px solid rgba(0,0,0,.2);border-radius:6px;outline:0;-webkit-box-shadow:0 3px 9px rgba(0,0,0,.5);box-shadow:0 3px 9px rgba(0,0,0,.5)}.modal-backdrop{position:absolute;top:0;right:0;left:0;background-color:#000}.modal-backdrop.fade{filter:alpha(opacity=0);opacity:0}.modal-backdrop.in{filter:alpha(opacity=50);opacity:.5}.modal-header{min-height:16.43px;padding:15px;border-bottom:1px solid #e5e5e5}.modal-header .close{margin-top:-2px}.modal-title{margin:0;line-height:1.42857143}.modal-body{position:relative;padding:15px}.modal-footer{padding:15px;text-align:right;border-top:1px solid #e5e5e5}.modal-footer .btn+.btn{margin-bottom:0;margin-left:5px}.modal-footer .btn-group .btn+.btn{margin-left:-1px}.modal-footer .btn-block+.btn-block{margin-left:0}.modal-scrollbar-measure{position:absolute;top:-9999px;width:50px;height:50px;overflow:scroll}@media (min-width:768px){.modal-dialog{width:600px;margin:30px auto}.modal-content{-webkit-box-shadow:0 5px 15px rgba(0,0,0,.5);box-shadow:0 5px 15px rgba(0,0,0,.5)}.modal-sm{width:300px}}@media (min-width:992px){.modal-lg{width:900px}}.tooltip{position:absolute;z-index:1070;display:block;font-family:"Helvetica Neue",Helvetica,Arial,sans-serif;font-size:12px;font-weight:400;line-height:1.4;visibility:visible;filter:alpha(opacity=0);opacity:0}.tooltip.in{filter:alpha(opacity=90);opacity:.9}.tooltip.top{padding:5px 0;margin-top:-3px}.tooltip.right{padding:0 5px;margin-left:3px}.tooltip.bottom{padding:5px 0;margin-top:3px}.tooltip.left{padding:0 5px;margin-left:-3px}.tooltip-inner{max-width:200px;padding:3px 8px;color:#fff;text-align:center;text-decoration:none;background-color:#000;border-radius:4px}.tooltip-arrow{position:absolute;width:0;height:0;border-color:transparent;border-style:solid}.tooltip.top .tooltip-arrow{bottom:0;left:50%;margin-left:-5px;border-width:5px 5px 0;border-top-color:#000}.tooltip.top-left .tooltip-arrow{right:5px;bottom:0;margin-bottom:-5px;border-width:5px 5px 0;border-top-color:#000}.tooltip.top-right .tooltip-arrow{bottom:0;left:5px;margin-bottom:-5px;border-width:5px 5px 0;border-top-color:#000}.tooltip.right .tooltip-arrow{top:50%;left:0;margin-top:-5px;border-width:5px 5px 5px 0;border-right-color:#000}.tooltip.left .tooltip-arrow{top:50%;right:0;margin-top:-5px;border-width:5px 0 5px 5px;border-left-color:#000}.tooltip.bottom .tooltip-arrow{top:0;left:50%;margin-left:-5px;border-width:0 5px 5px;border-bottom-color:#000}.tooltip.bottom-left .tooltip-arrow{top:0;right:5px;margin-top:-5px;border-width:0 5px 5px;border-bottom-color:#000}.tooltip.bottom-right .tooltip-arrow{top:0;left:5px;margin-top:-5px;border-width:0 5px 5px;border-bottom-color:#000}.popover{position:absolute;top:0;left:0;z-index:1060;display:none;max-width:276px;padding:1px;font-family:"Helvetica Neue",Helvetica,Arial,sans-serif;font-size:14px;font-weight:400;line-height:1.42857143;text-align:left;white-space:normal;background-color:#fff;-webkit-background-clip:padding-box;background-clip:padding-box;border:1px solid #ccc;border:1px solid rgba(0,0,0,.2);border-radius:6px;-webkit-box-shadow:0 5px 10px rgba(0,0,0,.2);box-shadow:0 5px 10px rgba(0,0,0,.2)}.popover.top{margin-top:-10px}.popover.right{margin-left:10px}.popover.bottom{margin-top:10px}.popover.left{margin-left:-10px}.popover-title{padding:8px 14px;margin:0;font-size:14px;background-color:#f7f7f7;border-bottom:1px solid #ebebeb;border-radius:5px 5px 0 0}.popover-content{padding:9px 14px}.popover>.arrow,.popover>.arrow:after{position:absolute;display:block;width:0;height:0;border-color:transparent;border-style:solid}.popover>.arrow{border-width:11px}.popover>.arrow:after{content:"";border-width:10px}.popover.top>.arrow{bottom:-11px;left:50%;margin-left:-11px;border-top-color:#999;border-top-color:rgba(0,0,0,.25);border-bottom-width:0}.popover.top>.arrow:after{bottom:1px;margin-left:-10px;content:" ";border-top-color:#fff;border-bottom-width:0}.popover.right>.arrow{top:50%;left:-11px;margin-top:-11px;border-right-color:#999;border-right-color:rgba(0,0,0,.25);border-left-width:0}.popover.right>.arrow:after{bottom:-10px;left:1px;content:" ";border-right-color:#fff;border-left-width:0}.popover.bottom>.arrow{top:-11px;left:50%;margin-left:-11px;border-top-width:0;border-bottom-color:#999;border-bottom-color:rgba(0,0,0,.25)}.popover.bottom>.arrow:after{top:1px;margin-left:-10px;content:" ";border-top-width:0;border-bottom-color:#fff}.popover.left>.arrow{top:50%;right:-11px;margin-top:-11px;border-right-width:0;border-left-color:#999;border-left-color:rgba(0,0,0,.25)}.popover.left>.arrow:after{right:1px;bottom:-10px;content:" ";border-right-width:0;border-left-color:#fff}.carousel{position:relative}.carousel-inner{position:relative;width:100%;overflow:hidden}.carousel-inner>.item{position:relative;display:none;-webkit-transition:.6s ease-in-out left;-o-transition:.6s ease-in-out left;transition:.6s ease-in-out left}.carousel-inner>.item>img,.carousel-inner>.item>a>img{line-height:1}@media all and (transform-3d),(-webkit-transform-3d){.carousel-inner>.item{-webkit-transition:-webkit-transform .6s ease-in-out;-o-transition:-o-transform .6s ease-in-out;transition:transform .6s ease-in-out;-webkit-backface-visibility:hidden;backface-visibility:hidden;-webkit-perspective:1000;perspective:1000}.carousel-inner>.item.next,.carousel-inner>.item.active.right{left:0;-webkit-transform:translate3d(100%,0,0);transform:translate3d(100%,0,0)}.carousel-inner>.item.prev,.carousel-inner>.item.active.left{left:0;-webkit-transform:translate3d(-100%,0,0);transform:translate3d(-100%,0,0)}.carousel-inner>.item.next.left,.carousel-inner>.item.prev.right,.carousel-inner>.item.active{left:0;-webkit-transform:translate3d(0,0,0);transform:translate3d(0,0,0)}}.carousel-inner>.active,.carousel-inner>.next,.carousel-inner>.prev{display:block}.carousel-inner>.active{left:0}.carousel-inner>.next,.carousel-inner>.prev{position:absolute;top:0;width:100%}.carousel-inner>.next{left:100%}.carousel-inner>.prev{left:-100%}.carousel-inner>.next.left,.carousel-inner>.prev.right{left:0}.carousel-inner>.active.left{left:-100%}.carousel-inner>.active.right{left:100%}.carousel-control{position:absolute;top:0;bottom:0;left:0;width:15%;font-size:20px;color:#fff;text-align:center;text-shadow:0 1px 2px rgba(0,0,0,.6);filter:alpha(opacity=50);opacity:.5}.carousel-control.left{background-image:-webkit-linear-gradient(left,rgba(0,0,0,.5) 0,rgba(0,0,0,.0001) 100%);background-image:-o-linear-gradient(left,rgba(0,0,0,.5) 0,rgba(0,0,0,.0001) 100%);background-image:-webkit-gradient(linear,left top,right top,from(rgba(0,0,0,.5)),to(rgba(0,0,0,.0001)));background-image:linear-gradient(to right,rgba(0,0,0,.5) 0,rgba(0,0,0,.0001) 100%);filter:progid:DXImageTransform.Microsoft.gradient(startColorstr='#80000000', endColorstr='#00000000', GradientType=1);background-repeat:repeat-x}.carousel-control.right{right:0;left:auto;background-image:-webkit-linear-gradient(left,rgba(0,0,0,.0001) 0,rgba(0,0,0,.5) 100%);background-image:-o-linear-gradient(left,rgba(0,0,0,.0001) 0,rgba(0,0,0,.5) 100%);background-image:-webkit-gradient(linear,left top,right top,from(rgba(0,0,0,.0001)),to(rgba(0,0,0,.5)));background-image:linear-gradient(to right,rgba(0,0,0,.0001) 0,rgba(0,0,0,.5) 100%);filter:progid:DXImageTransform.Microsoft.gradient(startColorstr='#00000000', endColorstr='#80000000', GradientType=1);background-repeat:repeat-x}.carousel-control:hover,.carousel-control:focus{color:#fff;text-decoration:none;filter:alpha(opacity=90);outline:0;opacity:.9}.carousel-control .icon-prev,.carousel-control .icon-next,.carousel-control .glyphicon-chevron-left,.carousel-control .glyphicon-chevron-right{position:absolute;top:50%;z-index:5;display:inline-block}.carousel-control .icon-prev,.carousel-control .glyphicon-chevron-left{left:50%;margin-left:-10px}.carousel-control .icon-next,.carousel-control .glyphicon-chevron-right{right:50%;margin-right:-10px}.carousel-control .icon-prev,.carousel-control .icon-next{width:20px;height:20px;margin-top:-10px;font-family:serif}.carousel-control .icon-prev:before{content:'\2039'}.carousel-control .icon-next:before{content:'\203a'}.carousel-indicators{position:absolute;bottom:10px;left:50%;z-index:15;width:60%;padding-left:0;margin-left:-30%;text-align:center;list-style:none}.carousel-indicators li{display:inline-block;width:10px;height:10px;margin:1px;text-indent:-999px;cursor:pointer;background-color:#000 \9;background-color:rgba(0,0,0,0);border:1px solid #fff;border-radius:10px}.carousel-indicators .active{width:12px;height:12px;margin:0;background-color:#fff}.carousel-caption{position:absolute;right:15%;bottom:20px;left:15%;z-index:10;padding-top:20px;padding-bottom:20px;color:#fff;text-align:center;text-shadow:0 1px 2px rgba(0,0,0,.6)}.carousel-caption .btn{text-shadow:none}@media screen and (min-width:768px){.carousel-control .glyphicon-chevron-left,.carousel-control .glyphicon-chevron-right,.carousel-control .icon-prev,.carousel-control .icon-next{width:30px;height:30px;margin-top:-15px;font-size:30px}.carousel-control .glyphicon-chevron-left,.carousel-control .icon-prev{margin-left:-15px}.carousel-control .glyphicon-chevron-right,.carousel-control .icon-next{margin-right:-15px}.carousel-caption{right:20%;left:20%;padding-bottom:30px}.carousel-indicators{bottom:20px}}.clearfix:before,.clearfix:after,.dl-horizontal dd:before,.dl-horizontal dd:after,.container:before,.container:after,.container-fluid:before,.container-fluid:after,.row:before,.row:after,.form-horizontal .form-group:before,.form-horizontal .form-group:after,.btn-toolbar:before,.btn-toolbar:after,.btn-group-vertical>.btn-group:before,.btn-group-vertical>.btn-group:after,.nav:before,.nav:after,.navbar:before,.navbar:after,.navbar-header:before,.navbar-header:after,.navbar-collapse:before,.navbar-collapse:after,.pager:before,.pager:after,.panel-body:before,.panel-body:after,.modal-footer:before,.modal-footer:after{display:table;content:" "}.clearfix:after,.dl-horizontal dd:after,.container:after,.container-fluid:after,.row:after,.form-horizontal .form-group:after,.btn-toolbar:after,.btn-group-vertical>.btn-group:after,.nav:after,.navbar:after,.navbar-header:after,.navbar-collapse:after,.pager:after,.panel-body:after,.modal-footer:after{clear:both}.center-block{display:block;margin-right:auto;margin-left:auto}.pull-right{float:right!important}.pull-left{float:left!important}.hide{display:none!important}.show{display:block!important}.invisible{visibility:hidden}.text-hide{font:0/0 a;color:transparent;text-shadow:none;background-color:transparent;border:0}.hidden{display:none!important;visibility:hidden!important}.affix{position:fixed}@-ms-viewport{width:device-width}.visible-xs,.visible-sm,.visible-md,.visible-lg{display:none!important}.visible-xs-block,.visible-xs-inline,.visible-xs-inline-block,.visible-sm-block,.visible-sm-inline,.visible-sm-inline-block,.visible-md-block,.visible-md-inline,.visible-md-inline-block,.visible-lg-block,.visible-lg-inline,.visible-lg-inline-block{display:none!important}@media (max-width:767px){.visible-xs{display:block!important}table.visible-xs{display:table}tr.visible-xs{display:table-row!important}th.visible-xs,td.visible-xs{display:table-cell!important}}@media (max-width:767px){.visible-xs-block{display:block!important}}@media (max-width:767px){.visible-xs-inline{display:inline!important}}@media (max-width:767px){.visible-xs-inline-block{display:inline-block!important}}@media (min-width:768px) and (max-width:991px){.visible-sm{display:block!important}table.visible-sm{display:table}tr.visible-sm{display:table-row!important}th.visible-sm,td.visible-sm{display:table-cell!important}}@media (min-width:768px) and (max-width:991px){.visible-sm-block{display:block!important}}@media (min-width:768px) and (max-width:991px){.visible-sm-inline{display:inline!important}}@media (min-width:768px) and (max-width:991px){.visible-sm-inline-block{display:inline-block!important}}@media (min-width:992px) and (max-width:1199px){.visible-md{display:block!important}table.visible-md{display:table}tr.visible-md{display:table-row!important}th.visible-md,td.visible-md{display:table-cell!important}}@media (min-width:992px) and (max-width:1199px){.visible-md-block{display:block!important}}@media (min-width:992px) and (max-width:1199px){.visible-md-inline{display:inline!important}}@media (min-width:992px) and (max-width:1199px){.visible-md-inline-block{display:inline-block!important}}@media (min-width:1200px){.visible-lg{display:block!important}table.visible-lg{display:table}tr.visible-lg{display:table-row!important}th.visible-lg,td.visible-lg{display:table-cell!important}}@media (min-width:1200px){.visible-lg-block{display:block!important}}@media (min-width:1200px){.visible-lg-inline{display:inline!important}}@media (min-width:1200px){.visible-lg-inline-block{display:inline-block!important}}@media (max-width:767px){.hidden-xs{display:none!important}}@media (min-width:768px) and (max-width:991px){.hidden-sm{display:none!important}}@media (min-width:992px) and (max-width:1199px){.hidden-md{display:none!important}}@media (min-width:1200px){.hidden-lg{display:none!important}}.visible-print{display:none!important}@media print{.visible-print{display:block!important}table.visible-print{display:table}tr.visible-print{display:table-row!important}th.visible-print,td.visible-print{display:table-cell!important}}.visible-print-block{display:none!important}@media print{.visible-print-block{display:block!important}}.visible-print-inline{display:none!important}@media print{.visible-print-inline{display:inline!important}}.visible-print-inline-block{display:none!important}@media print{.visible-print-inline-block{display:inline-block!important}}@media print{.hidden-print{display:none!important}}</style>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
15 <style>/* bootstrap custom style stuff - taken from demo template. */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
16 /*
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
17 * Base structure
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
18 */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
19
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
20 /* Move down content because we have a fixed navbar that is 50px tall */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
21 body {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
22 padding-top: 50px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
23 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
24
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
25
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
26 /*
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
27 * Global add-ons
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
28 */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
29
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
30 .sub-header {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
31 padding-bottom: 10px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
32 border-bottom: 1px solid #eee;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
33 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
34
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
35 /*
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
36 * Top navigation
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
37 * Hide default border to remove 1px line.
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
38 */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
39 .navbar-fixed-top {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
40 border: 0;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
41 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
42
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
43 /*
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
44 * Sidebar
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
45 */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
46
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
47 /* Hide for mobile, show later */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
48 .sidebar {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
49 display: none;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
50 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
51 @media (min-width: 768px) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
52 .sidebar {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
53 position: fixed;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
54 top: 51px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
55 bottom: 0;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
56 left: 0;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
57 z-index: 1000;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
58 display: block;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
59 padding: 20px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
60 overflow-x: hidden;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
61 overflow-y: auto; /* Scrollable contents if viewport is shorter than content. */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
62 background-color: #f5f5f5;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
63 border-right: 1px solid #eee;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
64 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
65 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
66
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
67 /* Sidebar navigation */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
68 .nav-sidebar {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
69 margin-right: -21px; /* 20px padding + 1px border */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
70 margin-bottom: 20px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
71 margin-left: -20px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
72 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
73 .nav-sidebar > li > a {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
74 padding-right: 20px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
75 padding-left: 20px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
76 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
77 .nav-sidebar > .active > a,
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
78 .nav-sidebar > .active > a:hover,
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
79 .nav-sidebar > .active > a:focus {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
80 color: #fff;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
81 background-color: #428bca;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
82 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
83
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
84
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
85 /*
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
86 * Main content
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
87 */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
88
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
89 .main {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
90 padding: 20px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
91 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
92 @media (min-width: 768px) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
93 .main {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
94 padding-right: 40px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
95 padding-left: 40px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
96 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
97 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
98 .main .page-header {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
99 margin-top: 0;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
100 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
101
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
102
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
103 /*
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
104 * Placeholder dashboard ideas
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
105 */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
106
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
107 .placeholders {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
108 margin-bottom: 30px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
109 text-align: center;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
110 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
111 .placeholders h4 {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
112 margin-bottom: 0;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
113 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
114 .placeholder {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
115 margin-bottom: 20px;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
116 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
117 .placeholder img {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
118 display: inline-block;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
119 border-radius: 50%;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
120 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
121
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
122 .text-success-custom{
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
123 color: rgba(6, 108, 8, 1);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
124 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
125 .text-danger-custom{
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
126 font-weight: bold;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
127 color: rgba(213, 24, 20, 1);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
128 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
129 .panel-danger-custom .panel-title{
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
130 font-weight: bold;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
131 color: rgba(213, 24, 20, 1);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
132 }t status
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
133
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
134 .panel-success-custom .panel-title{
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
135 color: rgba(6, 108, 8, 1);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
136 }t status
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
137 </style>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
138
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
139 <!-- HTML5 shim and Respond.js for IE8 support of HTML5 elements and media queries -->
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
140 <!-- WARNING: Respond.js doesn't work if you view the page via file:// -->
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
141 <!--[if lt IE 9]>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
142 <script src="https://oss.maxcdn.com/html5shiv/3.7.2/html5shiv.min.js"></script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
143 <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
144 <![endif]-->
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
145
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
146 </head>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
147 <body>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
148
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
149 <nav class="navbar navbar-inverse navbar-fixed-top" role="navigation">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
150 <div class="container-fluid">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
151 <div class="navbar-header">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
152
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
153 <button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false" aria-controls="navbar">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
154 <span class="sr-only">Toggle navigation</span>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
155 <span class="icon-bar"></span>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
156 <span class="icon-bar"></span>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
157 <span class="icon-bar"></span>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
158 </button>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
159 <a class="navbar-brand" href="#">Tool Test Results (powered by Planemo)</a>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
160 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
161 <div id="navbar" class="navbar-collapse collapse">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
162 <ul class="nav navbar-nav navbar-right">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
163 <li><a href="https://galaxyproject.org">Galaxy</a></li>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
164 <li><a href="https://planemo.readthedocs.org">Planemo</a></li>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
165 </ul>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
166 <div class="navbar-form navbar-right">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
167 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
168 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
169 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
170 </nav>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
171
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
172 <div class="container-fluid">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
173 <div class="row">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
174 <div class="col-sm-3 col-md-2 sidebar">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
175 <ul class="nav nav-sidebar">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
176 <li><a href="#overview" class="text-success"><strong>Overview</strong></a></li>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
177 </ul>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
178 <ul class="nav nav-sidebar" id="nav-sidebar-tests">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
179 </ul>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
180 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
181 <div class="col-sm-9 col-sm-offset-3 col-md-10 col-md-offset-2 main">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
182 <!-- <h1 class="page-header">Tests</h1> -->
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
183 <h2 id="overview">Overview</h2>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
184 <div id="overview-content"></div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
185 <div class="progress">
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
186 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
187 <h2 id="tests">Tests</h2>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
188 <p>The remainder of this contains a description for each test executed to run these jobs.</p>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
189 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
190 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
191 </div>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
192
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
193 <script>/*! jQuery v2.1.1 | (c) 2005, 2014 jQuery Foundation, Inc. | jquery.org/license */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
194 !function(a,b){"object"==typeof module&&"object"==typeof module.exports?module.exports=a.document?b(a,!0):function(a){if(!a.document)throw new Error("jQuery requires a window with a document");return b(a)}:b(a)}("undefined"!=typeof window?window:this,function(a,b){var c=[],d=c.slice,e=c.concat,f=c.push,g=c.indexOf,h={},i=h.toString,j=h.hasOwnProperty,k={},l=a.document,m="2.1.1",n=function(a,b){return new n.fn.init(a,b)},o=/^[\s\uFEFF\xA0]+|[\s\uFEFF\xA0]+$/g,p=/^-ms-/,q=/-([\da-z])/gi,r=function(a,b){return b.toUpperCase()};n.fn=n.prototype={jquery:m,constructor:n,selector:"",length:0,toArray:function(){return d.call(this)},get:function(a){return null!=a?0>a?this[a+this.length]:this[a]:d.call(this)},pushStack:function(a){var b=n.merge(this.constructor(),a);return b.prevObject=this,b.context=this.context,b},each:function(a,b){return n.each(this,a,b)},map:function(a){return this.pushStack(n.map(this,function(b,c){return a.call(b,c,b)}))},slice:function(){return this.pushStack(d.apply(this,arguments))},first:function(){return this.eq(0)},last:function(){return this.eq(-1)},eq:function(a){var b=this.length,c=+a+(0>a?b:0);return this.pushStack(c>=0&&b>c?[this[c]]:[])},end:function(){return this.prevObject||this.constructor(null)},push:f,sort:c.sort,splice:c.splice},n.extend=n.fn.extend=function(){var a,b,c,d,e,f,g=arguments[0]||{},h=1,i=arguments.length,j=!1;for("boolean"==typeof g&&(j=g,g=arguments[h]||{},h++),"object"==typeof g||n.isFunction(g)||(g={}),h===i&&(g=this,h--);i>h;h++)if(null!=(a=arguments[h]))for(b in a)c=g[b],d=a[b],g!==d&&(j&&d&&(n.isPlainObject(d)||(e=n.isArray(d)))?(e?(e=!1,f=c&&n.isArray(c)?c:[]):f=c&&n.isPlainObject(c)?c:{},g[b]=n.extend(j,f,d)):void 0!==d&&(g[b]=d));return g},n.extend({expando:"jQuery"+(m+Math.random()).replace(/\D/g,""),isReady:!0,error:function(a){throw new Error(a)},noop:function(){},isFunction:function(a){return"function"===n.type(a)},isArray:Array.isArray,isWindow:function(a){return null!=a&&a===a.window},isNumeric:function(a){return!n.isArray(a)&&a-parseFloat(a)>=0},isPlainObject:function(a){return"object"!==n.type(a)||a.nodeType||n.isWindow(a)?!1:a.constructor&&!j.call(a.constructor.prototype,"isPrototypeOf")?!1:!0},isEmptyObject:function(a){var b;for(b in a)return!1;return!0},type:function(a){return null==a?a+"":"object"==typeof a||"function"==typeof a?h[i.call(a)]||"object":typeof a},globalEval:function(a){var b,c=eval;a=n.trim(a),a&&(1===a.indexOf("use strict")?(b=l.createElement("script"),b.text=a,l.head.appendChild(b).parentNode.removeChild(b)):c(a))},camelCase:function(a){return a.replace(p,"ms-").replace(q,r)},nodeName:function(a,b){return a.nodeName&&a.nodeName.toLowerCase()===b.toLowerCase()},each:function(a,b,c){var d,e=0,f=a.length,g=s(a);if(c){if(g){for(;f>e;e++)if(d=b.apply(a[e],c),d===!1)break}else for(e in a)if(d=b.apply(a[e],c),d===!1)break}else if(g){for(;f>e;e++)if(d=b.call(a[e],e,a[e]),d===!1)break}else for(e in a)if(d=b.call(a[e],e,a[e]),d===!1)break;return a},trim:function(a){return null==a?"":(a+"").replace(o,"")},makeArray:function(a,b){var c=b||[];return null!=a&&(s(Object(a))?n.merge(c,"string"==typeof a?[a]:a):f.call(c,a)),c},inArray:function(a,b,c){return null==b?-1:g.call(b,a,c)},merge:function(a,b){for(var c=+b.length,d=0,e=a.length;c>d;d++)a[e++]=b[d];return a.length=e,a},grep:function(a,b,c){for(var d,e=[],f=0,g=a.length,h=!c;g>f;f++)d=!b(a[f],f),d!==h&&e.push(a[f]);return e},map:function(a,b,c){var d,f=0,g=a.length,h=s(a),i=[];if(h)for(;g>f;f++)d=b(a[f],f,c),null!=d&&i.push(d);else for(f in a)d=b(a[f],f,c),null!=d&&i.push(d);return e.apply([],i)},guid:1,proxy:function(a,b){var c,e,f;return"string"==typeof b&&(c=a[b],b=a,a=c),n.isFunction(a)?(e=d.call(arguments,2),f=function(){return a.apply(b||this,e.concat(d.call(arguments)))},f.guid=a.guid=a.guid||n.guid++,f):void 0},now:Date.now,support:k}),n.each("Boolean Number String Function Array Date RegExp Object Error".split(" "),function(a,b){h["[object "+b+"]"]=b.toLowerCase()});function s(a){var b=a.length,c=n.type(a);return"function"===c||n.isWindow(a)?!1:1===a.nodeType&&b?!0:"array"===c||0===b||"number"==typeof b&&b>0&&b-1 in a}var t=function(a){var b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u="sizzle"+-new Date,v=a.document,w=0,x=0,y=gb(),z=gb(),A=gb(),B=function(a,b){return a===b&&(l=!0),0},C="undefined",D=1<<31,E={}.hasOwnProperty,F=[],G=F.pop,H=F.push,I=F.push,J=F.slice,K=F.indexOf||function(a){for(var b=0,c=this.length;c>b;b++)if(this[b]===a)return b;return-1},L="checked|selected|async|autofocus|autoplay|controls|defer|disabled|hidden|ismap|loop|multiple|open|readonly|required|scoped",M="[\\x20\\t\\r\\n\\f]",N="(?:\\\\.|[\\w-]|[^\\x00-\\xa0])+",O=N.replace("w","w#"),P="\\["+M+"*("+N+")(?:"+M+"*([*^$|!~]?=)"+M+"*(?:'((?:\\\\.|[^\\\\'])*)'|\"((?:\\\\.|[^\\\\\"])*)\"|("+O+"))|)"+M+"*\\]",Q=":("+N+")(?:\\((('((?:\\\\.|[^\\\\'])*)'|\"((?:\\\\.|[^\\\\\"])*)\")|((?:\\\\.|[^\\\\()[\\]]|"+P+")*)|.*)\\)|)",R=new RegExp("^"+M+"+|((?:^|[^\\\\])(?:\\\\.)*)"+M+"+$","g"),S=new RegExp("^"+M+"*,"+M+"*"),T=new RegExp("^"+M+"*([>+~]|"+M+")"+M+"*"),U=new RegExp("="+M+"*([^\\]'\"]*?)"+M+"*\\]","g"),V=new RegExp(Q),W=new RegExp("^"+O+"$"),X={ID:new RegExp("^#("+N+")"),CLASS:new RegExp("^\\.("+N+")"),TAG:new RegExp("^("+N.replace("w","w*")+")"),ATTR:new RegExp("^"+P),PSEUDO:new RegExp("^"+Q),CHILD:new RegExp("^:(only|first|last|nth|nth-last)-(child|of-type)(?:\\("+M+"*(even|odd|(([+-]|)(\\d*)n|)"+M+"*(?:([+-]|)"+M+"*(\\d+)|))"+M+"*\\)|)","i"),bool:new RegExp("^(?:"+L+")$","i"),needsContext:new RegExp("^"+M+"*[>+~]|:(even|odd|eq|gt|lt|nth|first|last)(?:\\("+M+"*((?:-\\d)?\\d*)"+M+"*\\)|)(?=[^-]|$)","i")},Y=/^(?:input|select|textarea|button)$/i,Z=/^h\d$/i,$=/^[^{]+\{\s*\[native \w/,_=/^(?:#([\w-]+)|(\w+)|\.([\w-]+))$/,ab=/[+~]/,bb=/'|\\/g,cb=new RegExp("\\\\([\\da-f]{1,6}"+M+"?|("+M+")|.)","ig"),db=function(a,b,c){var d="0x"+b-65536;return d!==d||c?b:0>d?String.fromCharCode(d+65536):String.fromCharCode(d>>10|55296,1023&d|56320)};try{I.apply(F=J.call(v.childNodes),v.childNodes),F[v.childNodes.length].nodeType}catch(eb){I={apply:F.length?function(a,b){H.apply(a,J.call(b))}:function(a,b){var c=a.length,d=0;while(a[c++]=b[d++]);a.length=c-1}}}function fb(a,b,d,e){var f,h,j,k,l,o,r,s,w,x;if((b?b.ownerDocument||b:v)!==n&&m(b),b=b||n,d=d||[],!a||"string"!=typeof a)return d;if(1!==(k=b.nodeType)&&9!==k)return[];if(p&&!e){if(f=_.exec(a))if(j=f[1]){if(9===k){if(h=b.getElementById(j),!h||!h.parentNode)return d;if(h.id===j)return d.push(h),d}else if(b.ownerDocument&&(h=b.ownerDocument.getElementById(j))&&t(b,h)&&h.id===j)return d.push(h),d}else{if(f[2])return I.apply(d,b.getElementsByTagName(a)),d;if((j=f[3])&&c.getElementsByClassName&&b.getElementsByClassName)return I.apply(d,b.getElementsByClassName(j)),d}if(c.qsa&&(!q||!q.test(a))){if(s=r=u,w=b,x=9===k&&a,1===k&&"object"!==b.nodeName.toLowerCase()){o=g(a),(r=b.getAttribute("id"))?s=r.replace(bb,"\\$&"):b.setAttribute("id",s),s="[id='"+s+"'] ",l=o.length;while(l--)o[l]=s+qb(o[l]);w=ab.test(a)&&ob(b.parentNode)||b,x=o.join(",")}if(x)try{return I.apply(d,w.querySelectorAll(x)),d}catch(y){}finally{r||b.removeAttribute("id")}}}return i(a.replace(R,"$1"),b,d,e)}function gb(){var a=[];function b(c,e){return a.push(c+" ")>d.cacheLength&&delete b[a.shift()],b[c+" "]=e}return b}function hb(a){return a[u]=!0,a}function ib(a){var b=n.createElement("div");try{return!!a(b)}catch(c){return!1}finally{b.parentNode&&b.parentNode.removeChild(b),b=null}}function jb(a,b){var c=a.split("|"),e=a.length;while(e--)d.attrHandle[c[e]]=b}function kb(a,b){var c=b&&a,d=c&&1===a.nodeType&&1===b.nodeType&&(~b.sourceIndex||D)-(~a.sourceIndex||D);if(d)return d;if(c)while(c=c.nextSibling)if(c===b)return-1;return a?1:-1}function lb(a){return function(b){var c=b.nodeName.toLowerCase();return"input"===c&&b.type===a}}function mb(a){return function(b){var c=b.nodeName.toLowerCase();return("input"===c||"button"===c)&&b.type===a}}function nb(a){return hb(function(b){return b=+b,hb(function(c,d){var e,f=a([],c.length,b),g=f.length;while(g--)c[e=f[g]]&&(c[e]=!(d[e]=c[e]))})})}function ob(a){return a&&typeof a.getElementsByTagName!==C&&a}c=fb.support={},f=fb.isXML=function(a){var b=a&&(a.ownerDocument||a).documentElement;return b?"HTML"!==b.nodeName:!1},m=fb.setDocument=function(a){var b,e=a?a.ownerDocument||a:v,g=e.defaultView;return e!==n&&9===e.nodeType&&e.documentElement?(n=e,o=e.documentElement,p=!f(e),g&&g!==g.top&&(g.addEventListener?g.addEventListener("unload",function(){m()},!1):g.attachEvent&&g.attachEvent("onunload",function(){m()})),c.attributes=ib(function(a){return a.className="i",!a.getAttribute("className")}),c.getElementsByTagName=ib(function(a){return a.appendChild(e.createComment("")),!a.getElementsByTagName("*").length}),c.getElementsByClassName=$.test(e.getElementsByClassName)&&ib(function(a){return a.innerHTML="<div class='a'></div><div class='a i'></div>",a.firstChild.className="i",2===a.getElementsByClassName("i").length}),c.getById=ib(function(a){return o.appendChild(a).id=u,!e.getElementsByName||!e.getElementsByName(u).length}),c.getById?(d.find.ID=function(a,b){if(typeof b.getElementById!==C&&p){var c=b.getElementById(a);return c&&c.parentNode?[c]:[]}},d.filter.ID=function(a){var b=a.replace(cb,db);return function(a){return a.getAttribute("id")===b}}):(delete d.find.ID,d.filter.ID=function(a){var b=a.replace(cb,db);return function(a){var c=typeof a.getAttributeNode!==C&&a.getAttributeNode("id");return c&&c.value===b}}),d.find.TAG=c.getElementsByTagName?function(a,b){return typeof b.getElementsByTagName!==C?b.getElementsByTagName(a):void 0}:function(a,b){var c,d=[],e=0,f=b.getElementsByTagName(a);if("*"===a){while(c=f[e++])1===c.nodeType&&d.push(c);return d}return f},d.find.CLASS=c.getElementsByClassName&&function(a,b){return typeof b.getElementsByClassName!==C&&p?b.getElementsByClassName(a):void 0},r=[],q=[],(c.qsa=$.test(e.querySelectorAll))&&(ib(function(a){a.innerHTML="<select msallowclip=''><option selected=''></option></select>",a.querySelectorAll("[msallowclip^='']").length&&q.push("[*^$]="+M+"*(?:''|\"\")"),a.querySelectorAll("[selected]").length||q.push("\\["+M+"*(?:value|"+L+")"),a.querySelectorAll(":checked").length||q.push(":checked")}),ib(function(a){var b=e.createElement("input");b.setAttribute("type","hidden"),a.appendChild(b).setAttribute("name","D"),a.querySelectorAll("[name=d]").length&&q.push("name"+M+"*[*^$|!~]?="),a.querySelectorAll(":enabled").length||q.push(":enabled",":disabled"),a.querySelectorAll("*,:x"),q.push(",.*:")})),(c.matchesSelector=$.test(s=o.matches||o.webkitMatchesSelector||o.mozMatchesSelector||o.oMatchesSelector||o.msMatchesSelector))&&ib(function(a){c.disconnectedMatch=s.call(a,"div"),s.call(a,"[s!='']:x"),r.push("!=",Q)}),q=q.length&&new RegExp(q.join("|")),r=r.length&&new RegExp(r.join("|")),b=$.test(o.compareDocumentPosition),t=b||$.test(o.contains)?function(a,b){var c=9===a.nodeType?a.documentElement:a,d=b&&b.parentNode;return a===d||!(!d||1!==d.nodeType||!(c.contains?c.contains(d):a.compareDocumentPosition&&16&a.compareDocumentPosition(d)))}:function(a,b){if(b)while(b=b.parentNode)if(b===a)return!0;return!1},B=b?function(a,b){if(a===b)return l=!0,0;var d=!a.compareDocumentPosition-!b.compareDocumentPosition;return d?d:(d=(a.ownerDocument||a)===(b.ownerDocument||b)?a.compareDocumentPosition(b):1,1&d||!c.sortDetached&&b.compareDocumentPosition(a)===d?a===e||a.ownerDocument===v&&t(v,a)?-1:b===e||b.ownerDocument===v&&t(v,b)?1:k?K.call(k,a)-K.call(k,b):0:4&d?-1:1)}:function(a,b){if(a===b)return l=!0,0;var c,d=0,f=a.parentNode,g=b.parentNode,h=[a],i=[b];if(!f||!g)return a===e?-1:b===e?1:f?-1:g?1:k?K.call(k,a)-K.call(k,b):0;if(f===g)return kb(a,b);c=a;while(c=c.parentNode)h.unshift(c);c=b;while(c=c.parentNode)i.unshift(c);while(h[d]===i[d])d++;return d?kb(h[d],i[d]):h[d]===v?-1:i[d]===v?1:0},e):n},fb.matches=function(a,b){return fb(a,null,null,b)},fb.matchesSelector=function(a,b){if((a.ownerDocument||a)!==n&&m(a),b=b.replace(U,"='$1']"),!(!c.matchesSelector||!p||r&&r.test(b)||q&&q.test(b)))try{var d=s.call(a,b);if(d||c.disconnectedMatch||a.document&&11!==a.document.nodeType)return d}catch(e){}return fb(b,n,null,[a]).length>0},fb.contains=function(a,b){return(a.ownerDocument||a)!==n&&m(a),t(a,b)},fb.attr=function(a,b){(a.ownerDocument||a)!==n&&m(a);var e=d.attrHandle[b.toLowerCase()],f=e&&E.call(d.attrHandle,b.toLowerCase())?e(a,b,!p):void 0;return void 0!==f?f:c.attributes||!p?a.getAttribute(b):(f=a.getAttributeNode(b))&&f.specified?f.value:null},fb.error=function(a){throw new Error("Syntax error, unrecognized expression: "+a)},fb.uniqueSort=function(a){var b,d=[],e=0,f=0;if(l=!c.detectDuplicates,k=!c.sortStable&&a.slice(0),a.sort(B),l){while(b=a[f++])b===a[f]&&(e=d.push(f));while(e--)a.splice(d[e],1)}return k=null,a},e=fb.getText=function(a){var b,c="",d=0,f=a.nodeType;if(f){if(1===f||9===f||11===f){if("string"==typeof a.textContent)return a.textContent;for(a=a.firstChild;a;a=a.nextSibling)c+=e(a)}else if(3===f||4===f)return a.nodeValue}else while(b=a[d++])c+=e(b);return c},d=fb.selectors={cacheLength:50,createPseudo:hb,match:X,attrHandle:{},find:{},relative:{">":{dir:"parentNode",first:!0}," ":{dir:"parentNode"},"+":{dir:"previousSibling",first:!0},"~":{dir:"previousSibling"}},preFilter:{ATTR:function(a){return a[1]=a[1].replace(cb,db),a[3]=(a[3]||a[4]||a[5]||"").replace(cb,db),"~="===a[2]&&(a[3]=" "+a[3]+" "),a.slice(0,4)},CHILD:function(a){return a[1]=a[1].toLowerCase(),"nth"===a[1].slice(0,3)?(a[3]||fb.error(a[0]),a[4]=+(a[4]?a[5]+(a[6]||1):2*("even"===a[3]||"odd"===a[3])),a[5]=+(a[7]+a[8]||"odd"===a[3])):a[3]&&fb.error(a[0]),a},PSEUDO:function(a){var b,c=!a[6]&&a[2];return X.CHILD.test(a[0])?null:(a[3]?a[2]=a[4]||a[5]||"":c&&V.test(c)&&(b=g(c,!0))&&(b=c.indexOf(")",c.length-b)-c.length)&&(a[0]=a[0].slice(0,b),a[2]=c.slice(0,b)),a.slice(0,3))}},filter:{TAG:function(a){var b=a.replace(cb,db).toLowerCase();return"*"===a?function(){return!0}:function(a){return a.nodeName&&a.nodeName.toLowerCase()===b}},CLASS:function(a){var b=y[a+" "];return b||(b=new RegExp("(^|"+M+")"+a+"("+M+"|$)"))&&y(a,function(a){return b.test("string"==typeof a.className&&a.className||typeof a.getAttribute!==C&&a.getAttribute("class")||"")})},ATTR:function(a,b,c){return function(d){var e=fb.attr(d,a);return null==e?"!="===b:b?(e+="","="===b?e===c:"!="===b?e!==c:"^="===b?c&&0===e.indexOf(c):"*="===b?c&&e.indexOf(c)>-1:"$="===b?c&&e.slice(-c.length)===c:"~="===b?(" "+e+" ").indexOf(c)>-1:"|="===b?e===c||e.slice(0,c.length+1)===c+"-":!1):!0}},CHILD:function(a,b,c,d,e){var f="nth"!==a.slice(0,3),g="last"!==a.slice(-4),h="of-type"===b;return 1===d&&0===e?function(a){return!!a.parentNode}:function(b,c,i){var j,k,l,m,n,o,p=f!==g?"nextSibling":"previousSibling",q=b.parentNode,r=h&&b.nodeName.toLowerCase(),s=!i&&!h;if(q){if(f){while(p){l=b;while(l=l[p])if(h?l.nodeName.toLowerCase()===r:1===l.nodeType)return!1;o=p="only"===a&&!o&&"nextSibling"}return!0}if(o=[g?q.firstChild:q.lastChild],g&&s){k=q[u]||(q[u]={}),j=k[a]||[],n=j[0]===w&&j[1],m=j[0]===w&&j[2],l=n&&q.childNodes[n];while(l=++n&&l&&l[p]||(m=n=0)||o.pop())if(1===l.nodeType&&++m&&l===b){k[a]=[w,n,m];break}}else if(s&&(j=(b[u]||(b[u]={}))[a])&&j[0]===w)m=j[1];else while(l=++n&&l&&l[p]||(m=n=0)||o.pop())if((h?l.nodeName.toLowerCase()===r:1===l.nodeType)&&++m&&(s&&((l[u]||(l[u]={}))[a]=[w,m]),l===b))break;return m-=e,m===d||m%d===0&&m/d>=0}}},PSEUDO:function(a,b){var c,e=d.pseudos[a]||d.setFilters[a.toLowerCase()]||fb.error("unsupported pseudo: "+a);return e[u]?e(b):e.length>1?(c=[a,a,"",b],d.setFilters.hasOwnProperty(a.toLowerCase())?hb(function(a,c){var d,f=e(a,b),g=f.length;while(g--)d=K.call(a,f[g]),a[d]=!(c[d]=f[g])}):function(a){return e(a,0,c)}):e}},pseudos:{not:hb(function(a){var b=[],c=[],d=h(a.replace(R,"$1"));return d[u]?hb(function(a,b,c,e){var f,g=d(a,null,e,[]),h=a.length;while(h--)(f=g[h])&&(a[h]=!(b[h]=f))}):function(a,e,f){return b[0]=a,d(b,null,f,c),!c.pop()}}),has:hb(function(a){return function(b){return fb(a,b).length>0}}),contains:hb(function(a){return function(b){return(b.textContent||b.innerText||e(b)).indexOf(a)>-1}}),lang:hb(function(a){return W.test(a||"")||fb.error("unsupported lang: "+a),a=a.replace(cb,db).toLowerCase(),function(b){var c;do if(c=p?b.lang:b.getAttribute("xml:lang")||b.getAttribute("lang"))return c=c.toLowerCase(),c===a||0===c.indexOf(a+"-");while((b=b.parentNode)&&1===b.nodeType);return!1}}),target:function(b){var c=a.location&&a.location.hash;return c&&c.slice(1)===b.id},root:function(a){return a===o},focus:function(a){return a===n.activeElement&&(!n.hasFocus||n.hasFocus())&&!!(a.type||a.href||~a.tabIndex)},enabled:function(a){return a.disabled===!1},disabled:function(a){return a.disabled===!0},checked:function(a){var b=a.nodeName.toLowerCase();return"input"===b&&!!a.checked||"option"===b&&!!a.selected},selected:function(a){return a.parentNode&&a.parentNode.selectedIndex,a.selected===!0},empty:function(a){for(a=a.firstChild;a;a=a.nextSibling)if(a.nodeType<6)return!1;return!0},parent:function(a){return!d.pseudos.empty(a)},header:function(a){return Z.test(a.nodeName)},input:function(a){return Y.test(a.nodeName)},button:function(a){var b=a.nodeName.toLowerCase();return"input"===b&&"button"===a.type||"button"===b},text:function(a){var b;return"input"===a.nodeName.toLowerCase()&&"text"===a.type&&(null==(b=a.getAttribute("type"))||"text"===b.toLowerCase())},first:nb(function(){return[0]}),last:nb(function(a,b){return[b-1]}),eq:nb(function(a,b,c){return[0>c?c+b:c]}),even:nb(function(a,b){for(var c=0;b>c;c+=2)a.push(c);return a}),odd:nb(function(a,b){for(var c=1;b>c;c+=2)a.push(c);return a}),lt:nb(function(a,b,c){for(var d=0>c?c+b:c;--d>=0;)a.push(d);return a}),gt:nb(function(a,b,c){for(var d=0>c?c+b:c;++d<b;)a.push(d);return a})}},d.pseudos.nth=d.pseudos.eq;for(b in{radio:!0,checkbox:!0,file:!0,password:!0,image:!0})d.pseudos[b]=lb(b);for(b in{submit:!0,reset:!0})d.pseudos[b]=mb(b);function pb(){}pb.prototype=d.filters=d.pseudos,d.setFilters=new pb,g=fb.tokenize=function(a,b){var c,e,f,g,h,i,j,k=z[a+" "];if(k)return b?0:k.slice(0);h=a,i=[],j=d.preFilter;while(h){(!c||(e=S.exec(h)))&&(e&&(h=h.slice(e[0].length)||h),i.push(f=[])),c=!1,(e=T.exec(h))&&(c=e.shift(),f.push({value:c,type:e[0].replace(R," ")}),h=h.slice(c.length));for(g in d.filter)!(e=X[g].exec(h))||j[g]&&!(e=j[g](e))||(c=e.shift(),f.push({value:c,type:g,matches:e}),h=h.slice(c.length));if(!c)break}return b?h.length:h?fb.error(a):z(a,i).slice(0)};function qb(a){for(var b=0,c=a.length,d="";c>b;b++)d+=a[b].value;return d}function rb(a,b,c){var d=b.dir,e=c&&"parentNode"===d,f=x++;return b.first?function(b,c,f){while(b=b[d])if(1===b.nodeType||e)return a(b,c,f)}:function(b,c,g){var h,i,j=[w,f];if(g){while(b=b[d])if((1===b.nodeType||e)&&a(b,c,g))return!0}else while(b=b[d])if(1===b.nodeType||e){if(i=b[u]||(b[u]={}),(h=i[d])&&h[0]===w&&h[1]===f)return j[2]=h[2];if(i[d]=j,j[2]=a(b,c,g))return!0}}}function sb(a){return a.length>1?function(b,c,d){var e=a.length;while(e--)if(!a[e](b,c,d))return!1;return!0}:a[0]}function tb(a,b,c){for(var d=0,e=b.length;e>d;d++)fb(a,b[d],c);return c}function ub(a,b,c,d,e){for(var f,g=[],h=0,i=a.length,j=null!=b;i>h;h++)(f=a[h])&&(!c||c(f,d,e))&&(g.push(f),j&&b.push(h));return g}function vb(a,b,c,d,e,f){return d&&!d[u]&&(d=vb(d)),e&&!e[u]&&(e=vb(e,f)),hb(function(f,g,h,i){var j,k,l,m=[],n=[],o=g.length,p=f||tb(b||"*",h.nodeType?[h]:h,[]),q=!a||!f&&b?p:ub(p,m,a,h,i),r=c?e||(f?a:o||d)?[]:g:q;if(c&&c(q,r,h,i),d){j=ub(r,n),d(j,[],h,i),k=j.length;while(k--)(l=j[k])&&(r[n[k]]=!(q[n[k]]=l))}if(f){if(e||a){if(e){j=[],k=r.length;while(k--)(l=r[k])&&j.push(q[k]=l);e(null,r=[],j,i)}k=r.length;while(k--)(l=r[k])&&(j=e?K.call(f,l):m[k])>-1&&(f[j]=!(g[j]=l))}}else r=ub(r===g?r.splice(o,r.length):r),e?e(null,g,r,i):I.apply(g,r)})}function wb(a){for(var b,c,e,f=a.length,g=d.relative[a[0].type],h=g||d.relative[" "],i=g?1:0,k=rb(function(a){return a===b},h,!0),l=rb(function(a){return K.call(b,a)>-1},h,!0),m=[function(a,c,d){return!g&&(d||c!==j)||((b=c).nodeType?k(a,c,d):l(a,c,d))}];f>i;i++)if(c=d.relative[a[i].type])m=[rb(sb(m),c)];else{if(c=d.filter[a[i].type].apply(null,a[i].matches),c[u]){for(e=++i;f>e;e++)if(d.relative[a[e].type])break;return vb(i>1&&sb(m),i>1&&qb(a.slice(0,i-1).concat({value:" "===a[i-2].type?"*":""})).replace(R,"$1"),c,e>i&&wb(a.slice(i,e)),f>e&&wb(a=a.slice(e)),f>e&&qb(a))}m.push(c)}return sb(m)}function xb(a,b){var c=b.length>0,e=a.length>0,f=function(f,g,h,i,k){var l,m,o,p=0,q="0",r=f&&[],s=[],t=j,u=f||e&&d.find.TAG("*",k),v=w+=null==t?1:Math.random()||.1,x=u.length;for(k&&(j=g!==n&&g);q!==x&&null!=(l=u[q]);q++){if(e&&l){m=0;while(o=a[m++])if(o(l,g,h)){i.push(l);break}k&&(w=v)}c&&((l=!o&&l)&&p--,f&&r.push(l))}if(p+=q,c&&q!==p){m=0;while(o=b[m++])o(r,s,g,h);if(f){if(p>0)while(q--)r[q]||s[q]||(s[q]=G.call(i));s=ub(s)}I.apply(i,s),k&&!f&&s.length>0&&p+b.length>1&&fb.uniqueSort(i)}return k&&(w=v,j=t),r};return c?hb(f):f}return h=fb.compile=function(a,b){var c,d=[],e=[],f=A[a+" "];if(!f){b||(b=g(a)),c=b.length;while(c--)f=wb(b[c]),f[u]?d.push(f):e.push(f);f=A(a,xb(e,d)),f.selector=a}return f},i=fb.select=function(a,b,e,f){var i,j,k,l,m,n="function"==typeof a&&a,o=!f&&g(a=n.selector||a);if(e=e||[],1===o.length){if(j=o[0]=o[0].slice(0),j.length>2&&"ID"===(k=j[0]).type&&c.getById&&9===b.nodeType&&p&&d.relative[j[1].type]){if(b=(d.find.ID(k.matches[0].replace(cb,db),b)||[])[0],!b)return e;n&&(b=b.parentNode),a=a.slice(j.shift().value.length)}i=X.needsContext.test(a)?0:j.length;while(i--){if(k=j[i],d.relative[l=k.type])break;if((m=d.find[l])&&(f=m(k.matches[0].replace(cb,db),ab.test(j[0].type)&&ob(b.parentNode)||b))){if(j.splice(i,1),a=f.length&&qb(j),!a)return I.apply(e,f),e;break}}}return(n||h(a,o))(f,b,!p,e,ab.test(a)&&ob(b.parentNode)||b),e},c.sortStable=u.split("").sort(B).join("")===u,c.detectDuplicates=!!l,m(),c.sortDetached=ib(function(a){return 1&a.compareDocumentPosition(n.createElement("div"))}),ib(function(a){return a.innerHTML="<a href='#'></a>","#"===a.firstChild.getAttribute("href")})||jb("type|href|height|width",function(a,b,c){return c?void 0:a.getAttribute(b,"type"===b.toLowerCase()?1:2)}),c.attributes&&ib(function(a){return a.innerHTML="<input/>",a.firstChild.setAttribute("value",""),""===a.firstChild.getAttribute("value")})||jb("value",function(a,b,c){return c||"input"!==a.nodeName.toLowerCase()?void 0:a.defaultValue}),ib(function(a){return null==a.getAttribute("disabled")})||jb(L,function(a,b,c){var d;return c?void 0:a[b]===!0?b.toLowerCase():(d=a.getAttributeNode(b))&&d.specified?d.value:null}),fb}(a);n.find=t,n.expr=t.selectors,n.expr[":"]=n.expr.pseudos,n.unique=t.uniqueSort,n.text=t.getText,n.isXMLDoc=t.isXML,n.contains=t.contains;var u=n.expr.match.needsContext,v=/^<(\w+)\s*\/?>(?:<\/\1>|)$/,w=/^.[^:#\[\.,]*$/;function x(a,b,c){if(n.isFunction(b))return n.grep(a,function(a,d){return!!b.call(a,d,a)!==c});if(b.nodeType)return n.grep(a,function(a){return a===b!==c});if("string"==typeof b){if(w.test(b))return n.filter(b,a,c);b=n.filter(b,a)}return n.grep(a,function(a){return g.call(b,a)>=0!==c})}n.filter=function(a,b,c){var d=b[0];return c&&(a=":not("+a+")"),1===b.length&&1===d.nodeType?n.find.matchesSelector(d,a)?[d]:[]:n.find.matches(a,n.grep(b,function(a){return 1===a.nodeType}))},n.fn.extend({find:function(a){var b,c=this.length,d=[],e=this;if("string"!=typeof a)return this.pushStack(n(a).filter(function(){for(b=0;c>b;b++)if(n.contains(e[b],this))return!0}));for(b=0;c>b;b++)n.find(a,e[b],d);return d=this.pushStack(c>1?n.unique(d):d),d.selector=this.selector?this.selector+" "+a:a,d},filter:function(a){return this.pushStack(x(this,a||[],!1))},not:function(a){return this.pushStack(x(this,a||[],!0))},is:function(a){return!!x(this,"string"==typeof a&&u.test(a)?n(a):a||[],!1).length}});var y,z=/^(?:\s*(<[\w\W]+>)[^>]*|#([\w-]*))$/,A=n.fn.init=function(a,b){var c,d;if(!a)return this;if("string"==typeof a){if(c="<"===a[0]&&">"===a[a.length-1]&&a.length>=3?[null,a,null]:z.exec(a),!c||!c[1]&&b)return!b||b.jquery?(b||y).find(a):this.constructor(b).find(a);if(c[1]){if(b=b instanceof n?b[0]:b,n.merge(this,n.parseHTML(c[1],b&&b.nodeType?b.ownerDocument||b:l,!0)),v.test(c[1])&&n.isPlainObject(b))for(c in b)n.isFunction(this[c])?this[c](b[c]):this.attr(c,b[c]);return this}return d=l.getElementById(c[2]),d&&d.parentNode&&(this.length=1,this[0]=d),this.context=l,this.selector=a,this}return a.nodeType?(this.context=this[0]=a,this.length=1,this):n.isFunction(a)?"undefined"!=typeof y.ready?y.ready(a):a(n):(void 0!==a.selector&&(this.selector=a.selector,this.context=a.context),n.makeArray(a,this))};A.prototype=n.fn,y=n(l);var B=/^(?:parents|prev(?:Until|All))/,C={children:!0,contents:!0,next:!0,prev:!0};n.extend({dir:function(a,b,c){var d=[],e=void 0!==c;while((a=a[b])&&9!==a.nodeType)if(1===a.nodeType){if(e&&n(a).is(c))break;d.push(a)}return d},sibling:function(a,b){for(var c=[];a;a=a.nextSibling)1===a.nodeType&&a!==b&&c.push(a);return c}}),n.fn.extend({has:function(a){var b=n(a,this),c=b.length;return this.filter(function(){for(var a=0;c>a;a++)if(n.contains(this,b[a]))return!0})},closest:function(a,b){for(var c,d=0,e=this.length,f=[],g=u.test(a)||"string"!=typeof a?n(a,b||this.context):0;e>d;d++)for(c=this[d];c&&c!==b;c=c.parentNode)if(c.nodeType<11&&(g?g.index(c)>-1:1===c.nodeType&&n.find.matchesSelector(c,a))){f.push(c);break}return this.pushStack(f.length>1?n.unique(f):f)},index:function(a){return a?"string"==typeof a?g.call(n(a),this[0]):g.call(this,a.jquery?a[0]:a):this[0]&&this[0].parentNode?this.first().prevAll().length:-1},add:function(a,b){return this.pushStack(n.unique(n.merge(this.get(),n(a,b))))},addBack:function(a){return this.add(null==a?this.prevObject:this.prevObject.filter(a))}});function D(a,b){while((a=a[b])&&1!==a.nodeType);return a}n.each({parent:function(a){var b=a.parentNode;return b&&11!==b.nodeType?b:null},parents:function(a){return n.dir(a,"parentNode")},parentsUntil:function(a,b,c){return n.dir(a,"parentNode",c)},next:function(a){return D(a,"nextSibling")},prev:function(a){return D(a,"previousSibling")},nextAll:function(a){return n.dir(a,"nextSibling")},prevAll:function(a){return n.dir(a,"previousSibling")},nextUntil:function(a,b,c){return n.dir(a,"nextSibling",c)},prevUntil:function(a,b,c){return n.dir(a,"previousSibling",c)},siblings:function(a){return n.sibling((a.parentNode||{}).firstChild,a)},children:function(a){return n.sibling(a.firstChild)},contents:function(a){return a.contentDocument||n.merge([],a.childNodes)}},function(a,b){n.fn[a]=function(c,d){var e=n.map(this,b,c);return"Until"!==a.slice(-5)&&(d=c),d&&"string"==typeof d&&(e=n.filter(d,e)),this.length>1&&(C[a]||n.unique(e),B.test(a)&&e.reverse()),this.pushStack(e)}});var E=/\S+/g,F={};function G(a){var b=F[a]={};return n.each(a.match(E)||[],function(a,c){b[c]=!0}),b}n.Callbacks=function(a){a="string"==typeof a?F[a]||G(a):n.extend({},a);var b,c,d,e,f,g,h=[],i=!a.once&&[],j=function(l){for(b=a.memory&&l,c=!0,g=e||0,e=0,f=h.length,d=!0;h&&f>g;g++)if(h[g].apply(l[0],l[1])===!1&&a.stopOnFalse){b=!1;break}d=!1,h&&(i?i.length&&j(i.shift()):b?h=[]:k.disable())},k={add:function(){if(h){var c=h.length;!function g(b){n.each(b,function(b,c){var d=n.type(c);"function"===d?a.unique&&k.has(c)||h.push(c):c&&c.length&&"string"!==d&&g(c)})}(arguments),d?f=h.length:b&&(e=c,j(b))}return this},remove:function(){return h&&n.each(arguments,function(a,b){var c;while((c=n.inArray(b,h,c))>-1)h.splice(c,1),d&&(f>=c&&f--,g>=c&&g--)}),this},has:function(a){return a?n.inArray(a,h)>-1:!(!h||!h.length)},empty:function(){return h=[],f=0,this},disable:function(){return h=i=b=void 0,this},disabled:function(){return!h},lock:function(){return i=void 0,b||k.disable(),this},locked:function(){return!i},fireWith:function(a,b){return!h||c&&!i||(b=b||[],b=[a,b.slice?b.slice():b],d?i.push(b):j(b)),this},fire:function(){return k.fireWith(this,arguments),this},fired:function(){return!!c}};return k},n.extend({Deferred:function(a){var b=[["resolve","done",n.Callbacks("once memory"),"resolved"],["reject","fail",n.Callbacks("once memory"),"rejected"],["notify","progress",n.Callbacks("memory")]],c="pending",d={state:function(){return c},always:function(){return e.done(arguments).fail(arguments),this},then:function(){var a=arguments;return n.Deferred(function(c){n.each(b,function(b,f){var g=n.isFunction(a[b])&&a[b];e[f[1]](function(){var a=g&&g.apply(this,arguments);a&&n.isFunction(a.promise)?a.promise().done(c.resolve).fail(c.reject).progress(c.notify):c[f[0]+"With"](this===d?c.promise():this,g?[a]:arguments)})}),a=null}).promise()},promise:function(a){return null!=a?n.extend(a,d):d}},e={};return d.pipe=d.then,n.each(b,function(a,f){var g=f[2],h=f[3];d[f[1]]=g.add,h&&g.add(function(){c=h},b[1^a][2].disable,b[2][2].lock),e[f[0]]=function(){return e[f[0]+"With"](this===e?d:this,arguments),this},e[f[0]+"With"]=g.fireWith}),d.promise(e),a&&a.call(e,e),e},when:function(a){var b=0,c=d.call(arguments),e=c.length,f=1!==e||a&&n.isFunction(a.promise)?e:0,g=1===f?a:n.Deferred(),h=function(a,b,c){return function(e){b[a]=this,c[a]=arguments.length>1?d.call(arguments):e,c===i?g.notifyWith(b,c):--f||g.resolveWith(b,c)}},i,j,k;if(e>1)for(i=new Array(e),j=new Array(e),k=new Array(e);e>b;b++)c[b]&&n.isFunction(c[b].promise)?c[b].promise().done(h(b,k,c)).fail(g.reject).progress(h(b,j,i)):--f;return f||g.resolveWith(k,c),g.promise()}});var H;n.fn.ready=function(a){return n.ready.promise().done(a),this},n.extend({isReady:!1,readyWait:1,holdReady:function(a){a?n.readyWait++:n.ready(!0)},ready:function(a){(a===!0?--n.readyWait:n.isReady)||(n.isReady=!0,a!==!0&&--n.readyWait>0||(H.resolveWith(l,[n]),n.fn.triggerHandler&&(n(l).triggerHandler("ready"),n(l).off("ready"))))}});function I(){l.removeEventListener("DOMContentLoaded",I,!1),a.removeEventListener("load",I,!1),n.ready()}n.ready.promise=function(b){return H||(H=n.Deferred(),"complete"===l.readyState?setTimeout(n.ready):(l.addEventListener("DOMContentLoaded",I,!1),a.addEventListener("load",I,!1))),H.promise(b)},n.ready.promise();var J=n.access=function(a,b,c,d,e,f,g){var h=0,i=a.length,j=null==c;if("object"===n.type(c)){e=!0;for(h in c)n.access(a,b,h,c[h],!0,f,g)}else if(void 0!==d&&(e=!0,n.isFunction(d)||(g=!0),j&&(g?(b.call(a,d),b=null):(j=b,b=function(a,b,c){return j.call(n(a),c)})),b))for(;i>h;h++)b(a[h],c,g?d:d.call(a[h],h,b(a[h],c)));return e?a:j?b.call(a):i?b(a[0],c):f};n.acceptData=function(a){return 1===a.nodeType||9===a.nodeType||!+a.nodeType};function K(){Object.defineProperty(this.cache={},0,{get:function(){return{}}}),this.expando=n.expando+Math.random()}K.uid=1,K.accepts=n.acceptData,K.prototype={key:function(a){if(!K.accepts(a))return 0;var b={},c=a[this.expando];if(!c){c=K.uid++;try{b[this.expando]={value:c},Object.defineProperties(a,b)}catch(d){b[this.expando]=c,n.extend(a,b)}}return this.cache[c]||(this.cache[c]={}),c},set:function(a,b,c){var d,e=this.key(a),f=this.cache[e];if("string"==typeof b)f[b]=c;else if(n.isEmptyObject(f))n.extend(this.cache[e],b);else for(d in b)f[d]=b[d];return f},get:function(a,b){var c=this.cache[this.key(a)];return void 0===b?c:c[b]},access:function(a,b,c){var d;return void 0===b||b&&"string"==typeof b&&void 0===c?(d=this.get(a,b),void 0!==d?d:this.get(a,n.camelCase(b))):(this.set(a,b,c),void 0!==c?c:b)},remove:function(a,b){var c,d,e,f=this.key(a),g=this.cache[f];if(void 0===b)this.cache[f]={};else{n.isArray(b)?d=b.concat(b.map(n.camelCase)):(e=n.camelCase(b),b in g?d=[b,e]:(d=e,d=d in g?[d]:d.match(E)||[])),c=d.length;while(c--)delete g[d[c]]}},hasData:function(a){return!n.isEmptyObject(this.cache[a[this.expando]]||{})},discard:function(a){a[this.expando]&&delete this.cache[a[this.expando]]}};var L=new K,M=new K,N=/^(?:\{[\w\W]*\}|\[[\w\W]*\])$/,O=/([A-Z])/g;function P(a,b,c){var d;if(void 0===c&&1===a.nodeType)if(d="data-"+b.replace(O,"-$1").toLowerCase(),c=a.getAttribute(d),"string"==typeof c){try{c="true"===c?!0:"false"===c?!1:"null"===c?null:+c+""===c?+c:N.test(c)?n.parseJSON(c):c}catch(e){}M.set(a,b,c)}else c=void 0;return c}n.extend({hasData:function(a){return M.hasData(a)||L.hasData(a)},data:function(a,b,c){return M.access(a,b,c)},removeData:function(a,b){M.remove(a,b)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
195 },_data:function(a,b,c){return L.access(a,b,c)},_removeData:function(a,b){L.remove(a,b)}}),n.fn.extend({data:function(a,b){var c,d,e,f=this[0],g=f&&f.attributes;if(void 0===a){if(this.length&&(e=M.get(f),1===f.nodeType&&!L.get(f,"hasDataAttrs"))){c=g.length;while(c--)g[c]&&(d=g[c].name,0===d.indexOf("data-")&&(d=n.camelCase(d.slice(5)),P(f,d,e[d])));L.set(f,"hasDataAttrs",!0)}return e}return"object"==typeof a?this.each(function(){M.set(this,a)}):J(this,function(b){var c,d=n.camelCase(a);if(f&&void 0===b){if(c=M.get(f,a),void 0!==c)return c;if(c=M.get(f,d),void 0!==c)return c;if(c=P(f,d,void 0),void 0!==c)return c}else this.each(function(){var c=M.get(this,d);M.set(this,d,b),-1!==a.indexOf("-")&&void 0!==c&&M.set(this,a,b)})},null,b,arguments.length>1,null,!0)},removeData:function(a){return this.each(function(){M.remove(this,a)})}}),n.extend({queue:function(a,b,c){var d;return a?(b=(b||"fx")+"queue",d=L.get(a,b),c&&(!d||n.isArray(c)?d=L.access(a,b,n.makeArray(c)):d.push(c)),d||[]):void 0},dequeue:function(a,b){b=b||"fx";var c=n.queue(a,b),d=c.length,e=c.shift(),f=n._queueHooks(a,b),g=function(){n.dequeue(a,b)};"inprogress"===e&&(e=c.shift(),d--),e&&("fx"===b&&c.unshift("inprogress"),delete f.stop,e.call(a,g,f)),!d&&f&&f.empty.fire()},_queueHooks:function(a,b){var c=b+"queueHooks";return L.get(a,c)||L.access(a,c,{empty:n.Callbacks("once memory").add(function(){L.remove(a,[b+"queue",c])})})}}),n.fn.extend({queue:function(a,b){var c=2;return"string"!=typeof a&&(b=a,a="fx",c--),arguments.length<c?n.queue(this[0],a):void 0===b?this:this.each(function(){var c=n.queue(this,a,b);n._queueHooks(this,a),"fx"===a&&"inprogress"!==c[0]&&n.dequeue(this,a)})},dequeue:function(a){return this.each(function(){n.dequeue(this,a)})},clearQueue:function(a){return this.queue(a||"fx",[])},promise:function(a,b){var c,d=1,e=n.Deferred(),f=this,g=this.length,h=function(){--d||e.resolveWith(f,[f])};"string"!=typeof a&&(b=a,a=void 0),a=a||"fx";while(g--)c=L.get(f[g],a+"queueHooks"),c&&c.empty&&(d++,c.empty.add(h));return h(),e.promise(b)}});var Q=/[+-]?(?:\d*\.|)\d+(?:[eE][+-]?\d+|)/.source,R=["Top","Right","Bottom","Left"],S=function(a,b){return a=b||a,"none"===n.css(a,"display")||!n.contains(a.ownerDocument,a)},T=/^(?:checkbox|radio)$/i;!function(){var a=l.createDocumentFragment(),b=a.appendChild(l.createElement("div")),c=l.createElement("input");c.setAttribute("type","radio"),c.setAttribute("checked","checked"),c.setAttribute("name","t"),b.appendChild(c),k.checkClone=b.cloneNode(!0).cloneNode(!0).lastChild.checked,b.innerHTML="<textarea>x</textarea>",k.noCloneChecked=!!b.cloneNode(!0).lastChild.defaultValue}();var U="undefined";k.focusinBubbles="onfocusin"in a;var V=/^key/,W=/^(?:mouse|pointer|contextmenu)|click/,X=/^(?:focusinfocus|focusoutblur)$/,Y=/^([^.]*)(?:\.(.+)|)$/;function Z(){return!0}function $(){return!1}function _(){try{return l.activeElement}catch(a){}}n.event={global:{},add:function(a,b,c,d,e){var f,g,h,i,j,k,l,m,o,p,q,r=L.get(a);if(r){c.handler&&(f=c,c=f.handler,e=f.selector),c.guid||(c.guid=n.guid++),(i=r.events)||(i=r.events={}),(g=r.handle)||(g=r.handle=function(b){return typeof n!==U&&n.event.triggered!==b.type?n.event.dispatch.apply(a,arguments):void 0}),b=(b||"").match(E)||[""],j=b.length;while(j--)h=Y.exec(b[j])||[],o=q=h[1],p=(h[2]||"").split(".").sort(),o&&(l=n.event.special[o]||{},o=(e?l.delegateType:l.bindType)||o,l=n.event.special[o]||{},k=n.extend({type:o,origType:q,data:d,handler:c,guid:c.guid,selector:e,needsContext:e&&n.expr.match.needsContext.test(e),namespace:p.join(".")},f),(m=i[o])||(m=i[o]=[],m.delegateCount=0,l.setup&&l.setup.call(a,d,p,g)!==!1||a.addEventListener&&a.addEventListener(o,g,!1)),l.add&&(l.add.call(a,k),k.handler.guid||(k.handler.guid=c.guid)),e?m.splice(m.delegateCount++,0,k):m.push(k),n.event.global[o]=!0)}},remove:function(a,b,c,d,e){var f,g,h,i,j,k,l,m,o,p,q,r=L.hasData(a)&&L.get(a);if(r&&(i=r.events)){b=(b||"").match(E)||[""],j=b.length;while(j--)if(h=Y.exec(b[j])||[],o=q=h[1],p=(h[2]||"").split(".").sort(),o){l=n.event.special[o]||{},o=(d?l.delegateType:l.bindType)||o,m=i[o]||[],h=h[2]&&new RegExp("(^|\\.)"+p.join("\\.(?:.*\\.|)")+"(\\.|$)"),g=f=m.length;while(f--)k=m[f],!e&&q!==k.origType||c&&c.guid!==k.guid||h&&!h.test(k.namespace)||d&&d!==k.selector&&("**"!==d||!k.selector)||(m.splice(f,1),k.selector&&m.delegateCount--,l.remove&&l.remove.call(a,k));g&&!m.length&&(l.teardown&&l.teardown.call(a,p,r.handle)!==!1||n.removeEvent(a,o,r.handle),delete i[o])}else for(o in i)n.event.remove(a,o+b[j],c,d,!0);n.isEmptyObject(i)&&(delete r.handle,L.remove(a,"events"))}},trigger:function(b,c,d,e){var f,g,h,i,k,m,o,p=[d||l],q=j.call(b,"type")?b.type:b,r=j.call(b,"namespace")?b.namespace.split("."):[];if(g=h=d=d||l,3!==d.nodeType&&8!==d.nodeType&&!X.test(q+n.event.triggered)&&(q.indexOf(".")>=0&&(r=q.split("."),q=r.shift(),r.sort()),k=q.indexOf(":")<0&&"on"+q,b=b[n.expando]?b:new n.Event(q,"object"==typeof b&&b),b.isTrigger=e?2:3,b.namespace=r.join("."),b.namespace_re=b.namespace?new RegExp("(^|\\.)"+r.join("\\.(?:.*\\.|)")+"(\\.|$)"):null,b.result=void 0,b.target||(b.target=d),c=null==c?[b]:n.makeArray(c,[b]),o=n.event.special[q]||{},e||!o.trigger||o.trigger.apply(d,c)!==!1)){if(!e&&!o.noBubble&&!n.isWindow(d)){for(i=o.delegateType||q,X.test(i+q)||(g=g.parentNode);g;g=g.parentNode)p.push(g),h=g;h===(d.ownerDocument||l)&&p.push(h.defaultView||h.parentWindow||a)}f=0;while((g=p[f++])&&!b.isPropagationStopped())b.type=f>1?i:o.bindType||q,m=(L.get(g,"events")||{})[b.type]&&L.get(g,"handle"),m&&m.apply(g,c),m=k&&g[k],m&&m.apply&&n.acceptData(g)&&(b.result=m.apply(g,c),b.result===!1&&b.preventDefault());return b.type=q,e||b.isDefaultPrevented()||o._default&&o._default.apply(p.pop(),c)!==!1||!n.acceptData(d)||k&&n.isFunction(d[q])&&!n.isWindow(d)&&(h=d[k],h&&(d[k]=null),n.event.triggered=q,d[q](),n.event.triggered=void 0,h&&(d[k]=h)),b.result}},dispatch:function(a){a=n.event.fix(a);var b,c,e,f,g,h=[],i=d.call(arguments),j=(L.get(this,"events")||{})[a.type]||[],k=n.event.special[a.type]||{};if(i[0]=a,a.delegateTarget=this,!k.preDispatch||k.preDispatch.call(this,a)!==!1){h=n.event.handlers.call(this,a,j),b=0;while((f=h[b++])&&!a.isPropagationStopped()){a.currentTarget=f.elem,c=0;while((g=f.handlers[c++])&&!a.isImmediatePropagationStopped())(!a.namespace_re||a.namespace_re.test(g.namespace))&&(a.handleObj=g,a.data=g.data,e=((n.event.special[g.origType]||{}).handle||g.handler).apply(f.elem,i),void 0!==e&&(a.result=e)===!1&&(a.preventDefault(),a.stopPropagation()))}return k.postDispatch&&k.postDispatch.call(this,a),a.result}},handlers:function(a,b){var c,d,e,f,g=[],h=b.delegateCount,i=a.target;if(h&&i.nodeType&&(!a.button||"click"!==a.type))for(;i!==this;i=i.parentNode||this)if(i.disabled!==!0||"click"!==a.type){for(d=[],c=0;h>c;c++)f=b[c],e=f.selector+" ",void 0===d[e]&&(d[e]=f.needsContext?n(e,this).index(i)>=0:n.find(e,this,null,[i]).length),d[e]&&d.push(f);d.length&&g.push({elem:i,handlers:d})}return h<b.length&&g.push({elem:this,handlers:b.slice(h)}),g},props:"altKey bubbles cancelable ctrlKey currentTarget eventPhase metaKey relatedTarget shiftKey target timeStamp view which".split(" "),fixHooks:{},keyHooks:{props:"char charCode key keyCode".split(" "),filter:function(a,b){return null==a.which&&(a.which=null!=b.charCode?b.charCode:b.keyCode),a}},mouseHooks:{props:"button buttons clientX clientY offsetX offsetY pageX pageY screenX screenY toElement".split(" "),filter:function(a,b){var c,d,e,f=b.button;return null==a.pageX&&null!=b.clientX&&(c=a.target.ownerDocument||l,d=c.documentElement,e=c.body,a.pageX=b.clientX+(d&&d.scrollLeft||e&&e.scrollLeft||0)-(d&&d.clientLeft||e&&e.clientLeft||0),a.pageY=b.clientY+(d&&d.scrollTop||e&&e.scrollTop||0)-(d&&d.clientTop||e&&e.clientTop||0)),a.which||void 0===f||(a.which=1&f?1:2&f?3:4&f?2:0),a}},fix:function(a){if(a[n.expando])return a;var b,c,d,e=a.type,f=a,g=this.fixHooks[e];g||(this.fixHooks[e]=g=W.test(e)?this.mouseHooks:V.test(e)?this.keyHooks:{}),d=g.props?this.props.concat(g.props):this.props,a=new n.Event(f),b=d.length;while(b--)c=d[b],a[c]=f[c];return a.target||(a.target=l),3===a.target.nodeType&&(a.target=a.target.parentNode),g.filter?g.filter(a,f):a},special:{load:{noBubble:!0},focus:{trigger:function(){return this!==_()&&this.focus?(this.focus(),!1):void 0},delegateType:"focusin"},blur:{trigger:function(){return this===_()&&this.blur?(this.blur(),!1):void 0},delegateType:"focusout"},click:{trigger:function(){return"checkbox"===this.type&&this.click&&n.nodeName(this,"input")?(this.click(),!1):void 0},_default:function(a){return n.nodeName(a.target,"a")}},beforeunload:{postDispatch:function(a){void 0!==a.result&&a.originalEvent&&(a.originalEvent.returnValue=a.result)}}},simulate:function(a,b,c,d){var e=n.extend(new n.Event,c,{type:a,isSimulated:!0,originalEvent:{}});d?n.event.trigger(e,null,b):n.event.dispatch.call(b,e),e.isDefaultPrevented()&&c.preventDefault()}},n.removeEvent=function(a,b,c){a.removeEventListener&&a.removeEventListener(b,c,!1)},n.Event=function(a,b){return this instanceof n.Event?(a&&a.type?(this.originalEvent=a,this.type=a.type,this.isDefaultPrevented=a.defaultPrevented||void 0===a.defaultPrevented&&a.returnValue===!1?Z:$):this.type=a,b&&n.extend(this,b),this.timeStamp=a&&a.timeStamp||n.now(),void(this[n.expando]=!0)):new n.Event(a,b)},n.Event.prototype={isDefaultPrevented:$,isPropagationStopped:$,isImmediatePropagationStopped:$,preventDefault:function(){var a=this.originalEvent;this.isDefaultPrevented=Z,a&&a.preventDefault&&a.preventDefault()},stopPropagation:function(){var a=this.originalEvent;this.isPropagationStopped=Z,a&&a.stopPropagation&&a.stopPropagation()},stopImmediatePropagation:function(){var a=this.originalEvent;this.isImmediatePropagationStopped=Z,a&&a.stopImmediatePropagation&&a.stopImmediatePropagation(),this.stopPropagation()}},n.each({mouseenter:"mouseover",mouseleave:"mouseout",pointerenter:"pointerover",pointerleave:"pointerout"},function(a,b){n.event.special[a]={delegateType:b,bindType:b,handle:function(a){var c,d=this,e=a.relatedTarget,f=a.handleObj;return(!e||e!==d&&!n.contains(d,e))&&(a.type=f.origType,c=f.handler.apply(this,arguments),a.type=b),c}}}),k.focusinBubbles||n.each({focus:"focusin",blur:"focusout"},function(a,b){var c=function(a){n.event.simulate(b,a.target,n.event.fix(a),!0)};n.event.special[b]={setup:function(){var d=this.ownerDocument||this,e=L.access(d,b);e||d.addEventListener(a,c,!0),L.access(d,b,(e||0)+1)},teardown:function(){var d=this.ownerDocument||this,e=L.access(d,b)-1;e?L.access(d,b,e):(d.removeEventListener(a,c,!0),L.remove(d,b))}}}),n.fn.extend({on:function(a,b,c,d,e){var f,g;if("object"==typeof a){"string"!=typeof b&&(c=c||b,b=void 0);for(g in a)this.on(g,b,c,a[g],e);return this}if(null==c&&null==d?(d=b,c=b=void 0):null==d&&("string"==typeof b?(d=c,c=void 0):(d=c,c=b,b=void 0)),d===!1)d=$;else if(!d)return this;return 1===e&&(f=d,d=function(a){return n().off(a),f.apply(this,arguments)},d.guid=f.guid||(f.guid=n.guid++)),this.each(function(){n.event.add(this,a,d,c,b)})},one:function(a,b,c,d){return this.on(a,b,c,d,1)},off:function(a,b,c){var d,e;if(a&&a.preventDefault&&a.handleObj)return d=a.handleObj,n(a.delegateTarget).off(d.namespace?d.origType+"."+d.namespace:d.origType,d.selector,d.handler),this;if("object"==typeof a){for(e in a)this.off(e,b,a[e]);return this}return(b===!1||"function"==typeof b)&&(c=b,b=void 0),c===!1&&(c=$),this.each(function(){n.event.remove(this,a,c,b)})},trigger:function(a,b){return this.each(function(){n.event.trigger(a,b,this)})},triggerHandler:function(a,b){var c=this[0];return c?n.event.trigger(a,b,c,!0):void 0}});var ab=/<(?!area|br|col|embed|hr|img|input|link|meta|param)(([\w:]+)[^>]*)\/>/gi,bb=/<([\w:]+)/,cb=/<|&#?\w+;/,db=/<(?:script|style|link)/i,eb=/checked\s*(?:[^=]|=\s*.checked.)/i,fb=/^$|\/(?:java|ecma)script/i,gb=/^true\/(.*)/,hb=/^\s*<!(?:\[CDATA\[|--)|(?:\]\]|--)>\s*$/g,ib={option:[1,"<select multiple='multiple'>","</select>"],thead:[1,"<table>","</table>"],col:[2,"<table><colgroup>","</colgroup></table>"],tr:[2,"<table><tbody>","</tbody></table>"],td:[3,"<table><tbody><tr>","</tr></tbody></table>"],_default:[0,"",""]};ib.optgroup=ib.option,ib.tbody=ib.tfoot=ib.colgroup=ib.caption=ib.thead,ib.th=ib.td;function jb(a,b){return n.nodeName(a,"table")&&n.nodeName(11!==b.nodeType?b:b.firstChild,"tr")?a.getElementsByTagName("tbody")[0]||a.appendChild(a.ownerDocument.createElement("tbody")):a}function kb(a){return a.type=(null!==a.getAttribute("type"))+"/"+a.type,a}function lb(a){var b=gb.exec(a.type);return b?a.type=b[1]:a.removeAttribute("type"),a}function mb(a,b){for(var c=0,d=a.length;d>c;c++)L.set(a[c],"globalEval",!b||L.get(b[c],"globalEval"))}function nb(a,b){var c,d,e,f,g,h,i,j;if(1===b.nodeType){if(L.hasData(a)&&(f=L.access(a),g=L.set(b,f),j=f.events)){delete g.handle,g.events={};for(e in j)for(c=0,d=j[e].length;d>c;c++)n.event.add(b,e,j[e][c])}M.hasData(a)&&(h=M.access(a),i=n.extend({},h),M.set(b,i))}}function ob(a,b){var c=a.getElementsByTagName?a.getElementsByTagName(b||"*"):a.querySelectorAll?a.querySelectorAll(b||"*"):[];return void 0===b||b&&n.nodeName(a,b)?n.merge([a],c):c}function pb(a,b){var c=b.nodeName.toLowerCase();"input"===c&&T.test(a.type)?b.checked=a.checked:("input"===c||"textarea"===c)&&(b.defaultValue=a.defaultValue)}n.extend({clone:function(a,b,c){var d,e,f,g,h=a.cloneNode(!0),i=n.contains(a.ownerDocument,a);if(!(k.noCloneChecked||1!==a.nodeType&&11!==a.nodeType||n.isXMLDoc(a)))for(g=ob(h),f=ob(a),d=0,e=f.length;e>d;d++)pb(f[d],g[d]);if(b)if(c)for(f=f||ob(a),g=g||ob(h),d=0,e=f.length;e>d;d++)nb(f[d],g[d]);else nb(a,h);return g=ob(h,"script"),g.length>0&&mb(g,!i&&ob(a,"script")),h},buildFragment:function(a,b,c,d){for(var e,f,g,h,i,j,k=b.createDocumentFragment(),l=[],m=0,o=a.length;o>m;m++)if(e=a[m],e||0===e)if("object"===n.type(e))n.merge(l,e.nodeType?[e]:e);else if(cb.test(e)){f=f||k.appendChild(b.createElement("div")),g=(bb.exec(e)||["",""])[1].toLowerCase(),h=ib[g]||ib._default,f.innerHTML=h[1]+e.replace(ab,"<$1></$2>")+h[2],j=h[0];while(j--)f=f.lastChild;n.merge(l,f.childNodes),f=k.firstChild,f.textContent=""}else l.push(b.createTextNode(e));k.textContent="",m=0;while(e=l[m++])if((!d||-1===n.inArray(e,d))&&(i=n.contains(e.ownerDocument,e),f=ob(k.appendChild(e),"script"),i&&mb(f),c)){j=0;while(e=f[j++])fb.test(e.type||"")&&c.push(e)}return k},cleanData:function(a){for(var b,c,d,e,f=n.event.special,g=0;void 0!==(c=a[g]);g++){if(n.acceptData(c)&&(e=c[L.expando],e&&(b=L.cache[e]))){if(b.events)for(d in b.events)f[d]?n.event.remove(c,d):n.removeEvent(c,d,b.handle);L.cache[e]&&delete L.cache[e]}delete M.cache[c[M.expando]]}}}),n.fn.extend({text:function(a){return J(this,function(a){return void 0===a?n.text(this):this.empty().each(function(){(1===this.nodeType||11===this.nodeType||9===this.nodeType)&&(this.textContent=a)})},null,a,arguments.length)},append:function(){return this.domManip(arguments,function(a){if(1===this.nodeType||11===this.nodeType||9===this.nodeType){var b=jb(this,a);b.appendChild(a)}})},prepend:function(){return this.domManip(arguments,function(a){if(1===this.nodeType||11===this.nodeType||9===this.nodeType){var b=jb(this,a);b.insertBefore(a,b.firstChild)}})},before:function(){return this.domManip(arguments,function(a){this.parentNode&&this.parentNode.insertBefore(a,this)})},after:function(){return this.domManip(arguments,function(a){this.parentNode&&this.parentNode.insertBefore(a,this.nextSibling)})},remove:function(a,b){for(var c,d=a?n.filter(a,this):this,e=0;null!=(c=d[e]);e++)b||1!==c.nodeType||n.cleanData(ob(c)),c.parentNode&&(b&&n.contains(c.ownerDocument,c)&&mb(ob(c,"script")),c.parentNode.removeChild(c));return this},empty:function(){for(var a,b=0;null!=(a=this[b]);b++)1===a.nodeType&&(n.cleanData(ob(a,!1)),a.textContent="");return this},clone:function(a,b){return a=null==a?!1:a,b=null==b?a:b,this.map(function(){return n.clone(this,a,b)})},html:function(a){return J(this,function(a){var b=this[0]||{},c=0,d=this.length;if(void 0===a&&1===b.nodeType)return b.innerHTML;if("string"==typeof a&&!db.test(a)&&!ib[(bb.exec(a)||["",""])[1].toLowerCase()]){a=a.replace(ab,"<$1></$2>");try{for(;d>c;c++)b=this[c]||{},1===b.nodeType&&(n.cleanData(ob(b,!1)),b.innerHTML=a);b=0}catch(e){}}b&&this.empty().append(a)},null,a,arguments.length)},replaceWith:function(){var a=arguments[0];return this.domManip(arguments,function(b){a=this.parentNode,n.cleanData(ob(this)),a&&a.replaceChild(b,this)}),a&&(a.length||a.nodeType)?this:this.remove()},detach:function(a){return this.remove(a,!0)},domManip:function(a,b){a=e.apply([],a);var c,d,f,g,h,i,j=0,l=this.length,m=this,o=l-1,p=a[0],q=n.isFunction(p);if(q||l>1&&"string"==typeof p&&!k.checkClone&&eb.test(p))return this.each(function(c){var d=m.eq(c);q&&(a[0]=p.call(this,c,d.html())),d.domManip(a,b)});if(l&&(c=n.buildFragment(a,this[0].ownerDocument,!1,this),d=c.firstChild,1===c.childNodes.length&&(c=d),d)){for(f=n.map(ob(c,"script"),kb),g=f.length;l>j;j++)h=c,j!==o&&(h=n.clone(h,!0,!0),g&&n.merge(f,ob(h,"script"))),b.call(this[j],h,j);if(g)for(i=f[f.length-1].ownerDocument,n.map(f,lb),j=0;g>j;j++)h=f[j],fb.test(h.type||"")&&!L.access(h,"globalEval")&&n.contains(i,h)&&(h.src?n._evalUrl&&n._evalUrl(h.src):n.globalEval(h.textContent.replace(hb,"")))}return this}}),n.each({appendTo:"append",prependTo:"prepend",insertBefore:"before",insertAfter:"after",replaceAll:"replaceWith"},function(a,b){n.fn[a]=function(a){for(var c,d=[],e=n(a),g=e.length-1,h=0;g>=h;h++)c=h===g?this:this.clone(!0),n(e[h])[b](c),f.apply(d,c.get());return this.pushStack(d)}});var qb,rb={};function sb(b,c){var d,e=n(c.createElement(b)).appendTo(c.body),f=a.getDefaultComputedStyle&&(d=a.getDefaultComputedStyle(e[0]))?d.display:n.css(e[0],"display");return e.detach(),f}function tb(a){var b=l,c=rb[a];return c||(c=sb(a,b),"none"!==c&&c||(qb=(qb||n("<iframe frameborder='0' width='0' height='0'/>")).appendTo(b.documentElement),b=qb[0].contentDocument,b.write(),b.close(),c=sb(a,b),qb.detach()),rb[a]=c),c}var ub=/^margin/,vb=new RegExp("^("+Q+")(?!px)[a-z%]+$","i"),wb=function(a){return a.ownerDocument.defaultView.getComputedStyle(a,null)};function xb(a,b,c){var d,e,f,g,h=a.style;return c=c||wb(a),c&&(g=c.getPropertyValue(b)||c[b]),c&&(""!==g||n.contains(a.ownerDocument,a)||(g=n.style(a,b)),vb.test(g)&&ub.test(b)&&(d=h.width,e=h.minWidth,f=h.maxWidth,h.minWidth=h.maxWidth=h.width=g,g=c.width,h.width=d,h.minWidth=e,h.maxWidth=f)),void 0!==g?g+"":g}function yb(a,b){return{get:function(){return a()?void delete this.get:(this.get=b).apply(this,arguments)}}}!function(){var b,c,d=l.documentElement,e=l.createElement("div"),f=l.createElement("div");if(f.style){f.style.backgroundClip="content-box",f.cloneNode(!0).style.backgroundClip="",k.clearCloneStyle="content-box"===f.style.backgroundClip,e.style.cssText="border:0;width:0;height:0;top:0;left:-9999px;margin-top:1px;position:absolute",e.appendChild(f);function g(){f.style.cssText="-webkit-box-sizing:border-box;-moz-box-sizing:border-box;box-sizing:border-box;display:block;margin-top:1%;top:1%;border:1px;padding:1px;width:4px;position:absolute",f.innerHTML="",d.appendChild(e);var g=a.getComputedStyle(f,null);b="1%"!==g.top,c="4px"===g.width,d.removeChild(e)}a.getComputedStyle&&n.extend(k,{pixelPosition:function(){return g(),b},boxSizingReliable:function(){return null==c&&g(),c},reliableMarginRight:function(){var b,c=f.appendChild(l.createElement("div"));return c.style.cssText=f.style.cssText="-webkit-box-sizing:content-box;-moz-box-sizing:content-box;box-sizing:content-box;display:block;margin:0;border:0;padding:0",c.style.marginRight=c.style.width="0",f.style.width="1px",d.appendChild(e),b=!parseFloat(a.getComputedStyle(c,null).marginRight),d.removeChild(e),b}})}}(),n.swap=function(a,b,c,d){var e,f,g={};for(f in b)g[f]=a.style[f],a.style[f]=b[f];e=c.apply(a,d||[]);for(f in b)a.style[f]=g[f];return e};var zb=/^(none|table(?!-c[ea]).+)/,Ab=new RegExp("^("+Q+")(.*)$","i"),Bb=new RegExp("^([+-])=("+Q+")","i"),Cb={position:"absolute",visibility:"hidden",display:"block"},Db={letterSpacing:"0",fontWeight:"400"},Eb=["Webkit","O","Moz","ms"];function Fb(a,b){if(b in a)return b;var c=b[0].toUpperCase()+b.slice(1),d=b,e=Eb.length;while(e--)if(b=Eb[e]+c,b in a)return b;return d}function Gb(a,b,c){var d=Ab.exec(b);return d?Math.max(0,d[1]-(c||0))+(d[2]||"px"):b}function Hb(a,b,c,d,e){for(var f=c===(d?"border":"content")?4:"width"===b?1:0,g=0;4>f;f+=2)"margin"===c&&(g+=n.css(a,c+R[f],!0,e)),d?("content"===c&&(g-=n.css(a,"padding"+R[f],!0,e)),"margin"!==c&&(g-=n.css(a,"border"+R[f]+"Width",!0,e))):(g+=n.css(a,"padding"+R[f],!0,e),"padding"!==c&&(g+=n.css(a,"border"+R[f]+"Width",!0,e)));return g}function Ib(a,b,c){var d=!0,e="width"===b?a.offsetWidth:a.offsetHeight,f=wb(a),g="border-box"===n.css(a,"boxSizing",!1,f);if(0>=e||null==e){if(e=xb(a,b,f),(0>e||null==e)&&(e=a.style[b]),vb.test(e))return e;d=g&&(k.boxSizingReliable()||e===a.style[b]),e=parseFloat(e)||0}return e+Hb(a,b,c||(g?"border":"content"),d,f)+"px"}function Jb(a,b){for(var c,d,e,f=[],g=0,h=a.length;h>g;g++)d=a[g],d.style&&(f[g]=L.get(d,"olddisplay"),c=d.style.display,b?(f[g]||"none"!==c||(d.style.display=""),""===d.style.display&&S(d)&&(f[g]=L.access(d,"olddisplay",tb(d.nodeName)))):(e=S(d),"none"===c&&e||L.set(d,"olddisplay",e?c:n.css(d,"display"))));for(g=0;h>g;g++)d=a[g],d.style&&(b&&"none"!==d.style.display&&""!==d.style.display||(d.style.display=b?f[g]||"":"none"));return a}n.extend({cssHooks:{opacity:{get:function(a,b){if(b){var c=xb(a,"opacity");return""===c?"1":c}}}},cssNumber:{columnCount:!0,fillOpacity:!0,flexGrow:!0,flexShrink:!0,fontWeight:!0,lineHeight:!0,opacity:!0,order:!0,orphans:!0,widows:!0,zIndex:!0,zoom:!0},cssProps:{"float":"cssFloat"},style:function(a,b,c,d){if(a&&3!==a.nodeType&&8!==a.nodeType&&a.style){var e,f,g,h=n.camelCase(b),i=a.style;return b=n.cssProps[h]||(n.cssProps[h]=Fb(i,h)),g=n.cssHooks[b]||n.cssHooks[h],void 0===c?g&&"get"in g&&void 0!==(e=g.get(a,!1,d))?e:i[b]:(f=typeof c,"string"===f&&(e=Bb.exec(c))&&(c=(e[1]+1)*e[2]+parseFloat(n.css(a,b)),f="number"),null!=c&&c===c&&("number"!==f||n.cssNumber[h]||(c+="px"),k.clearCloneStyle||""!==c||0!==b.indexOf("background")||(i[b]="inherit"),g&&"set"in g&&void 0===(c=g.set(a,c,d))||(i[b]=c)),void 0)}},css:function(a,b,c,d){var e,f,g,h=n.camelCase(b);return b=n.cssProps[h]||(n.cssProps[h]=Fb(a.style,h)),g=n.cssHooks[b]||n.cssHooks[h],g&&"get"in g&&(e=g.get(a,!0,c)),void 0===e&&(e=xb(a,b,d)),"normal"===e&&b in Db&&(e=Db[b]),""===c||c?(f=parseFloat(e),c===!0||n.isNumeric(f)?f||0:e):e}}),n.each(["height","width"],function(a,b){n.cssHooks[b]={get:function(a,c,d){return c?zb.test(n.css(a,"display"))&&0===a.offsetWidth?n.swap(a,Cb,function(){return Ib(a,b,d)}):Ib(a,b,d):void 0},set:function(a,c,d){var e=d&&wb(a);return Gb(a,c,d?Hb(a,b,d,"border-box"===n.css(a,"boxSizing",!1,e),e):0)}}}),n.cssHooks.marginRight=yb(k.reliableMarginRight,function(a,b){return b?n.swap(a,{display:"inline-block"},xb,[a,"marginRight"]):void 0}),n.each({margin:"",padding:"",border:"Width"},function(a,b){n.cssHooks[a+b]={expand:function(c){for(var d=0,e={},f="string"==typeof c?c.split(" "):[c];4>d;d++)e[a+R[d]+b]=f[d]||f[d-2]||f[0];return e}},ub.test(a)||(n.cssHooks[a+b].set=Gb)}),n.fn.extend({css:function(a,b){return J(this,function(a,b,c){var d,e,f={},g=0;if(n.isArray(b)){for(d=wb(a),e=b.length;e>g;g++)f[b[g]]=n.css(a,b[g],!1,d);return f}return void 0!==c?n.style(a,b,c):n.css(a,b)},a,b,arguments.length>1)},show:function(){return Jb(this,!0)},hide:function(){return Jb(this)},toggle:function(a){return"boolean"==typeof a?a?this.show():this.hide():this.each(function(){S(this)?n(this).show():n(this).hide()})}});function Kb(a,b,c,d,e){return new Kb.prototype.init(a,b,c,d,e)}n.Tween=Kb,Kb.prototype={constructor:Kb,init:function(a,b,c,d,e,f){this.elem=a,this.prop=c,this.easing=e||"swing",this.options=b,this.start=this.now=this.cur(),this.end=d,this.unit=f||(n.cssNumber[c]?"":"px")},cur:function(){var a=Kb.propHooks[this.prop];return a&&a.get?a.get(this):Kb.propHooks._default.get(this)},run:function(a){var b,c=Kb.propHooks[this.prop];return this.pos=b=this.options.duration?n.easing[this.easing](a,this.options.duration*a,0,1,this.options.duration):a,this.now=(this.end-this.start)*b+this.start,this.options.step&&this.options.step.call(this.elem,this.now,this),c&&c.set?c.set(this):Kb.propHooks._default.set(this),this}},Kb.prototype.init.prototype=Kb.prototype,Kb.propHooks={_default:{get:function(a){var b;return null==a.elem[a.prop]||a.elem.style&&null!=a.elem.style[a.prop]?(b=n.css(a.elem,a.prop,""),b&&"auto"!==b?b:0):a.elem[a.prop]},set:function(a){n.fx.step[a.prop]?n.fx.step[a.prop](a):a.elem.style&&(null!=a.elem.style[n.cssProps[a.prop]]||n.cssHooks[a.prop])?n.style(a.elem,a.prop,a.now+a.unit):a.elem[a.prop]=a.now}}},Kb.propHooks.scrollTop=Kb.propHooks.scrollLeft={set:function(a){a.elem.nodeType&&a.elem.parentNode&&(a.elem[a.prop]=a.now)}},n.easing={linear:function(a){return a},swing:function(a){return.5-Math.cos(a*Math.PI)/2}},n.fx=Kb.prototype.init,n.fx.step={};var Lb,Mb,Nb=/^(?:toggle|show|hide)$/,Ob=new RegExp("^(?:([+-])=|)("+Q+")([a-z%]*)$","i"),Pb=/queueHooks$/,Qb=[Vb],Rb={"*":[function(a,b){var c=this.createTween(a,b),d=c.cur(),e=Ob.exec(b),f=e&&e[3]||(n.cssNumber[a]?"":"px"),g=(n.cssNumber[a]||"px"!==f&&+d)&&Ob.exec(n.css(c.elem,a)),h=1,i=20;if(g&&g[3]!==f){f=f||g[3],e=e||[],g=+d||1;do h=h||".5",g/=h,n.style(c.elem,a,g+f);while(h!==(h=c.cur()/d)&&1!==h&&--i)}return e&&(g=c.start=+g||+d||0,c.unit=f,c.end=e[1]?g+(e[1]+1)*e[2]:+e[2]),c}]};function Sb(){return setTimeout(function(){Lb=void 0}),Lb=n.now()}function Tb(a,b){var c,d=0,e={height:a};for(b=b?1:0;4>d;d+=2-b)c=R[d],e["margin"+c]=e["padding"+c]=a;return b&&(e.opacity=e.width=a),e}function Ub(a,b,c){for(var d,e=(Rb[b]||[]).concat(Rb["*"]),f=0,g=e.length;g>f;f++)if(d=e[f].call(c,b,a))return d}function Vb(a,b,c){var d,e,f,g,h,i,j,k,l=this,m={},o=a.style,p=a.nodeType&&S(a),q=L.get(a,"fxshow");c.queue||(h=n._queueHooks(a,"fx"),null==h.unqueued&&(h.unqueued=0,i=h.empty.fire,h.empty.fire=function(){h.unqueued||i()}),h.unqueued++,l.always(function(){l.always(function(){h.unqueued--,n.queue(a,"fx").length||h.empty.fire()})})),1===a.nodeType&&("height"in b||"width"in b)&&(c.overflow=[o.overflow,o.overflowX,o.overflowY],j=n.css(a,"display"),k="none"===j?L.get(a,"olddisplay")||tb(a.nodeName):j,"inline"===k&&"none"===n.css(a,"float")&&(o.display="inline-block")),c.overflow&&(o.overflow="hidden",l.always(function(){o.overflow=c.overflow[0],o.overflowX=c.overflow[1],o.overflowY=c.overflow[2]}));for(d in b)if(e=b[d],Nb.exec(e)){if(delete b[d],f=f||"toggle"===e,e===(p?"hide":"show")){if("show"!==e||!q||void 0===q[d])continue;p=!0}m[d]=q&&q[d]||n.style(a,d)}else j=void 0;if(n.isEmptyObject(m))"inline"===("none"===j?tb(a.nodeName):j)&&(o.display=j);else{q?"hidden"in q&&(p=q.hidden):q=L.access(a,"fxshow",{}),f&&(q.hidden=!p),p?n(a).show():l.done(function(){n(a).hide()}),l.done(function(){var b;L.remove(a,"fxshow");for(b in m)n.style(a,b,m[b])});for(d in m)g=Ub(p?q[d]:0,d,l),d in q||(q[d]=g.start,p&&(g.end=g.start,g.start="width"===d||"height"===d?1:0))}}function Wb(a,b){var c,d,e,f,g;for(c in a)if(d=n.camelCase(c),e=b[d],f=a[c],n.isArray(f)&&(e=f[1],f=a[c]=f[0]),c!==d&&(a[d]=f,delete a[c]),g=n.cssHooks[d],g&&"expand"in g){f=g.expand(f),delete a[d];for(c in f)c in a||(a[c]=f[c],b[c]=e)}else b[d]=e}function Xb(a,b,c){var d,e,f=0,g=Qb.length,h=n.Deferred().always(function(){delete i.elem}),i=function(){if(e)return!1;for(var b=Lb||Sb(),c=Math.max(0,j.startTime+j.duration-b),d=c/j.duration||0,f=1-d,g=0,i=j.tweens.length;i>g;g++)j.tweens[g].run(f);return h.notifyWith(a,[j,f,c]),1>f&&i?c:(h.resolveWith(a,[j]),!1)},j=h.promise({elem:a,props:n.extend({},b),opts:n.extend(!0,{specialEasing:{}},c),originalProperties:b,originalOptions:c,startTime:Lb||Sb(),duration:c.duration,tweens:[],createTween:function(b,c){var d=n.Tween(a,j.opts,b,c,j.opts.specialEasing[b]||j.opts.easing);return j.tweens.push(d),d},stop:function(b){var c=0,d=b?j.tweens.length:0;if(e)return this;for(e=!0;d>c;c++)j.tweens[c].run(1);return b?h.resolveWith(a,[j,b]):h.rejectWith(a,[j,b]),this}}),k=j.props;for(Wb(k,j.opts.specialEasing);g>f;f++)if(d=Qb[f].call(j,a,k,j.opts))return d;return n.map(k,Ub,j),n.isFunction(j.opts.start)&&j.opts.start.call(a,j),n.fx.timer(n.extend(i,{elem:a,anim:j,queue:j.opts.queue})),j.progress(j.opts.progress).done(j.opts.done,j.opts.complete).fail(j.opts.fail).always(j.opts.always)}n.Animation=n.extend(Xb,{tweener:function(a,b){n.isFunction(a)?(b=a,a=["*"]):a=a.split(" ");for(var c,d=0,e=a.length;e>d;d++)c=a[d],Rb[c]=Rb[c]||[],Rb[c].unshift(b)},prefilter:function(a,b){b?Qb.unshift(a):Qb.push(a)}}),n.speed=function(a,b,c){var d=a&&"object"==typeof a?n.extend({},a):{complete:c||!c&&b||n.isFunction(a)&&a,duration:a,easing:c&&b||b&&!n.isFunction(b)&&b};return d.duration=n.fx.off?0:"number"==typeof d.duration?d.duration:d.duration in n.fx.speeds?n.fx.speeds[d.duration]:n.fx.speeds._default,(null==d.queue||d.queue===!0)&&(d.queue="fx"),d.old=d.complete,d.complete=function(){n.isFunction(d.old)&&d.old.call(this),d.queue&&n.dequeue(this,d.queue)},d},n.fn.extend({fadeTo:function(a,b,c,d){return this.filter(S).css("opacity",0).show().end().animate({opacity:b},a,c,d)},animate:function(a,b,c,d){var e=n.isEmptyObject(a),f=n.speed(b,c,d),g=function(){var b=Xb(this,n.extend({},a),f);(e||L.get(this,"finish"))&&b.stop(!0)};return g.finish=g,e||f.queue===!1?this.each(g):this.queue(f.queue,g)},stop:function(a,b,c){var d=function(a){var b=a.stop;delete a.stop,b(c)};return"string"!=typeof a&&(c=b,b=a,a=void 0),b&&a!==!1&&this.queue(a||"fx",[]),this.each(function(){var b=!0,e=null!=a&&a+"queueHooks",f=n.timers,g=L.get(this);if(e)g[e]&&g[e].stop&&d(g[e]);else for(e in g)g[e]&&g[e].stop&&Pb.test(e)&&d(g[e]);for(e=f.length;e--;)f[e].elem!==this||null!=a&&f[e].queue!==a||(f[e].anim.stop(c),b=!1,f.splice(e,1));(b||!c)&&n.dequeue(this,a)})},finish:function(a){return a!==!1&&(a=a||"fx"),this.each(function(){var b,c=L.get(this),d=c[a+"queue"],e=c[a+"queueHooks"],f=n.timers,g=d?d.length:0;for(c.finish=!0,n.queue(this,a,[]),e&&e.stop&&e.stop.call(this,!0),b=f.length;b--;)f[b].elem===this&&f[b].queue===a&&(f[b].anim.stop(!0),f.splice(b,1));for(b=0;g>b;b++)d[b]&&d[b].finish&&d[b].finish.call(this);delete c.finish})}}),n.each(["toggle","show","hide"],function(a,b){var c=n.fn[b];n.fn[b]=function(a,d,e){return null==a||"boolean"==typeof a?c.apply(this,arguments):this.animate(Tb(b,!0),a,d,e)}}),n.each({slideDown:Tb("show"),slideUp:Tb("hide"),slideToggle:Tb("toggle"),fadeIn:{opacity:"show"},fadeOut:{opacity:"hide"},fadeToggle:{opacity:"toggle"}},function(a,b){n.fn[a]=function(a,c,d){return this.animate(b,a,c,d)}}),n.timers=[],n.fx.tick=function(){var a,b=0,c=n.timers;for(Lb=n.now();b<c.length;b++)a=c[b],a()||c[b]!==a||c.splice(b--,1);c.length||n.fx.stop(),Lb=void 0},n.fx.timer=function(a){n.timers.push(a),a()?n.fx.start():n.timers.pop()},n.fx.interval=13,n.fx.start=function(){Mb||(Mb=setInterval(n.fx.tick,n.fx.interval))},n.fx.stop=function(){clearInterval(Mb),Mb=null},n.fx.speeds={slow:600,fast:200,_default:400},n.fn.delay=function(a,b){return a=n.fx?n.fx.speeds[a]||a:a,b=b||"fx",this.queue(b,function(b,c){var d=setTimeout(b,a);c.stop=function(){clearTimeout(d)}})},function(){var a=l.createElement("input"),b=l.createElement("select"),c=b.appendChild(l.createElement("option"));a.type="checkbox",k.checkOn=""!==a.value,k.optSelected=c.selected,b.disabled=!0,k.optDisabled=!c.disabled,a=l.createElement("input"),a.value="t",a.type="radio",k.radioValue="t"===a.value}();var Yb,Zb,$b=n.expr.attrHandle;n.fn.extend({attr:function(a,b){return J(this,n.attr,a,b,arguments.length>1)},removeAttr:function(a){return this.each(function(){n.removeAttr(this,a)})}}),n.extend({attr:function(a,b,c){var d,e,f=a.nodeType;if(a&&3!==f&&8!==f&&2!==f)return typeof a.getAttribute===U?n.prop(a,b,c):(1===f&&n.isXMLDoc(a)||(b=b.toLowerCase(),d=n.attrHooks[b]||(n.expr.match.bool.test(b)?Zb:Yb)),void 0===c?d&&"get"in d&&null!==(e=d.get(a,b))?e:(e=n.find.attr(a,b),null==e?void 0:e):null!==c?d&&"set"in d&&void 0!==(e=d.set(a,c,b))?e:(a.setAttribute(b,c+""),c):void n.removeAttr(a,b))
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
196 },removeAttr:function(a,b){var c,d,e=0,f=b&&b.match(E);if(f&&1===a.nodeType)while(c=f[e++])d=n.propFix[c]||c,n.expr.match.bool.test(c)&&(a[d]=!1),a.removeAttribute(c)},attrHooks:{type:{set:function(a,b){if(!k.radioValue&&"radio"===b&&n.nodeName(a,"input")){var c=a.value;return a.setAttribute("type",b),c&&(a.value=c),b}}}}}),Zb={set:function(a,b,c){return b===!1?n.removeAttr(a,c):a.setAttribute(c,c),c}},n.each(n.expr.match.bool.source.match(/\w+/g),function(a,b){var c=$b[b]||n.find.attr;$b[b]=function(a,b,d){var e,f;return d||(f=$b[b],$b[b]=e,e=null!=c(a,b,d)?b.toLowerCase():null,$b[b]=f),e}});var _b=/^(?:input|select|textarea|button)$/i;n.fn.extend({prop:function(a,b){return J(this,n.prop,a,b,arguments.length>1)},removeProp:function(a){return this.each(function(){delete this[n.propFix[a]||a]})}}),n.extend({propFix:{"for":"htmlFor","class":"className"},prop:function(a,b,c){var d,e,f,g=a.nodeType;if(a&&3!==g&&8!==g&&2!==g)return f=1!==g||!n.isXMLDoc(a),f&&(b=n.propFix[b]||b,e=n.propHooks[b]),void 0!==c?e&&"set"in e&&void 0!==(d=e.set(a,c,b))?d:a[b]=c:e&&"get"in e&&null!==(d=e.get(a,b))?d:a[b]},propHooks:{tabIndex:{get:function(a){return a.hasAttribute("tabindex")||_b.test(a.nodeName)||a.href?a.tabIndex:-1}}}}),k.optSelected||(n.propHooks.selected={get:function(a){var b=a.parentNode;return b&&b.parentNode&&b.parentNode.selectedIndex,null}}),n.each(["tabIndex","readOnly","maxLength","cellSpacing","cellPadding","rowSpan","colSpan","useMap","frameBorder","contentEditable"],function(){n.propFix[this.toLowerCase()]=this});var ac=/[\t\r\n\f]/g;n.fn.extend({addClass:function(a){var b,c,d,e,f,g,h="string"==typeof a&&a,i=0,j=this.length;if(n.isFunction(a))return this.each(function(b){n(this).addClass(a.call(this,b,this.className))});if(h)for(b=(a||"").match(E)||[];j>i;i++)if(c=this[i],d=1===c.nodeType&&(c.className?(" "+c.className+" ").replace(ac," "):" ")){f=0;while(e=b[f++])d.indexOf(" "+e+" ")<0&&(d+=e+" ");g=n.trim(d),c.className!==g&&(c.className=g)}return this},removeClass:function(a){var b,c,d,e,f,g,h=0===arguments.length||"string"==typeof a&&a,i=0,j=this.length;if(n.isFunction(a))return this.each(function(b){n(this).removeClass(a.call(this,b,this.className))});if(h)for(b=(a||"").match(E)||[];j>i;i++)if(c=this[i],d=1===c.nodeType&&(c.className?(" "+c.className+" ").replace(ac," "):"")){f=0;while(e=b[f++])while(d.indexOf(" "+e+" ")>=0)d=d.replace(" "+e+" "," ");g=a?n.trim(d):"",c.className!==g&&(c.className=g)}return this},toggleClass:function(a,b){var c=typeof a;return"boolean"==typeof b&&"string"===c?b?this.addClass(a):this.removeClass(a):this.each(n.isFunction(a)?function(c){n(this).toggleClass(a.call(this,c,this.className,b),b)}:function(){if("string"===c){var b,d=0,e=n(this),f=a.match(E)||[];while(b=f[d++])e.hasClass(b)?e.removeClass(b):e.addClass(b)}else(c===U||"boolean"===c)&&(this.className&&L.set(this,"__className__",this.className),this.className=this.className||a===!1?"":L.get(this,"__className__")||"")})},hasClass:function(a){for(var b=" "+a+" ",c=0,d=this.length;d>c;c++)if(1===this[c].nodeType&&(" "+this[c].className+" ").replace(ac," ").indexOf(b)>=0)return!0;return!1}});var bc=/\r/g;n.fn.extend({val:function(a){var b,c,d,e=this[0];{if(arguments.length)return d=n.isFunction(a),this.each(function(c){var e;1===this.nodeType&&(e=d?a.call(this,c,n(this).val()):a,null==e?e="":"number"==typeof e?e+="":n.isArray(e)&&(e=n.map(e,function(a){return null==a?"":a+""})),b=n.valHooks[this.type]||n.valHooks[this.nodeName.toLowerCase()],b&&"set"in b&&void 0!==b.set(this,e,"value")||(this.value=e))});if(e)return b=n.valHooks[e.type]||n.valHooks[e.nodeName.toLowerCase()],b&&"get"in b&&void 0!==(c=b.get(e,"value"))?c:(c=e.value,"string"==typeof c?c.replace(bc,""):null==c?"":c)}}}),n.extend({valHooks:{option:{get:function(a){var b=n.find.attr(a,"value");return null!=b?b:n.trim(n.text(a))}},select:{get:function(a){for(var b,c,d=a.options,e=a.selectedIndex,f="select-one"===a.type||0>e,g=f?null:[],h=f?e+1:d.length,i=0>e?h:f?e:0;h>i;i++)if(c=d[i],!(!c.selected&&i!==e||(k.optDisabled?c.disabled:null!==c.getAttribute("disabled"))||c.parentNode.disabled&&n.nodeName(c.parentNode,"optgroup"))){if(b=n(c).val(),f)return b;g.push(b)}return g},set:function(a,b){var c,d,e=a.options,f=n.makeArray(b),g=e.length;while(g--)d=e[g],(d.selected=n.inArray(d.value,f)>=0)&&(c=!0);return c||(a.selectedIndex=-1),f}}}}),n.each(["radio","checkbox"],function(){n.valHooks[this]={set:function(a,b){return n.isArray(b)?a.checked=n.inArray(n(a).val(),b)>=0:void 0}},k.checkOn||(n.valHooks[this].get=function(a){return null===a.getAttribute("value")?"on":a.value})}),n.each("blur focus focusin focusout load resize scroll unload click dblclick mousedown mouseup mousemove mouseover mouseout mouseenter mouseleave change select submit keydown keypress keyup error contextmenu".split(" "),function(a,b){n.fn[b]=function(a,c){return arguments.length>0?this.on(b,null,a,c):this.trigger(b)}}),n.fn.extend({hover:function(a,b){return this.mouseenter(a).mouseleave(b||a)},bind:function(a,b,c){return this.on(a,null,b,c)},unbind:function(a,b){return this.off(a,null,b)},delegate:function(a,b,c,d){return this.on(b,a,c,d)},undelegate:function(a,b,c){return 1===arguments.length?this.off(a,"**"):this.off(b,a||"**",c)}});var cc=n.now(),dc=/\?/;n.parseJSON=function(a){return JSON.parse(a+"")},n.parseXML=function(a){var b,c;if(!a||"string"!=typeof a)return null;try{c=new DOMParser,b=c.parseFromString(a,"text/xml")}catch(d){b=void 0}return(!b||b.getElementsByTagName("parsererror").length)&&n.error("Invalid XML: "+a),b};var ec,fc,gc=/#.*$/,hc=/([?&])_=[^&]*/,ic=/^(.*?):[ \t]*([^\r\n]*)$/gm,jc=/^(?:about|app|app-storage|.+-extension|file|res|widget):$/,kc=/^(?:GET|HEAD)$/,lc=/^\/\//,mc=/^([\w.+-]+:)(?:\/\/(?:[^\/?#]*@|)([^\/?#:]*)(?::(\d+)|)|)/,nc={},oc={},pc="*/".concat("*");try{fc=location.href}catch(qc){fc=l.createElement("a"),fc.href="",fc=fc.href}ec=mc.exec(fc.toLowerCase())||[];function rc(a){return function(b,c){"string"!=typeof b&&(c=b,b="*");var d,e=0,f=b.toLowerCase().match(E)||[];if(n.isFunction(c))while(d=f[e++])"+"===d[0]?(d=d.slice(1)||"*",(a[d]=a[d]||[]).unshift(c)):(a[d]=a[d]||[]).push(c)}}function sc(a,b,c,d){var e={},f=a===oc;function g(h){var i;return e[h]=!0,n.each(a[h]||[],function(a,h){var j=h(b,c,d);return"string"!=typeof j||f||e[j]?f?!(i=j):void 0:(b.dataTypes.unshift(j),g(j),!1)}),i}return g(b.dataTypes[0])||!e["*"]&&g("*")}function tc(a,b){var c,d,e=n.ajaxSettings.flatOptions||{};for(c in b)void 0!==b[c]&&((e[c]?a:d||(d={}))[c]=b[c]);return d&&n.extend(!0,a,d),a}function uc(a,b,c){var d,e,f,g,h=a.contents,i=a.dataTypes;while("*"===i[0])i.shift(),void 0===d&&(d=a.mimeType||b.getResponseHeader("Content-Type"));if(d)for(e in h)if(h[e]&&h[e].test(d)){i.unshift(e);break}if(i[0]in c)f=i[0];else{for(e in c){if(!i[0]||a.converters[e+" "+i[0]]){f=e;break}g||(g=e)}f=f||g}return f?(f!==i[0]&&i.unshift(f),c[f]):void 0}function vc(a,b,c,d){var e,f,g,h,i,j={},k=a.dataTypes.slice();if(k[1])for(g in a.converters)j[g.toLowerCase()]=a.converters[g];f=k.shift();while(f)if(a.responseFields[f]&&(c[a.responseFields[f]]=b),!i&&d&&a.dataFilter&&(b=a.dataFilter(b,a.dataType)),i=f,f=k.shift())if("*"===f)f=i;else if("*"!==i&&i!==f){if(g=j[i+" "+f]||j["* "+f],!g)for(e in j)if(h=e.split(" "),h[1]===f&&(g=j[i+" "+h[0]]||j["* "+h[0]])){g===!0?g=j[e]:j[e]!==!0&&(f=h[0],k.unshift(h[1]));break}if(g!==!0)if(g&&a["throws"])b=g(b);else try{b=g(b)}catch(l){return{state:"parsererror",error:g?l:"No conversion from "+i+" to "+f}}}return{state:"success",data:b}}n.extend({active:0,lastModified:{},etag:{},ajaxSettings:{url:fc,type:"GET",isLocal:jc.test(ec[1]),global:!0,processData:!0,async:!0,contentType:"application/x-www-form-urlencoded; charset=UTF-8",accepts:{"*":pc,text:"text/plain",html:"text/html",xml:"application/xml, text/xml",json:"application/json, text/javascript"},contents:{xml:/xml/,html:/html/,json:/json/},responseFields:{xml:"responseXML",text:"responseText",json:"responseJSON"},converters:{"* text":String,"text html":!0,"text json":n.parseJSON,"text xml":n.parseXML},flatOptions:{url:!0,context:!0}},ajaxSetup:function(a,b){return b?tc(tc(a,n.ajaxSettings),b):tc(n.ajaxSettings,a)},ajaxPrefilter:rc(nc),ajaxTransport:rc(oc),ajax:function(a,b){"object"==typeof a&&(b=a,a=void 0),b=b||{};var c,d,e,f,g,h,i,j,k=n.ajaxSetup({},b),l=k.context||k,m=k.context&&(l.nodeType||l.jquery)?n(l):n.event,o=n.Deferred(),p=n.Callbacks("once memory"),q=k.statusCode||{},r={},s={},t=0,u="canceled",v={readyState:0,getResponseHeader:function(a){var b;if(2===t){if(!f){f={};while(b=ic.exec(e))f[b[1].toLowerCase()]=b[2]}b=f[a.toLowerCase()]}return null==b?null:b},getAllResponseHeaders:function(){return 2===t?e:null},setRequestHeader:function(a,b){var c=a.toLowerCase();return t||(a=s[c]=s[c]||a,r[a]=b),this},overrideMimeType:function(a){return t||(k.mimeType=a),this},statusCode:function(a){var b;if(a)if(2>t)for(b in a)q[b]=[q[b],a[b]];else v.always(a[v.status]);return this},abort:function(a){var b=a||u;return c&&c.abort(b),x(0,b),this}};if(o.promise(v).complete=p.add,v.success=v.done,v.error=v.fail,k.url=((a||k.url||fc)+"").replace(gc,"").replace(lc,ec[1]+"//"),k.type=b.method||b.type||k.method||k.type,k.dataTypes=n.trim(k.dataType||"*").toLowerCase().match(E)||[""],null==k.crossDomain&&(h=mc.exec(k.url.toLowerCase()),k.crossDomain=!(!h||h[1]===ec[1]&&h[2]===ec[2]&&(h[3]||("http:"===h[1]?"80":"443"))===(ec[3]||("http:"===ec[1]?"80":"443")))),k.data&&k.processData&&"string"!=typeof k.data&&(k.data=n.param(k.data,k.traditional)),sc(nc,k,b,v),2===t)return v;i=k.global,i&&0===n.active++&&n.event.trigger("ajaxStart"),k.type=k.type.toUpperCase(),k.hasContent=!kc.test(k.type),d=k.url,k.hasContent||(k.data&&(d=k.url+=(dc.test(d)?"&":"?")+k.data,delete k.data),k.cache===!1&&(k.url=hc.test(d)?d.replace(hc,"$1_="+cc++):d+(dc.test(d)?"&":"?")+"_="+cc++)),k.ifModified&&(n.lastModified[d]&&v.setRequestHeader("If-Modified-Since",n.lastModified[d]),n.etag[d]&&v.setRequestHeader("If-None-Match",n.etag[d])),(k.data&&k.hasContent&&k.contentType!==!1||b.contentType)&&v.setRequestHeader("Content-Type",k.contentType),v.setRequestHeader("Accept",k.dataTypes[0]&&k.accepts[k.dataTypes[0]]?k.accepts[k.dataTypes[0]]+("*"!==k.dataTypes[0]?", "+pc+"; q=0.01":""):k.accepts["*"]);for(j in k.headers)v.setRequestHeader(j,k.headers[j]);if(k.beforeSend&&(k.beforeSend.call(l,v,k)===!1||2===t))return v.abort();u="abort";for(j in{success:1,error:1,complete:1})v[j](k[j]);if(c=sc(oc,k,b,v)){v.readyState=1,i&&m.trigger("ajaxSend",[v,k]),k.async&&k.timeout>0&&(g=setTimeout(function(){v.abort("timeout")},k.timeout));try{t=1,c.send(r,x)}catch(w){if(!(2>t))throw w;x(-1,w)}}else x(-1,"No Transport");function x(a,b,f,h){var j,r,s,u,w,x=b;2!==t&&(t=2,g&&clearTimeout(g),c=void 0,e=h||"",v.readyState=a>0?4:0,j=a>=200&&300>a||304===a,f&&(u=uc(k,v,f)),u=vc(k,u,v,j),j?(k.ifModified&&(w=v.getResponseHeader("Last-Modified"),w&&(n.lastModified[d]=w),w=v.getResponseHeader("etag"),w&&(n.etag[d]=w)),204===a||"HEAD"===k.type?x="nocontent":304===a?x="notmodified":(x=u.state,r=u.data,s=u.error,j=!s)):(s=x,(a||!x)&&(x="error",0>a&&(a=0))),v.status=a,v.statusText=(b||x)+"",j?o.resolveWith(l,[r,x,v]):o.rejectWith(l,[v,x,s]),v.statusCode(q),q=void 0,i&&m.trigger(j?"ajaxSuccess":"ajaxError",[v,k,j?r:s]),p.fireWith(l,[v,x]),i&&(m.trigger("ajaxComplete",[v,k]),--n.active||n.event.trigger("ajaxStop")))}return v},getJSON:function(a,b,c){return n.get(a,b,c,"json")},getScript:function(a,b){return n.get(a,void 0,b,"script")}}),n.each(["get","post"],function(a,b){n[b]=function(a,c,d,e){return n.isFunction(c)&&(e=e||d,d=c,c=void 0),n.ajax({url:a,type:b,dataType:e,data:c,success:d})}}),n.each(["ajaxStart","ajaxStop","ajaxComplete","ajaxError","ajaxSuccess","ajaxSend"],function(a,b){n.fn[b]=function(a){return this.on(b,a)}}),n._evalUrl=function(a){return n.ajax({url:a,type:"GET",dataType:"script",async:!1,global:!1,"throws":!0})},n.fn.extend({wrapAll:function(a){var b;return n.isFunction(a)?this.each(function(b){n(this).wrapAll(a.call(this,b))}):(this[0]&&(b=n(a,this[0].ownerDocument).eq(0).clone(!0),this[0].parentNode&&b.insertBefore(this[0]),b.map(function(){var a=this;while(a.firstElementChild)a=a.firstElementChild;return a}).append(this)),this)},wrapInner:function(a){return this.each(n.isFunction(a)?function(b){n(this).wrapInner(a.call(this,b))}:function(){var b=n(this),c=b.contents();c.length?c.wrapAll(a):b.append(a)})},wrap:function(a){var b=n.isFunction(a);return this.each(function(c){n(this).wrapAll(b?a.call(this,c):a)})},unwrap:function(){return this.parent().each(function(){n.nodeName(this,"body")||n(this).replaceWith(this.childNodes)}).end()}}),n.expr.filters.hidden=function(a){return a.offsetWidth<=0&&a.offsetHeight<=0},n.expr.filters.visible=function(a){return!n.expr.filters.hidden(a)};var wc=/%20/g,xc=/\[\]$/,yc=/\r?\n/g,zc=/^(?:submit|button|image|reset|file)$/i,Ac=/^(?:input|select|textarea|keygen)/i;function Bc(a,b,c,d){var e;if(n.isArray(b))n.each(b,function(b,e){c||xc.test(a)?d(a,e):Bc(a+"["+("object"==typeof e?b:"")+"]",e,c,d)});else if(c||"object"!==n.type(b))d(a,b);else for(e in b)Bc(a+"["+e+"]",b[e],c,d)}n.param=function(a,b){var c,d=[],e=function(a,b){b=n.isFunction(b)?b():null==b?"":b,d[d.length]=encodeURIComponent(a)+"="+encodeURIComponent(b)};if(void 0===b&&(b=n.ajaxSettings&&n.ajaxSettings.traditional),n.isArray(a)||a.jquery&&!n.isPlainObject(a))n.each(a,function(){e(this.name,this.value)});else for(c in a)Bc(c,a[c],b,e);return d.join("&").replace(wc,"+")},n.fn.extend({serialize:function(){return n.param(this.serializeArray())},serializeArray:function(){return this.map(function(){var a=n.prop(this,"elements");return a?n.makeArray(a):this}).filter(function(){var a=this.type;return this.name&&!n(this).is(":disabled")&&Ac.test(this.nodeName)&&!zc.test(a)&&(this.checked||!T.test(a))}).map(function(a,b){var c=n(this).val();return null==c?null:n.isArray(c)?n.map(c,function(a){return{name:b.name,value:a.replace(yc,"\r\n")}}):{name:b.name,value:c.replace(yc,"\r\n")}}).get()}}),n.ajaxSettings.xhr=function(){try{return new XMLHttpRequest}catch(a){}};var Cc=0,Dc={},Ec={0:200,1223:204},Fc=n.ajaxSettings.xhr();a.ActiveXObject&&n(a).on("unload",function(){for(var a in Dc)Dc[a]()}),k.cors=!!Fc&&"withCredentials"in Fc,k.ajax=Fc=!!Fc,n.ajaxTransport(function(a){var b;return k.cors||Fc&&!a.crossDomain?{send:function(c,d){var e,f=a.xhr(),g=++Cc;if(f.open(a.type,a.url,a.async,a.username,a.password),a.xhrFields)for(e in a.xhrFields)f[e]=a.xhrFields[e];a.mimeType&&f.overrideMimeType&&f.overrideMimeType(a.mimeType),a.crossDomain||c["X-Requested-With"]||(c["X-Requested-With"]="XMLHttpRequest");for(e in c)f.setRequestHeader(e,c[e]);b=function(a){return function(){b&&(delete Dc[g],b=f.onload=f.onerror=null,"abort"===a?f.abort():"error"===a?d(f.status,f.statusText):d(Ec[f.status]||f.status,f.statusText,"string"==typeof f.responseText?{text:f.responseText}:void 0,f.getAllResponseHeaders()))}},f.onload=b(),f.onerror=b("error"),b=Dc[g]=b("abort");try{f.send(a.hasContent&&a.data||null)}catch(h){if(b)throw h}},abort:function(){b&&b()}}:void 0}),n.ajaxSetup({accepts:{script:"text/javascript, application/javascript, application/ecmascript, application/x-ecmascript"},contents:{script:/(?:java|ecma)script/},converters:{"text script":function(a){return n.globalEval(a),a}}}),n.ajaxPrefilter("script",function(a){void 0===a.cache&&(a.cache=!1),a.crossDomain&&(a.type="GET")}),n.ajaxTransport("script",function(a){if(a.crossDomain){var b,c;return{send:function(d,e){b=n("<script>").prop({async:!0,charset:a.scriptCharset,src:a.url}).on("load error",c=function(a){b.remove(),c=null,a&&e("error"===a.type?404:200,a.type)}),l.head.appendChild(b[0])},abort:function(){c&&c()}}}});var Gc=[],Hc=/(=)\?(?=&|$)|\?\?/;n.ajaxSetup({jsonp:"callback",jsonpCallback:function(){var a=Gc.pop()||n.expando+"_"+cc++;return this[a]=!0,a}}),n.ajaxPrefilter("json jsonp",function(b,c,d){var e,f,g,h=b.jsonp!==!1&&(Hc.test(b.url)?"url":"string"==typeof b.data&&!(b.contentType||"").indexOf("application/x-www-form-urlencoded")&&Hc.test(b.data)&&"data");return h||"jsonp"===b.dataTypes[0]?(e=b.jsonpCallback=n.isFunction(b.jsonpCallback)?b.jsonpCallback():b.jsonpCallback,h?b[h]=b[h].replace(Hc,"$1"+e):b.jsonp!==!1&&(b.url+=(dc.test(b.url)?"&":"?")+b.jsonp+"="+e),b.converters["script json"]=function(){return g||n.error(e+" was not called"),g[0]},b.dataTypes[0]="json",f=a[e],a[e]=function(){g=arguments},d.always(function(){a[e]=f,b[e]&&(b.jsonpCallback=c.jsonpCallback,Gc.push(e)),g&&n.isFunction(f)&&f(g[0]),g=f=void 0}),"script"):void 0}),n.parseHTML=function(a,b,c){if(!a||"string"!=typeof a)return null;"boolean"==typeof b&&(c=b,b=!1),b=b||l;var d=v.exec(a),e=!c&&[];return d?[b.createElement(d[1])]:(d=n.buildFragment([a],b,e),e&&e.length&&n(e).remove(),n.merge([],d.childNodes))};var Ic=n.fn.load;n.fn.load=function(a,b,c){if("string"!=typeof a&&Ic)return Ic.apply(this,arguments);var d,e,f,g=this,h=a.indexOf(" ");return h>=0&&(d=n.trim(a.slice(h)),a=a.slice(0,h)),n.isFunction(b)?(c=b,b=void 0):b&&"object"==typeof b&&(e="POST"),g.length>0&&n.ajax({url:a,type:e,dataType:"html",data:b}).done(function(a){f=arguments,g.html(d?n("<div>").append(n.parseHTML(a)).find(d):a)}).complete(c&&function(a,b){g.each(c,f||[a.responseText,b,a])}),this},n.expr.filters.animated=function(a){return n.grep(n.timers,function(b){return a===b.elem}).length};var Jc=a.document.documentElement;function Kc(a){return n.isWindow(a)?a:9===a.nodeType&&a.defaultView}n.offset={setOffset:function(a,b,c){var d,e,f,g,h,i,j,k=n.css(a,"position"),l=n(a),m={};"static"===k&&(a.style.position="relative"),h=l.offset(),f=n.css(a,"top"),i=n.css(a,"left"),j=("absolute"===k||"fixed"===k)&&(f+i).indexOf("auto")>-1,j?(d=l.position(),g=d.top,e=d.left):(g=parseFloat(f)||0,e=parseFloat(i)||0),n.isFunction(b)&&(b=b.call(a,c,h)),null!=b.top&&(m.top=b.top-h.top+g),null!=b.left&&(m.left=b.left-h.left+e),"using"in b?b.using.call(a,m):l.css(m)}},n.fn.extend({offset:function(a){if(arguments.length)return void 0===a?this:this.each(function(b){n.offset.setOffset(this,a,b)});var b,c,d=this[0],e={top:0,left:0},f=d&&d.ownerDocument;if(f)return b=f.documentElement,n.contains(b,d)?(typeof d.getBoundingClientRect!==U&&(e=d.getBoundingClientRect()),c=Kc(f),{top:e.top+c.pageYOffset-b.clientTop,left:e.left+c.pageXOffset-b.clientLeft}):e},position:function(){if(this[0]){var a,b,c=this[0],d={top:0,left:0};return"fixed"===n.css(c,"position")?b=c.getBoundingClientRect():(a=this.offsetParent(),b=this.offset(),n.nodeName(a[0],"html")||(d=a.offset()),d.top+=n.css(a[0],"borderTopWidth",!0),d.left+=n.css(a[0],"borderLeftWidth",!0)),{top:b.top-d.top-n.css(c,"marginTop",!0),left:b.left-d.left-n.css(c,"marginLeft",!0)}}},offsetParent:function(){return this.map(function(){var a=this.offsetParent||Jc;while(a&&!n.nodeName(a,"html")&&"static"===n.css(a,"position"))a=a.offsetParent;return a||Jc})}}),n.each({scrollLeft:"pageXOffset",scrollTop:"pageYOffset"},function(b,c){var d="pageYOffset"===c;n.fn[b]=function(e){return J(this,function(b,e,f){var g=Kc(b);return void 0===f?g?g[c]:b[e]:void(g?g.scrollTo(d?a.pageXOffset:f,d?f:a.pageYOffset):b[e]=f)},b,e,arguments.length,null)}}),n.each(["top","left"],function(a,b){n.cssHooks[b]=yb(k.pixelPosition,function(a,c){return c?(c=xb(a,b),vb.test(c)?n(a).position()[b]+"px":c):void 0})}),n.each({Height:"height",Width:"width"},function(a,b){n.each({padding:"inner"+a,content:b,"":"outer"+a},function(c,d){n.fn[d]=function(d,e){var f=arguments.length&&(c||"boolean"!=typeof d),g=c||(d===!0||e===!0?"margin":"border");return J(this,function(b,c,d){var e;return n.isWindow(b)?b.document.documentElement["client"+a]:9===b.nodeType?(e=b.documentElement,Math.max(b.body["scroll"+a],e["scroll"+a],b.body["offset"+a],e["offset"+a],e["client"+a])):void 0===d?n.css(b,c,g):n.style(b,c,d,g)},b,f?d:void 0,f,null)}})}),n.fn.size=function(){return this.length},n.fn.andSelf=n.fn.addBack,"function"==typeof define&&define.amd&&define("jquery",[],function(){return n});var Lc=a.jQuery,Mc=a.$;return n.noConflict=function(b){return a.$===n&&(a.$=Mc),b&&a.jQuery===n&&(a.jQuery=Lc),n},typeof b===U&&(a.jQuery=a.$=n),n});
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
197 //# sourceMappingURL=jquery.min.map</script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
198 <script>/*!
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
199 * Bootstrap v3.3.1 (http://getbootstrap.com)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
200 * Copyright 2011-2014 Twitter, Inc.
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
201 * Licensed under MIT (https://github.com/twbs/bootstrap/blob/master/LICENSE)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
202 */
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
203 if("undefined"==typeof jQuery)throw new Error("Bootstrap's JavaScript requires jQuery");+function(a){var b=a.fn.jquery.split(" ")[0].split(".");if(b[0]<2&&b[1]<9||1==b[0]&&9==b[1]&&b[2]<1)throw new Error("Bootstrap's JavaScript requires jQuery version 1.9.1 or higher")}(jQuery),+function(a){"use strict";function b(){var a=document.createElement("bootstrap"),b={WebkitTransition:"webkitTransitionEnd",MozTransition:"transitionend",OTransition:"oTransitionEnd otransitionend",transition:"transitionend"};for(var c in b)if(void 0!==a.style[c])return{end:b[c]};return!1}a.fn.emulateTransitionEnd=function(b){var c=!1,d=this;a(this).one("bsTransitionEnd",function(){c=!0});var e=function(){c||a(d).trigger(a.support.transition.end)};return setTimeout(e,b),this},a(function(){a.support.transition=b(),a.support.transition&&(a.event.special.bsTransitionEnd={bindType:a.support.transition.end,delegateType:a.support.transition.end,handle:function(b){return a(b.target).is(this)?b.handleObj.handler.apply(this,arguments):void 0}})})}(jQuery),+function(a){"use strict";function b(b){return this.each(function(){var c=a(this),e=c.data("bs.alert");e||c.data("bs.alert",e=new d(this)),"string"==typeof b&&e[b].call(c)})}var c='[data-dismiss="alert"]',d=function(b){a(b).on("click",c,this.close)};d.VERSION="3.3.1",d.TRANSITION_DURATION=150,d.prototype.close=function(b){function c(){g.detach().trigger("closed.bs.alert").remove()}var e=a(this),f=e.attr("data-target");f||(f=e.attr("href"),f=f&&f.replace(/.*(?=#[^\s]*$)/,""));var g=a(f);b&&b.preventDefault(),g.length||(g=e.closest(".alert")),g.trigger(b=a.Event("close.bs.alert")),b.isDefaultPrevented()||(g.removeClass("in"),a.support.transition&&g.hasClass("fade")?g.one("bsTransitionEnd",c).emulateTransitionEnd(d.TRANSITION_DURATION):c())};var e=a.fn.alert;a.fn.alert=b,a.fn.alert.Constructor=d,a.fn.alert.noConflict=function(){return a.fn.alert=e,this},a(document).on("click.bs.alert.data-api",c,d.prototype.close)}(jQuery),+function(a){"use strict";function b(b){return this.each(function(){var d=a(this),e=d.data("bs.button"),f="object"==typeof b&&b;e||d.data("bs.button",e=new c(this,f)),"toggle"==b?e.toggle():b&&e.setState(b)})}var c=function(b,d){this.$element=a(b),this.options=a.extend({},c.DEFAULTS,d),this.isLoading=!1};c.VERSION="3.3.1",c.DEFAULTS={loadingText:"loading..."},c.prototype.setState=function(b){var c="disabled",d=this.$element,e=d.is("input")?"val":"html",f=d.data();b+="Text",null==f.resetText&&d.data("resetText",d[e]()),setTimeout(a.proxy(function(){d[e](null==f[b]?this.options[b]:f[b]),"loadingText"==b?(this.isLoading=!0,d.addClass(c).attr(c,c)):this.isLoading&&(this.isLoading=!1,d.removeClass(c).removeAttr(c))},this),0)},c.prototype.toggle=function(){var a=!0,b=this.$element.closest('[data-toggle="buttons"]');if(b.length){var c=this.$element.find("input");"radio"==c.prop("type")&&(c.prop("checked")&&this.$element.hasClass("active")?a=!1:b.find(".active").removeClass("active")),a&&c.prop("checked",!this.$element.hasClass("active")).trigger("change")}else this.$element.attr("aria-pressed",!this.$element.hasClass("active"));a&&this.$element.toggleClass("active")};var d=a.fn.button;a.fn.button=b,a.fn.button.Constructor=c,a.fn.button.noConflict=function(){return a.fn.button=d,this},a(document).on("click.bs.button.data-api",'[data-toggle^="button"]',function(c){var d=a(c.target);d.hasClass("btn")||(d=d.closest(".btn")),b.call(d,"toggle"),c.preventDefault()}).on("focus.bs.button.data-api blur.bs.button.data-api",'[data-toggle^="button"]',function(b){a(b.target).closest(".btn").toggleClass("focus",/^focus(in)?$/.test(b.type))})}(jQuery),+function(a){"use strict";function b(b){return this.each(function(){var d=a(this),e=d.data("bs.carousel"),f=a.extend({},c.DEFAULTS,d.data(),"object"==typeof b&&b),g="string"==typeof b?b:f.slide;e||d.data("bs.carousel",e=new c(this,f)),"number"==typeof b?e.to(b):g?e[g]():f.interval&&e.pause().cycle()})}var c=function(b,c){this.$element=a(b),this.$indicators=this.$element.find(".carousel-indicators"),this.options=c,this.paused=this.sliding=this.interval=this.$active=this.$items=null,this.options.keyboard&&this.$element.on("keydown.bs.carousel",a.proxy(this.keydown,this)),"hover"==this.options.pause&&!("ontouchstart"in document.documentElement)&&this.$element.on("mouseenter.bs.carousel",a.proxy(this.pause,this)).on("mouseleave.bs.carousel",a.proxy(this.cycle,this))};c.VERSION="3.3.1",c.TRANSITION_DURATION=600,c.DEFAULTS={interval:5e3,pause:"hover",wrap:!0,keyboard:!0},c.prototype.keydown=function(a){if(!/input|textarea/i.test(a.target.tagName)){switch(a.which){case 37:this.prev();break;case 39:this.next();break;default:return}a.preventDefault()}},c.prototype.cycle=function(b){return b||(this.paused=!1),this.interval&&clearInterval(this.interval),this.options.interval&&!this.paused&&(this.interval=setInterval(a.proxy(this.next,this),this.options.interval)),this},c.prototype.getItemIndex=function(a){return this.$items=a.parent().children(".item"),this.$items.index(a||this.$active)},c.prototype.getItemForDirection=function(a,b){var c="prev"==a?-1:1,d=this.getItemIndex(b),e=(d+c)%this.$items.length;return this.$items.eq(e)},c.prototype.to=function(a){var b=this,c=this.getItemIndex(this.$active=this.$element.find(".item.active"));return a>this.$items.length-1||0>a?void 0:this.sliding?this.$element.one("slid.bs.carousel",function(){b.to(a)}):c==a?this.pause().cycle():this.slide(a>c?"next":"prev",this.$items.eq(a))},c.prototype.pause=function(b){return b||(this.paused=!0),this.$element.find(".next, .prev").length&&a.support.transition&&(this.$element.trigger(a.support.transition.end),this.cycle(!0)),this.interval=clearInterval(this.interval),this},c.prototype.next=function(){return this.sliding?void 0:this.slide("next")},c.prototype.prev=function(){return this.sliding?void 0:this.slide("prev")},c.prototype.slide=function(b,d){var e=this.$element.find(".item.active"),f=d||this.getItemForDirection(b,e),g=this.interval,h="next"==b?"left":"right",i="next"==b?"first":"last",j=this;if(!f.length){if(!this.options.wrap)return;f=this.$element.find(".item")[i]()}if(f.hasClass("active"))return this.sliding=!1;var k=f[0],l=a.Event("slide.bs.carousel",{relatedTarget:k,direction:h});if(this.$element.trigger(l),!l.isDefaultPrevented()){if(this.sliding=!0,g&&this.pause(),this.$indicators.length){this.$indicators.find(".active").removeClass("active");var m=a(this.$indicators.children()[this.getItemIndex(f)]);m&&m.addClass("active")}var n=a.Event("slid.bs.carousel",{relatedTarget:k,direction:h});return a.support.transition&&this.$element.hasClass("slide")?(f.addClass(b),f[0].offsetWidth,e.addClass(h),f.addClass(h),e.one("bsTransitionEnd",function(){f.removeClass([b,h].join(" ")).addClass("active"),e.removeClass(["active",h].join(" ")),j.sliding=!1,setTimeout(function(){j.$element.trigger(n)},0)}).emulateTransitionEnd(c.TRANSITION_DURATION)):(e.removeClass("active"),f.addClass("active"),this.sliding=!1,this.$element.trigger(n)),g&&this.cycle(),this}};var d=a.fn.carousel;a.fn.carousel=b,a.fn.carousel.Constructor=c,a.fn.carousel.noConflict=function(){return a.fn.carousel=d,this};var e=function(c){var d,e=a(this),f=a(e.attr("data-target")||(d=e.attr("href"))&&d.replace(/.*(?=#[^\s]+$)/,""));if(f.hasClass("carousel")){var g=a.extend({},f.data(),e.data()),h=e.attr("data-slide-to");h&&(g.interval=!1),b.call(f,g),h&&f.data("bs.carousel").to(h),c.preventDefault()}};a(document).on("click.bs.carousel.data-api","[data-slide]",e).on("click.bs.carousel.data-api","[data-slide-to]",e),a(window).on("load",function(){a('[data-ride="carousel"]').each(function(){var c=a(this);b.call(c,c.data())})})}(jQuery),+function(a){"use strict";function b(b){var c,d=b.attr("data-target")||(c=b.attr("href"))&&c.replace(/.*(?=#[^\s]+$)/,"");return a(d)}function c(b){return this.each(function(){var c=a(this),e=c.data("bs.collapse"),f=a.extend({},d.DEFAULTS,c.data(),"object"==typeof b&&b);!e&&f.toggle&&"show"==b&&(f.toggle=!1),e||c.data("bs.collapse",e=new d(this,f)),"string"==typeof b&&e[b]()})}var d=function(b,c){this.$element=a(b),this.options=a.extend({},d.DEFAULTS,c),this.$trigger=a(this.options.trigger).filter('[href="#'+b.id+'"], [data-target="#'+b.id+'"]'),this.transitioning=null,this.options.parent?this.$parent=this.getParent():this.addAriaAndCollapsedClass(this.$element,this.$trigger),this.options.toggle&&this.toggle()};d.VERSION="3.3.1",d.TRANSITION_DURATION=350,d.DEFAULTS={toggle:!0,trigger:'[data-toggle="collapse"]'},d.prototype.dimension=function(){var a=this.$element.hasClass("width");return a?"width":"height"},d.prototype.show=function(){if(!this.transitioning&&!this.$element.hasClass("in")){var b,e=this.$parent&&this.$parent.find("> .panel").children(".in, .collapsing");if(!(e&&e.length&&(b=e.data("bs.collapse"),b&&b.transitioning))){var f=a.Event("show.bs.collapse");if(this.$element.trigger(f),!f.isDefaultPrevented()){e&&e.length&&(c.call(e,"hide"),b||e.data("bs.collapse",null));var g=this.dimension();this.$element.removeClass("collapse").addClass("collapsing")[g](0).attr("aria-expanded",!0),this.$trigger.removeClass("collapsed").attr("aria-expanded",!0),this.transitioning=1;var h=function(){this.$element.removeClass("collapsing").addClass("collapse in")[g](""),this.transitioning=0,this.$element.trigger("shown.bs.collapse")};if(!a.support.transition)return h.call(this);var i=a.camelCase(["scroll",g].join("-"));this.$element.one("bsTransitionEnd",a.proxy(h,this)).emulateTransitionEnd(d.TRANSITION_DURATION)[g](this.$element[0][i])}}}},d.prototype.hide=function(){if(!this.transitioning&&this.$element.hasClass("in")){var b=a.Event("hide.bs.collapse");if(this.$element.trigger(b),!b.isDefaultPrevented()){var c=this.dimension();this.$element[c](this.$element[c]())[0].offsetHeight,this.$element.addClass("collapsing").removeClass("collapse in").attr("aria-expanded",!1),this.$trigger.addClass("collapsed").attr("aria-expanded",!1),this.transitioning=1;var e=function(){this.transitioning=0,this.$element.removeClass("collapsing").addClass("collapse").trigger("hidden.bs.collapse")};return a.support.transition?void this.$element[c](0).one("bsTransitionEnd",a.proxy(e,this)).emulateTransitionEnd(d.TRANSITION_DURATION):e.call(this)}}},d.prototype.toggle=function(){this[this.$element.hasClass("in")?"hide":"show"]()},d.prototype.getParent=function(){return a(this.options.parent).find('[data-toggle="collapse"][data-parent="'+this.options.parent+'"]').each(a.proxy(function(c,d){var e=a(d);this.addAriaAndCollapsedClass(b(e),e)},this)).end()},d.prototype.addAriaAndCollapsedClass=function(a,b){var c=a.hasClass("in");a.attr("aria-expanded",c),b.toggleClass("collapsed",!c).attr("aria-expanded",c)};var e=a.fn.collapse;a.fn.collapse=c,a.fn.collapse.Constructor=d,a.fn.collapse.noConflict=function(){return a.fn.collapse=e,this},a(document).on("click.bs.collapse.data-api",'[data-toggle="collapse"]',function(d){var e=a(this);e.attr("data-target")||d.preventDefault();var f=b(e),g=f.data("bs.collapse"),h=g?"toggle":a.extend({},e.data(),{trigger:this});c.call(f,h)})}(jQuery),+function(a){"use strict";function b(b){b&&3===b.which||(a(e).remove(),a(f).each(function(){var d=a(this),e=c(d),f={relatedTarget:this};e.hasClass("open")&&(e.trigger(b=a.Event("hide.bs.dropdown",f)),b.isDefaultPrevented()||(d.attr("aria-expanded","false"),e.removeClass("open").trigger("hidden.bs.dropdown",f)))}))}function c(b){var c=b.attr("data-target");c||(c=b.attr("href"),c=c&&/#[A-Za-z]/.test(c)&&c.replace(/.*(?=#[^\s]*$)/,""));var d=c&&a(c);return d&&d.length?d:b.parent()}function d(b){return this.each(function(){var c=a(this),d=c.data("bs.dropdown");d||c.data("bs.dropdown",d=new g(this)),"string"==typeof b&&d[b].call(c)})}var e=".dropdown-backdrop",f='[data-toggle="dropdown"]',g=function(b){a(b).on("click.bs.dropdown",this.toggle)};g.VERSION="3.3.1",g.prototype.toggle=function(d){var e=a(this);if(!e.is(".disabled, :disabled")){var f=c(e),g=f.hasClass("open");if(b(),!g){"ontouchstart"in document.documentElement&&!f.closest(".navbar-nav").length&&a('<div class="dropdown-backdrop"/>').insertAfter(a(this)).on("click",b);var h={relatedTarget:this};if(f.trigger(d=a.Event("show.bs.dropdown",h)),d.isDefaultPrevented())return;e.trigger("focus").attr("aria-expanded","true"),f.toggleClass("open").trigger("shown.bs.dropdown",h)}return!1}},g.prototype.keydown=function(b){if(/(38|40|27|32)/.test(b.which)&&!/input|textarea/i.test(b.target.tagName)){var d=a(this);if(b.preventDefault(),b.stopPropagation(),!d.is(".disabled, :disabled")){var e=c(d),g=e.hasClass("open");if(!g&&27!=b.which||g&&27==b.which)return 27==b.which&&e.find(f).trigger("focus"),d.trigger("click");var h=" li:not(.divider):visible a",i=e.find('[role="menu"]'+h+', [role="listbox"]'+h);if(i.length){var j=i.index(b.target);38==b.which&&j>0&&j--,40==b.which&&j<i.length-1&&j++,~j||(j=0),i.eq(j).trigger("focus")}}}};var h=a.fn.dropdown;a.fn.dropdown=d,a.fn.dropdown.Constructor=g,a.fn.dropdown.noConflict=function(){return a.fn.dropdown=h,this},a(document).on("click.bs.dropdown.data-api",b).on("click.bs.dropdown.data-api",".dropdown form",function(a){a.stopPropagation()}).on("click.bs.dropdown.data-api",f,g.prototype.toggle).on("keydown.bs.dropdown.data-api",f,g.prototype.keydown).on("keydown.bs.dropdown.data-api",'[role="menu"]',g.prototype.keydown).on("keydown.bs.dropdown.data-api",'[role="listbox"]',g.prototype.keydown)}(jQuery),+function(a){"use strict";function b(b,d){return this.each(function(){var e=a(this),f=e.data("bs.modal"),g=a.extend({},c.DEFAULTS,e.data(),"object"==typeof b&&b);f||e.data("bs.modal",f=new c(this,g)),"string"==typeof b?f[b](d):g.show&&f.show(d)})}var c=function(b,c){this.options=c,this.$body=a(document.body),this.$element=a(b),this.$backdrop=this.isShown=null,this.scrollbarWidth=0,this.options.remote&&this.$element.find(".modal-content").load(this.options.remote,a.proxy(function(){this.$element.trigger("loaded.bs.modal")},this))};c.VERSION="3.3.1",c.TRANSITION_DURATION=300,c.BACKDROP_TRANSITION_DURATION=150,c.DEFAULTS={backdrop:!0,keyboard:!0,show:!0},c.prototype.toggle=function(a){return this.isShown?this.hide():this.show(a)},c.prototype.show=function(b){var d=this,e=a.Event("show.bs.modal",{relatedTarget:b});this.$element.trigger(e),this.isShown||e.isDefaultPrevented()||(this.isShown=!0,this.checkScrollbar(),this.setScrollbar(),this.$body.addClass("modal-open"),this.escape(),this.resize(),this.$element.on("click.dismiss.bs.modal",'[data-dismiss="modal"]',a.proxy(this.hide,this)),this.backdrop(function(){var e=a.support.transition&&d.$element.hasClass("fade");d.$element.parent().length||d.$element.appendTo(d.$body),d.$element.show().scrollTop(0),d.options.backdrop&&d.adjustBackdrop(),d.adjustDialog(),e&&d.$element[0].offsetWidth,d.$element.addClass("in").attr("aria-hidden",!1),d.enforceFocus();var f=a.Event("shown.bs.modal",{relatedTarget:b});e?d.$element.find(".modal-dialog").one("bsTransitionEnd",function(){d.$element.trigger("focus").trigger(f)}).emulateTransitionEnd(c.TRANSITION_DURATION):d.$element.trigger("focus").trigger(f)}))},c.prototype.hide=function(b){b&&b.preventDefault(),b=a.Event("hide.bs.modal"),this.$element.trigger(b),this.isShown&&!b.isDefaultPrevented()&&(this.isShown=!1,this.escape(),this.resize(),a(document).off("focusin.bs.modal"),this.$element.removeClass("in").attr("aria-hidden",!0).off("click.dismiss.bs.modal"),a.support.transition&&this.$element.hasClass("fade")?this.$element.one("bsTransitionEnd",a.proxy(this.hideModal,this)).emulateTransitionEnd(c.TRANSITION_DURATION):this.hideModal())},c.prototype.enforceFocus=function(){a(document).off("focusin.bs.modal").on("focusin.bs.modal",a.proxy(function(a){this.$element[0]===a.target||this.$element.has(a.target).length||this.$element.trigger("focus")},this))},c.prototype.escape=function(){this.isShown&&this.options.keyboard?this.$element.on("keydown.dismiss.bs.modal",a.proxy(function(a){27==a.which&&this.hide()},this)):this.isShown||this.$element.off("keydown.dismiss.bs.modal")},c.prototype.resize=function(){this.isShown?a(window).on("resize.bs.modal",a.proxy(this.handleUpdate,this)):a(window).off("resize.bs.modal")},c.prototype.hideModal=function(){var a=this;this.$element.hide(),this.backdrop(function(){a.$body.removeClass("modal-open"),a.resetAdjustments(),a.resetScrollbar(),a.$element.trigger("hidden.bs.modal")})},c.prototype.removeBackdrop=function(){this.$backdrop&&this.$backdrop.remove(),this.$backdrop=null},c.prototype.backdrop=function(b){var d=this,e=this.$element.hasClass("fade")?"fade":"";if(this.isShown&&this.options.backdrop){var f=a.support.transition&&e;if(this.$backdrop=a('<div class="modal-backdrop '+e+'" />').prependTo(this.$element).on("click.dismiss.bs.modal",a.proxy(function(a){a.target===a.currentTarget&&("static"==this.options.backdrop?this.$element[0].focus.call(this.$element[0]):this.hide.call(this))},this)),f&&this.$backdrop[0].offsetWidth,this.$backdrop.addClass("in"),!b)return;f?this.$backdrop.one("bsTransitionEnd",b).emulateTransitionEnd(c.BACKDROP_TRANSITION_DURATION):b()}else if(!this.isShown&&this.$backdrop){this.$backdrop.removeClass("in");var g=function(){d.removeBackdrop(),b&&b()};a.support.transition&&this.$element.hasClass("fade")?this.$backdrop.one("bsTransitionEnd",g).emulateTransitionEnd(c.BACKDROP_TRANSITION_DURATION):g()}else b&&b()},c.prototype.handleUpdate=function(){this.options.backdrop&&this.adjustBackdrop(),this.adjustDialog()},c.prototype.adjustBackdrop=function(){this.$backdrop.css("height",0).css("height",this.$element[0].scrollHeight)},c.prototype.adjustDialog=function(){var a=this.$element[0].scrollHeight>document.documentElement.clientHeight;this.$element.css({paddingLeft:!this.bodyIsOverflowing&&a?this.scrollbarWidth:"",paddingRight:this.bodyIsOverflowing&&!a?this.scrollbarWidth:""})},c.prototype.resetAdjustments=function(){this.$element.css({paddingLeft:"",paddingRight:""})},c.prototype.checkScrollbar=function(){this.bodyIsOverflowing=document.body.scrollHeight>document.documentElement.clientHeight,this.scrollbarWidth=this.measureScrollbar()},c.prototype.setScrollbar=function(){var a=parseInt(this.$body.css("padding-right")||0,10);this.bodyIsOverflowing&&this.$body.css("padding-right",a+this.scrollbarWidth)},c.prototype.resetScrollbar=function(){this.$body.css("padding-right","")},c.prototype.measureScrollbar=function(){var a=document.createElement("div");a.className="modal-scrollbar-measure",this.$body.append(a);var b=a.offsetWidth-a.clientWidth;return this.$body[0].removeChild(a),b};var d=a.fn.modal;a.fn.modal=b,a.fn.modal.Constructor=c,a.fn.modal.noConflict=function(){return a.fn.modal=d,this},a(document).on("click.bs.modal.data-api",'[data-toggle="modal"]',function(c){var d=a(this),e=d.attr("href"),f=a(d.attr("data-target")||e&&e.replace(/.*(?=#[^\s]+$)/,"")),g=f.data("bs.modal")?"toggle":a.extend({remote:!/#/.test(e)&&e},f.data(),d.data());d.is("a")&&c.preventDefault(),f.one("show.bs.modal",function(a){a.isDefaultPrevented()||f.one("hidden.bs.modal",function(){d.is(":visible")&&d.trigger("focus")})}),b.call(f,g,this)})}(jQuery),+function(a){"use strict";function b(b){return this.each(function(){var d=a(this),e=d.data("bs.tooltip"),f="object"==typeof b&&b,g=f&&f.selector;(e||"destroy"!=b)&&(g?(e||d.data("bs.tooltip",e={}),e[g]||(e[g]=new c(this,f))):e||d.data("bs.tooltip",e=new c(this,f)),"string"==typeof b&&e[b]())})}var c=function(a,b){this.type=this.options=this.enabled=this.timeout=this.hoverState=this.$element=null,this.init("tooltip",a,b)};c.VERSION="3.3.1",c.TRANSITION_DURATION=150,c.DEFAULTS={animation:!0,placement:"top",selector:!1,template:'<div class="tooltip" role="tooltip"><div class="tooltip-arrow"></div><div class="tooltip-inner"></div></div>',trigger:"hover focus",title:"",delay:0,html:!1,container:!1,viewport:{selector:"body",padding:0}},c.prototype.init=function(b,c,d){this.enabled=!0,this.type=b,this.$element=a(c),this.options=this.getOptions(d),this.$viewport=this.options.viewport&&a(this.options.viewport.selector||this.options.viewport);for(var e=this.options.trigger.split(" "),f=e.length;f--;){var g=e[f];if("click"==g)this.$element.on("click."+this.type,this.options.selector,a.proxy(this.toggle,this));else if("manual"!=g){var h="hover"==g?"mouseenter":"focusin",i="hover"==g?"mouseleave":"focusout";this.$element.on(h+"."+this.type,this.options.selector,a.proxy(this.enter,this)),this.$element.on(i+"."+this.type,this.options.selector,a.proxy(this.leave,this))}}this.options.selector?this._options=a.extend({},this.options,{trigger:"manual",selector:""}):this.fixTitle()},c.prototype.getDefaults=function(){return c.DEFAULTS},c.prototype.getOptions=function(b){return b=a.extend({},this.getDefaults(),this.$element.data(),b),b.delay&&"number"==typeof b.delay&&(b.delay={show:b.delay,hide:b.delay}),b},c.prototype.getDelegateOptions=function(){var b={},c=this.getDefaults();return this._options&&a.each(this._options,function(a,d){c[a]!=d&&(b[a]=d)}),b},c.prototype.enter=function(b){var c=b instanceof this.constructor?b:a(b.currentTarget).data("bs."+this.type);return c&&c.$tip&&c.$tip.is(":visible")?void(c.hoverState="in"):(c||(c=new this.constructor(b.currentTarget,this.getDelegateOptions()),a(b.currentTarget).data("bs."+this.type,c)),clearTimeout(c.timeout),c.hoverState="in",c.options.delay&&c.options.delay.show?void(c.timeout=setTimeout(function(){"in"==c.hoverState&&c.show()},c.options.delay.show)):c.show())},c.prototype.leave=function(b){var c=b instanceof this.constructor?b:a(b.currentTarget).data("bs."+this.type);return c||(c=new this.constructor(b.currentTarget,this.getDelegateOptions()),a(b.currentTarget).data("bs."+this.type,c)),clearTimeout(c.timeout),c.hoverState="out",c.options.delay&&c.options.delay.hide?void(c.timeout=setTimeout(function(){"out"==c.hoverState&&c.hide()},c.options.delay.hide)):c.hide()},c.prototype.show=function(){var b=a.Event("show.bs."+this.type);if(this.hasContent()&&this.enabled){this.$element.trigger(b);var d=a.contains(this.$element[0].ownerDocument.documentElement,this.$element[0]);if(b.isDefaultPrevented()||!d)return;var e=this,f=this.tip(),g=this.getUID(this.type);this.setContent(),f.attr("id",g),this.$element.attr("aria-describedby",g),this.options.animation&&f.addClass("fade");var h="function"==typeof this.options.placement?this.options.placement.call(this,f[0],this.$element[0]):this.options.placement,i=/\s?auto?\s?/i,j=i.test(h);j&&(h=h.replace(i,"")||"top"),f.detach().css({top:0,left:0,display:"block"}).addClass(h).data("bs."+this.type,this),this.options.container?f.appendTo(this.options.container):f.insertAfter(this.$element);var k=this.getPosition(),l=f[0].offsetWidth,m=f[0].offsetHeight;if(j){var n=h,o=this.options.container?a(this.options.container):this.$element.parent(),p=this.getPosition(o);h="bottom"==h&&k.bottom+m>p.bottom?"top":"top"==h&&k.top-m<p.top?"bottom":"right"==h&&k.right+l>p.width?"left":"left"==h&&k.left-l<p.left?"right":h,f.removeClass(n).addClass(h)}var q=this.getCalculatedOffset(h,k,l,m);this.applyPlacement(q,h);var r=function(){var a=e.hoverState;e.$element.trigger("shown.bs."+e.type),e.hoverState=null,"out"==a&&e.leave(e)};a.support.transition&&this.$tip.hasClass("fade")?f.one("bsTransitionEnd",r).emulateTransitionEnd(c.TRANSITION_DURATION):r()}},c.prototype.applyPlacement=function(b,c){var d=this.tip(),e=d[0].offsetWidth,f=d[0].offsetHeight,g=parseInt(d.css("margin-top"),10),h=parseInt(d.css("margin-left"),10);isNaN(g)&&(g=0),isNaN(h)&&(h=0),b.top=b.top+g,b.left=b.left+h,a.offset.setOffset(d[0],a.extend({using:function(a){d.css({top:Math.round(a.top),left:Math.round(a.left)})}},b),0),d.addClass("in");var i=d[0].offsetWidth,j=d[0].offsetHeight;"top"==c&&j!=f&&(b.top=b.top+f-j);var k=this.getViewportAdjustedDelta(c,b,i,j);k.left?b.left+=k.left:b.top+=k.top;var l=/top|bottom/.test(c),m=l?2*k.left-e+i:2*k.top-f+j,n=l?"offsetWidth":"offsetHeight";d.offset(b),this.replaceArrow(m,d[0][n],l)},c.prototype.replaceArrow=function(a,b,c){this.arrow().css(c?"left":"top",50*(1-a/b)+"%").css(c?"top":"left","")},c.prototype.setContent=function(){var a=this.tip(),b=this.getTitle();a.find(".tooltip-inner")[this.options.html?"html":"text"](b),a.removeClass("fade in top bottom left right")},c.prototype.hide=function(b){function d(){"in"!=e.hoverState&&f.detach(),e.$element.removeAttr("aria-describedby").trigger("hidden.bs."+e.type),b&&b()}var e=this,f=this.tip(),g=a.Event("hide.bs."+this.type);return this.$element.trigger(g),g.isDefaultPrevented()?void 0:(f.removeClass("in"),a.support.transition&&this.$tip.hasClass("fade")?f.one("bsTransitionEnd",d).emulateTransitionEnd(c.TRANSITION_DURATION):d(),this.hoverState=null,this)},c.prototype.fixTitle=function(){var a=this.$element;(a.attr("title")||"string"!=typeof a.attr("data-original-title"))&&a.attr("data-original-title",a.attr("title")||"").attr("title","")},c.prototype.hasContent=function(){return this.getTitle()},c.prototype.getPosition=function(b){b=b||this.$element;var c=b[0],d="BODY"==c.tagName,e=c.getBoundingClientRect();null==e.width&&(e=a.extend({},e,{width:e.right-e.left,height:e.bottom-e.top}));var f=d?{top:0,left:0}:b.offset(),g={scroll:d?document.documentElement.scrollTop||document.body.scrollTop:b.scrollTop()},h=d?{width:a(window).width(),height:a(window).height()}:null;return a.extend({},e,g,h,f)},c.prototype.getCalculatedOffset=function(a,b,c,d){return"bottom"==a?{top:b.top+b.height,left:b.left+b.width/2-c/2}:"top"==a?{top:b.top-d,left:b.left+b.width/2-c/2}:"left"==a?{top:b.top+b.height/2-d/2,left:b.left-c}:{top:b.top+b.height/2-d/2,left:b.left+b.width}},c.prototype.getViewportAdjustedDelta=function(a,b,c,d){var e={top:0,left:0};if(!this.$viewport)return e;var f=this.options.viewport&&this.options.viewport.padding||0,g=this.getPosition(this.$viewport);if(/right|left/.test(a)){var h=b.top-f-g.scroll,i=b.top+f-g.scroll+d;h<g.top?e.top=g.top-h:i>g.top+g.height&&(e.top=g.top+g.height-i)}else{var j=b.left-f,k=b.left+f+c;j<g.left?e.left=g.left-j:k>g.width&&(e.left=g.left+g.width-k)}return e},c.prototype.getTitle=function(){var a,b=this.$element,c=this.options;return a=b.attr("data-original-title")||("function"==typeof c.title?c.title.call(b[0]):c.title)},c.prototype.getUID=function(a){do a+=~~(1e6*Math.random());while(document.getElementById(a));return a},c.prototype.tip=function(){return this.$tip=this.$tip||a(this.options.template)},c.prototype.arrow=function(){return this.$arrow=this.$arrow||this.tip().find(".tooltip-arrow")},c.prototype.enable=function(){this.enabled=!0},c.prototype.disable=function(){this.enabled=!1},c.prototype.toggleEnabled=function(){this.enabled=!this.enabled},c.prototype.toggle=function(b){var c=this;b&&(c=a(b.currentTarget).data("bs."+this.type),c||(c=new this.constructor(b.currentTarget,this.getDelegateOptions()),a(b.currentTarget).data("bs."+this.type,c))),c.tip().hasClass("in")?c.leave(c):c.enter(c)},c.prototype.destroy=function(){var a=this;clearTimeout(this.timeout),this.hide(function(){a.$element.off("."+a.type).removeData("bs."+a.type)})};var d=a.fn.tooltip;a.fn.tooltip=b,a.fn.tooltip.Constructor=c,a.fn.tooltip.noConflict=function(){return a.fn.tooltip=d,this}}(jQuery),+function(a){"use strict";function b(b){return this.each(function(){var d=a(this),e=d.data("bs.popover"),f="object"==typeof b&&b,g=f&&f.selector;(e||"destroy"!=b)&&(g?(e||d.data("bs.popover",e={}),e[g]||(e[g]=new c(this,f))):e||d.data("bs.popover",e=new c(this,f)),"string"==typeof b&&e[b]())})}var c=function(a,b){this.init("popover",a,b)};if(!a.fn.tooltip)throw new Error("Popover requires tooltip.js");c.VERSION="3.3.1",c.DEFAULTS=a.extend({},a.fn.tooltip.Constructor.DEFAULTS,{placement:"right",trigger:"click",content:"",template:'<div class="popover" role="tooltip"><div class="arrow"></div><h3 class="popover-title"></h3><div class="popover-content"></div></div>'}),c.prototype=a.extend({},a.fn.tooltip.Constructor.prototype),c.prototype.constructor=c,c.prototype.getDefaults=function(){return c.DEFAULTS},c.prototype.setContent=function(){var a=this.tip(),b=this.getTitle(),c=this.getContent();a.find(".popover-title")[this.options.html?"html":"text"](b),a.find(".popover-content").children().detach().end()[this.options.html?"string"==typeof c?"html":"append":"text"](c),a.removeClass("fade top bottom left right in"),a.find(".popover-title").html()||a.find(".popover-title").hide()},c.prototype.hasContent=function(){return this.getTitle()||this.getContent()},c.prototype.getContent=function(){var a=this.$element,b=this.options;return a.attr("data-content")||("function"==typeof b.content?b.content.call(a[0]):b.content)},c.prototype.arrow=function(){return this.$arrow=this.$arrow||this.tip().find(".arrow")},c.prototype.tip=function(){return this.$tip||(this.$tip=a(this.options.template)),this.$tip};var d=a.fn.popover;a.fn.popover=b,a.fn.popover.Constructor=c,a.fn.popover.noConflict=function(){return a.fn.popover=d,this}}(jQuery),+function(a){"use strict";function b(c,d){var e=a.proxy(this.process,this);this.$body=a("body"),this.$scrollElement=a(a(c).is("body")?window:c),this.options=a.extend({},b.DEFAULTS,d),this.selector=(this.options.target||"")+" .nav li > a",this.offsets=[],this.targets=[],this.activeTarget=null,this.scrollHeight=0,this.$scrollElement.on("scroll.bs.scrollspy",e),this.refresh(),this.process()}function c(c){return this.each(function(){var d=a(this),e=d.data("bs.scrollspy"),f="object"==typeof c&&c;e||d.data("bs.scrollspy",e=new b(this,f)),"string"==typeof c&&e[c]()})}b.VERSION="3.3.1",b.DEFAULTS={offset:10},b.prototype.getScrollHeight=function(){return this.$scrollElement[0].scrollHeight||Math.max(this.$body[0].scrollHeight,document.documentElement.scrollHeight)},b.prototype.refresh=function(){var b="offset",c=0;a.isWindow(this.$scrollElement[0])||(b="position",c=this.$scrollElement.scrollTop()),this.offsets=[],this.targets=[],this.scrollHeight=this.getScrollHeight();var d=this;this.$body.find(this.selector).map(function(){var d=a(this),e=d.data("target")||d.attr("href"),f=/^#./.test(e)&&a(e);return f&&f.length&&f.is(":visible")&&[[f[b]().top+c,e]]||null}).sort(function(a,b){return a[0]-b[0]}).each(function(){d.offsets.push(this[0]),d.targets.push(this[1])})},b.prototype.process=function(){var a,b=this.$scrollElement.scrollTop()+this.options.offset,c=this.getScrollHeight(),d=this.options.offset+c-this.$scrollElement.height(),e=this.offsets,f=this.targets,g=this.activeTarget;if(this.scrollHeight!=c&&this.refresh(),b>=d)return g!=(a=f[f.length-1])&&this.activate(a);if(g&&b<e[0])return this.activeTarget=null,this.clear();for(a=e.length;a--;)g!=f[a]&&b>=e[a]&&(!e[a+1]||b<=e[a+1])&&this.activate(f[a])},b.prototype.activate=function(b){this.activeTarget=b,this.clear();var c=this.selector+'[data-target="'+b+'"],'+this.selector+'[href="'+b+'"]',d=a(c).parents("li").addClass("active");d.parent(".dropdown-menu").length&&(d=d.closest("li.dropdown").addClass("active")),d.trigger("activate.bs.scrollspy")},b.prototype.clear=function(){a(this.selector).parentsUntil(this.options.target,".active").removeClass("active")};var d=a.fn.scrollspy;a.fn.scrollspy=c,a.fn.scrollspy.Constructor=b,a.fn.scrollspy.noConflict=function(){return a.fn.scrollspy=d,this},a(window).on("load.bs.scrollspy.data-api",function(){a('[data-spy="scroll"]').each(function(){var b=a(this);c.call(b,b.data())})})}(jQuery),+function(a){"use strict";function b(b){return this.each(function(){var d=a(this),e=d.data("bs.tab");e||d.data("bs.tab",e=new c(this)),"string"==typeof b&&e[b]()})}var c=function(b){this.element=a(b)};c.VERSION="3.3.1",c.TRANSITION_DURATION=150,c.prototype.show=function(){var b=this.element,c=b.closest("ul:not(.dropdown-menu)"),d=b.data("target");if(d||(d=b.attr("href"),d=d&&d.replace(/.*(?=#[^\s]*$)/,"")),!b.parent("li").hasClass("active")){var e=c.find(".active:last a"),f=a.Event("hide.bs.tab",{relatedTarget:b[0]}),g=a.Event("show.bs.tab",{relatedTarget:e[0]});if(e.trigger(f),b.trigger(g),!g.isDefaultPrevented()&&!f.isDefaultPrevented()){var h=a(d);this.activate(b.closest("li"),c),this.activate(h,h.parent(),function(){e.trigger({type:"hidden.bs.tab",relatedTarget:b[0]}),b.trigger({type:"shown.bs.tab",relatedTarget:e[0]})
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
204 })}}},c.prototype.activate=function(b,d,e){function f(){g.removeClass("active").find("> .dropdown-menu > .active").removeClass("active").end().find('[data-toggle="tab"]').attr("aria-expanded",!1),b.addClass("active").find('[data-toggle="tab"]').attr("aria-expanded",!0),h?(b[0].offsetWidth,b.addClass("in")):b.removeClass("fade"),b.parent(".dropdown-menu")&&b.closest("li.dropdown").addClass("active").end().find('[data-toggle="tab"]').attr("aria-expanded",!0),e&&e()}var g=d.find("> .active"),h=e&&a.support.transition&&(g.length&&g.hasClass("fade")||!!d.find("> .fade").length);g.length&&h?g.one("bsTransitionEnd",f).emulateTransitionEnd(c.TRANSITION_DURATION):f(),g.removeClass("in")};var d=a.fn.tab;a.fn.tab=b,a.fn.tab.Constructor=c,a.fn.tab.noConflict=function(){return a.fn.tab=d,this};var e=function(c){c.preventDefault(),b.call(a(this),"show")};a(document).on("click.bs.tab.data-api",'[data-toggle="tab"]',e).on("click.bs.tab.data-api",'[data-toggle="pill"]',e)}(jQuery),+function(a){"use strict";function b(b){return this.each(function(){var d=a(this),e=d.data("bs.affix"),f="object"==typeof b&&b;e||d.data("bs.affix",e=new c(this,f)),"string"==typeof b&&e[b]()})}var c=function(b,d){this.options=a.extend({},c.DEFAULTS,d),this.$target=a(this.options.target).on("scroll.bs.affix.data-api",a.proxy(this.checkPosition,this)).on("click.bs.affix.data-api",a.proxy(this.checkPositionWithEventLoop,this)),this.$element=a(b),this.affixed=this.unpin=this.pinnedOffset=null,this.checkPosition()};c.VERSION="3.3.1",c.RESET="affix affix-top affix-bottom",c.DEFAULTS={offset:0,target:window},c.prototype.getState=function(a,b,c,d){var e=this.$target.scrollTop(),f=this.$element.offset(),g=this.$target.height();if(null!=c&&"top"==this.affixed)return c>e?"top":!1;if("bottom"==this.affixed)return null!=c?e+this.unpin<=f.top?!1:"bottom":a-d>=e+g?!1:"bottom";var h=null==this.affixed,i=h?e:f.top,j=h?g:b;return null!=c&&c>=i?"top":null!=d&&i+j>=a-d?"bottom":!1},c.prototype.getPinnedOffset=function(){if(this.pinnedOffset)return this.pinnedOffset;this.$element.removeClass(c.RESET).addClass("affix");var a=this.$target.scrollTop(),b=this.$element.offset();return this.pinnedOffset=b.top-a},c.prototype.checkPositionWithEventLoop=function(){setTimeout(a.proxy(this.checkPosition,this),1)},c.prototype.checkPosition=function(){if(this.$element.is(":visible")){var b=this.$element.height(),d=this.options.offset,e=d.top,f=d.bottom,g=a("body").height();"object"!=typeof d&&(f=e=d),"function"==typeof e&&(e=d.top(this.$element)),"function"==typeof f&&(f=d.bottom(this.$element));var h=this.getState(g,b,e,f);if(this.affixed!=h){null!=this.unpin&&this.$element.css("top","");var i="affix"+(h?"-"+h:""),j=a.Event(i+".bs.affix");if(this.$element.trigger(j),j.isDefaultPrevented())return;this.affixed=h,this.unpin="bottom"==h?this.getPinnedOffset():null,this.$element.removeClass(c.RESET).addClass(i).trigger(i.replace("affix","affixed")+".bs.affix")}"bottom"==h&&this.$element.offset({top:g-b-f})}};var d=a.fn.affix;a.fn.affix=b,a.fn.affix.Constructor=c,a.fn.affix.noConflict=function(){return a.fn.affix=d,this},a(window).on("load",function(){a('[data-spy="affix"]').each(function(){var c=a(this),d=c.data();d.offset=d.offset||{},null!=d.offsetBottom&&(d.offset.bottom=d.offsetBottom),null!=d.offsetTop&&(d.offset.top=d.offsetTop),b.call(c,d)})})}(jQuery);</script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
205 <script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
206 var renderTestResults = function(testData) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
207 var summary = testData["summary"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
208 var numTests = summary["num_tests"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
209 var numProblems = summary["num_errors"] + summary["num_failures"] + summary["num_skips"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
210 var $overview = $("#overview-content");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
211 var $progress = $(".progress");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
212 if(numTests == 0) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
213 $overview.addClass("alert").addClass("alert-danger").text("No tests were executed.");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
214 $progress.append($('<div class="progress-bar progress-bar-warning" role="progressbar" style="width: 100%" />'));
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
215 } else if(numProblems > 0) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
216 $overview.addClass("alert").addClass("alert-danger").text("There were problems with " + numProblems + " test(s) out of " + numTests + ".");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
217 var problemPercent = (numProblems/(1.0 * numTests)) * 100.0;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
218 var successPercent = 100.0 - problemPercent;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
219 $progress.append($('<div class="progress-bar progress-bar-success" role="progressbar" style="width: ' + successPercent + '%" />'));
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
220 $progress.append($('<div class="progress-bar progress-bar-danger" role="progressbar" style="width: ' + problemPercent + '%" />'));
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
221 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
222 $overview.addClass("alert").addClass("alert-success").text("All " + numTests + " test(s) successfully executed.");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
223 $progress.append($('<div class="progress-bar progress-bar-success" role="progressbar" style="width: 100%" />'));
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
224 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
225
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
226 var $sidebar = $("#nav-sidebar-tests");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
227 for(var index in testData["tests"]) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
228 var test = testData["tests"][index];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
229 var testResult = new TestResult(test);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
230 var rawId = testResult.rawId;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
231
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
232 var panelType = testResult.passed ? "panel-success panel-success-custom" : "panel-danger panel-danger-custom";
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
233 var $panel = $('<div class="panel">');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
234 $panel.addClass(panelType);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
235
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
236 var $panelHeading = $('<div class="panel-heading">');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
237 var $panelTitle = $('<div class="panel-title">');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
238 var $a = $('<a class="collapsed" data-toggle="collapse">');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
239 $a.attr("id", rawId);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
240 $a.attr("data-target", "#collapse" + index);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
241 var testName = testResult.toolName + " (Test #" + (testResult.testIndex + 1) + (testResult.passed ? "" : ", Failed") + ")";
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
242 $a.text(testName);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
243 var $navLink = $('<a>').attr('href', '#' + rawId).text(testName)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
244 if(!testResult.passed) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
245 $navLink.addClass("text-danger text-danger-custom");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
246 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
247 $navLink.addClass("text-success text-success-custom");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
248 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
249 $sidebar.append($('<li>').append( $navLink ) );
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
250 $panelTitle.append($a)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
251 $panelHeading.append($panelTitle);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
252
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
253 var $panelBody = $('<div class="panel-body panel-collapse collapse" >');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
254 $panelBody.attr("id", "collapse" + index);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
255
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
256 var $status = $('<div>').text("status: " + testResult.status);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
257 $panelBody.append($status);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
258 if(testResult.problems.length > 0) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
259 var $problemsLabel = $('<div>').text("problems: ");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
260 var $problemsDiv = $('<div style="margin-left:10px;">');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
261 var $problemsUl = $('<ul>');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
262 for(var problemIndex in testResult.problems) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
263 $problemsUl.append($('<li>').append($('<pre>').text(testResult.problems[problemIndex])));
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
264 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
265 $problemsDiv.append($problemsUl);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
266 $panelBody.append($problemsLabel).append($problemsDiv);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
267 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
268 var $commandLabel = $('<div>command:</div>');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
269 var $stdoutLabel = $('<div>job standard output:</div>');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
270 var $stderrLabel = $('<div>job standard error:</div>');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
271 var $command;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
272 if(testResult.command !== null) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
273 $command = $('<pre class="pre-scrollable" style="margin-left:10px;">').text(testResult.command);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
274 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
275 $command = $('<div class="alert alert-warning" style="margin-left:10px;">').text("No command recorded.");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
276 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
277 var $stdout;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
278 if(testResult.stdout !== null) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
279 $stdout = $('<pre class="pre-scrollable" style="margin-left:10px;">').text(testResult.stdout);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
280 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
281 $stdout = $('<div class="alert alert-warning" style="margin-left:10px;">').text("No standard output recorded.");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
282 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
283 var $stderr;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
284 if(testResult.stderr !== null) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
285 $stderr = $('<pre class="pre-scrollable" style="margin-left:10px;">').text(testResult.stderr);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
286 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
287 $stderr = $('<div class="alert alert-warning" style="margin-left:10px;">').text("No standard error recorded.");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
288 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
289 $panelBody
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
290 .append($commandLabel)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
291 .append($command)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
292 .append($stdoutLabel)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
293 .append($stdout)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
294 .append($stderrLabel)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
295 .append($stderr);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
296 if(!testResult.passed) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
297 var $logLabel = $('<div>log:</div>');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
298 var $log = $('<pre class="pre-scrollable" style="margin-left: 10px;">').text(testResult.problemLog);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
299 $panelBody.append($logLabel).append($log);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
300 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
301
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
302 $panel.append($panelHeading).append($panelBody);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
303 $(".main").append($panel);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
304 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
305 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
306
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
307 var TestResult = function(data) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
308 this.rawId = data["id"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
309
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
310 var idParts = this.rawId.split("TestForTool_");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
311 var testMethod = idParts[idParts.length-1];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
312 var splitParts;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
313 if(testMethod.indexOf(".test_tool_") > -1) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
314 splitParts = testMethod.split(".test_tool_");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
315 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
316 splitParts = rSplit(testMethod, "_", 1);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
317 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
318 var toolName = splitParts[0];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
319 var testIndex = splitParts[1];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
320 this.toolName = toolName;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
321 this.testIndex = parseInt(testIndex);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
322 console.log(data);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
323 this.status = data["data"]["status"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
324 var job = data["data"]["job"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
325 if(job) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
326 this.stdout = data["data"]["job"]["stdout"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
327 this.stderr = data["data"]["job"]["stderr"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
328 this.command = data["data"]["job"]["command_line"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
329 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
330 this.stdout = null;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
331 this.stderr = null;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
332 this.command = null;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
333 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
334 this.problems = [];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
335 var outputProblems = data["data"]["output_problems"] || [];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
336 var executionProblem = data["data"]["execution_problem"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
337 this.problems.push.apply(this.problems, outputProblems);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
338 if(executionProblem) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
339 this.problems.push(executionProblem);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
340 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
341 this.problemLog = data["data"]["problem_log"];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
342 this.passed = (this.status == "success");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
343 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
344
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
345 // http://stackoverflow.com/questions/5202085/javascript-equivalent-of-pythons-rsplit
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
346 function rSplit(str, sep, maxsplit) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
347 var split = str.split(sep);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
348 return maxsplit ? [ split.slice(0, -maxsplit).join(sep) ].concat(split.slice(-maxsplit)) : split;
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
349 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
350
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
351
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
352 // http://stackoverflow.com/questions/19491336/get-url-parameter-jquery
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
353 function getUrlParameter(sParam)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
354 {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
355 var sPageURL = window.location.search.substring(1);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
356 var sURLVariables = sPageURL.split('&');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
357 for (var i = 0; i < sURLVariables.length; i++)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
358 {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
359 var sParameterName = sURLVariables[i].split('=');
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
360 if (sParameterName[0] == sParam)
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
361 {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
362 return sParameterName[1];
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
363 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
364 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
365 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
366 </script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
367 <script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
368 var testDataUrl = getUrlParameter("test_data_url");
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
369 if(testDataUrl) {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
370 $.ajax(
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
371 {'url': testDataUrl,
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
372 'type': 'GET',
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
373 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
374 )
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
375 .success(function(content) { renderTestResults( $.parseJSON(content) ); })
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
376 .failure(function() { alert("Failed to load test data.")} );
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
377 } else {
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
378 var test_data = {"tests": [{"data": {"status": "success", "inputs": {"ss|source": "history", "fasta": {"src": "hda", "id": "2891970512fa2d5a"}, "ss|map": {"src": "hda", "id": "5729865256bc2525"}}, "job": {"inputs": {"map": {"src": "hda", "id": "5729865256bc2525", "uuid": "053e2ad0-e168-4120-ad32-52e2416a299a"}, "fasta": {"src": "hda", "id": "2891970512fa2d5a", "uuid": "0941ec90-8b06-453f-a07d-7377fcc259fa"}}, "update_time": "2018-02-08T16:48:16.346086", "tool_id": "mothur_align_check", "outputs": {"align.check": {"src": "hda", "id": "8155e4b4bf1581ff", "uuid": "6f898177-0cce-4858-827e-c5f55957a447"}, "logfile": {"src": "hda", "id": "54f2a3a23292eb07", "uuid": "8bcb8390-ff8f-49ef-920e-edc5eea5af5e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > align.check(fasta=fasta.dat,map=map.dat)\n\n\t\tPound\tDash\tPlus\tEqual\tLoop\tTilde\tTotal\nMinimum:\t0\t0\t0\t0\t0\t0\t0\n2.5%-tile:\t0\t0\t0\t0\t0\t0\t0\n25%-tile:\t0\t0\t0\t0\t0\t0\t0\nMedian: \t0\t0\t0\t0\t0\t0\t0\n75%-tile:\t0\t0\t0\t0\t0\t0\t0\n97.5%-tile:\t0\t0\t0\t0\t0\t0\t0\nMaximum:\t0\t0\t0\t0\t0\t0\t0\n# of Seqs:\t3\n\nOutput File Names: \nfasta.align.check\n\n\nmothur > quit\nname\tpound\tdash\tplus\tequal\tloop\ttilde\ttotal\tnumseqs\nU68589\t0\t0\t0\t0\t0\t0\t0\t1\nU68590\t0\t0\t0\t0\t0\t0\t0\t1\nU68591\t0\t0\t0\t0\t0\t0\t0\t1\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_1.dat' fasta.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_2.dat' map.dat && echo 'align.check( fasta=fasta.dat, map=map.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && cat fasta.align.check", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:48:13.244725", "params": {"count": "null", "ss": "{\"source\": \"history\", \"__current_case__\": 1, \"map\": {\"values\": [{\"src\": \"hda\", \"id\": 2}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6024", "id": "54f2a3a23292eb07", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_align_check.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"ss|source": "history", "fasta": {"src": "hda", "id": "7b55dbb89df8f4e5"}, "name": {"src": "hda", "id": "683bc220e21425bb"}, "ss|map": {"src": "hda", "id": "fa6d20d0fb68383f"}}, "job": {"inputs": {"map": {"src": "hda", "id": "fa6d20d0fb68383f", "uuid": "097857e5-ed1d-4947-bce3-6fd2905a34d3"}, "fasta": {"src": "hda", "id": "7b55dbb89df8f4e5", "uuid": "bd1c7e31-c02d-42a6-aadc-13ca52654e33"}, "name": {"src": "hda", "id": "683bc220e21425bb", "uuid": "2e360511-c984-432e-85d3-1f609059f22b"}}, "update_time": "2018-02-08T16:48:40.077690", "tool_id": "mothur_align_check", "outputs": {"align.check": {"src": "hda", "id": "b842d972534ccb3e", "uuid": "a01d16ed-d559-4e00-b362-4037248e1858"}, "logfile": {"src": "hda", "id": "a90a30fafe298e1e", "uuid": "e866176f-3e93-4d33-b079-6bba2ce39eda"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > align.check(fasta=fasta.dat,name=name.dat,map=map.dat)\n\n\t\tPound\tDash\tPlus\tEqual\tLoop\tTilde\tTotal\nMinimum:\t0\t0\t0\t0\t0\t0\t0\n2.5%-tile:\t0\t0\t0\t0\t0\t0\t0\n25%-tile:\t0\t0\t0\t0\t0\t0\t0\nMedian: \t0\t0\t0\t0\t0\t0\t0\n75%-tile:\t0\t0\t0\t0\t0\t0\t0\n97.5%-tile:\t0\t0\t0\t0\t0\t0\t0\nMaximum:\t0\t0\t0\t0\t0\t0\t0\n# of unique seqs:\t3\ntotal # of seqs:\t3\n\nOutput File Names: \nfasta.align.check\n\n\nmothur > quit\nname\tpound\tdash\tplus\tequal\tloop\ttilde\ttotal\tnumseqs\nU68589\t0\t0\t0\t0\t0\t0\t0\t1\nU68590\t0\t0\t0\t0\t0\t0\t0\t1\nU68591\t0\t0\t0\t0\t0\t0\t0\t1\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_5.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_7.dat' name.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_6.dat' map.dat && echo 'align.check( fasta=fasta.dat, name=name.dat, map=map.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && cat fasta.align.check", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:48:36.966637", "params": {"count": "null", "ss": "{\"source\": \"history\", \"__current_case__\": 1, \"map\": {\"values\": [{\"src\": \"hda\", \"id\": 6}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6167", "id": "683bc220e21425bb", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_align_check.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "5449172d6ff5669b"}, "alignment|reference": {"src": "hda", "id": "9ce08b2254e4d5ed"}, "alignment|source": "history"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "5449172d6ff5669b", "uuid": "1511b135-9600-43ec-91ca-20164079249a"}, "reference": {"src": "hda", "id": "9ce08b2254e4d5ed", "uuid": "2ef10dca-7831-4e85-bab7-f42bbd443a69"}}, "update_time": "2018-02-08T16:49:00.881405", "tool_id": "mothur_align_seqs", "outputs": {"report": {"src": "hda", "id": "1ae74d26531588b0", "uuid": "5aec6e8b-0ee3-4a6f-aa99-cc598c48e677"}, "logfile": {"src": "hda", "id": "80b8022ff3f677b7", "uuid": "b8c8daf3-d155-49f0-8e41-c3be034495a8"}, "out_align": {"src": "hda", "id": "b54fb481e575bccc", "uuid": "50a15fa3-f47b-446b-b906-ca3c5b1d1d79"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > align.seqs(fasta=fasta.dat,reference=alignment.reference.dat,align=need \rleman,ksize=8,processors=1)\n\nUsing 1 processors.\n\nReading in the alignment.reference.dat template sequences...\tDONE.\nIt took 0 to read 32 sequences.\nAligning sequences from fasta.dat ...\n22\nIt took 0 secs to align 22 sequences.\n\n\nOutput File Names: \nfasta.align\nfasta.align.report\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_10.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_11.dat' alignment.reference.dat && echo 'align.seqs( fasta=fasta.dat, reference=alignment.reference.dat, align=needleman, ksize=8, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:48:57.586073", "params": {"scoring": "{\"adjust\": \"no\", \"__current_case__\": 1}", "search": "{\"method\": \"kmer\", \"__current_case__\": 0, \"ksize\": \"8\"}", "reverse": "{\"flip\": \"no\", \"__current_case__\": 1}", "align": "\"needleman\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"history\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 11}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6286", "id": "5449172d6ff5669b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_align_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"scoring|adjust": "yes", "alignment|reference": {"src": "hda", "id": "ea0b941dfbe636f8"}, "search|method": "kmer", "alignment|source": "history", "scoring|gapopen": "-6", "scoring|mismatch": "-15", "scoring|match": "2", "fasta": {"src": "hda", "id": "440a6c2b5d9efe20"}, "scoring|gapextend": "-3"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "440a6c2b5d9efe20", "uuid": "3057b911-5600-4c3c-b9f6-35b7b93693e9"}, "reference": {"src": "hda", "id": "ea0b941dfbe636f8", "uuid": "1ed348d0-821e-41d1-ac7a-4318df4ccfb4"}}, "update_time": "2018-02-08T16:49:26.757457", "tool_id": "mothur_align_seqs", "outputs": {"report": {"src": "hda", "id": "d5b3e51b7b790121", "uuid": "6d8c3d0a-b428-4f86-ae91-09e4e56c859f"}, "logfile": {"src": "hda", "id": "27ee89e2e3d631e0", "uuid": "f47ef7f7-8a17-466f-8150-4a3aa88cab8d"}, "out_align": {"src": "hda", "id": "61f03d5eef6f1538", "uuid": "5c082a64-10a1-41aa-815a-75e92ba5145a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > align.seqs(fasta=fasta.dat,reference=alignment.reference.dat,align=need \rleman,ksize=8,match=2,mismatch=-15,gapopen=-6,gapextend=-3,processors=1)\n\nUsing 1 processors.\n\nReading in the alignment.reference.dat template sequences...\tDONE.\nIt took 0 to read 32 sequences.\nAligning sequences from fasta.dat ...\n22\nIt took 0 secs to align 22 sequences.\n\n\nOutput File Names: \nfasta.align\nfasta.align.report\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_15.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_16.dat' alignment.reference.dat && echo 'align.seqs( fasta=fasta.dat, reference=alignment.reference.dat, align=needleman, ksize=8, match=2, mismatch=-15, gapopen=-6, gapextend=-3, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:49:23.290890", "params": {"scoring": "{\"gapopen\": \"-6\", \"mismatch\": \"-15\", \"adjust\": \"yes\", \"__current_case__\": 0, \"gapextend\": \"-3\", \"match\": \"2\"}", "search": "{\"method\": \"kmer\", \"__current_case__\": 0, \"ksize\": \"8\"}", "reverse": "{\"flip\": \"no\", \"__current_case__\": 1}", "align": "\"needleman\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"history\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 16}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6412", "id": "b54fb481e575bccc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_align_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"scoring|adjust": "yes", "alignment|reference": {"src": "hda", "id": "c18708cec3343c17"}, "search|method": "suffix", "align": "gotoh", "alignment|source": "history", "scoring|gapopen": "-6", "scoring|mismatch": "-15", "scoring|match": "2", "fasta": {"src": "hda", "id": "b28067233c6d9fa0"}, "scoring|gapextend": "-3"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "b28067233c6d9fa0", "uuid": "a898f88c-9854-45b4-b978-8f6e8c19a035"}, "reference": {"src": "hda", "id": "c18708cec3343c17", "uuid": "69a4e7a8-77db-46bd-8b24-a45f4df43f0b"}}, "update_time": "2018-02-08T16:49:55.216327", "tool_id": "mothur_align_seqs", "outputs": {"report": {"src": "hda", "id": "a1e670e1ea0da54b", "uuid": "302f7300-55b1-4314-9556-7004d1c9fe2c"}, "logfile": {"src": "hda", "id": "5ca39fba41b940d1", "uuid": "ec2c6d47-b9a7-4d62-b5b9-7bf44a852e2c"}, "out_align": {"src": "hda", "id": "3e4e8de146a035f5", "uuid": "edca646b-7964-4384-8097-96d24e09046f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > align.seqs(fasta=fasta.dat,reference=alignment.reference.dat,align=goto \rh,search=suffix,match=2,mismatch=-15,gapopen=-6,gapextend=-3,processors=1)\n\nUsing 1 processors.\n\nReading in the alignment.reference.dat template sequences...\tDONE.\nIt took 0 to read 32 sequences.\nAligning sequences from fasta.dat ...\n22\nIt took 0 secs to align 22 sequences.\n\n\nOutput File Names: \nfasta.align\nfasta.align.report\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_20.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_21.dat' alignment.reference.dat && echo 'align.seqs( fasta=fasta.dat, reference=alignment.reference.dat, align=gotoh, search=suffix, match=2, mismatch=-15, gapopen=-6, gapextend=-3, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:49:51.967514", "params": {"scoring": "{\"gapopen\": \"-6\", \"mismatch\": \"-15\", \"adjust\": \"yes\", \"__current_case__\": 0, \"gapextend\": \"-3\", \"match\": \"2\"}", "search": "{\"method\": \"suffix\", \"__current_case__\": 1}", "reverse": "{\"flip\": \"no\", \"__current_case__\": 1}", "align": "\"gotoh\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"history\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 21}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6539", "id": "ea0b941dfbe636f8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_align_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"reverse|threshold": "0.5", "reverse|flip": "yes", "search|method": "blast", "alignment|source": "history", "alignment|reference": {"src": "hda", "id": "0535d515f68130b3"}, "fasta": {"src": "hda", "id": "9a22496ee796fbfc"}, "align": "blast"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "9a22496ee796fbfc", "uuid": "bf930a57-cb72-465c-9544-d8fab031b1b9"}, "reference": {"src": "hda", "id": "0535d515f68130b3", "uuid": "82704b74-e2ca-4ce7-adec-4995d8f13f83"}}, "update_time": "2018-02-08T16:50:21.251688", "tool_id": "mothur_align_seqs", "outputs": {"report": {"src": "hda", "id": "073082a17e1b2f0b", "uuid": "6df7f08f-1df2-4678-9895-34a65f4be0a8"}, "flip_accnos": {"src": "hda", "id": "a908e285532ac9b0", "uuid": "8d49424e-a5ed-4167-bd8f-f1306b9ffebd"}, "logfile": {"src": "hda", "id": "238993350abc9bfd", "uuid": "6d52e61a-30c4-4bf8-bb2a-25d0aac7dcbc"}, "out_align": {"src": "hda", "id": "adba32ec9811aba7", "uuid": "d8f8e608-698b-471f-b7cb-777a2e7a7e53"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > align.seqs(fasta=fasta.dat,reference=alignment.reference.dat,align=blas \rt,search=blast,flip=true,threshold=0.5,processors=1)\n\nUsing 1 processors.\n\nReading in the alignment.reference.dat template sequences...\tDONE.\nIt took 0 to read 32 sequences.\nAligning sequences from fasta.dat ...\n22\nIt took 0 secs to align 22 sequences.\n\n\nOutput File Names: \nfasta.align\nfasta.align.report\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_25.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_26.dat' alignment.reference.dat && echo 'align.seqs( fasta=fasta.dat, reference=alignment.reference.dat, align=blast, search=blast, flip=true, threshold=0.5, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:50:17.543144", "params": {"scoring": "{\"adjust\": \"no\", \"__current_case__\": 1}", "search": "{\"method\": \"blast\", \"__current_case__\": 2}", "reverse": "{\"threshold\": \"0.5\", \"flip\": \"yes\", \"__current_case__\": 0}", "align": "\"blast\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"history\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 26}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6655", "id": "d5b3e51b7b790121", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_align_seqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"alignment|source": "history", "reverse|threshold": "0.5", "reverse|flip": "yes", "fasta": {"src": "hda", "id": "27a22803849b1486"}, "alignment|reference": {"src": "hda", "id": "3777da040b354424"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "27a22803849b1486", "uuid": "6f889445-9480-4dfe-99a4-640d4d6f292f"}, "reference": {"src": "hda", "id": "3777da040b354424", "uuid": "0d421449-2afb-4639-aa7d-92fe9f605482"}}, "update_time": "2018-02-08T16:50:51.061674", "tool_id": "mothur_align_seqs", "outputs": {"report": {"src": "hda", "id": "05f80801815deda8", "uuid": "0c8e178c-f0da-4eb3-9766-01c4c2d3416a"}, "flip_accnos": {"src": "hda", "id": "95a5ac7e4618a243", "uuid": "ff4586a2-2f5c-4ae4-9d13-3b32eccfe2b7"}, "logfile": {"src": "hda", "id": "2d785e48ad6d0148", "uuid": "676f6060-0b7f-41c4-be36-5774428ebebc"}, "out_align": {"src": "hda", "id": "840f77504195704d", "uuid": "6e22fcea-953a-4218-930d-853351145ba8"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > align.seqs(fasta=fasta.dat,reference=alignment.reference.dat,align=need \rleman,ksize=8,flip=true,threshold=0.5,processors=1)\n\nUsing 1 processors.\n\nReading in the alignment.reference.dat template sequences...\tDONE.\nIt took 0 to read 32 sequences.\nAligning sequences from fasta.dat ...\n98\n[WARNING]: Some of your sequences generated alignments that eliminated too many bases, a list is provided in fasta.flip.accnos. If the reverse compliment proved to be better it was reported.\nIt took 1 secs to align 98 sequences.\n\n\nOutput File Names: \nfasta.align\nfasta.align.report\nfasta.flip.accnos\n\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_31.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_32.dat' alignment.reference.dat && echo 'align.seqs( fasta=fasta.dat, reference=alignment.reference.dat, align=needleman, ksize=8, flip=true, threshold=0.5, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:50:47.166993", "params": {"scoring": "{\"adjust\": \"no\", \"__current_case__\": 1}", "search": "{\"method\": \"kmer\", \"__current_case__\": 0, \"ksize\": \"8\"}", "reverse": "{\"threshold\": \"0.5\", \"flip\": \"yes\", \"__current_case__\": 0}", "align": "\"needleman\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"history\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 32}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6892", "id": "5ca39fba41b940d1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_align_seqs.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"phylip": {"src": "hda", "id": "863b4912f43ba501"}, "design": {"src": "hda", "id": "a068cbb083194156"}}, "job": {"inputs": {"phylip": {"src": "hda", "id": "863b4912f43ba501", "uuid": "bd47e735-1d66-48e8-85b2-5cb23c5910da"}, "design": {"src": "hda", "id": "a068cbb083194156", "uuid": "b297c9ec-d075-46b6-a8b9-0a26269db239"}}, "update_time": "2018-02-08T16:51:24.191000", "tool_id": "mothur_amova", "outputs": {"logfile": {"src": "hda", "id": "bb70618268111ce1", "uuid": "ae1be271-e920-4241-82dc-c9c3086c860d"}, "amova": {"src": "hda", "id": "f16a54a3ef316466", "uuid": "8ee19962-9e76-40a7-8c8e-595fdc6b675a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > amova(phylip=phylip.dat,iters=1000,alpha=0.05,design=design.dat)\nA-B\tAmong\tWithin\tTotal\nSS\t0.04869\t4.72878\t4.77747\ndf\t1\t96\t97\nMS\t0.04869\t0.0492581\n\nFs:\t0.988466\np-value: 0.458\n\nExperiment-wise error rate: 0.05\nIf you have borderline P-values, you should try increasing the number of iterations\n\nOutput File Names: \nphylip.amova\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_37.dat' phylip.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_38.dat' design.dat && echo 'amova( phylip=phylip.dat, iters=1000, alpha=0.05, design=design.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:51:20.982934", "params": {"iters": "\"1000\"", "alpha": "\"0.05\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "sets": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7011", "id": "9a22496ee796fbfc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_amova.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"phylip": {"src": "hda", "id": "e511a12dc2cf12e1"}, "design": {"src": "hda", "id": "25f486d5fc93a1ce"}}, "job": {"inputs": {"phylip": {"src": "hda", "id": "e511a12dc2cf12e1", "uuid": "d9fa0ca2-ecc1-4a59-a245-4aa165e1ddd8"}, "design": {"src": "hda", "id": "25f486d5fc93a1ce", "uuid": "d8d23a72-a2c6-4587-8694-92d2d5d9694a"}}, "update_time": "2018-02-08T16:51:45.688705", "tool_id": "mothur_anosim", "outputs": {"logfile": {"src": "hda", "id": "244c246e3628fe4f", "uuid": "fd4ccc15-8aca-438d-a74b-13c4e3d53183"}, "anosim": {"src": "hda", "id": "8c9b639396181d1e", "uuid": "3fc29196-23fd-4ee4-a1cd-e44881657963"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > anosim(phylip=phylip.dat,iters=1000,alpha=0.05,design=design.dat)\n\ncomparison\tR-value\tP-value\nA-B\t-0.00786503\t0.803\n\nExperiment-wise error rate: 0.05\nIf you have borderline P-values, you should try increasing the number of iterations\n\nOutput File Names: \nphylip.anosim\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_41.dat' phylip.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_42.dat' design.dat && echo 'anosim( phylip=phylip.dat, iters=1000, alpha=0.05, design=design.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:51:42.659886", "params": {"iters": "\"1000\"", "alpha": "\"0.05\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7171", "id": "adba32ec9811aba7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_anosim.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "3f322b493a2c6407"}, "otu": {"src": "hda", "id": "616a01dfb111aa65"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "3f322b493a2c6407", "uuid": "a4414c4a-10ad-49a7-898b-ea5e812efe13"}, "otu": {"src": "hda", "id": "616a01dfb111aa65", "uuid": "7434bb32-62f4-4bf8-9c54-e7dd572a2c96"}}, "update_time": "2018-02-08T16:52:08.320737", "tool_id": "mothur_bin_seqs", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "48f3e8809447c25a", "uuid": "82255b24-0f88-412b-ac83-4169df892ddb"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "bcb334d054d0b7ff", "uuid": "07f9a0b2-3558-490b-a4be-3666561874d5"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "087a78e08fef416e", "uuid": "c09649da-75d2-42fb-87eb-f84b3d976439"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "a6b9cabbe61f73ca", "uuid": "b3af742b-d000-4a66-b58b-40ba1aa441e6"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "288a67f7f32bb2fd", "uuid": "05d8f777-6439-45d3-8728-8bb62ce73dd5"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "9649d2d367737693", "uuid": "b7db14ef-f926-478c-9efc-c902c834a38f"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "945d4aa2c8920004", "uuid": "e7446bee-fbb5-41fc-ad27-5022478132c7"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "bab99c776d4b9391", "uuid": "514147bf-71da-4aa2-9cf5-749b73813977"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "9268a0f969417b28", "uuid": "4af76395-320c-4f71-897d-101bcbe66a89"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "0e797101c95aea67", "uuid": "ae90e95f-c5d9-40a9-bb67-808f3781b410"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "4ec7f8db939dbc03", "uuid": "41e9763e-8502-4f82-987c-6bcadeac8c99"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "b908d9d86f8a3d36", "uuid": "85c4005f-926f-45f4-aed6-5a1761fdc78d"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "baa1080356b320b7", "uuid": "1d245aaa-593e-4858-bb72-99a06bd16a2b"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "f8cc3c3467afd773", "uuid": "ef61051b-92ef-4e4f-8072-f73c13337b44"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "03229f6bce6358e8", "uuid": "034876ff-b15d-4736-b637-e0b2651498ce"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "85f590476b78f8ed", "uuid": "6dddc8da-c256-41c4-8e09-5e54a864ce97"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "315992a54eac5ecc", "uuid": "46af4cfc-722a-4cfb-9e82-4b7b21b4d650"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "5e6ad6ca0afeaf24", "uuid": "f997f7fc-426f-4878-a3da-82263f0d56cf"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "ca4ebafec84c6506", "uuid": "443e82af-ee52-4570-aba4-6f6c70b2cf24"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "fed9b1622ba4118e", "uuid": "e9e9f881-f8fb-4895-ba58-3a6d576e9652"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "a94ebc130565c5b1", "uuid": "d7181b5c-5b42-4dc7-95e2-90aa2c31a4b0"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "dccb60510b24da2f", "uuid": "44a715ff-3bbe-42fb-aefa-bc39b6edb766"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "b323ca264f40001e", "uuid": "55b4447a-958d-4da0-8729-16c09d97e464"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "0ed16744ccfa2592", "uuid": "a9523881-2f20-46a2-8562-6286e628bea3"}, "logfile": {"src": "hda", "id": "25cc0305829779de", "uuid": "7d161dc7-876c-4537-9422-0f6dbbcce3b2"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "5617b66919498d02", "uuid": "7eca21fd-952c-48e9-b065-ad8faf6890f7"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "4163d05c3cc243fc", "uuid": "601b3468-2d3a-42fb-94ec-5ec4d44c5ba0"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "c57c922a3f91222f", "uuid": "210756e0-0676-4ffe-9552-6254ac608881"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "f276a8cc85beb7f0", "uuid": "e8840d4f-f1b7-4d78-ad58-d78d06ab1a97"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "0ff3854aee1a95dd", "uuid": "0e733526-2d9b-47ce-8226-86822da0cfed"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "b31f4d82ada5e956", "uuid": "efe00c7e-df09-4162-a39e-7e3ad6b6992b"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "87dca8aa4ee9d3de", "uuid": "6523651c-1ec4-4bd0-b61c-43cff9a14b35"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "a96f5ebdac2d8d75", "uuid": "276db109-89f3-4bc8-95bb-f5ed726886fc"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "fb9b740929ea3f54", "uuid": "8f1f88dd-1218-4481-922a-a4d0407edc75"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "1c6e228e19b11e1b", "uuid": "79e53fa2-5eca-41cb-94b5-6294a1de4784"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "08fbf3fbfe908f7c", "uuid": "afa5db0d-aef3-48f8-8272-f62179616e19"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "2987a55ca6380b3a", "uuid": "9ed42128-8ed0-4fb0-8899-f3675ff10a2c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > bin.seqs(fasta=fasta.dat,list=otu.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.fasta\notu.0.01.fasta\notu.0.02.fasta\notu.0.03.fasta\notu.0.04.fasta\notu.0.05.fasta\notu.0.06.fasta\notu.0.07.fasta\notu.0.08.fasta\notu.0.09.fasta\notu.0.10.fasta\notu.0.11.fasta\notu.0.12.fasta\notu.0.13.fasta\notu.0.14.fasta\notu.0.15.fasta\notu.0.16.fasta\notu.0.17.fasta\notu.0.18.fasta\notu.0.19.fasta\notu.0.20.fasta\notu.0.21.fasta\notu.0.22.fasta\notu.0.23.fasta\notu.0.24.fasta\notu.0.25.fasta\notu.0.26.fasta\notu.0.27.fasta\notu.0.29.fasta\notu.0.32.fasta\notu.0.33.fasta\notu.0.36.fasta\notu.0.38.fasta\notu.0.41.fasta\notu.0.45.fasta\notu.0.55.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' name.dat && ln -s 'None' group.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_45.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_46.dat' otu.dat && ln -s 'None' count.dat && echo 'bin.seqs( fasta=fasta.dat, list=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:52:03.131907", "params": {"count": "null", "group": "null", "name": "null", "dbkey": "\"hg17\"", "label": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7287", "id": "27a22803849b1486", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_bin_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "f1e243926043ec87"}, "label": ["0.03", "0.05", "0.22"], "group": {"src": "hda", "id": "19ec6936a7590160"}, "otu": {"src": "hda", "id": "73de4610aed2490c"}, "name": {"src": "hda", "id": "df545be7ad5cd764"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "f1e243926043ec87", "uuid": "c435f069-2cb4-401d-b4b6-f13dc04e0f48"}, "group": {"src": "hda", "id": "19ec6936a7590160", "uuid": "d4862a29-d42f-4c4c-8200-bb560e04e0fc"}, "name": {"src": "hda", "id": "df545be7ad5cd764", "uuid": "cf3ab84b-8a5c-46d0-b016-c567300ff9bd"}, "otu": {"src": "hda", "id": "73de4610aed2490c", "uuid": "630b9f6c-7e41-453f-a3a1-1e61ce6cbf73"}}, "update_time": "2018-02-08T16:52:37.247581", "tool_id": "mothur_bin_seqs", "outputs": {"__new_primary_file_0.22|0.22__": {"src": "hda", "id": "97f8596e58df898c", "uuid": "76baa1ae-3604-4d9c-b169-ccc567946ec3"}, "logfile": {"src": "hda", "id": "330fe5822b24a25f", "uuid": "5acd7d94-805c-4499-a898-0b4846b38603"}, "__new_primary_file_0.22|0.05__": {"src": "hda", "id": "adcc13f516c5d573", "uuid": "d5c89c69-11b2-4bc4-a480-785f8f546e38"}, "__new_primary_file_0.22|0.03__": {"src": "hda", "id": "3d556e8e35b754dc", "uuid": "1fe58d24-effc-454d-b5f8-aec9adaed90d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > bin.seqs(name=name.dat,group=group.dat,label=0.03-0.05-0.22,fasta=fasta \r.dat,list=otu.dat)\n0.03\n0.05\n0.22\n\nOutput File Names: \notu.0.03.fasta\notu.0.05.fasta\notu.0.22.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_86.dat' name.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_87.dat' group.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_84.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_85.dat' otu.dat && ln -s 'None' count.dat && echo 'bin.seqs( name=name.dat, group=group.dat, label=0.03-0.05-0.22, fasta=fasta.dat, list=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:52:34.180038", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\", \"0.22\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7458", "id": "95a5ac7e4618a243", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_bin_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"biom": {"src": "hda", "id": "e5cd870596a22f3d"}}, "job": {"inputs": {"biom": {"src": "hda", "id": "e5cd870596a22f3d", "uuid": "67321c4f-07f3-4496-a259-7d117cea03f2"}}, "update_time": "2018-02-08T16:52:54.726633", "tool_id": "mothur_biom_info", "outputs": {"shared": {"src": "hda", "id": "8e7a170d28bd3e46", "uuid": "4f910a6e-fda9-42b8-a952-3a560dba90af"}, "logfile": {"src": "hda", "id": "4923f2d7e29ffb4f", "uuid": "8176bc7a-5017-4c4b-9111-1e9c7ffb0df8"}, "tax.summary": {"src": "hda", "id": "facf9cd8e60ad8cf", "uuid": "97fe1137-5c9b-460b-8428-ac899fa45989"}, "taxonomy": {"src": "hda", "id": "2fd653ff8fe916b4", "uuid": "827a2b58-7246-42d2-b94f-3b732d61fefb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > biom.info(biom=input.biom,label=userLabel,basis=otu,output=simple,relab \rund=F,printlevel=-1)\n\nuserLabel\n\nIt took 0 create mothur files from your biom file.\n\n\nOutput File Names: \ninput.userLabel.shared\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_92.dat' input.biom && echo 'biom.info( biom=input.biom, label=userLabel, basis=otu, output=simple, relabund=F, printlevel=-1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:52:51.473940", "params": {"relabund": "\"false\"", "basis": "\"otu\"", "dbkey": "\"hg17\"", "label": "\"userLabel\"", "printlevel": "\"-1\"", "output": "\"simple\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7557", "id": "a068cbb083194156", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_biom_info.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"biom": {"src": "hda", "id": "27a98c5f1b1968ef"}}, "job": {"inputs": {"biom": {"src": "hda", "id": "27a98c5f1b1968ef", "uuid": "b908b050-c74b-4347-9782-3755018efab3"}}, "update_time": "2018-02-08T16:53:12.209875", "tool_id": "mothur_biom_info", "outputs": {"shared": {"src": "hda", "id": "c0ae89d2a79fffb2", "uuid": "f4472a81-c659-4978-8fd9-e91063d57521"}, "logfile": {"src": "hda", "id": "4f5573cc87ed03c8", "uuid": "49be22ce-821c-47e7-9b1a-0a27db8b435f"}, "tax.summary": {"src": "hda", "id": "b028110e32789f9f", "uuid": "29e87425-3e47-45a2-82d6-ec9b97531e8d"}, "taxonomy": {"src": "hda", "id": "7e4191b982566cec", "uuid": "01441a21-25e1-4649-a372-5bc7e9f9732f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > biom.info(biom=input.biom,label=userLabel,basis=otu,output=simple,relab \rund=F,printlevel=-1)\n\nuserLabel\n\nIt took 0 create mothur files from your biom file.\n\n\nOutput File Names: \ninput.userLabel.shared\ninput.userLabel.cons.taxonomy\ninput.userLabel.cons.tax.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_97.dat' input.biom && echo 'biom.info( biom=input.biom, label=userLabel, basis=otu, output=simple, relabund=F, printlevel=-1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:53:09.050031", "params": {"relabund": "\"false\"", "basis": "\"otu\"", "dbkey": "\"hg17\"", "label": "\"userLabel\"", "printlevel": "\"-1\"", "output": "\"simple\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7642", "id": "f16a54a3ef316466", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_biom_info.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"basis": "sequence", "output": "detail", "printlevel": "4", "label": "0.03", "biom": {"src": "hda", "id": "2aec3223e9c2f754"}}, "job": {"inputs": {"biom": {"src": "hda", "id": "2aec3223e9c2f754", "uuid": "ceb35272-ae07-460b-9c0f-c4287106f26d"}}, "update_time": "2018-02-08T16:53:39.840477", "tool_id": "mothur_biom_info", "outputs": {"shared": {"src": "hda", "id": "0a3452e55f15c193", "uuid": "88445107-8ce0-4cdf-9706-fbaa9b955b00"}, "logfile": {"src": "hda", "id": "20de7af3d288c35f", "uuid": "2c3d7d5f-12eb-4fe3-96f6-aed61451fdbd"}, "tax.summary": {"src": "hda", "id": "bd73887c155f3ede", "uuid": "b29a8bcb-c556-4272-8253-f2be5dcca19d"}, "taxonomy": {"src": "hda", "id": "7f39b8b663207ef1", "uuid": "6b18fa32-dd9f-4bcb-9063-7deafdd5c733"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > biom.info(biom=input.biom,label=0.03,basis=sequence,output=detail,relab \rund=F,printlevel=4)\n\n0.03\n\nIt took 0 create mothur files from your biom file.\n\n\nOutput File Names: \ninput.0.03.shared\ninput.0.03.cons.taxonomy\ninput.0.03.cons.tax.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_102.dat' input.biom && echo 'biom.info( biom=input.biom, label=0.03, basis=sequence, output=detail, relabund=F, printlevel=4 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:53:36.530476", "params": {"relabund": "\"false\"", "basis": "\"sequence\"", "dbkey": "\"hg17\"", "label": "\"0.03\"", "printlevel": "\"4\"", "output": "\"detail\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7734", "id": "25f486d5fc93a1ce", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_biom_info.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "69ce05044577833e"}, "window": "-1"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "69ce05044577833e", "uuid": "4a4ca0f1-a747-4892-9e90-04b34813c88f"}}, "update_time": "2018-02-08T16:54:07.782597", "tool_id": "mothur_chimera_bellerophon", "outputs": {"bellerophon.chimeras": {"src": "hda", "id": "3654d500199ce491", "uuid": "b675145d-c6c4-42df-a6e9-e4f20f2707e6"}, "logfile": {"src": "hda", "id": "4942bca139ae755c", "uuid": "b79f6a27-827d-490c-bd89-c79da2102d71"}, "bellerophon.accnos": {"src": "hda", "id": "a46b181036e98e92", "uuid": "ebae94f6-1fe2-4c17-baa8-2a033cd00057"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.bellerophon(fasta=fasta.dat,filter=False,correction=True,increm \rent=25,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nReading sequences from fasta.dat...Done.\nProcessing sliding window: 5\nM00967_43_000000000-A3JHG_1_1101_10073_7632 is a suspected chimera at breakpoint 88\nIt's score is 1.6254 with suspected left parent M00967_43_000000000-A3JHG_1_1101_8480_7498 and right parent M00967_43_000000000-A3JHG_1_1101_8480_7498\nM00967_43_000000000-A3JHG_1_1101_8480_7498 is a suspected chimera at breakpoint 88\nIt's score is 1.6254 with suspected left parent M00967_43_000000000-A3JHG_1_1101_10073_7632 and right parent M00967_43_000000000-A3JHG_1_1101_10073_7632\nM00967_43_000000000-A3JHG_1_1101_23552_5194 is a suspected chimera at breakpoint 138\nIt's score is 1.16994 with suspected left parent M00967_43_000000000-A3JHG_1_1101_7079_6722 and right parent M00967_43_000000000-A3JHG_1_1101_7079_6722\nM00967_43_000000000-A3JHG_1_1101_5170_7771 is a suspected chimera at breakpoint 138\nIt's score is 1.11972 with suspected left parent M00967_43_000000000-A3JHG_1_1101_13293_4703 and right parent M00967_43_000000000-A3JHG_1_1101_13293_4703\nM00967_43_000000000-A3JHG_1_1101_13293_4703 is a suspected chimera at breakpoint 138\nIt's score is 1.11972 with suspected left parent M00967_43_000000000-A3JHG_1_1101_11148_6457 and right parent M00967_43_000000000-A3JHG_1_1101_11148_6457\nM00967_43_000000000-A3JHG_1_1101_11148_6457 is a suspected chimera at breakpoint 138\nIt's score is 1.11972 with suspected left parent M00967_43_000000000-A3JHG_1_1101_13293_4703 and right parent M00967_43_000000000-A3JHG_1_1101_13293_4703\nM00967_43_000000000-A3JHG_1_1101_24357_4866 is a suspected chimera at breakpoint 138\nIt's score is 1.02604 with suspected left parent M00967_43_000000000-A3JHG_1_1101_11790_7581 and right parent M00967_43_000000000-A3JHG_1_1101_11790_7581\nM00967_43_000000000-A3JHG_1_1101_11790_7581 is a suspected chimera at breakpoint 138\nIt's score is 1.02604 with suspected left parent M00967_43_000000000-A3JHG_1_1101_24357_4866 and right parent M00967_43_000000000-A3JHG_1_1101_24357_4866\nM00967_43_000000000-A3JHG_1_1101_15923_3823 is a suspected chimera at breakpoint 138\nIt's score is 1.0226 with suspected left parent M00967_43_000000000-A3JHG_1_1101_7326_5417 and right parent M00967_43_000000000-A3JHG_1_1101_7326_5417\nM00967_43_000000000-A3JHG_1_1101_7326_5417 is a suspected chimera at breakpoint 138\nIt's score is 1.0226 with suspected left parent M00967_43_000000000-A3JHG_1_1101_15923_3823 and right parent M00967_43_000000000-A3JHG_1_1101_15923_3823\nM00967_43_000000000-A3JHG_1_1101_15208_7185 is a suspected chimera at breakpoint 138\nIt's score is 1.0226 with suspected left parent M00967_43_000000000-A3JHG_1_1101_15923_3823 and right parent M00967_43_000000000-A3JHG_1_1101_15923_3823\nM00967_43_000000000-A3JHG_1_1101_7079_6722 is a suspected chimera at breakpoint 138\nIt's score is 1.01583 with suspected left parent M00967_43_000000000-A3JHG_1_1101_23552_5194 and right parent M00967_43_000000000-A3JHG_1_1101_23552_5194\n\nSequence with preference score above 1.0: 12\nMinimum:\t0.682701\n2.5%-tile:\t0.682701\n25%-tile:\t0.837302\nMedian: \t1.01583\n75%-tile:\t1.11972\n97.5%-tile:\t1.6254\nMaximum:\t1.6254\n\nIt took 0 secs to check 22 sequences.\n\n\nOutput File Names: \nfasta.bellerophon.chimeras\nfasta.bellerophon.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_107.dat' fasta.dat && echo 'chimera.bellerophon( fasta=fasta.dat, filter=False, correction=True, increment=25, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:54:04.495851", "params": {"correction": "\"true\"", "dbkey": "\"hg17\"", "filter": "\"false\"", "window": "\"-1\"", "increment": "\"25\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7832", "id": "8c9b639396181d1e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_bellerophon.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "00c35829965cb81b"}, "alignment|reference": {"src": "hda", "id": "566489874e32c504"}, "alignment|source": "hist"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "00c35829965cb81b", "uuid": "67503ee2-ad54-4780-bde6-14f9662c2d6d"}, "reference": {"src": "hda", "id": "566489874e32c504", "uuid": "fe96ace6-a92a-47c6-b67d-573970b930d0"}}, "update_time": "2018-02-08T16:54:39.839013", "tool_id": "mothur_chimera_ccode", "outputs": {"ccode.chimeras": {"src": "hda", "id": "1fb9c7b21f94ef77", "uuid": "bc86b0c8-6d13-47d9-a386-f39638719b24"}, "logfile": {"src": "hda", "id": "e7d42a199e1d2420", "uuid": "b942c08b-5e97-4757-bb2c-3a4a440024ff"}, "ccode.accnos": {"src": "hda", "id": "c299b389e85e4513", "uuid": "4c11cc11-c934-41ef-887e-f3590ea4f715"}, "mapinfo": {"src": "hda", "id": "cf18f77993464b22", "uuid": "be0c8b32-7ab5-4dca-985b-17129a55606c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.ccode(fasta=fasta.dat,reference=alignment.template.dat,filter=F \ralse,numwanted=20,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nReading sequences from alignment.template.dat...Done.\nM00967_43_000000000-A3JHG_1_1101_7326_5417 was found have at least one chimeric window.\nProcessing sequence: 10\n\nIt took 1 secs to check 10 sequences.\n\nOutput File Names: \nfasta.ccode.chimeras\nfasta.mapinfo\nfasta.ccode.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_111.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_112.dat' alignment.template.dat && echo 'chimera.ccode( fasta=fasta.dat, reference=alignment.template.dat, filter=False, numwanted=20, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:54:35.274166", "params": {"numwanted": "\"20\"", "dbkey": "\"hg17\"", "filter": "\"false\"", "window": "\"0\"", "mask_cond": "{\"source2\": \"\", \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 112}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7952", "id": "25cc0305829779de", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_ccode.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "7ea23f5e4ed72fcd"}, "alignment|reference": {"src": "hda", "id": "161ef5576377f4a0"}, "window": "100", "alignment|source": "hist", "mask_cond|source2": "default"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "7ea23f5e4ed72fcd", "uuid": "a7f568a1-096d-4715-a052-f419660e59b2"}, "reference": {"src": "hda", "id": "161ef5576377f4a0", "uuid": "871b1483-4128-403f-b26a-080be516b889"}}, "update_time": "2018-02-08T16:55:13.593399", "tool_id": "mothur_chimera_ccode", "outputs": {"ccode.chimeras": {"src": "hda", "id": "f21e60058e4146e2", "uuid": "9e3f3299-f941-4c90-854e-f0c9c1e461e6"}, "logfile": {"src": "hda", "id": "ba60dc8fe2d987d5", "uuid": "d2c0e7c6-bcc6-4632-a668-37944112eef9"}, "ccode.accnos": {"src": "hda", "id": "4826aef2afaebe4b", "uuid": "5b78ccd6-a9c6-4fff-b063-175f0412a1e5"}, "mapinfo": {"src": "hda", "id": "c95281174db2641a", "uuid": "92ac37ff-50a5-4ad1-b132-a261727351bf"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.ccode(fasta=fasta.dat,reference=alignment.template.dat,filter=F \ralse,mask=default,window=100,numwanted=20,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nI am using the default 236627 EU009184.1 Shigella dysenteriae str. FBD013.\nReading sequences from alignment.template.dat...Done.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_19936_3208 does not have an adaquate number of reference sequences that are within 20% and 0.5% similarity. I will continue, but please check.\nM00967_43_000000000-A3JHG_1_1101_19936_3208 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_15923_3823 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_14010_4122 does not have an adaquate number of reference sequences that are within 20% and 0.5% similarity. I will continue, but please check.\nM00967_43_000000000-A3JHG_1_1101_14010_4122 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_13293_4703 does not have an adaquate number of reference sequences that are within 20% and 0.5% similarity. I will continue, but please check.\nM00967_43_000000000-A3JHG_1_1101_13293_4703 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_24357_4866 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_23552_5194 does not have an adaquate number of reference sequences that are within 20% and 0.5% similarity. I will continue, but please check.\nM00967_43_000000000-A3JHG_1_1101_23552_5194 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_7326_5417 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_11148_6457 does not have an adaquate number of reference sequences that are within 20% and 0.5% similarity. I will continue, but please check.\nM00967_43_000000000-A3JHG_1_1101_11148_6457 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_7079_6722 does not have an adaquate number of reference sequences that are within 20% and 0.5% similarity. I will continue, but please check.\nM00967_43_000000000-A3JHG_1_1101_7079_6722 was found have at least one chimeric window.\nYou have slected a window larger than your sequence length after all filters, masks and trims have been done. I will use the default 10% of sequence length.M00967_43_000000000-A3JHG_1_1101_8607_6805 does not have an adaquate number of reference sequences that are within 20% and 0.5% similarity. I will continue, but please check.\nM00967_43_000000000-A3JHG_1_1101_8607_6805 was found have at least one chimeric window.\nProcessing sequence: 10\n\nIt took 1 secs to check 10 sequences.\n\nOutput File Names: \nfasta.default.ccode.chimeras\nfasta.mapinfo\nfasta.default.ccode.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_117.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_118.dat' alignment.template.dat && echo 'chimera.ccode( fasta=fasta.dat, reference=alignment.template.dat, filter=False, mask=default, window=100, numwanted=20, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:55:09.142586", "params": {"numwanted": "\"20\"", "dbkey": "\"hg17\"", "filter": "\"false\"", "window": "\"100\"", "mask_cond": "{\"source2\": \"default\", \"__current_case__\": 2}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 118}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8064", "id": "bab99c776d4b9391", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_ccode.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "bd8ef6624a47d26f"}, "alignment|reference": {"src": "hda", "id": "39209c3a4b0cef4c"}, "alignment|source": "hist"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "bd8ef6624a47d26f", "uuid": "afb976b9-ef60-4b12-a931-c027c8cef9a2"}, "reference": {"src": "hda", "id": "39209c3a4b0cef4c", "uuid": "9e147cf5-6480-4227-b024-e04e1e4ef7e2"}}, "update_time": "2018-02-08T16:55:49.157744", "tool_id": "mothur_chimera_check", "outputs": {"logfile": {"src": "hda", "id": "26b7e36460fca86e", "uuid": "a2a768ac-9391-4632-9810-2d0d9c806298"}, "chimeracheck.chimeras": {"src": "hda", "id": "eb21622d9b6e26b4", "uuid": "d6031a8a-cb57-41e2-98e2-ed5829d4972d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.check(fasta=fasta.dat,reference=alignment.reference.dat,increme \rnt=10,ksize=7,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\n\nReading in the alignment.reference.dat template sequences...\tDONE.\nIt took 0 to read 32 sequences.\n\nProcessing: M00967_43_000000000-A3JHG_1_1101_19936_3208\nProcessing: M00967_43_000000000-A3JHG_1_1101_15923_3823\nProcessing: M00967_43_000000000-A3JHG_1_1101_14010_4122\nProcessing: M00967_43_000000000-A3JHG_1_1101_13293_4703\nProcessing: M00967_43_000000000-A3JHG_1_1101_24357_4866\nProcessing: M00967_43_000000000-A3JHG_1_1101_23552_5194\nProcessing: M00967_43_000000000-A3JHG_1_1101_7326_5417\nProcessing: M00967_43_000000000-A3JHG_1_1101_11148_6457\nProcessing: M00967_43_000000000-A3JHG_1_1101_7079_6722\nProcessing: M00967_43_000000000-A3JHG_1_1101_8607_6805\nProcessing sequence: 10\n\nThis method does not determine if a sequence is chimeric, but allows you to make that determination based on the IS values.\n\nIt took 3 secs to check 10 sequences.\n\n\nOutput File Names: \nfasta.chimeracheck.chimeras\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_123.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_124.dat' alignment.reference.dat && echo 'chimera.check( fasta=fasta.dat, reference=alignment.reference.dat, increment=10, ksize=7, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:55:43.089163", "params": {"svg_cond": "{\"svg\": \"no\", \"__current_case__\": 0}", "dbkey": "\"hg17\"", "ksize": "\"7\"", "increment": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 124}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8186", "id": "5e6ad6ca0afeaf24", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_check.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "598efe8f302ea8ae"}, "svg_cond|name": {"src": "hda", "id": "e9cf7d8d4867436b"}, "svg_cond|svg": "yes", "alignment|source": "hist", "alignment|reference": {"src": "hda", "id": "5c14fa19c3fe9aa2"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "598efe8f302ea8ae", "uuid": "9ddbdf54-67b8-4edd-a6e9-bb7604e31dc4"}, "name": {"src": "hda", "id": "e9cf7d8d4867436b", "uuid": "75ab04f2-b35c-467b-88d1-a899fa003606"}, "reference": {"src": "hda", "id": "5c14fa19c3fe9aa2", "uuid": "9a079bc8-ceb1-4c5e-82df-a59c14e77494"}}, "update_time": "2018-02-08T16:56:16.969800", "tool_id": "mothur_chimera_check", "outputs": {"logfile": {"src": "hda", "id": "fc5c2ad70cbb4f9f", "uuid": "ac4cefa6-bfaa-4401-be90-336ca98d7b8f"}, "__new_primary_file_M00967_43_000000000-A3JHG_1_1101_14010_4122|M00967_43_000000000-A3JHG_1_1101_14010_4122__": {"src": "hda", "id": "83e248eabb1b3d31", "uuid": "9000d45e-4973-4578-99f2-617d128cb499"}, "chimeracheck.chimeras": {"src": "hda", "id": "5e985d59d5900484", "uuid": "e280ac0c-fac1-4b3c-a13d-b7885916062b"}, "__new_primary_file_M00967_43_000000000-A3JHG_1_1101_14010_4122|M00967_43_000000000-A3JHG_1_1101_13293_4703__": {"src": "hda", "id": "2f2abd7e16b39826", "uuid": "bbdec5e0-e4dc-448a-9007-43d0b3a0f8d0"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.check(fasta=fasta.dat,reference=alignment.reference.dat,svg=yes \r,name=svg.name.dat,increment=10,ksize=7,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\n\nReading in the alignment.reference.dat template sequences...\tDONE.\nIt took 0 to read 32 sequences.\n\nProcessing: M00967_43_000000000-A3JHG_1_1101_19936_3208\nProcessing: M00967_43_000000000-A3JHG_1_1101_15923_3823\nProcessing: M00967_43_000000000-A3JHG_1_1101_14010_4122\nProcessing: M00967_43_000000000-A3JHG_1_1101_13293_4703\nProcessing: M00967_43_000000000-A3JHG_1_1101_24357_4866\nProcessing: M00967_43_000000000-A3JHG_1_1101_23552_5194\nProcessing: M00967_43_000000000-A3JHG_1_1101_7326_5417\nProcessing: M00967_43_000000000-A3JHG_1_1101_11148_6457\nProcessing: M00967_43_000000000-A3JHG_1_1101_7079_6722\nProcessing: M00967_43_000000000-A3JHG_1_1101_8607_6805\nProcessing sequence: 10\n\nThis method does not determine if a sequence is chimeric, but allows you to make that determination based on the IS values.\n\nIt took 3 secs to check 10 sequences.\n\n\nOutput File Names: \nfasta.chimeracheck.chimeras\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_127.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_128.dat' alignment.reference.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_129.dat' svg.name.dat && echo 'chimera.check( fasta=fasta.dat, reference=alignment.reference.dat, svg=yes, name=svg.name.dat, increment=10, ksize=7, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:56:10.148586", "params": {"svg_cond": "{\"svg\": \"yes\", \"name\": {\"values\": [{\"src\": \"hda\", \"id\": 129}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\"", "ksize": "\"7\"", "increment": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 128}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8324", "id": "48f3e8809447c25a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_check.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "a01e20e32f0965d9"}, "name": {"src": "hda", "id": "4e27b888e0f89616"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "a01e20e32f0965d9", "uuid": "8521e069-b6cd-4c45-b6e5-8f7e69e73bba"}, "name": {"src": "hda", "id": "4e27b888e0f89616", "uuid": "491e5558-aa9e-46c8-846f-1bbb96a90abb"}}, "update_time": "2018-02-08T16:56:43.817915", "tool_id": "mothur_chimera_perseus", "outputs": {"out_chimeras": {"src": "hda", "id": "d760e1d92679b730", "uuid": "b722e5b1-053c-44cf-a2f8-7286ea3d18e4"}, "logfile": {"src": "hda", "id": "15839f6e830b1abe", "uuid": "420f680c-4cb1-4cdf-8752-30f636784f1e"}, "out_accnos": {"src": "hda", "id": "237cecdf0f984d5b", "uuid": "ea9ffc98-afb0-4985-86d3-80850d6525a1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.perseus(fasta=fasta.dat,name=name.dat,alpha=-5.54,beta=0.33,cut \roff=0.5,dereplicate=false,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nProcessing sequence: 98\n\nIt took 0 secs to check 98 sequences. 0 chimeras were found.\n\nOutput File Names: \nfasta.perseus.chimeras\nfasta.perseus.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_134.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_135.dat' name.dat && ln -s 'None' group.dat && echo 'chimera.perseus( fasta=fasta.dat, name=name.dat, alpha=-5.54, beta=0.33, cutoff=0.5, dereplicate=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:56:40.622188", "params": {"dereplicate": "\"false\"", "group": "null", "cutoff": "\"0.5\"", "dbkey": "\"hg17\"", "beta": "\"0.33\"", "alpha": "\"-5.54\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8441", "id": "b908d9d86f8a3d36", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_perseus.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"alignment|source": "hist", "quantile": {"src": "hda", "id": "449eb427f528cea7"}, "window": "200", "fasta": {"src": "hda", "id": "3995f2aeb4b1e9b8"}, "alignment|reference": {"src": "hda", "id": "43c20e86f8351b08"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "3995f2aeb4b1e9b8", "uuid": "1b6d12bd-53eb-4adf-a8c9-2d517a1a06c2"}, "quantile": {"src": "hda", "id": "449eb427f528cea7", "uuid": "0dac3ed3-c5b1-4c88-a6cd-a09f73785ecb"}, "reference": {"src": "hda", "id": "43c20e86f8351b08", "uuid": "88a5d249-7780-4cc3-905d-5a78e67947c0"}}, "update_time": "2018-02-08T16:57:10.496322", "tool_id": "mothur_chimera_pintail", "outputs": {"out_freq": {"src": "hda", "id": "8bfda5654e551614", "uuid": "ea730516-89b4-498e-ba79-cba6bea15f91"}, "logfile": {"src": "hda", "id": "05698cd4bb850c59", "uuid": "2f32594b-954f-4c6e-bb7f-10246c03305d"}, "out_accnos": {"src": "hda", "id": "4674f339b90935da", "uuid": "bbe2d533-8860-40b9-8ce5-7fe8ea944655"}, "pintail.chimeras": {"src": "hda", "id": "bfa55a0374b9a6bf", "uuid": "d9543da6-6d05-4a3f-9017-9b3eb6fa0d4f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.pintail(fasta=fasta.dat,reference=alignment.reference.dat,filte \rr=false,quantile=quantile.dat,window=200,increment=25,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nReading sequences from alignment.reference.dat...Done.\nGetting conservation... Calculating probability of conservation for your template sequences. This can take a while... I will output the frequency of the highest base in each position to a .freq file so that you can input them using the conservation parameter next time you run this command. Providing the .freq file will improve speed. Done.\n\nM00967_43_000000000-A3JHG_1_1101_15923_3823\tdiv: 26.9841\tstDev: 1.41584\tchimera flag: Yes\nM00967_43_000000000-A3JHG_1_1101_13293_4703\tdiv: 29.3651\tstDev: 1.59916\tchimera flag: Yes\nM00967_43_000000000-A3JHG_1_1101_24357_4866\tdiv: 26.5873\tstDev: 1.39697\tchimera flag: Yes\nM00967_43_000000000-A3JHG_1_1101_11148_6457\tdiv: 29.3651\tstDev: 1.59916\tchimera flag: Yes\nProcessing sequence: 10\n\n\nIt took 2 secs to check 10 sequences.\n\nOutput File Names: \nfasta.pintail.chimeras\nfasta.pintail.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_139.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_140.dat' alignment.reference.dat && ln -s 'None' conservation.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_141.dat' quantile.dat && echo 'chimera.pintail( fasta=fasta.dat, reference=alignment.reference.dat, filter=false, quantile=quantile.dat, window=200, increment=25, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:57:04.307339", "params": {"increment": "\"25\"", "dbkey": "\"hg17\"", "filter": "\"false\"", "window": "\"200\"", "conservation": "null", "mask_cond": "{\"source2\": \"\", \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 140}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8577", "id": "087a78e08fef416e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_pintail.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "7959e4ab20d6a14d"}, "alignment|reference": {"src": "hda", "id": "54ea706d2daa88f1"}, "window": "200", "alignment|source": "hist", "mask_cond|source2": "default"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "7959e4ab20d6a14d", "uuid": "6839dbc1-616a-4882-96ea-ce6b374044f0"}, "reference": {"src": "hda", "id": "54ea706d2daa88f1", "uuid": "a32c495f-3e9b-4732-8ec6-129955955c3b"}}, "update_time": "2018-02-08T16:57:38.924061", "tool_id": "mothur_chimera_pintail", "outputs": {"out_freq": {"src": "hda", "id": "2567f547ea0518b1", "uuid": "d49dd2af-548c-4371-838d-2da9e7ca1379"}, "logfile": {"src": "hda", "id": "0b8510c6952c9474", "uuid": "e114c580-5d03-48e9-81c5-8cdccff4565a"}, "out_accnos": {"src": "hda", "id": "db1aec3269b07642", "uuid": "07a38fd5-d854-4740-bf6b-281d87ca512b"}, "pintail.chimeras": {"src": "hda", "id": "c48fc7b200585e1b", "uuid": "457f3666-d072-481c-a032-41dc8ed38044"}, "out_quantile": {"src": "hda", "id": "ac2ea1acb48016aa", "uuid": "eb5bca93-0ccf-4b62-a247-6ddd34b86c46"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.pintail(fasta=fasta.dat,reference=alignment.reference.dat,filte \rr=false,mask=default,window=200,increment=25,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nI am using the default 236627 EU009184.1 Shigella dysenteriae str. FBD013.\nReading sequences from alignment.reference.dat...Done.\nGetting conservation... Calculating probability of conservation for your template sequences. This can take a while... I will output the frequency of the highest base in each position to a .freq file so that you can input them using the conservation parameter next time you run this command. Providing the .freq file will improve speed. Done.\n\nCalculating quantiles for your template. This can take a while... I will output the quantiles to a .quan file that you can input them using the quantiles parameter next time you run this command. Providing the .quan file will dramatically improve speed. Processing sequence 0\nProcessing sequence 1\nYou have selected too large a window size for sequence A.odontolyticus.1. I will choose an appropriate window size.\nProcessing sequence 2\nYou have selected too large a window size for sequence B.cereus.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.cereus.1. I will choose an appropriate window size.\nProcessing sequence 3\nYou have selected too large a window size for sequence B.vulgatus.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.1. I will choose an appropriate window size.\nProcessing sequence 4\nYou have selected too large a window size for sequence B.vulgatus.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.2. I will choose an appropriate window size.\nProcessing sequence 5\nYou have selected too large a window size for sequence B.vulgatus.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.4. I will choose an appropriate window size.\nProcessing sequence 6\nYou have selected too large a window size for sequence B.vulgatus.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.5. I will choose an appropriate window size.\nProcessing sequence 7\nYou have selected too large a window size for sequence B.vulgatus.7. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.7. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.7. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.7. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.7. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.7. I will choose an appropriate window size.\nYou have selected too large a window size for sequence B.vulgatus.7. I will choose an appropriate window size.\nProcessing sequence 8\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.1. I will choose an appropriate window size.\nProcessing sequence 9\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.3. I will choose an appropriate window size.\nProcessing sequence 10\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nYou have selected too large a window size for sequence C.beijerinckii.4. I will choose an appropriate window size.\nProcessing sequence 11\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence D.radiodurans.1. I will choose an appropriate window size.\nProcessing sequence 12\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.1. I will choose an appropriate window size.\nProcessing sequence 13\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.faecalis.2. I will choose an appropriate window size.\nProcessing sequence 14\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence E.coli.1. I will choose an appropriate window size.\nProcessing sequence 15\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence H.pylori.1. I will choose an appropriate window size.\nProcessing sequence 16\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence L.gasseri.1. I will choose an appropriate window size.\nYou have selected too large a window size f\n..\nte window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.2. I will choose an appropriate window size.\nProcessing sequence 28\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.epidermidis.5. I will choose an appropriate window size.\nProcessing sequence 29\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.agalactiae.1. I will choose an appropriate window size.\nProcessing sequence 30\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.mutans.1. I will choose an appropriate window size.\nProcessing sequence 31\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nYou have selected too large a window size for sequence S.pneumoniae.1. I will choose an appropriate window size.\nDone.\nReading sequences from alignment.reference.dat...Done.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_19936_3208. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_15923_3823. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_14010_4122. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_13293_4703. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_24357_4866. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_23552_5194. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_7326_5417. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_11148_6457. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_7079_6722. I will choose an appropriate window size.\nYou have selected too large a window size for sequence M00967_43_000000000-A3JHG_1_1101_8607_6805. I will choose an appropriate window size.\nProcessing sequence: 10\n\n\nIt took 3 secs to check 10 sequences.\n\nOutput File Names: \nfasta.default.pintail.chimeras\nfasta.default.pintail.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_146.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_147.dat' alignment.reference.dat && ln -s 'None' conservation.dat && ln -s 'None' quantile.dat && echo 'chimera.pintail( fasta=fasta.dat, reference=alignment.reference.dat, filter=false, mask=default, window=200, increment=25, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:57:32.943369", "params": {"increment": "\"25\"", "quantile": "null", "dbkey": "\"hg17\"", "filter": "\"false\"", "window": "\"200\"", "conservation": "null", "mask_cond": "{\"source2\": \"default\", \"__current_case__\": 2}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 147}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8698", "id": "5617b66919498d02", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_pintail.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "3af8c7b9f683116f"}, "alignment|reference": {"src": "hda", "id": "d7d0eb8e9bed0c39"}, "alignment|source": "hist"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "3af8c7b9f683116f", "uuid": "0c3c0bcd-0458-4195-af6b-c079b4996632"}, "reference": {"src": "hda", "id": "d7d0eb8e9bed0c39", "uuid": "96ffc55e-61f9-4e01-b8b1-5d270f2f9d1a"}}, "update_time": "2018-02-08T16:58:10.044025", "tool_id": "mothur_chimera_slayer", "outputs": {"slayer.chimeras": {"src": "hda", "id": "3f47e446edb5d442", "uuid": "f920d4ae-4e8c-4f4e-b1c9-386711a26402"}, "logfile": {"src": "hda", "id": "b7d4a98a7bb9e1bc", "uuid": "ba043b24-a39a-41e6-bffc-0e07740ed585"}, "out_accnos": {"src": "hda", "id": "8984b162f62c6c24", "uuid": "19589feb-b856-43dd-a3ee-1441b657ddea"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.slayer(fasta=fasta.dat,reference=/tmp/saskia/tmpKSDp0p/files/00 \r0/dataset_154.dat,dereplicate=false,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nReading sequences from /tmp/saskia/tmpKSDp0p/files/000/dataset_154.dat...Done.\n\nOnly reporting sequence supported by 90% of bootstrapped results.\nProcessing sequence: 10\nIt took 0 secs to check 10 sequences.\n\nOutput File Names: \nfasta.slayer.chimeras\nfasta.slayer.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_153.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_154.dat' alignment.reference.dat && echo 'chimera.slayer( fasta=fasta.dat, reference=/tmp/saskia/tmpKSDp0p/files/000/dataset_154.dat, dereplicate=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:58:06.756216", "params": {"dereplicate": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 154}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\"", "options": "{\"setby\": \"default\", \"__current_case__\": 0}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8814", "id": "b323ca264f40001e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_slayer.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"options|setby": "user", "fasta": {"src": "hda", "id": "50c648a3603e917e"}, "options|search": "kmer", "alignment|source": "self", "alignment|name": {"src": "hda", "id": "71db30c33f7a1d97"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "50c648a3603e917e", "uuid": "b5946a78-cf06-49cd-baed-908c4ba5a099"}, "name": {"src": "hda", "id": "71db30c33f7a1d97", "uuid": "e5af7032-d15c-490d-8f99-315bab985aaa"}}, "update_time": "2018-02-08T16:58:30.636077", "tool_id": "mothur_chimera_slayer", "outputs": {"slayer.chimeras": {"src": "hda", "id": "c6239e5379f31f0f", "uuid": "bbdfd559-4c07-4742-adbe-c98f6e5d5f3e"}, "logfile": {"src": "hda", "id": "9c12fd6a3ba76792", "uuid": "c3deba55-280e-4a02-bc5c-7777f998fa52"}, "out_accnos": {"src": "hda", "id": "4d003f3f8bfebf53", "uuid": "8dde0258-7d7d-4cee-9ee3-4d5f186b4acb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.slayer(fasta=fasta.dat,reference=self,name=/tmp/saskia/tmpKSDp0 \rp/files/000/dataset_159.dat,search=kmer,window=50,increment=5,match=5,mismatch=- \r4,numwanted=15,parents=3,minsim=90,mincov=70,iters=1000,minbs=90,minsnp=10,diver \rgence=1.007,trim=false,split=false,dereplicate=false,processors=1)\n\nUsing 1 processors.\nChecking sequences from fasta.dat ...\nSorting fastafile according to abundance...Done.\nReading sequences from fasta.dat...Done.\n\nOnly reporting sequence supported by 90% of bootstrapped results.\nProcessing sequence: 32\nIt took 0 secs to check 32 sequences.\n\nOutput File Names: \nfasta.slayer.chimeras\nfasta.slayer.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_158.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_159.dat' alignment.name.dat && ln -s 'None' alignment.group.dat && ln -s 'None' alignment.count.dat && echo 'chimera.slayer( fasta=fasta.dat, reference=self, name=/tmp/saskia/tmpKSDp0p/files/000/dataset_159.dat, search=kmer, window=50, increment=5, match=5, mismatch=-4, numwanted=15, parents=3, minsim=90, mincov=70, iters=1000, minbs=90, minsnp=10, divergence=1.007, trim=false, split=false, dereplicate=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:58:27.298736", "params": {"dereplicate": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"count\": null, \"source\": \"self\", \"group\": null, \"name\": {\"values\": [{\"src\": \"hda\", \"id\": 159}]}, \"__current_case__\": 2}", "dbkey": "\"hg17\"", "options": "{\"trim\": \"false\", \"mincov\": \"70\", \"search\": \"kmer\", \"numwanted\": \"15\", \"increment\": \"5\", \"iters\": \"1000\", \"divergence\": \"1.007\", \"mismatch\": \"-4\", \"minsnp\": \"10\", \"window\": \"50\", \"parents\": \"3\", \"split\": \"false\", \"__current_case__\": 1, \"minsim\": \"90\", \"setby\": \"user\", \"minbs\": \"90\", \"match\": \"5\"}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8976", "id": "b31f4d82ada5e956", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_slayer.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "cd5f25030bbf4788"}, "template|source": "hist", "template|reference": {"src": "hda", "id": "c32d13cb5f20eb1c"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "cd5f25030bbf4788", "uuid": "1e26bb54-6b57-4320-9a90-ff58a5d3684d"}, "reference": {"src": "hda", "id": "c32d13cb5f20eb1c", "uuid": "c08ca8ce-f149-457f-b640-d65b8ffd0a69"}}, "update_time": "2018-02-08T16:58:51.128610", "tool_id": "mothur_chimera_uchime", "outputs": {"out_count": {"src": "hda", "id": "c011a4b8aa5812a2", "uuid": "34e4372e-3ac7-4a13-8dce-eed7ac1cc51a"}, "logfile": {"src": "hda", "id": "33d716567e7a5529", "uuid": "266a88bd-2fe5-4e91-a8f8-92b3dbfd7eb3"}, "out_accnos": {"src": "hda", "id": "b0fc776b5139d032", "uuid": "7c5c28ae-4502-404e-828e-9c8d3d2949b0"}, "uchime.chimeras": {"src": "hda", "id": "c9cd75d91880a01c", "uuid": "69d3f258-8abc-47ba-a723-57a96bdeea7c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.uchime(fasta=fasta.dat,reference=template.reference.dat,minh=0. \r3,mindiv=0.5,xn=8.0,dn=1.4,xa=1.0,chunks=4,minchunk=64,idsmoothwindow=32,maxp=2, \rminlen=10,maxlen=10000,skipgaps=true,skipgaps2=true,dereplicate=false,chimealns= \rfalse,processors=1)\n\nUsing 1 processors.\n/home/saskia/miniconda3/envs/__mothur@1.39.5/bin/mothuruchime file does not exist. Checking path... \nFound uchime in your path, using /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/uchime\n\nuchime by Robert C. Edgar\nhttp://drive5.com/uchime\nThis code is donated to the public domain.\n\nChecking sequences from fasta.dat ...\nuchime v4.2.40\nby Robert C. Edgar\nhttp://drive5.com/uchime\nThis code is donated to the public domain.\n\n\nIt took 0 secs to check 3 sequences. 1 chimeras were found.\n\nOutput File Names: \nfasta.ref.uchime.chimeras\nfasta.ref.uchime.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_163.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_164.dat' template.reference.dat && echo 'chimera.uchime( fasta=fasta.dat, reference=template.reference.dat, minh=0.3, mindiv=0.5, xn=8.0, dn=1.4, xa=1.0, chunks=4, minchunk=64, idsmoothwindow=32, maxp=2, minlen=10, maxlen=10000, skipgaps=true, skipgaps2=true, dereplicate=false, chimealns=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log 2>&1", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:58:47.885084", "params": {"dn": "\"1.4\"", "dereplicate": "\"false\"", "minh": "\"0.3\"", "minchunk": "\"64\"", "xn": "\"8.0\"", "skipgaps2": "\"true\"", "minlen": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "maxp": "\"2\"", "xa": "\"1.0\"", "skipgaps": "\"true\"", "dbkey": "\"hg17\"", "maxlen": "\"10000\"", "mindiv": "\"0.5\"", "template": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 164}]}, \"__current_case__\": 1}", "chunks": "\"4\"", "idsmoothwindow": "\"32\"", "alignment": "{\"ucl\": \"global\", \"__current_case__\": 0}", "chimealns": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n00:00 31Mb 0.1% Reading fasta.dat.uchime_formatted\r00:00 31Mb 0.1% Reading fasta.dat.uchime_formatted\r\nWARNING: Ignoring gaps in FASTA file 'fasta.dat.uchime_formatted'\n00:00 31Mb 100.0% Reading fasta.dat.uchime_formatted\r\n00:00 31Mb 3 sequences \n00:00 32Mb 0.1% Reading template.reference.dat\r00:00 32Mb 0.1% Reading template.reference.dat\r00:00 32Mb 100.0% Reading template.reference.dat\r\n00:00 32Mb 32 sequences \n00:00 32Mb 33.3% 0/0 chimeras found (0.0%)\r00:00 32Mb 100.0% 1/2 chimeras found (33.3%)\r\n", "job_metrics": [], "model_class": "Job", "external_id": "9098", "id": "87dca8aa4ee9d3de", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_uchime.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "89c96313ae93d0a8"}, "template|source": "self"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "89c96313ae93d0a8", "uuid": "5fd9ba22-20a6-490e-8491-5b27dc07ab63"}}, "update_time": "2018-02-08T16:59:13.498829", "tool_id": "mothur_chimera_uchime", "outputs": {"logfile": {"src": "hda", "id": "e78965a26b62ba53", "uuid": "b2eaa7cc-4350-4ca0-b3bf-3078bd04e439"}, "out_accnos": {"src": "hda", "id": "6fbaeb4019cd0c5e", "uuid": "68914b1b-7095-49ba-b798-c947f7d0315c"}, "uchime.chimeras": {"src": "hda", "id": "8b9818d7842d6e75", "uuid": "377b8759-870f-4f64-ac84-5c8c55c7be7a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.uchime(fasta=fasta.dat,reference=self,abskew=1.9,minh=0.3,mindi \rv=0.5,xn=8.0,dn=1.4,xa=1.0,chunks=4,minchunk=64,idsmoothwindow=32,maxp=2,minlen= \r10,maxlen=10000,skipgaps=true,skipgaps2=true,dereplicate=false,chimealns=false,p \rrocessors=1)\n\nUsing 1 processors.\n/home/saskia/miniconda3/envs/__mothur@1.39.5/bin/mothuruchime file does not exist. Checking path... \nFound uchime in your path, using /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/uchime\n\nuchime by Robert C. Edgar\nhttp://drive5.com/uchime\nThis code is donated to the public domain.\n\nChecking sequences from fasta.dat ...\n\nNo namesfile given, running unique.seqs command to generate one.\n\n/******************************************/\nRunning command: unique.seqs(fasta=fasta.dat)\n10\t9\n\nOutput File Names: \nfasta.names\nfasta.unique.dat\n\n/******************************************/\nuchime v4.2.40\nby Robert C. Edgar\nhttp://drive5.com/uchime\nThis code is donated to the public domain.\n\n\nIt took 0 secs to check 9 sequences. 0 chimeras were found.\n\nOutput File Names: \nfasta.denovo.uchime.chimeras\nfasta.denovo.uchime.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_169.dat' fasta.dat && ln -s 'None' template.count.dat && ln -s 'None' template.group.dat && echo 'chimera.uchime( fasta=fasta.dat, reference=self, abskew=1.9, minh=0.3, mindiv=0.5, xn=8.0, dn=1.4, xa=1.0, chunks=4, minchunk=64, idsmoothwindow=32, maxp=2, minlen=10, maxlen=10000, skipgaps=true, skipgaps2=true, dereplicate=false, chimealns=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log 2>&1", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:59:10.293294", "params": {"dn": "\"1.4\"", "dereplicate": "\"false\"", "minh": "\"0.3\"", "minchunk": "\"64\"", "xn": "\"8.0\"", "skipgaps2": "\"true\"", "minlen": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "maxp": "\"2\"", "xa": "\"1.0\"", "skipgaps": "\"true\"", "dbkey": "\"hg17\"", "maxlen": "\"10000\"", "mindiv": "\"0.5\"", "template": "{\"count\": null, \"source\": \"self\", \"group\": null, \"abskew\": \"1.9\", \"__current_case__\": 2}", "chunks": "\"4\"", "idsmoothwindow": "\"32\"", "alignment": "{\"ucl\": \"global\", \"__current_case__\": 0}", "chimealns": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n00:00 31Mb 0.1% Reading fasta.temp\r00:00 31Mb 0.1% Reading fasta.temp\r\nWARNING: Ignoring gaps in FASTA file 'fasta.temp'\n00:00 31Mb 100.0% Reading fasta.temp\r\n00:00 31Mb 9 sequences \n00:00 15Mb 11.1% 0/0 chimeras found (0.0%)\r00:00 15Mb 100.0% 0/8 chimeras found (0.0%)\r\n", "job_metrics": [], "model_class": "Job", "external_id": "9189", "id": "a94ebc130565c5b1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_uchime.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "b3dbb33ff37f6ca1"}, "chimealns": true, "template|source": "hist", "template|reference": {"src": "hda", "id": "2ff97a24d56d906f"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "b3dbb33ff37f6ca1", "uuid": "b5bcf445-3dac-4b1d-a8c4-9aad3d469bf9"}, "reference": {"src": "hda", "id": "2ff97a24d56d906f", "uuid": "cfd51060-1f31-447d-a1ea-948717638e70"}}, "update_time": "2018-02-08T16:59:39.670466", "tool_id": "mothur_chimera_uchime", "outputs": {"out_count": {"src": "hda", "id": "e8a2248405ed0640", "uuid": "be2c0c51-cce2-4283-880c-db5b089e59fa"}, "logfile": {"src": "hda", "id": "7de538ea4ff833f8", "uuid": "30ca70fd-4cf8-423b-9ccc-d868063ad1de"}, "out_accnos": {"src": "hda", "id": "3917f5d5eeab2729", "uuid": "a351d373-127a-4808-a5ba-58cf7e7fd433"}, "out_alns": {"src": "hda", "id": "1be3f70673e658a4", "uuid": "1c5ceafc-ee74-4abe-8743-5423286b75b8"}, "uchime.chimeras": {"src": "hda", "id": "a6edf8654f66f4d6", "uuid": "7a10a59e-a7d3-4093-b364-5d92e7978df3"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chimera.uchime(fasta=fasta.dat,reference=template.reference.dat,minh=0. \r3,mindiv=0.5,xn=8.0,dn=1.4,xa=1.0,chunks=4,minchunk=64,idsmoothwindow=32,maxp=2, \rminlen=10,maxlen=10000,skipgaps=true,skipgaps2=true,dereplicate=false,chimealns= \rtrue,processors=1)\n\nUsing 1 processors.\n/home/saskia/miniconda3/envs/__mothur@1.39.5/bin/mothuruchime file does not exist. Checking path... \nFound uchime in your path, using /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/uchime\n\nuchime by Robert C. Edgar\nhttp://drive5.com/uchime\nThis code is donated to the public domain.\n\nChecking sequences from fasta.dat ...\nuchime v4.2.40\nby Robert C. Edgar\nhttp://drive5.com/uchime\nThis code is donated to the public domain.\n\n\nIt took 0 secs to check 3 sequences. 1 chimeras were found.\n\nOutput File Names: \nfasta.ref.uchime.chimeras\nfasta.ref.uchime.accnos\nfasta.ref.uchime.alns\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_173.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_174.dat' template.reference.dat && echo 'chimera.uchime( fasta=fasta.dat, reference=template.reference.dat, minh=0.3, mindiv=0.5, xn=8.0, dn=1.4, xa=1.0, chunks=4, minchunk=64, idsmoothwindow=32, maxp=2, minlen=10, maxlen=10000, skipgaps=true, skipgaps2=true, dereplicate=false, chimealns=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log 2>&1", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T16:59:36.186909", "params": {"dn": "\"1.4\"", "dereplicate": "\"false\"", "minh": "\"0.3\"", "minchunk": "\"64\"", "xn": "\"8.0\"", "skipgaps2": "\"true\"", "minlen": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "maxp": "\"2\"", "xa": "\"1.0\"", "skipgaps": "\"true\"", "dbkey": "\"hg17\"", "maxlen": "\"10000\"", "mindiv": "\"0.5\"", "template": "{\"source\": \"hist\", \"reference\": {\"values\": [{\"src\": \"hda\", \"id\": 174}]}, \"__current_case__\": 1}", "chunks": "\"4\"", "idsmoothwindow": "\"32\"", "alignment": "{\"ucl\": \"global\", \"__current_case__\": 0}", "chimealns": "\"true\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n00:00 31Mb 0.1% Reading fasta.dat.uchime_formatted\r00:00 31Mb 0.1% Reading fasta.dat.uchime_formatted\r\nWARNING: Ignoring gaps in FASTA file 'fasta.dat.uchime_formatted'\n00:00 31Mb 100.0% Reading fasta.dat.uchime_formatted\r\n00:00 31Mb 3 sequences \n00:00 32Mb 0.1% Reading template.reference.dat\r00:00 32Mb 0.1% Reading template.reference.dat\r00:00 32Mb 100.0% Reading template.reference.dat\r\n00:00 32Mb 32 sequences \n00:00 32Mb 33.3% 0/0 chimeras found (0.0%)\r00:00 32Mb 100.0% 1/2 chimeras found (33.3%)\r\n", "job_metrics": [], "model_class": "Job", "external_id": "9321", "id": "945d4aa2c8920004", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chimera_uchime.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "df2cbca38520d0f1"}, "name": {"src": "hda", "id": "26f324d382d6d8c1"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "df2cbca38520d0f1", "uuid": "1f74f4c9-d4fc-46cd-a4ad-6fb3730b4472"}, "name": {"src": "hda", "id": "26f324d382d6d8c1", "uuid": "0944afd4-1adc-40bc-abf9-65e7952db00c"}}, "update_time": "2018-02-08T17:00:13.194061", "tool_id": "mothur_chop_seqs", "outputs": {"logfile": {"src": "hda", "id": "168b8fc92b5c87b9", "uuid": "98e386fc-76dc-4d81-a1ff-9c56fd20b90a"}, "out_fasta": {"src": "hda", "id": "8877579cefa7ba1d", "uuid": "97deef1f-9c02-4dde-86cc-b5a06a207a90"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > chop.seqs(fasta=fasta.dat,numbases=10,keep=front,countgaps=false,short= \rfalse,name=name.dat,processors=1)\n\nUsing 1 processors.\n10\n\nOutput File Names: \nfasta.chop.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_180.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_181.dat' name.dat && ln -s 'None' group.dat && ln -s 'None' count.dat && echo 'chop.seqs( fasta=fasta.dat, numbases=10, keep=front, countgaps=false, short=false, name=name.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:00:10.059551", "params": {"count": "null", "short": "\"false\"", "group": "null", "countgaps": "\"false\"", "dbkey": "\"hg17\"", "keep": "\"front\"", "numbases": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9437", "id": "f1e243926043ec87", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_chop_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"tax|source": "hist", "tax|taxonomy": {"src": "hda", "id": "6f4bdab7a73c92f2"}, "otu": {"src": "hda", "id": "f28875befd5fbf72"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "6f4bdab7a73c92f2", "uuid": "697b7231-c675-4892-8fd9-b834494f696b"}, "otu": {"src": "hda", "id": "f28875befd5fbf72", "uuid": "b964b877-996d-4a03-b9aa-4e1d117702b1"}}, "update_time": "2018-02-08T17:00:32.931798", "tool_id": "mothur_classify_otu", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "3b3b4832b2563c85", "uuid": "bda53660-3c27-4d8d-8b4b-d247ef5b7118"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "c786be9a5c4573e3", "uuid": "e16c1b48-9ead-4458-99e3-31f258779006"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "2d6c63bdf033511b", "uuid": "39b45b1d-7ebb-4a80-b5ab-742caf969874"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "f2fbab8d8d8f0547", "uuid": "7c56cf9b-045c-47a3-b98a-0aa0c93b7acb"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "da62383fb67fc13a", "uuid": "6e6df4ea-9ce0-4f4c-b107-4d9386add82c"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "10a6a0683c3e243b", "uuid": "80b036be-5867-48cb-88f4-40ce7344bb63"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "6fb508dbe1736155", "uuid": "2e569b9d-2044-4a05-8838-6ea41802ff58"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "ce239e512e8f2197", "uuid": "40ba3095-2425-4eff-89ea-6374a45740b9"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "c6c2b27cd5eb370b", "uuid": "77e71211-c70f-4457-8d94-a4ed4aa5482e"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "6fccc2792c7809ba", "uuid": "18655ff0-6f1c-4fbd-a36c-914bc55f2f3e"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "2c1f3fe730d02717", "uuid": "146c2dda-42f7-4c98-82ce-9c9648eaaac7"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "01949e60fe484dc7", "uuid": "8a9200bb-0cdf-4781-93c3-f4a7d0ff0dcc"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "06bb318fcaf8f1eb", "uuid": "d5735185-f59a-467a-8c8f-fc0acf2a2038"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "f0074ae8e103c6b2", "uuid": "6d32cbd1-5f8f-4678-bb53-bad65e06a623"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "38f13aa9fc15acbf", "uuid": "7e7d2acf-6376-4f54-bbf3-af2e841f99f9"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "dec5e0baf08c9f80", "uuid": "c4a067ad-e766-4bec-961a-3c422c42ff78"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "f6d977f52c0925a8", "uuid": "ed4ef252-4392-4203-8ea0-fd42d0afacc9"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "d8484e674200e2e2", "uuid": "ed44b410-6410-49ff-83af-cfd9d79256ea"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "f956568d12115896", "uuid": "6309c19d-803e-4e48-ac54-ff562794714e"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "3318d523831bcec2", "uuid": "d4abdab2-79eb-4f91-ad66-c16a0087ac8e"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "8f1fb6f4ad0badfb", "uuid": "acb5b92f-13d8-4a14-8d85-f2f63d596575"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "494f12e6e7ea7cc7", "uuid": "e611b43c-c95a-450b-ad8a-e1b85399a249"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "5b1bacd4e4ea3f06", "uuid": "eabf3bfa-3a5e-485e-9eeb-c20b65d2cb1d"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "1347e273f5270371", "uuid": "1321a4b0-ac21-49f4-a6c0-09fc4c0db305"}, "logfile": {"src": "hda", "id": "0805ac7051fb8901", "uuid": "3c60e7ab-959e-49ca-9cff-4e8b143cf24b"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "c8f3ca57d9826a1e", "uuid": "885cd646-e083-4778-adab-8014e9e41dad"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "8c2787e62639209d", "uuid": "42497e48-d9c6-4a55-bf28-49733414a4b6"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "4ffe0c6ec86fa835", "uuid": "391d3f52-467d-40c8-9cc5-f48dcf915d5a"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "3a121fe1334dac45", "uuid": "13713281-041c-40fd-a74d-ddcb42da5808"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "90653ba0c3bbef25", "uuid": "5fd0e582-f70f-46b6-9ace-6972ca445d90"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "1475351371259894", "uuid": "c7efe72a-c699-4ca0-9ac1-a070bbec67da"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "05d86b62bbf1ebc2", "uuid": "f292bb0d-92d9-4369-a09d-2f505dbbb0b1"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "03cea4f29f035f48", "uuid": "6f0164ea-df1a-4a70-abf9-824e2a691e69"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "e4a1e6f57e384175", "uuid": "dd7d6635-47e6-4b5f-873c-6a7c10da87cb"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "6194a3cf14a0177a", "uuid": "13ec25eb-e4c5-4247-a8b3-41891748aa98"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "2c6815fe89528bcf", "uuid": "4871437b-814a-4606-b01a-8ecb0959c7e1"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "a7e0eaa17f0249ff", "uuid": "3b3bdb52-fc24-419e-9e43-5c548056c18f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.otu(list=otu.dat,taxonomy=tax.taxonomy.dat,basis=otu,probs=tru \re,persample=false,cutoff=60)\nunique\t96\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n0.01\t93\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy f\n..\n.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n0.55\t1\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n\nOutput File Names: \notu.unique.cons.taxonomy\notu.unique.cons.tax.summary\notu.0.01.cons.taxonomy\notu.0.01.cons.tax.summary\notu.0.02.cons.taxonomy\notu.0.02.cons.tax.summary\notu.0.03.cons.taxonomy\notu.0.03.cons.tax.summary\notu.0.04.cons.taxonomy\notu.0.04.cons.tax.summary\notu.0.05.cons.taxonomy\notu.0.05.cons.tax.summary\notu.0.06.cons.taxonomy\notu.0.06.cons.tax.summary\notu.0.07.cons.taxonomy\notu.0.07.cons.tax.summary\notu.0.08.cons.taxonomy\notu.0.08.cons.tax.summary\notu.0.09.cons.taxonomy\notu.0.09.cons.tax.summary\notu.0.10.cons.taxonomy\notu.0.10.cons.tax.summary\notu.0.11.cons.taxonomy\notu.0.11.cons.tax.summary\notu.0.12.cons.taxonomy\notu.0.12.cons.tax.summary\notu.0.13.cons.taxonomy\notu.0.13.cons.tax.summary\notu.0.14.cons.taxonomy\notu.0.14.cons.tax.summary\notu.0.15.cons.taxonomy\notu.0.15.cons.tax.summary\notu.0.16.cons.taxonomy\notu.0.16.cons.tax.summary\notu.0.17.cons.taxonomy\notu.0.17.cons.tax.summary\notu.0.18.cons.taxonomy\notu.0.18.cons.tax.summary\notu.0.19.cons.taxonomy\notu.0.19.cons.tax.summary\notu.0.20.cons.taxonomy\notu.0.20.cons.tax.summary\notu.0.21.cons.taxonomy\notu.0.21.cons.tax.summary\notu.0.22.cons.taxonomy\notu.0.22.cons.tax.summary\notu.0.23.cons.taxonomy\notu.0.23.cons.tax.summary\notu.0.24.cons.taxonomy\notu.0.24.cons.tax.summary\notu.0.25.cons.taxonomy\notu.0.25.cons.tax.summary\notu.0.26.cons.taxonomy\notu.0.26.cons.tax.summary\notu.0.27.cons.taxonomy\notu.0.27.cons.tax.summary\notu.0.29.cons.taxonomy\notu.0.29.cons.tax.summary\notu.0.32.cons.taxonomy\notu.0.32.cons.tax.summary\notu.0.33.cons.taxonomy\notu.0.33.cons.tax.summary\notu.0.36.cons.taxonomy\notu.0.36.cons.tax.summary\notu.0.38.cons.taxonomy\notu.0.38.cons.tax.summary\notu.0.41.cons.taxonomy\notu.0.41.cons.tax.summary\notu.0.45.cons.taxonomy\notu.0.45.cons.tax.summary\notu.0.55.cons.taxonomy\notu.0.55.cons.tax.summary\n\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 3528 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_184.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_185.dat' tax.taxonomy.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && ln -s 'None' group.dat && echo 'classify.otu( list=otu.dat, taxonomy=tax.taxonomy.dat, basis=otu, probs=true, persample=false, cutoff=60 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:00:25.557457", "params": {"count": "null", "cutoff": "\"60\"", "group": "null", "name": "null", "basis": "\"otu\"", "tax": "{\"source\": \"hist\", \"__current_case__\": 1, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 185}]}}", "dbkey": "\"hg17\"", "label": "null", "persample": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "probs": "\"true\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9552", "id": "19ec6936a7590160", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_otu.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"tax|source": "hist", "label": ["unique", "0.05", "0.18"], "tax|taxonomy": {"src": "hda", "id": "3ecde483422ba55d"}, "otu": {"src": "hda", "id": "14e20f44bf5d2d72"}, "name": {"src": "hda", "id": "41b140d702d99e07"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "3ecde483422ba55d", "uuid": "33feb10f-4177-4489-b970-66fc6003bfe6"}, "name": {"src": "hda", "id": "41b140d702d99e07", "uuid": "f1f2dffb-4746-4ada-874b-c73b5608005d"}, "otu": {"src": "hda", "id": "14e20f44bf5d2d72", "uuid": "bfd08ef0-ab87-4f1b-b5a8-ff566db8e822"}}, "update_time": "2018-02-08T17:01:08.949778", "tool_id": "mothur_classify_otu", "outputs": {"__new_primary_file_unique|unique__": {"src": "hda", "id": "daf78d18ceb29125", "uuid": "b556847d-9014-4648-8be2-855a3334b841"}, "logfile": {"src": "hda", "id": "0e8c18395d13c78f", "uuid": "06734564-dbf7-41b7-a2ea-8bc0c717029d"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "5e8952dd122908bb", "uuid": "b5ed355a-7e41-4d91-a152-ba11da766200"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "7cd46ccec257d13d", "uuid": "4b444b6f-7a24-4cb6-8fb2-02221aecf0a9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.otu(list=otu.dat,taxonomy=tax.taxonomy.dat,name=name.dat,label \r=unique-0.05-0.18,basis=otu,probs=true,persample=false,cutoff=60)\nunique\t96\nU68667 is not in your taxonomy file. I will not include it in the consensus.\nU68641 is not in your taxonomy file. I will not include it in the consensus.\nU68620 is not in your taxonomy file. I will not include it in the consensus.\nU68618 is not in your taxonomy file. I will not include it in the consensus.\nU68663 is not in your taxonomy file. I will not include it in the consensus.\nU68662 is not in your taxonomy file. I will not include it in the consensus.\nU68661 is not in your taxonomy file. I will not include it in the consensus.\nU68660 is not in your taxonomy file. I will not include it in the consensus.\nU68659 is not in your taxonomy file. I will not include it in the consensus.\nU68658 is not in your taxonomy file. I will not include it in the consensus.\nU68657 is not in your taxonomy file. I will not include it in the consensus.\nU68656 is not in your taxonomy file. I will not include it in the consensus.\nU68655 is not in your taxonomy file. I will not include it in the consensus.\nU68654 is not in your taxonomy file. I will not include it in the consensus.\nU68653 is not in your taxonomy file. I will not include it in the consensus.\nU68652 is not in your taxonomy file. I will not include it in the consensus.\nU68651 is not in your taxonomy file. I will not include it in the consensus.\nU68649 is not in your taxonomy file. I will not include it in the consensus.\nU68648 is not in your taxonomy file. I will not include it in the consensus.\nU68647 is not in your taxonomy file. I will not include it in the consensus.\nU68646 is not in your taxonomy file. I will not include it in the consensus.\nU68645 is not in your taxonomy file. I will not include it in the consensus.\nU68644 is not in your taxonomy file. I will not include it in the consensus.\nU68643 is not in your taxonomy file. I will not include it in the consensus.\nU68642 is not in your taxonomy file. I will not include it in the consensus.\nU68640 is not in your taxonomy file. I will not include it in the consensus.\nU68639 is not in your taxonomy file. I will not include it in the consensus.\nU68688 is not in your taxonomy file. I will not include it in the consensus.\nU68687 is not in your taxonomy file. I will not include it in the consensus.\nU68686 is not in your taxonomy file. I will not include it in the consensus.\nU68685 is not in your taxonomy file. I will not include it in the consensus.\nU68684 is not in your taxonomy file. I will not include it in the consensus.\nU68683 is not in your taxonomy file. I will not include it in the consensus.\nU68682 is not in your taxonomy file. I will not include it in the consensus.\nU68681 is not in your taxonomy file. I will not include it in the consensus.\nU68680 is not in your taxonomy file. I will not include it in the consensus.\nU68679 is not in your taxonomy file. I will not include it in the consensus.\nU68678 is not in your taxonomy file. I will not include it in the consensus.\nU68677 is not in your taxonomy file. I will not include it in the consensus.\nU68676 is not in your taxonomy file. I will not include it in the consensus.\nU68675 is not in your taxonomy file. I will not include it in the consensus.\nU68674 is not in your taxonomy file. I will not include it in the consensus.\nU68673 is not in your taxonomy file. I will not include it in the consensus.\nU68672 is not in your taxonomy file. I will not include it in the consensus.\nU68671 is not in your taxonomy file. I will not include it in the consensus.\nU68670 is not in your taxonomy file. I will not include it in the consensus.\nU68669 is not in your taxonomy file. I will not include it in the consensus.\nU68668 is not in your taxonomy file. I will not include it in the consensus.\nU68666 is not in your taxonomy file. I will not include it in the consensus.\nU68665 is not in your taxonomy file. I will not include it in the consensus.\nU68664 is not in your taxonomy file. I will not include it in the consensus.\nU68613 is not in your taxonomy file. I will not include it in the consensus.\nU68612 is not in your taxonomy file. I will not include it in the consensus.\nU68611 is not in your taxonomy file. I will not include it in the consensus.\nU68610 is not in your taxonomy file. I will not include it in the consensus.\nU68609 is not in your taxonomy file. I will not include it in the consensus.\nU68608 is not in your taxonomy file. I will not include it in the consensus.\nU68607 is not in your taxonomy file. I will not include it in the consensus.\nU68606 is not in your taxonomy file. I will not include it in the consensus.\nU68605 is not in your taxonomy file. I will not include it in the consensus.\nU68603 is not in your taxonomy file. I will not include it in the consensus.\nU68602 is not in your taxonomy file. I will not include it in the consensus.\nU68601 is not in your taxonomy file. I will not include it in the consensus.\nU68600 is not in your taxonomy file. I will not include it in the consensus.\nU68599 is not in your taxonomy file. I will not include it in the consensus.\nU68598 is not in your taxonomy file. I will not include it in the consensus.\nU68597 is not in your taxonomy file. I will not include it in the consensus.\nU68596 is not in your taxonomy file. I will not include it in the consensus.\nU68595 is not in your taxonomy file. I will not include it in the consensus.\nU68594 is not in your taxonomy file. I will not include it in the consensus.\nU68593 is not in your taxonomy file. I will not include it in the consensus.\nU68592 is not in your taxonomy file. I will not include it in the consensus.\nU68591 is not in your taxonomy file. I will not include it in the consensus.\nU68590 is not in your taxonomy file. I will not include it in the consensus.\nU68589 is not in your taxonomy file. I will not include it in the consensus.\nU68638 is not in your taxonomy file. I will not include it in the consensus.\nU68637 is not in your taxonomy file. I will not include it in the consensus.\nU68636 is not in your taxonomy file. I will not include it in the consensus.\nU68635 is not in your taxonomy file. I will not include it in the consensus.\nU68634 is not in your taxonomy file. I will not include it in the consensus.\nU68633 is not in your taxonomy file. I will not include it in the consensus.\nU68632 is not in your taxonomy file. I will not include it in the consensus.\nU68631 is not in your taxonomy file. I will not include it in the consensus.\nU68630 is not in your taxonomy file. I will not include it in the consensus.\nU68629 is not in your taxonomy file. I will not include it in the consensus.\nU68628 is not in your taxonomy file. I will not include it in the consensus.\nU68627 is not in your taxonomy file. I will not include it in the consensus.\nU68626 is not in your taxonomy file. I will not include it in the consensus.\nU68625 is not in your taxonomy file. I will not include it in the consensus.\nU68624 is not in your taxonomy file. I will not include it in the consensus.\nU68623 is not in your taxonomy file. I will not include it in the consensus.\nU68622 is not in your taxonomy file. I will not include it in the consensus.\nU68621 is not in your taxonomy file. I will not include it in the consensus.\nU68619 is not in your taxonomy file. I will not include it in the consensus.\nU68617 is not in your taxonomy file. I will not include it in the consensus.\nU68616 is not in your taxonomy file. I will not include it in the consensus.\nU68615 is not in your taxonomy file. I will not include it in the consensus.\nU68614 is not in your taxonomy file. I will not include it in the consensus.\n0.05\t78\nU68688 is not in your taxonomy file. I will not include it in the consensus.\nU68665 is not in your taxonomy file. I will not include it in the consensus.\nU68679 is not in your taxonomy file. I will not include it in the consensus.\nU68663 is not in your taxonomy file. I will not include it in the consensus.\nU68658 is not in your taxonomy file. I will not include it in the consensus.\nU68638 is not in your taxonomy file. I will not include it in the consensus.\nU68620 is not in your taxonomy file. I will not include it in the consensus.\nU68618 is not in your taxonomy file. I will not include it in the consensus.\nU68683 is not in your taxonomy file. I will not include it in the consensus.\nU68652 is not in your taxonomy file. I will not include it in the consensus.\nU68610 is not in your taxonomy file. I will not include it in the consensus.\nU68673 is not in your taxonomy file. I will not include it in the consensus.\nU68667 is not in your taxonomy file. I will not include it in the consensus.\nU68641 is not in your taxonomy file. I will not include it in the consensus.\nU68636 is not in your taxonomy file. I will not include it in the consensus.\nU68631 is not in your taxonomy file. I will not include it in the consensus.\nU68637 is not in your taxonomy file. I will not include it in the consensus.\nU68602 is not in your taxonomy file. I will not include it in the consensus.\nU68628 is not in your taxonomy file. I will not include it in the consensus.\nU68601 is not in your taxonomy file. I will not include it in the consensus.\nU68614 is not in your taxonomy file. I will not include it in the consensus.\nU68596 is not in your taxonomy file. I will not include it in the consensus.\nU68666 is not in your taxonomy file. I will not include it in the consensus.\nU68595 is not in your taxonomy file. I will not include it in the consensus.\nU68672 is not in your taxonomy file. I will not include it in the consensus.\nU68621 is not in your taxonomy file. I will not include it in the consensus.\nU68686 is not in your taxonomy file. I will not include it in the consensus.\nU68635 is not in your taxonomy file. I will not include it in the consensus.\nU68678 is not in your taxonomy file. I will not include it in the consensus.\nU68619 is not in your taxonomy file. I will not include it in the consensus.\nU68680 is not in your taxonomy file. I will not include it in the consensus.\nU68615 is not in your taxonomy file. I will not include it in the consensus.\nU68681 is not in your taxonomy file. I will not include it in the consensus.\nU68677 is not in your taxonomy file. I will not include it in the consensus.\nU68654 is not in your taxonomy file. I will not include it in the consensus.\nU68653 is not in your taxonomy file. I will not include it in the consensus.\nU68651 is not in your taxonomy file. I will not include it in the consensus.\nU68649 is not in your taxonomy file. I will not include it in the consensus.\nU68648 is not in your taxonomy file. I will not include it in the consensus.\nU68647 is not in your taxonomy file. I will not include it in the consensus.\nU68646 is not in your taxonomy file. I will not include it in the consensus.\nU68645 is not in your taxonomy file. I will not include it in the consensus.\nU68685 is not in your taxonomy file. I will not include it in the consensus.\nU68644 is not in your taxonomy file. I will not include it in the consensus.\nU68643 is not in your taxonomy file. I will not include it in the consensus.\nU68642 is not in your taxonomy file. I will not include it in the consensus.\nU68640 is not in your taxonomy file. I will not include it in the consensus.\nU68639 is not in your taxonomy file. I will not include it in the consensus.\nU68687 is not in your taxonomy file. I will not include it in the consensus.\nU68676 is not in your taxonomy file. I will not include it in the consensus.\nU68675 is not in your taxonomy file. I will not include it in the consensus.\nU68674 is not in your taxonomy file. I will not include it in the consensus.\nU68671 is not in your taxonomy file. I will not include it in the consensus.\nU68670 is not in your taxonomy file. I will not include it in the consensus.\nU68669 is not in your taxonomy file. I will not include it in the consensus.\nU68668 is not in your taxonomy file. I will not include it in the consensus.\nU68664 is not in your taxonomy file. I will not include it in the consensus.\nU68662 is not in your taxonomy file. I will not include it in the consensus.\nU68661 is not in your taxonomy file. I will not include it in the consensus.\nU68660 is not in your taxonomy file. I will not include it in the consensus.\nU68682 is not in your taxonomy file. I will not include it in the consensus.\nU68659 is not in your taxonomy file. I will not include it in the consensus.\nU68684 is not in your taxonomy file. I will not include it in the consensus.\nU68657 is not in your taxonomy file. I will not include it in the consensus.\nU68656 is not in your taxonomy file. I will not include it in the consensus.\nU68655 is not in your taxonomy file. I will not include it in the consensus.\nU68607 is not in your taxonomy file. I will not include it in the consensus.\nU68608 is not in your taxonomy file. I will not include it in the consensus.\nU68600 is not in your taxonomy file. I will not include it in the consensus.\nU68609 is not in your taxonomy file. I will not include it in the consensus.\nU68599 is not in your taxonomy file. I will not include it in the consensus.\nU68606 is not in your taxonomy file. I will not include it in the consensus.\nU68598 is not in your taxonomy file. I will not include it in the consensus.\nU68611 is not in your taxonomy file. I will not include it in the consensus.\nU68612 is not in your taxonomy file. I will not include it in the consensus.\nU68613 is not in your taxonomy file. I will not include it in the consensus.\nU68605 is not in your taxonomy file. I will not include it in the consensus.\nU68616 is not in your taxonomy file. I will not include it in the consensus.\nU68617 is not in your taxonomy file. I will not include it in the consensus.\nU68597 is not in your taxonomy file. I will not include it in the consensus.\nU68603 is not in your taxonomy file. I will not include it in the consensus.\nU68594 is not in your taxonomy file. I will not include it in the consensus.\nU68589 is not in your taxonomy file. I will not include it in the consensus.\nU68634 is not in your taxonomy file. I will not include it in the consensus.\nU68590 is not in your taxonomy file. I will not include it in the consensus.\nU68633 is not in your taxonomy file. I will not include it in the consensus.\nU68632 is not in your taxonomy file. I will not include it in the consensus.\nU68591 is not in your taxonomy file. I will not include it in the consensus.\nU68592 is not in your taxonomy file. I will not include it in the consensus.\nU68630 is not in your taxonomy file. I will not include it in the consensus.\nU68629 is not in your taxonomy file. I will not include it in the consensus.\nU68627 is not in your taxonomy file. I will not include it in the consensus.\nU68626 is not in your taxonomy file. I will not include it in the consensus.\nU68625 is not in your taxonomy file. I will not include it in the consensus.\nU68624 is not in your taxonomy file. I will not include it in the consensus.\nU68623 is not in your taxonomy file. I will not include it in the consensus.\nU68622 is not in your taxonomy file. I will not include it in the consensus.\nU68593 is not in your taxonomy file. I will not include it in the consensus.\n0.18\t31\nU68686 is not in your taxonomy file. I will not include it in the consensus.\nU68635 is not in your taxonomy file. I will not include it in the consensus.\nU68613 is not in your taxonomy file. I will not include it in the consensus.\nU68637 is not in your taxonomy file. I will not include it in the consensus.\nU68602 is not in your taxonomy file. I will not include it in the consensus.\nU68678 is not in your taxonomy file. I will not include it in the consensus.\nU68619 is not in your taxonomy file. I will not include it in the consensus.\nU68645 is not in your taxonomy file. I will not include it in the consensus.\nU68673 is not in your taxonomy file. I will not include it in the consensus.\nU68667 is not in your taxonomy file. I will not include it in the consensus.\nU68641 is not in your taxonomy file. I will not include it in the consensus.\nU68598 is not in your taxonomy file. I will not include it in the consensus.\nU68658 is not in your taxonomy file. I will not include it in the consensus.\nU68638 is not in your taxonomy file. I will not include it in the consensus.\nU68620 is not in your taxonomy file. I will not include it in the consensus.\nU68618 is not in your taxonomy file. I will not include it in the consensus.\nU68659 is not in your taxonomy file. I will not include it in the consensus.\nU68624 is not in your taxonomy file. I will not include it in the consensus.\nU68655 is not in your taxonomy file. I will not include it in the consensus.\nU68651 is not in your taxonomy file. I will not include it in the consensus.\nU68640 is not in your taxonomy file. I will not include it in the consensus.\nU68688 is not in your taxonomy file. I will not include it in the consensus.\nU68665 is not in your taxonomy file. I will not include it in the consensus.\nU68679 is not in your taxonomy file. I will not include it in the consensus.\nU68663 is not in your taxonomy file. I will not include it in the consensus.\nU68653 is not in your taxonomy file. I will not include it in the consensus.\nU68676 is not in your taxonomy file. I will not include it in the consensus.\nU68660 is not in your taxonomy file. I will not include it in the consensus.\nU68647 is not in your taxonomy file. I will not include it in the consensus.\nU68626 is not in your taxonomy file. I will not include it in the consensus.\nU68623 is not in your taxonomy file. I will not include it in the consensus.\nU68683 is not in your taxonomy file. I will not include it in the consensus.\nU68652 is not in your taxonomy file. I will not include it in the consensus.\nU68610 is not in your taxonomy file. I will not include it in the consensus.\nU68671 is not in your taxonomy file. I will not include it in the consensus.\nU68666 is not in your taxonomy file. I will not include it in the consensus.\nU68595 is not in your taxonomy file. I will not include it in the consensus.\nU68636 is not in your taxonomy file. I will not include it in the consensus.\nU68631 is not in your taxonomy file. I will not include it in the consensus.\nU68634 is not in your taxonomy file. I will not include it in the consensus.\nU68628 is not in your taxonomy file. I will not include it in the consensus.\nU68601 is not in your taxonomy file. I will not include it in the consensus.\nU68607 is not in your taxonomy file. I will not include it in the consensus.\nU68629 is not in your taxonomy file. I will not include it in the consensus.\nU68617 is not in your taxonomy file. I will not include it in the consensus.\nU68614 is not in your taxonomy file. I will not include it in the consensus.\nU68596 is not in your taxonomy file. I will not include it in the consensus.\nU68684 is not in your taxonomy file. I will not include it in the consensus.\nU68654 is not in your taxonomy file. I will not include it in the consensus.\nU68593 is not in your taxonomy file. I will not include it in the consensus.\nU68649 is not in your taxonomy file. I will not include it in the consensus.\nU68639 is not in your taxonomy file. I will not include it in the consensus.\nU68606 is not in your taxonomy file. I will not include it in the consensus.\nU68682 is not in your taxonomy file. I will not include it in the consensus.\nU68657 is not in your taxonomy file. I will not include it in the consensus.\nU68675 is not in your taxonomy file. I will not include it in the consensus.\nU68627 is not in your taxonomy file. I will not include it in the consensus.\nU68609 is not in your taxonomy file. I will not include it in the consensus.\nU68680 is not in your taxonomy file. I will not include it in the consensus.\nU68615 is not in your taxonomy file. I will not include it in the consensus.\nU68670 is not in your taxonomy file. I will not include it in the consensus.\nU68611 is not in your taxonomy file. I will not include it in the consensus.\nU68648 is not in your taxonomy file. I will not include it in the consensus.\nU68632 is not in your taxonomy file. I will not include it in the consensus.\nU68605 is not in your taxonomy file. I will not include it in the consensus.\nU68597 is not in your taxonomy file. I will not include it in the consensus.\nU68687 is not in your taxonomy file. I will not include it in the consensus.\nU68592 is not in your taxonomy file. I will not include it in the consensus.\nU68685 is not in your taxonomy file. I will not include it in the consensus.\nU68681 is not in your taxonomy file. I will not include it in the consensus.\nU68677 is not in your taxonomy file. I will not include it in the consensus.\nU68669 is not in your taxonomy file. I will not include it in the consensus.\nU68646 is not in your taxonomy file. I will not include it in the consensus.\nU68590 is not in your taxonomy file. I will not include it in the consensus.\nU68644 is not in your taxonomy file. I will not include it in the consensus.\nU68633 is not in your taxonomy file. I will not include it in the consensus.\nU68612 is not in your taxonomy file. I will not include it in the consensus.\nU68600 is not in your taxonomy file. I will not include it in the consensus.\nU68591 is not in your taxonomy file. I will not include it in the consensus.\nU68672 is not in your taxonomy file. I will not include it in the consensus.\nU68621 is not in your taxonomy file. I will not include it in the consensus.\nU68625 is not in your taxonomy file. I will not include it in the consensus.\nU68630 is not in your taxonomy file. I will not include it in the consensus.\nU68622 is not in your taxonomy file. I will not include it in the consensus.\nU68616 is not in your taxonomy file. I will not include it in the consensus.\nU68642 is not in your taxonomy file. I will not include it in the consensus.\nU68643 is not in your taxonomy file. I will not include it in the consensus.\nU68656 is not in your taxonomy file. I will not include it in the consensus.\nU68661 is not in your taxonomy file. I will not include it in the consensus.\nU68662 is not in your taxonomy file. I will not include it in the consensus.\nU68664 is not in your taxonomy file. I will not include it in the consensus.\nU68668 is not in your taxonomy file. I will not include it in the consensus.\nU68674 is not in your taxonomy file. I will not include it in the consensus.\nU68599 is not in your taxonomy file. I will not include it in the consensus.\nU68608 is not in your taxonomy file. I will not include it in the consensus.\nU68603 is not in your taxonomy file. I will not include it in the consensus.\nU68594 is not in your taxonomy file. I will not include it in the consensus.\nU68589 is not in your taxonomy file. I will not include it in the consensus.\n\nOutput File Names: \notu.unique.cons.taxonomy\notu.unique.cons.tax.summary\notu.0.05.cons.taxonomy\notu.0.05.cons.tax.summary\notu.0.18.cons.taxonomy\notu.0.18.cons.tax.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_259.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_261.dat' tax.taxonomy.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_260.dat' name.dat && ln -s 'None' count.dat && ln -s 'None' group.dat && echo 'classify.otu( list=otu.dat, taxonomy=tax.taxonomy.dat, name=name.dat, label=unique-0.05-0.18, basis=otu, probs=true, persample=false, cutoff=60 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:01:05.437469", "params": {"count": "null", "cutoff": "\"60\"", "group": "null", "basis": "\"otu\"", "tax": "{\"source\": \"hist\", \"__current_case__\": 1, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 261}]}}", "dbkey": "\"hg17\"", "label": "[\"unique\", \"0.05\", \"0.18\"]", "persample": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "probs": "\"true\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9694", "id": "97f8596e58df898c", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_otu.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"count": {"src": "hda", "id": "a658f0c7b599f85a"}, "tax|source": "hist", "tax|taxonomy": {"src": "hda", "id": "5d952db0f0e41e99"}, "otu": {"src": "hda", "id": "1d5ca124ec943537"}, "label": ["unique", "0.05", "0.18"]}, "job": {"inputs": {"count": {"src": "hda", "id": "a658f0c7b599f85a", "uuid": "7051ce7a-a5d0-4ed9-a13e-7882ad5f7bed"}, "taxonomy": {"src": "hda", "id": "5d952db0f0e41e99", "uuid": "20a3ee2a-4eb1-4153-babd-2de585f13f8e"}, "otu": {"src": "hda", "id": "1d5ca124ec943537", "uuid": "9e4d3e13-6fd2-4c20-acfc-6891473c8bb8"}}, "update_time": "2018-02-08T17:01:41.985823", "tool_id": "mothur_classify_otu", "outputs": {"__new_primary_file_unique|unique__": {"src": "hda", "id": "648ee5580acb394c", "uuid": "968165ec-5a61-489b-9f5a-1c4a44d8209b"}, "logfile": {"src": "hda", "id": "a419613b7d66b4dd", "uuid": "22b5cf38-8021-4ac3-b82a-b3775dc54efc"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "e038b12fcc34712c", "uuid": "46b94bc7-fc22-413a-b0d9-e9fcc3140e56"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "846dc31143592f08", "uuid": "1777501a-5552-444e-b5f1-b8817295f9ea"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.otu(list=otu.dat,taxonomy=tax.taxonomy.dat,count=count.dat,lab \rel=unique-0.05-0.18,basis=otu,probs=true,persample=false,cutoff=60)\nunique\t96\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n0.05\t78\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n0.18\t31\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n\nOutput File Names: \notu.unique.cons.taxonomy\notu.unique.cons.tax.summary\notu.0.05.cons.taxonomy\notu.0.05.cons.tax.summary\notu.0.18.cons.taxonomy\notu.0.18.cons.tax.summary\n\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 294 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_269.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_271.dat' tax.taxonomy.dat && ln -s 'None' name.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_270.dat' count.dat && ln -s 'None' group.dat && echo 'classify.otu( list=otu.dat, taxonomy=tax.taxonomy.dat, count=count.dat, label=unique-0.05-0.18, basis=otu, probs=true, persample=false, cutoff=60 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:01:37.698586", "params": {"cutoff": "\"60\"", "group": "null", "name": "null", "basis": "\"otu\"", "tax": "{\"source\": \"hist\", \"__current_case__\": 1, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 271}]}}", "dbkey": "\"hg17\"", "label": "[\"unique\", \"0.05\", \"0.18\"]", "persample": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "probs": "\"true\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9833", "id": "2fd653ff8fe916b4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_otu.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"tax|source": "hist", "group": {"src": "hda", "id": "b76e2c1d909ec95b"}, "tax|taxonomy": {"src": "hda", "id": "813e726c1c531093"}, "otu": {"src": "hda", "id": "57d21b82f66bdde1"}, "label": ["unique", "0.05", "0.18"]}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "813e726c1c531093", "uuid": "8f98eaf9-8d3f-4b95-8d5c-2827160af834"}, "group": {"src": "hda", "id": "b76e2c1d909ec95b", "uuid": "b108d363-b53b-4ba9-a5ab-5514370b9031"}, "otu": {"src": "hda", "id": "57d21b82f66bdde1", "uuid": "4b4c9c08-0b9e-4c76-8c65-1bf75ba8a076"}}, "update_time": "2018-02-08T17:02:13.958072", "tool_id": "mothur_classify_otu", "outputs": {"__new_primary_file_unique|unique__": {"src": "hda", "id": "3eabac299c8a6493", "uuid": "9fce3e7c-3d6c-489a-afd1-0157a5edb910"}, "logfile": {"src": "hda", "id": "694613cce11a624b", "uuid": "d6b6fbb4-5321-4709-af2f-e7c17755f3ea"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "4b73dece6b8202b2", "uuid": "8ee4e725-22ba-4778-a6ac-2a0f9b10b8e0"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "8960b7e82c319407", "uuid": "010aef81-9c17-4c7f-9413-ac98a3b10a6c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.otu(list=otu.dat,taxonomy=tax.taxonomy.dat,label=unique-0.05-0 \r.18,group=group.dat,basis=otu,probs=true,persample=false,cutoff=60)\nunique\t96\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n0.05\t78\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n0.18\t31\n[WARNING]: U68686 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68635 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68613 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68637 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68602 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68678 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68619 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68645 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68673 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68667 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68641 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68598 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68658 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68638 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68620 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68618 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68659 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68624 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68655 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68651 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68640 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68688 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68665 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68679 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68663 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68653 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68676 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68660 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68647 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68626 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68623 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68683 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68652 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68610 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68671 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68666 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68595 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68636 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68631 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68634 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68628 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68601 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68607 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68629 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68617 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68614 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68596 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68684 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68654 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68593 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68649 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68639 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68606 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68682 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68657 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68675 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68627 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68609 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68680 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68615 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68670 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68611 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68648 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68632 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68605 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68597 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68687 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68592 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68685 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68681 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68677 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68669 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68646 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68590 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68644 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68633 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68612 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68600 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68591 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68672 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68621 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68625 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68630 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68622 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68616 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68642 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68643 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68656 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68661 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68662 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68664 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68668 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68674 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68599 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68608 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68603 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68594 is not in your taxonomy file. I will not include it in the consensus.\n[WARNING]: U68589 is not in your taxonomy file. I will not include it in the consensus.\n\nOutput File Names: \notu.unique.cons.taxonomy\notu.unique.cons.tax.summary\notu.0.05.cons.taxonomy\notu.0.05.cons.tax.summary\notu.0.18.cons.taxonomy\notu.0.18.cons.tax.summary\n\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 294 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_279.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_280.dat' tax.taxonomy.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_281.dat' group.dat && echo 'classify.otu( list=otu.dat, taxonomy=tax.taxonomy.dat, label=unique-0.05-0.18, group=group.dat, basis=otu, probs=true, persample=false, cutoff=60 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:02:10.308889", "params": {"count": "null", "cutoff": "\"60\"", "name": "null", "basis": "\"otu\"", "tax": "{\"source\": \"hist\", \"__current_case__\": 1, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 280}]}}", "dbkey": "\"hg17\"", "label": "[\"unique\", \"0.05\", \"0.18\"]", "persample": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "probs": "\"true\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9963", "id": "c0ae89d2a79fffb2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_otu.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"alignment|template": {"src": "hda", "id": "349f287fcb778b99"}, "fasta": {"src": "hda", "id": "0407161672f94bd4"}, "tax|taxonomy": {"src": "hda", "id": "4b1441c8dda2d2fe"}, "alignment|source": "hist", "tax|source2": "hist"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "4b1441c8dda2d2fe", "uuid": "381f807d-770b-42d4-b24a-32d31669b6b9"}, "fasta": {"src": "hda", "id": "0407161672f94bd4", "uuid": "be23beec-f064-475f-b29d-ad87f64cc62f"}, "template": {"src": "hda", "id": "349f287fcb778b99", "uuid": "391175a3-7a7e-4fd8-804a-bcc27d515553"}}, "update_time": "2018-02-08T17:02:47.091134", "tool_id": "mothur_classify_seqs", "outputs": {"tree_sum": {"src": "hda", "id": "377e6a8287fa8b6a", "uuid": "fe77ae40-a1fd-44c7-9b99-30842ebd72aa"}, "logfile": {"src": "hda", "id": "f66e4e467d639b46", "uuid": "0e7a3aee-7e4d-42fe-b662-09330ca5f7db"}, "taxonomy_out": {"src": "hda", "id": "d60bc3c056ce6d02", "uuid": "6376f71e-8f69-4634-8b4a-de2fd2b243b8"}, "tax_summary": {"src": "hda", "id": "513510c2b856e80e", "uuid": "a49b76f5-5eac-4dfb-a188-bafce159c86e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.seqs(fasta=fasta.dat,reference=alignment.template.dat,taxonomy \r=tax.taxonomy.dat,method=wang,ksize=8,iters=100,cutoff=80,probs=true,relabund=fa \rlse,printlevel=-1,processors=1)\n\nUsing 1 processors.\nGenerating search database... DONE.\nIt took 0 seconds generate search database. \n\nReading in the tax.taxonomy.dat taxonomy...\tDONE.\nCalculating template taxonomy tree... DONE.\nCalculating template probabilities... DONE.\nIt took 1 seconds get probabilities. \nClassifying sequences from fasta.dat ...\n[WARNING]: U68596 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68609 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68611 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68614 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68617 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68618 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68627 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68634 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68638 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68640 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68642 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68643 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68651 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68653 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68656 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68657 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68658 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68668 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68669 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68670 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68675 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68677 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68681 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\n[WARNING]: U68682 could not be classified. You can use the remove.lineage command with taxon=unknown; to remove such sequences.\nProcessing sequence: 98\n\n[WARNING]: mothur reversed some your sequences for a better classification. If you would like to take a closer look, please check fasta.taxonomy.wang.flip.accnos for the list of the sequences.\n\nIt took 0 secs to classify 98 sequences.\n\n\nIt took 0 secs to create the summary file for 98 sequences.\n\n\nOutput File Names: \nfasta.taxonomy.wang.taxonomy\nfasta.taxonomy.wang.tax.summary\nfasta.taxonomy.wang.flip.accnos\n\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 25 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_289.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_290.dat' alignment.template.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_291.dat' tax.taxonomy.dat && ln -s 'None' count.dat && ln -s 'None' name.dat && echo 'classify.seqs( fasta=fasta.dat, reference=alignment.template.dat, taxonomy=tax.taxonomy.dat, method=wang, ksize=8, iters=100, cutoff=80, probs=true, relabund=false, printlevel=-1, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:02:43.203871", "params": {"count": "null", "name": "null", "relabund": "\"false\"", "tax": "{\"source2\": \"hist\", \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 291}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\"", "classify": "{\"cutoff\": \"80\", \"iters\": \"100\", \"method\": \"wang\", \"ksize\": \"8\", \"__current_case__\": 0, \"probs\": \"true\"}", "printlevel": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"template\": {\"values\": [{\"src\": \"hda\", \"id\": 290}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "10110", "id": "20de7af3d288c35f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"alignment|source": "hist", "alignment|template": {"src": "hda", "id": "b09dd54432ee600c"}, "classify|method": "knn", "fasta": {"src": "hda", "id": "25de304670fe7732"}, "tax|taxonomy": {"src": "hda", "id": "d57022ef22692475"}, "tax|source2": "hist"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "d57022ef22692475", "uuid": "c5a22f6a-70ff-4be6-9ba1-539f6d461dc9"}, "fasta": {"src": "hda", "id": "25de304670fe7732", "uuid": "831ee786-6fba-4803-b0ec-193c971e80e0"}, "template": {"src": "hda", "id": "b09dd54432ee600c", "uuid": "d6d8be3f-1709-46c3-a983-664e37ff6a50"}}, "update_time": "2018-02-08T17:03:25.633396", "tool_id": "mothur_classify_seqs", "outputs": {"tree_sum": {"src": "hda", "id": "c64bfc8445bed47e", "uuid": "678f639a-1732-4d98-8d91-e026ba091ebb"}, "logfile": {"src": "hda", "id": "7528831c3de506aa", "uuid": "9da71a0b-5901-4861-b9af-a7d50b40fd6d"}, "taxonomy_out": {"src": "hda", "id": "9b36a3aa47b79bf2", "uuid": "d0682327-05f1-48b6-8135-0888ec93e2ea"}, "tax_summary": {"src": "hda", "id": "14f44a11533277c1", "uuid": "754d8fee-d74e-402b-a9bd-e38b3c9b05d9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.seqs(fasta=fasta.dat,reference=alignment.template.dat,taxonomy \r=tax.taxonomy.dat,method=knn,numwanted=10,search=kmer,ksize=8,relabund=false,pri \rntlevel=-1,processors=1)\n\nUsing 1 processors.\nGenerating search database... DONE.\nIt took 0 seconds generate search database. \n\nReading in the tax.taxonomy.dat taxonomy...\tDONE.\nClassifying sequences from fasta.dat ...\nProcessing sequence: 98\n\nIt took 0 secs to classify 98 sequences.\n\n\nIt took 0 secs to create the summary file for 98 sequences.\n\n\nOutput File Names: \nfasta.taxonomy.knn.taxonomy\nfasta.taxonomy.knn.tax.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_296.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_297.dat' alignment.template.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_298.dat' tax.taxonomy.dat && ln -s 'None' count.dat && ln -s 'None' name.dat && echo 'classify.seqs( fasta=fasta.dat, reference=alignment.template.dat, taxonomy=tax.taxonomy.dat, method=knn, numwanted=10, search=kmer, ksize=8, relabund=false, printlevel=-1, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:03:21.352750", "params": {"count": "null", "name": "null", "relabund": "\"false\"", "tax": "{\"source2\": \"hist\", \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 298}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\"", "classify": "{\"search\": {\"__current_case__\": 0, \"algorithm\": \"kmer\", \"ksize\": \"8\"}, \"numwanted\": \"10\", \"method\": \"knn\", \"__current_case__\": 1}", "printlevel": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"template\": {\"values\": [{\"src\": \"hda\", \"id\": 297}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "10262", "id": "69ce05044577833e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"alignment|source": "hist", "alignment|template": {"src": "hda", "id": "266b4c416078dc76"}, "classify|method": "knn", "classify|search|algorithm": "blast", "fasta": {"src": "hda", "id": "266b4c416078dc76"}, "tax|taxonomy": {"src": "hda", "id": "0b62b0b7271d572a"}, "tax|source2": "hist"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "0b62b0b7271d572a", "uuid": "40100a80-787e-42c4-9675-299ce099136f"}, "fasta": {"src": "hda", "id": "266b4c416078dc76", "uuid": "b7c393c3-fcd3-4602-8d08-19c7b41c1c11"}, "template": {"src": "hda", "id": "266b4c416078dc76", "uuid": "b7c393c3-fcd3-4602-8d08-19c7b41c1c11"}}, "update_time": "2018-02-08T17:04:00.015489", "tool_id": "mothur_classify_seqs", "outputs": {"tree_sum": {"src": "hda", "id": "044df8528177c496", "uuid": "0f333d2b-e98f-4c1d-9885-b9442a00d0ad"}, "logfile": {"src": "hda", "id": "8543024575f6f30b", "uuid": "94d5ad8d-bac4-4263-9369-41a64e40fb91"}, "taxonomy_out": {"src": "hda", "id": "74219090cb2d0112", "uuid": "10a61d0e-97a8-4051-8e84-49992c7ef157"}, "tax_summary": {"src": "hda", "id": "c8288be11b30d2bc", "uuid": "336d67d8-5c97-4c99-852b-a60d956a0402"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.seqs(fasta=fasta.dat,reference=alignment.template.dat,taxonomy \r=tax.taxonomy.dat,method=knn,numwanted=10,search=blast,match=1,mismatch=-1,gapop \ren=-2,gapextend=-1,relabund=false,printlevel=-1,processors=1)\n\nUsing 1 processors.\nGenerating search database... DONE.\nIt took 0 seconds generate search database. \n\nReading in the tax.taxonomy.dat taxonomy...\tDONE.\nClassifying sequences from fasta.dat ...\nProcessing sequence: 100\nProcessing sequence: 200\nProcessing sequence: 242\n\nIt took 2 secs to classify 242 sequences.\n\n\nIt took 0 secs to create the summary file for 242 sequences.\n\n\nOutput File Names: \nfasta.taxonomy.knn.taxonomy\nfasta.taxonomy.knn.tax.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s `dirname $(which mothur)`/* . && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_304.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_304.dat' alignment.template.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_305.dat' tax.taxonomy.dat && ln -s 'None' count.dat && ln -s 'None' name.dat && echo 'classify.seqs( fasta=fasta.dat, reference=alignment.template.dat, taxonomy=tax.taxonomy.dat, method=knn, numwanted=10, search=blast, match=1, mismatch=-1, gapopen=-2, gapextend=-1, relabund=false, printlevel=-1, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | ./mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:03:54.993513", "params": {"count": "null", "name": "null", "relabund": "\"false\"", "tax": "{\"source2\": \"hist\", \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 305}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\"", "classify": "{\"search\": {\"algorithm\": \"blast\", \"gapopen\": \"-2\", \"mismatch\": \"-1\", \"__current_case__\": 1, \"gapextend\": \"-1\", \"match\": \"1\"}, \"numwanted\": \"10\", \"method\": \"knn\", \"__current_case__\": 1}", "printlevel": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "alignment": "{\"source\": \"hist\", \"template\": {\"values\": [{\"src\": \"hda\", \"id\": 304}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n./mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "10403", "id": "00c35829965cb81b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"taxonomy": {"src": "hda", "id": "466b5293998bb5d6"}, "tree": {"src": "hda", "id": "906904e43ca63ecd"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "466b5293998bb5d6", "uuid": "f20e3c76-1740-4eff-8630-3d567e7839be"}, "tree": {"src": "hda", "id": "906904e43ca63ecd", "uuid": "4af15274-31d4-47f9-8d4c-b4e4f9a9adcf"}}, "update_time": "2018-02-08T17:04:27.158188", "tool_id": "mothur_classify_tree", "outputs": {"out_tree": {"src": "hda", "id": "1eb4a85cdfd1d969", "uuid": "104fa8be-7644-42c1-ac6a-5d57cf6fbe19"}, "logfile": {"src": "hda", "id": "59d26e2d28c3eb74", "uuid": "4320b983-e868-4c16-87da-966b2e111b80"}, "summary": {"src": "hda", "id": "8078f99fccaa607a", "uuid": "6b82ae77-a2de-422f-9cc5-652ce31296b1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > classify.tree(tree=tree.dat,taxonomy=taxonomy.dat)\na is not in your taxonomy file. I will not include it in the consensus.\nd is not in your taxonomy file. I will not include it in the consensus.\na is not in your taxonomy file. I will not include it in the consensus.\nd is not in your taxonomy file. I will not include it in the consensus.\nf is not in your taxonomy file. I will not include it in the consensus.\n\n\nIt took 0 secs to find the concensus taxonomies.\n\nOutput File Names: \ntree.taxonomy.summary\ntree.taxonomy.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_311.dat' tree.dat && ln -s 'None' name.dat && ln -s 'None' group.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_310.dat' taxonomy.dat && echo 'classify.tree( tree=tree.dat, taxonomy=taxonomy.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:04:23.889464", "params": {"cutoff": "\"51\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\"", "group": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "11070", "id": "1fb9c7b21f94ef77", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_classify_tree.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|source": "phylip", "input|infile": {"src": "hda", "id": "e71a1c7a27ae6506"}}, "job": {"inputs": {"infile": {"src": "hda", "id": "e71a1c7a27ae6506", "uuid": "eb16f0aa-2f7d-4385-a0d9-8893849c19bc"}}, "update_time": "2018-02-08T17:04:49.595673", "tool_id": "mothur_clearcut", "outputs": {"logfile": {"src": "hda", "id": "b41e07faea40178d", "uuid": "17ef5d40-149c-43ad-a520-f7546721c4cf"}, "tree": {"src": "hda", "id": "0ea0054cb0d7ae96", "uuid": "ab2586c0-c483-47ff-98ce-5c92766ad47b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > clearcut(phylip=input.infile.dat,ntrees=1,norandom=false,shuffle=false, \rexpblen=OFF,expdist=OFF,neighbor=true)\n\nOutput File Names: \ninput.infile.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_315.dat' input.infile.dat && echo 'clearcut( phylip=input.infile.dat, ntrees=1, norandom=false, shuffle=false, expblen=OFF, expdist=OFF, neighbor=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:04:46.486175", "params": {"expdist": "\"false\"", "ntrees": "\"1\"", "shuffle": "\"false\"", "matrixout": "\"false\"", "dbkey": "\"hg17\"", "norandom": "\"false\"", "seed": "\"\"", "expblen": "\"false\"", "neighbor": "\"true\"", "input": "{\"source\": \"phylip\", \"infile\": {\"values\": [{\"src\": \"hda\", \"id\": 315}]}, \"__current_case__\": 2}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "11169", "id": "cf18f77993464b22", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_clearcut.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"expdist": true, "ntrees": "3", "shuffle": true, "norandom": true, "input|infile": {"src": "hda", "id": "aa70baf734620bdc"}, "matrixout": true, "input|source": "phylip", "expblen": true, "neighbor": false}, "job": {"inputs": {"infile": {"src": "hda", "id": "aa70baf734620bdc", "uuid": "c5ef22fd-857f-4977-a690-b821788054f9"}}, "update_time": "2018-02-08T17:05:03.113363", "tool_id": "mothur_clearcut", "outputs": {"logfile": {"src": "hda", "id": "2b0e2d16a6440935", "uuid": "c487b0c3-d332-43b8-be67-8ac767c93ab2"}, "tree": {"src": "hda", "id": "a81292b81d01663f", "uuid": "e5ce56a6-79c4-47d5-83b8-6cc4a6f68013"}, "matrix": {"src": "hda", "id": "e6bde25d0e72014d", "uuid": "09b640a1-dc3a-4ce9-ba5e-451e328abf99"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > clearcut(phylip=input.infile.dat,matrixout=matrixout.dist,ntrees=3,nora \rndom=true,shuffle=true,expblen=ON,expdist=ON,neighbor=false)\n\nOutput File Names: \ninput.infile.tre\nmatrixout.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_318.dat' input.infile.dat && echo 'clearcut( phylip=input.infile.dat, matrixout=matrixout.dist, ntrees=3, norandom=true, shuffle=true, expblen=ON, expdist=ON, neighbor=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:04:59.020694", "params": {"expdist": "\"true\"", "ntrees": "\"3\"", "shuffle": "\"true\"", "matrixout": "\"true\"", "dbkey": "\"hg17\"", "norandom": "\"true\"", "seed": "\"\"", "expblen": "\"true\"", "neighbor": "\"false\"", "input": "{\"source\": \"phylip\", \"infile\": {\"values\": [{\"src\": \"hda\", \"id\": 318}]}, \"__current_case__\": 2}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "11257", "id": "161ef5576377f4a0", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_clearcut.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"matrixout": true, "input|source": "dna", "input|infile": {"src": "hda", "id": "3b972a2e0d2ad508"}}, "job": {"inputs": {"infile": {"src": "hda", "id": "3b972a2e0d2ad508", "uuid": "42b137e8-ee9a-4fcd-9125-f44f25e16653"}}, "update_time": "2018-02-08T17:05:23.706458", "tool_id": "mothur_clearcut", "outputs": {"logfile": {"src": "hda", "id": "bf269ecfb1e2517b", "uuid": "f08be317-84d0-40a3-9e7f-71c6f8c47ebf"}, "tree": {"src": "hda", "id": "b756dc95aa3bca1d", "uuid": "29b63329-68d2-466e-8cbc-4f2bb9822b12"}, "matrix": {"src": "hda", "id": "72392165690065e0", "uuid": "94005b9d-5213-43f1-8ed6-624f86aa72d1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > clearcut(fasta=input.infile.dat,DNA=true,matrixout=matrixout.dist,ntree \rs=1,norandom=false,shuffle=false,expblen=OFF,expdist=OFF,neighbor=true)\n\nOutput File Names: \ninput.infile.tre\nmatrixout.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_322.dat' input.infile.dat && echo 'clearcut( fasta=input.infile.dat, DNA=true, matrixout=matrixout.dist, ntrees=1, norandom=false, shuffle=false, expblen=OFF, expdist=OFF, neighbor=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:05:20.414063", "params": {"expdist": "\"false\"", "ntrees": "\"1\"", "shuffle": "\"false\"", "matrixout": "\"true\"", "dbkey": "\"hg17\"", "norandom": "\"false\"", "seed": "\"\"", "expblen": "\"false\"", "neighbor": "\"true\"", "input": "{\"source\": \"dna\", \"infile\": {\"values\": [{\"src\": \"hda\", \"id\": 322}]}, \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "11345", "id": "f21e60058e4146e2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_clearcut.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"matrix|format": "phylip", "matrix|dist": {"src": "hda", "id": "94bd5fbd2d4dc748"}}, "job": {"inputs": {"dist": {"src": "hda", "id": "94bd5fbd2d4dc748", "uuid": "ad044749-8a81-439a-9fc9-cef9c22d1dcc"}}, "update_time": "2018-02-08T17:05:42.437919", "tool_id": "mothur_cluster", "outputs": {"rabund": {"src": "hda", "id": "35e639f464fb8f4d", "uuid": "1d4871ed-9f54-483f-95fd-5ec6e68af090"}, "logfile": {"src": "hda", "id": "ffc368cd972b6cba", "uuid": "309c09e9-25e7-4587-aa9b-610dbfed4648"}, "otulist": {"src": "hda", "id": "3c43ce8ab3a9cd20", "uuid": "a2c686bc-bc70-4ece-af0b-387a4e03ba6d"}, "sabund": {"src": "hda", "id": "475e4ad0b99b0c18", "uuid": "53f99ebc-3088-43cc-9403-64b6b285ba67"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster(phylip=matrix.dist.dat,metric=mcc,initialize=singleton,delta=0. \r0001,iters=100,precision=100,sim=false,method=opti)\n\nUsing 1 processors.\n\nYou did not set a cutoff, using 0.03.\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering matrix.dist.dat\n\n\niter\ttime\tlabel\tnum_otus\tcutoff\ttp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t0\t0.03\t98\t0.03\t0\t4736\t0\t17\t0\t1\t0\t0.996423\t0\t0.996423\t0\t0\t\n1\t0\t0.03\t88\t0.03\t17\t4736\t0\t0\t1\t1\t1\t1\t0\t1\t1\t1\t\n2\t0\t0.03\t88\t0.03\t17\t4736\t0\t0\t1\t1\t1\t1\t0\t1\t1\t1\t\n\n\nIt took 0 seconds to cluster\n\nOutput File Names: \nmatrix.dist.opti_mcc.list\nmatrix.dist.opti_mcc.steps\nmatrix.dist.opti_mcc.sabund\nmatrix.dist.opti_mcc.rabund\nmatrix.dist.opti_mcc.sensspec\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_326.dat' matrix.dist.dat && ln -s 'None' matrix.name.dat && ln -s 'None' count.dat && echo 'cluster( phylip=matrix.dist.dat, metric=mcc, initialize=singleton, delta=0.0001, iters=100, precision=100, sim=false, method=opti )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:05:37.908897", "params": {"count": "null", "cutoff": "\"0.0\"", "matrix": "{\"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 326}]}, \"name\": null, \"__current_case__\": 1, \"format\": \"phylip\"}", "select_method": "{\"iters\": \"100\", \"metric\": \"mcc\", \"__current_case__\": 5, \"delta\": \"0.0001\", \"initialize\": \"singleton\", \"method\": \"opti\"}", "dbkey": "\"hg17\"", "precision": "\"100\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "sim": "\"false\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "11445", "id": "c95281174db2641a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"matrix|format": "column", "matrix|dist": {"src": "hda", "id": "555065f5aff402d2"}, "matrix|name": {"src": "hda", "id": "597e4b92c7768991"}}, "job": {"inputs": {"dist": {"src": "hda", "id": "555065f5aff402d2", "uuid": "a8c89c54-a556-4e5a-bffc-3a38dd6130d8"}, "name": {"src": "hda", "id": "597e4b92c7768991", "uuid": "5f592839-3c46-4865-9ccc-734ebdc5e415"}}, "update_time": "2018-02-08T17:06:18.213444", "tool_id": "mothur_cluster", "outputs": {"rabund": {"src": "hda", "id": "ea74846895a98ad3", "uuid": "aa327386-1426-45e7-9f55-12e85d15b4ec"}, "logfile": {"src": "hda", "id": "6a9009e6b944272b", "uuid": "bfad486b-574e-4864-9770-3aadc0bf5a3f"}, "otulist": {"src": "hda", "id": "90fd946e89881eaf", "uuid": "d1317f90-e5ab-4c75-8679-28965c9824ae"}, "sabund": {"src": "hda", "id": "2df305d2bcf63841", "uuid": "b0c4d1d2-56c8-47cc-a5a0-cb68bca73f8b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster(column=matrix.dist.dat,name=matrix.name.dat,metric=mcc,initiali \rze=singleton,delta=0.0001,iters=100,precision=100,sim=false,method=opti)\n\nUsing 1 processors.\n\nYou did not set a cutoff, using 0.03.\n\nClustering matrix.dist.dat\n\n\niter\ttime\tlabel\tnum_otus\tcutoff\ttp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t0\t0.03\t96\t0.03\t0\t4560\t0\t0\t0\t1\t0\t1\t0\t1\t0\t0\t\n1\t0\t0.03\t96\t0.03\t0\t4560\t0\t0\t0\t1\t0\t1\t0\t1\t0\t0\t\n\n\nIt took 0 seconds to cluster\n\nOutput File Names: \nmatrix.dist.opti_mcc.list\nmatrix.dist.opti_mcc.steps\nmatrix.dist.opti_mcc.sabund\nmatrix.dist.opti_mcc.rabund\nmatrix.dist.opti_mcc.sensspec\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_331.dat' matrix.dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_332.dat' matrix.name.dat && ln -s 'None' count.dat && echo 'cluster( column=matrix.dist.dat, name=matrix.name.dat, metric=mcc, initialize=singleton, delta=0.0001, iters=100, precision=100, sim=false, method=opti )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:06:12.756285", "params": {"count": "null", "cutoff": "\"0.0\"", "matrix": "{\"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 331}]}, \"name\": {\"values\": [{\"src\": \"hda\", \"id\": 332}]}, \"__current_case__\": 0, \"format\": \"column\"}", "select_method": "{\"iters\": \"100\", \"metric\": \"mcc\", \"__current_case__\": 5, \"delta\": \"0.0001\", \"initialize\": \"singleton\", \"method\": \"opti\"}", "dbkey": "\"hg17\"", "precision": "\"100\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "sim": "\"false\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "11596", "id": "26b7e36460fca86e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"matrix|format": "column", "matrix|dist": {"src": "hda", "id": "8ea35917f4649fec"}, "matrix|name": {"src": "hda", "id": "48c17343dcb0fe59"}}, "job": {"inputs": {"dist": {"src": "hda", "id": "8ea35917f4649fec", "uuid": "c9f7d113-9030-4115-82ee-9d65edd27e3a"}, "name": {"src": "hda", "id": "48c17343dcb0fe59", "uuid": "4174a4bd-d31b-42e3-9a07-b5858c5b925a"}}, "update_time": "2018-02-08T17:06:51.168891", "tool_id": "mothur_cluster", "outputs": {"rabund": {"src": "hda", "id": "459ebd1d4b9be0d2", "uuid": "c8f134ea-eb5e-4118-9fbb-57397b54ef29"}, "logfile": {"src": "hda", "id": "940151f28ccfd679", "uuid": "3ce4b4ef-c34d-43af-8595-156fea1810ec"}, "otulist": {"src": "hda", "id": "acb5efb55c8f2fca", "uuid": "b9eed437-fa24-4763-9798-48ebc331434d"}, "sabund": {"src": "hda", "id": "86fc1a32b14d4612", "uuid": "97a259d7-58c2-4e3e-9301-9f6b4eaf1012"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster(column=matrix.dist.dat,name=matrix.name.dat,metric=mcc,initiali \rze=singleton,delta=0.0001,iters=100,precision=100,sim=false,method=opti)\n\nUsing 1 processors.\n\nYou did not set a cutoff, using 0.03.\n\nClustering matrix.dist.dat\n\n\niter\ttime\tlabel\tnum_otus\tcutoff\ttp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t0\t0.03\t96\t0.03\t0\t4560\t0\t0\t0\t1\t0\t1\t0\t1\t0\t0\t\n1\t0\t0.03\t96\t0.03\t0\t4560\t0\t0\t0\t1\t0\t1\t0\t1\t0\t0\t\n\n\nIt took 0 seconds to cluster\n\nOutput File Names: \nmatrix.dist.opti_mcc.list\nmatrix.dist.opti_mcc.steps\nmatrix.dist.opti_mcc.sabund\nmatrix.dist.opti_mcc.rabund\nmatrix.dist.opti_mcc.sensspec\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_337.dat' matrix.dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_338.dat' matrix.name.dat && ln -s 'None' count.dat && echo 'cluster( column=matrix.dist.dat, name=matrix.name.dat, metric=mcc, initialize=singleton, delta=0.0001, iters=100, precision=100, sim=false, method=opti )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:06:46.589877", "params": {"count": "null", "cutoff": "\"0.0\"", "matrix": "{\"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 337}]}, \"name\": {\"values\": [{\"src\": \"hda\", \"id\": 338}]}, \"__current_case__\": 0, \"format\": \"column\"}", "select_method": "{\"iters\": \"100\", \"metric\": \"mcc\", \"__current_case__\": 5, \"delta\": \"0.0001\", \"initialize\": \"singleton\", \"method\": \"opti\"}", "dbkey": "\"hg17\"", "precision": "\"100\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "sim": "\"false\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "11767", "id": "5c14fa19c3fe9aa2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"dist": {"src": "hda", "id": "c2096fa94981c9cc"}}, "job": {"inputs": {"dist": {"src": "hda", "id": "c2096fa94981c9cc", "uuid": "457e36fb-13ec-40ee-9969-e08fefad8496"}}, "update_time": "2018-02-08T17:07:21.690682", "tool_id": "mothur_cluster_classic", "outputs": {"rabund": {"src": "hda", "id": "aa6cc630da5109fb", "uuid": "564a1502-1ffc-414c-91dd-bb7b7a442616"}, "logfile": {"src": "hda", "id": "37f9ab3378d23774", "uuid": "69ef929f-cc25-41b2-86a0-2d58b70bf44e"}, "otulist": {"src": "hda", "id": "4c469a959b869c08", "uuid": "8e7894e4-13ae-4ba0-a182-db5048ef9f4d"}, "sabund": {"src": "hda", "id": "8c559fb88d75a36b", "uuid": "e2b7d2e7-d821-4291-8384-da431189328d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > cluster.classic(phylip=dist.dat,method=average,precision=100,sim=false) \r\u001b[A\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[K)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nunique\t1\t24\n1.75\t2\t22\t1\n2.01\t2\t20\t2\n2.10\t2\t18\t3\n2.13\t2\t16\t4\n2.22\t2\t14\t5\n2.26\t3\t11\t5\t1\n2.42\t5\t11\t4\t0\t0\t1\n2.93\t6\t10\t4\t0\t0\t0\t1\n3.07\t6\t10\t2\t0\t1\t0\t1\n3.27\t6\t9\t1\t1\t1\t0\t1\n3.34\t6\t7\t2\t1\t1\t0\t1\n3.44\t6\t6\t1\t2\t1\t0\t1\n3.53\t7\t6\t1\t1\t0\t0\t1\t1\n3.56\t7\t4\t2\t1\t0\t0\t1\t1\n4.07\t7\t3\t2\t0\t1\t0\t1\t1\n4.15\t13\t3\t2\t0\t1\t0\t0\t0\t0\t0\t0\t0\t0\t1\n4.58\t13\t2\t1\t1\t1\t0\t0\t0\t0\t0\t0\t0\t0\t1\n4.72\t13\t1\t1\t1\t0\t1\t0\t0\t0\t0\t0\t0\t0\t1\n5.18\t16\t1\t1\t0\t0\t1\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t1\n5.76\t21\t1\t1\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t1\n5.91\t23\t1\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t1\n6.67\t24\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t1\n\nOutput File Names: \ndist.an.sabund\ndist.an.rabund\ndist.an.list\n\nIt took 0 seconds to cluster\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_343.dat' dist.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'cluster.classic( phylip=dist.dat, method=average, precision=100, sim=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:07:18.320079", "params": {"count": "null", "cutoff": "\"\"", "name": "null", "precision": "\"100\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"average\"", "sim": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "11897", "id": "fc5c2ad70cbb4f9f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_classic.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "82ea1c58d22fbeef"}, "names": {"src": "hda", "id": "3d5f803521123c6e"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "82ea1c58d22fbeef", "uuid": "4b29d8b2-b22d-4643-a7f1-7bdb8254276e"}, "names": {"src": "hda", "id": "3d5f803521123c6e", "uuid": "342207f4-9855-4fa3-ab02-b062f576deb6"}}, "update_time": "2018-02-08T17:07:53.344919", "tool_id": "mothur_cluster_fragments", "outputs": {"out_names": {"src": "hda", "id": "0c1eec7a0b69039e", "uuid": "397fead2-7a43-4716-8db4-a1f09b18b77a"}, "logfile": {"src": "hda", "id": "d5273cf5fa0c242d", "uuid": "a5fa27a5-b40b-4bcb-8cd9-e909b56c9370"}, "out_fasta": {"src": "hda", "id": "ec0fb831200675f4", "uuid": "db083fe2-064f-4445-837c-2584ba3c2999"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > cluster.fragments(fasta=fasta.dat,diffs=0,percent=0,name=names.dat)\n0\t98\t0\n98\t96\t2\n\nTotal number of sequences before cluster.fragments was 98.\ncluster.fragments removed 2 sequences.\n\nIt took 0 secs to cluster 98 sequences.\n\nOutput File Names: \nfasta.fragclust.fasta\nfasta.fragclust.names\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_348.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_349.dat' names.dat && ln -s 'None' count.dat && echo 'cluster.fragments( fasta=fasta.dat, diffs=0, percent=0, name=names.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:07:49.188733", "params": {"count": "null", "diffs": "\"0\"", "percent": "\"0\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "12010", "id": "83e248eabb1b3d31", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_fragments.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"splitby|condmethod|method": "average", "splitby|matrix|format": "phylip", "splitby|matrix|dist": {"src": "hda", "id": "f1f75462f416e186"}, "splitby|splitmethod": "distance"}, "job": {"inputs": {"splitby|dist": {"src": "hda", "id": "f1f75462f416e186", "uuid": "74f96c23-ef2d-4632-abaa-2b2a0d763fab"}}, "update_time": "2018-02-08T17:08:20.393794", "tool_id": "mothur_cluster_split", "outputs": {"rabund": {"src": "hda", "id": "f283e96027016ec6", "uuid": "d18af698-5952-4a8f-aae0-9daddd004626"}, "logfile": {"src": "hda", "id": "0ab9f8045882e86f", "uuid": "a832c53d-dbd3-4455-85f3-1bf23af63e6e"}, "otulist": {"src": "hda", "id": "2c72ab2ea314d830", "uuid": "c2874287-ffa4-4064-b4bb-e682011a03b9"}, "sabund": {"src": "hda", "id": "f3e7443ed4070d7c", "uuid": "b1621de1-03a0-4536-81db-30c4948b7a8f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster.split(splitmethod=distance,phylip=splitby.matrix.dist.dat,metho \rd=average,precision=100,large=false,cluster=true,runsensspec=true,processors=1)\n\nUsing 1 processors.\nConverting to column format...\nIt took 0 seconds to convert the distance file.\nSplitting the file...\nIt took 0 seconds to split the distance file.\n\nReading splitby.matrix.dist.column.dist.2.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.2.temp\nCutoff was 0.15 changed cutoff to 0.11\n\nReading splitby.matrix.dist.column.dist.5.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.5.temp\nCutoff was 0.15 changed cutoff to 0.14\n\nReading splitby.matrix.dist.column.dist.1.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.1.temp\n\nReading splitby.matrix.dist.column.dist.7.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.7.temp\nCutoff was 0.15 changed cutoff to 0.12\n\nReading splitby.matrix.dist.column.dist.4.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.4.temp\nCutoff was 0.15 changed cutoff to 0.13\n\nReading splitby.matrix.dist.column.dist.6.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.6.temp\n\nReading splitby.matrix.dist.column.dist.3.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.3.temp\n\nReading splitby.matrix.dist.column.dist.10.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.10.temp\n\nReading splitby.matrix.dist.column.dist.13.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.13.temp\n\nReading splitby.matrix.dist.column.dist.0.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.0.temp\n\nReading splitby.matrix.dist.column.dist.9.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.9.temp\n\nReading splitby.matrix.dist.column.dist.11.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.11.temp\n\nReading splitby.matrix.dist.column.dist.12.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.matrix.dist.column.dist.12.temp\n\nCutoff was 0.15 changed cutoff to 0.11\nIt took 0 seconds to cluster\nMerging the clustered files...\nIt took 0 seconds to merge.\n\nOutput File Names: \nsplitby.matrix.dist.column.an.sabund\nsplitby.matrix.dist.column.an.rabund\nsplitby.matrix.dist.column.an.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_353.dat' splitby.matrix.dist.dat && ln -s 'None' splitby.matrix.nameOrCount.dat && echo 'cluster.split( splitmethod=distance, phylip=splitby.matrix.dist.dat, method=average, precision=100, large=false, cluster=true, runsensspec=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:08:15.820483", "params": {"runsensspec": "\"true\"", "cutoff": "\"0.0\"", "splitby": "{\"splitmethod\": \"distance\", \"condmethod\": {\"method\": \"average\", \"__current_case__\": 2}, \"matrix\": {\"nameOrCount\": null, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 353}]}, \"__current_case__\": 1, \"format\": \"phylip\"}, \"__current_case__\": 0}", "precision": "\"100\"", "dbkey": "\"hg17\"", "large": "\"false\"", "cluster": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "12104", "id": "4e27b888e0f89616", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_split.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"splitby|condmethod|method": "average", "cluster": false, "splitby|matrix|format": "phylip", "splitby|matrix|dist": {"src": "hda", "id": "22ac87488bc814b9"}, "splitby|splitmethod": "distance"}, "job": {"inputs": {"splitby|dist": {"src": "hda", "id": "22ac87488bc814b9", "uuid": "c5ddd9c1-e9b1-4dc8-b471-62e1cbe7a970"}}, "update_time": "2018-02-08T17:08:54.553537", "tool_id": "mothur_cluster_split", "outputs": {"__new_primary_file_9|7__": {"src": "hda", "id": "6cc323ea174af743", "uuid": "8d26ad52-9bce-4d0f-a128-b83232d63c1f"}, "__new_primary_file_9|13__": {"src": "hda", "id": "09f8fd3b2e41755d", "uuid": "9dfe2404-8d7d-4c8f-9a12-e4ab0f96348f"}, "__new_primary_file_extra|9__": {"src": "hda", "id": "4b964545b41f57a8", "uuid": "9c3fb19a-ae9a-483d-ae59-748b4fbba575"}, "__new_primary_file_extra|13__": {"src": "hda", "id": "f85178165ba80947", "uuid": "d9eb5cc4-dc67-4594-b6de-f1124b2fd87a"}, "splitfile": {"src": "hda", "id": "2b49763c55874680", "uuid": "a2e63b7f-b705-4c61-b529-35a803f011b6"}, "__new_primary_file_9|6__": {"src": "hda", "id": "158be0d01c91f0d3", "uuid": "bbffb137-e152-482f-9ace-f67324722714"}, "__new_primary_file_extra|12__": {"src": "hda", "id": "721a73f13e9921b7", "uuid": "f81f533a-0778-4f91-9207-e4c6d719af46"}, "__new_primary_file_9|4__": {"src": "hda", "id": "709f4e85f6d2c262", "uuid": "becf4ab3-c26a-486c-ab10-33b3825c8df7"}, "__new_primary_file_9|9__": {"src": "hda", "id": "64b146a0a237cf0e", "uuid": "febc9484-9717-44ff-af5d-45b9754a6fc1"}, "__new_primary_file_extra|1__": {"src": "hda", "id": "0aed0175215b082a", "uuid": "ea0c11c9-c633-4875-949c-f09c41bc174e"}, "__new_primary_file_9|10__": {"src": "hda", "id": "a5b8d21ac8fc30ea", "uuid": "68d1b13a-2f52-448c-a2e9-c2afce62a48e"}, "otulist": {"src": "hda", "id": "9b8f9fbdb2c6dd2c", "uuid": "c14e1520-e196-4f6c-8ba7-e7aeeeb304bf"}, "rabund": {"src": "hda", "id": "25296282d079fac6", "uuid": "a86dcd47-c38c-459d-931f-ae8bcc85f6f4"}, "__new_primary_file_9|1__": {"src": "hda", "id": "18d19b643e7062cc", "uuid": "54c1d879-b21a-4847-aed7-99baa3d0dd33"}, "__new_primary_file_extra|2__": {"src": "hda", "id": "943b175492f370d8", "uuid": "492e9178-cdd8-4980-a515-c5b5893c190d"}, "__new_primary_file_extra|4__": {"src": "hda", "id": "4b36d8f744e89cdc", "uuid": "2b557902-ec34-4d1e-9ffd-6684b6cb6aaa"}, "__new_primary_file_extra|3__": {"src": "hda", "id": "f2c720655bd71813", "uuid": "aa9544d9-d154-4660-91d1-2e1148f4d3d8"}, "__new_primary_file_9|3__": {"src": "hda", "id": "ec3c9d08d9062ead", "uuid": "9011b542-a9ce-4969-a7db-03335616cc9f"}, "logfile": {"src": "hda", "id": "a5170ff908b4401b", "uuid": "a2151d9c-8c36-4d47-9aad-6de7c3cc8c28"}, "__new_primary_file_extra|5__": {"src": "hda", "id": "3b057c0454a7c801", "uuid": "a3af2bdb-7aa7-41a3-be3b-2fe53ea22060"}, "__new_primary_file_9|2__": {"src": "hda", "id": "759c19e61550929d", "uuid": "ba70dc4a-4d0f-4520-b7d6-fb30b0537e73"}, "__new_primary_file_9|11__": {"src": "hda", "id": "43766c028675eda0", "uuid": "89a4c048-b087-4bdd-b710-824f099129b2"}, "__new_primary_file_extra|6__": {"src": "hda", "id": "07fd1c8ec8f13176", "uuid": "664abf4a-5daa-4332-a09f-e855aa50d616"}, "sabund": {"src": "hda", "id": "c1fc90e177f46aff", "uuid": "03d7e66e-b2d6-44ec-a951-085714c44993"}, "__new_primary_file_extra|7__": {"src": "hda", "id": "5adbd2172c54d7c8", "uuid": "edba9c0a-9a76-4763-ad86-9e5dce81155c"}, "__new_primary_file_9|5__": {"src": "hda", "id": "802ffc5c50268813", "uuid": "5e40989a-9e9d-4a19-86f7-817b94d331da"}, "__new_primary_file_extra|11__": {"src": "hda", "id": "20b89408decf8a23", "uuid": "ef137ee7-ea8d-4b59-85f1-dd5e2dc31c27"}, "__new_primary_file_9|0__": {"src": "hda", "id": "d49ecd190d765ffa", "uuid": "19c3dc84-9217-4b1e-89c7-a39d84bcaa66"}, "__new_primary_file_extra|extra__": {"src": "hda", "id": "2915b60ef025819a", "uuid": "ed8f847c-6e65-4458-9167-55265ad85dbb"}, "__new_primary_file_extra|0__": {"src": "hda", "id": "af2b33d2c4a65f6c", "uuid": "623ad805-121d-4e8d-ae7d-5a5cd9dddb10"}, "__new_primary_file_extra|10__": {"src": "hda", "id": "3c8273a46e218a3f", "uuid": "2a5dbc9d-f71c-411b-bb5f-7f403f708199"}, "__new_primary_file_9|12__": {"src": "hda", "id": "84069f8e0a4c5a8e", "uuid": "5a41226d-54e2-41f6-9058-be37cfb62bd5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster.split(splitmethod=distance,phylip=splitby.matrix.dist.dat,metho \rd=average,precision=100,large=false,cluster=false,runsensspec=true,processors=1) \r\u001b[A\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[K)\n\nUsing 1 processors.\nConverting to column format...\nIt took 0 seconds to convert the distance file.\nSplitting the file...\nIt took 0 seconds to split the distance file.\n\nOutput File Names: \n\nsplitby.matrix.dist.column.file\nsplitby.matrix.dist.column.dist.2.temp\nsplitby.matrix.dist.dat.names.2.temp\nsplitby.matrix.dist.column.dist.5.temp\nsplitby.matrix.dist.dat.names.5.temp\nsplitby.matrix.dist.column.dist.1.temp\nsplitby.matrix.dist.dat.names.1.temp\nsplitby.matrix.dist.column.dist.7.temp\nsplitby.matrix.dist.dat.names.7.temp\nsplitby.matrix.dist.column.dist.4.temp\nsplitby.matrix.dist.dat.names.4.temp\nsplitby.matrix.dist.column.dist.6.temp\nsplitby.matrix.dist.dat.names.6.temp\nsplitby.matrix.dist.column.dist.3.temp\nsplitby.matrix.dist.dat.names.3.temp\nsplitby.matrix.dist.column.dist.10.temp\nsplitby.matrix.dist.dat.names.10.temp\nsplitby.matrix.dist.column.dist.13.temp\nsplitby.matrix.dist.dat.names.13.temp\nsplitby.matrix.dist.column.dist.0.temp\nsplitby.matrix.dist.dat.names.0.temp\nsplitby.matrix.dist.column.dist.9.temp\nsplitby.matrix.dist.dat.names.9.temp\nsplitby.matrix.dist.column.dist.11.temp\nsplitby.matrix.dist.dat.names.11.temp\nsplitby.matrix.dist.column.dist.12.temp\nsplitby.matrix.dist.dat.names.12.temp\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_358.dat' splitby.matrix.dist.dat && ln -s 'None' splitby.matrix.nameOrCount.dat && echo 'cluster.split( splitmethod=distance, phylip=splitby.matrix.dist.dat, method=average, precision=100, large=false, cluster=false, runsensspec=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:08:47.634172", "params": {"runsensspec": "\"true\"", "cutoff": "\"0.0\"", "splitby": "{\"splitmethod\": \"distance\", \"condmethod\": {\"method\": \"average\", \"__current_case__\": 2}, \"matrix\": {\"nameOrCount\": null, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 358}]}, \"__current_case__\": 1, \"format\": \"phylip\"}, \"__current_case__\": 0}", "precision": "\"100\"", "dbkey": "\"hg17\"", "large": "\"false\"", "cluster": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "12239", "id": "d760e1d92679b730", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_split.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"splitby|taxonomy": {"src": "hda", "id": "0af7797da2f1a1c7"}, "splitby|condmethod|method": "average", "splitby|splitmethod": "classify", "splitby|dist": {"src": "hda", "id": "732b43bd12cd060f"}, "splitby|nameOrCount": {"src": "hda", "id": "b7d5085eacaa6509"}}, "job": {"inputs": {"nameOrCount": {"src": "hda", "id": "b7d5085eacaa6509", "uuid": "f3ee5a09-1ec0-4b77-b0ef-9a3dafda896d"}, "taxonomy": {"src": "hda", "id": "0af7797da2f1a1c7", "uuid": "61860e61-15bb-4d6a-9de7-b1c9df4cf18e"}, "dist": {"src": "hda", "id": "732b43bd12cd060f", "uuid": "f4a7c395-0387-4a9b-8653-dc3131dc8eb0"}}, "update_time": "2018-02-08T17:09:37.257438", "tool_id": "mothur_cluster_split", "outputs": {"rabund": {"src": "hda", "id": "fde5d0b73a42236a", "uuid": "8732d6da-19a3-40bd-86a8-9500089d5048"}, "logfile": {"src": "hda", "id": "de19e90a144e923c", "uuid": "45df5879-94af-48ac-b35e-df3cd6caafc9"}, "otulist": {"src": "hda", "id": "6ed393d03ba7fd0e", "uuid": "846f0381-4cbb-4aa2-bd67-1c2482726beb"}, "sabund": {"src": "hda", "id": "7535296d23a37c60", "uuid": "2baef149-c8d7-455d-9460-07edf376752b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster.split(splitmethod=classify,column=splitby.dist.dat,taxonomy=spl \ritby.taxonomy.dat,name=splitby.nameOrCount.dat,taxlevel=1,method=average,precisi \ron=100,large=false,cluster=true,runsensspec=true,processors=1)\n\nUsing 1 processors.\nSplitting the file...\nIt took 0 seconds to split the distance file.\n\nReading splitby.dist.dat.0.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.dist.dat.0.temp\nIt took 0 seconds to cluster\nMerging the clustered files...\nIt took 0 seconds to merge.\n\nOutput File Names: \nsplitby.dist.an.sabund\nsplitby.dist.an.rabund\nsplitby.dist.an.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_391.dat' splitby.dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_393.dat' splitby.nameOrCount.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_392.dat' splitby.taxonomy.dat && echo 'cluster.split( splitmethod=classify, column=splitby.dist.dat, taxonomy=splitby.taxonomy.dat, name=splitby.nameOrCount.dat, taxlevel=1, method=average, precision=100, large=false, cluster=true, runsensspec=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:09:31.700719", "params": {"runsensspec": "\"true\"", "cutoff": "\"0.0\"", "splitby": "{\"splitmethod\": \"classify\", \"condmethod\": {\"method\": \"average\", \"__current_case__\": 2}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 391}]}, \"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 393}]}, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 392}]}, \"__current_case__\": 1, \"taxlevel\": \"1\"}", "precision": "\"100\"", "dbkey": "\"hg17\"", "large": "\"false\"", "cluster": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "12408", "id": "449eb427f528cea7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_split.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"splitby|taxonomy": {"src": "hda", "id": "957dec9f2200cbe4"}, "splitby|condmethod|method": "average", "splitby|splitmethod": "classify", "splitby|dist": {"src": "hda", "id": "fcbedabdda23c338"}, "splitby|nameOrCount": {"src": "hda", "id": "7f45e41d747c3b22"}}, "job": {"inputs": {"nameOrCount": {"src": "hda", "id": "7f45e41d747c3b22", "uuid": "495ee28e-4f96-447e-9d34-8388522ce56d"}, "taxonomy": {"src": "hda", "id": "957dec9f2200cbe4", "uuid": "0e1582f5-cba2-44fc-9afd-a6a6a68bcf12"}, "dist": {"src": "hda", "id": "fcbedabdda23c338", "uuid": "16c9486e-d67a-4e27-a72f-8f18dfd26971"}}, "update_time": "2018-02-08T17:10:13.687017", "tool_id": "mothur_cluster_split", "outputs": {"logfile": {"src": "hda", "id": "a6780727682706fd", "uuid": "ebe106d6-2ee0-47b6-9d24-4fd6e52e36fb"}, "otulist": {"src": "hda", "id": "c809b2abaed97358", "uuid": "f5f10b68-5385-4a18-97b8-7bd03cd541d8"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster.split(splitmethod=classify,column=splitby.dist.dat,taxonomy=spl \ritby.taxonomy.dat,count=splitby.nameOrCount.dat,taxlevel=1,method=average,precis \rion=100,large=false,cluster=true,runsensspec=true,processors=1)\n\nUsing 1 processors.\nSplitting the file...\nIt took 0 seconds to split the distance file.\n\nReading splitby.dist.dat.0.temp\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.dist.dat.0.temp\nIt took 0 seconds to cluster\nMerging the clustered files...\nIt took 0 seconds to merge.\n\nOutput File Names: \nsplitby.dist.an.unique_list.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_398.dat' splitby.dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_400.dat' splitby.nameOrCount.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_399.dat' splitby.taxonomy.dat && echo 'cluster.split( splitmethod=classify, column=splitby.dist.dat, taxonomy=splitby.taxonomy.dat, count=splitby.nameOrCount.dat, taxlevel=1, method=average, precision=100, large=false, cluster=true, runsensspec=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:10:09.362326", "params": {"runsensspec": "\"true\"", "cutoff": "\"0.0\"", "splitby": "{\"splitmethod\": \"classify\", \"condmethod\": {\"method\": \"average\", \"__current_case__\": 2}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 398}]}, \"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 400}]}, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 399}]}, \"__current_case__\": 1, \"taxlevel\": \"1\"}", "precision": "\"100\"", "dbkey": "\"hg17\"", "large": "\"false\"", "cluster": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "12591", "id": "8bfda5654e551614", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_split.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"splitby|taxonomy": {"src": "hda", "id": "6fb516af7370ea7a"}, "splitby|fasta": {"src": "hda", "id": "71bc98c5ef351f59"}, "splitby|condmethod|method": "average", "cutoff": "9999", "splitby|splitmethod": "fasta", "splitby|nameOrCount": {"src": "hda", "id": "63f8201b30d2cadd"}}, "job": {"inputs": {"nameOrCount": {"src": "hda", "id": "63f8201b30d2cadd", "uuid": "ced19938-b32a-477b-9b2f-7f97faff871f"}, "taxonomy": {"src": "hda", "id": "6fb516af7370ea7a", "uuid": "cea8d185-870c-488d-84eb-544d8084b763"}, "fasta": {"src": "hda", "id": "71bc98c5ef351f59", "uuid": "107d7fcb-2c10-4ee1-91ca-285b91ceafe6"}}, "update_time": "2018-02-08T17:10:41.676918", "tool_id": "mothur_cluster_split", "outputs": {"rabund": {"src": "hda", "id": "41a728572c331a9d", "uuid": "91789c46-7cc2-46b9-b081-8a8330db86b1"}, "logfile": {"src": "hda", "id": "dfb58ec7c7cde5ba", "uuid": "709949a8-e538-4f95-b9fd-3cfdcb6aeca9"}, "otulist": {"src": "hda", "id": "598476a21fa893cd", "uuid": "bc4b64e8-3ad1-4287-9e78-6ea4bad03d30"}, "sabund": {"src": "hda", "id": "9c8aa3de76c5f0c4", "uuid": "8cc44192-61ab-4e70-a827-b3f559379040"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster.split(splitmethod=fasta,fasta=splitby.fasta.dat,taxonomy=splitb \ry.taxonomy.dat,name=splitby.nameOrCount.dat,taxlevel=3,classic=false,method=aver \rage,cutoff=9999.0,precision=100,large=false,cluster=true,runsensspec=true,proces \rsors=1)\n\nUsing 1 processors.\nSplitting the file...\n/******************************************/\nRunning command: dist.seqs(fasta=splitby.fasta.dat.0.temp, processors=1, cutoff=9999)\n\nUsing 1 processors.\n/******************************************/\n0\t0\n1\t0\n\nOutput File Names: \nsplitby.fasta.dat.0.dist\n\nIt took 0 seconds to calculate the distances for 2 sequences.\nIt took 0 seconds to split the distance file.\n\nReading splitby.fasta.dat.0.dist\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nClustering splitby.fasta.dat.0.dist\nIt took 0 seconds to cluster\nMerging the clustered files...\nIt took 0 seconds to merge.\n\nOutput File Names: \nsplitby.fasta.an.sabund\nsplitby.fasta.an.rabund\nsplitby.fasta.an.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_403.dat' splitby.fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_405.dat' splitby.nameOrCount.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_404.dat' splitby.taxonomy.dat && echo 'cluster.split( splitmethod=fasta, fasta=splitby.fasta.dat, taxonomy=splitby.taxonomy.dat, name=splitby.nameOrCount.dat, taxlevel=3, classic=false, method=average, cutoff=9999.0, precision=100, large=false, cluster=true, runsensspec=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:10:36.383791", "params": {"runsensspec": "\"true\"", "cutoff": "\"9999.0\"", "splitby": "{\"splitmethod\": \"fasta\", \"condmethod\": {\"method\": \"average\", \"__current_case__\": 2}, \"classic\": \"false\", \"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 405}]}, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 404}]}, \"__current_case__\": 2, \"fasta\": {\"values\": [{\"src\": \"hda\", \"id\": 403}]}, \"taxlevel\": \"3\"}", "precision": "\"100\"", "dbkey": "\"hg17\"", "large": "\"false\"", "cluster": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "12771", "id": "c48fc7b200585e1b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_split.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"splitby|taxonomy": {"src": "hda", "id": "3529226cbbc41f8d"}, "splitby|fasta": {"src": "hda", "id": "f8fb2d243923edf0"}, "splitby|condmethod|method": "agc", "splitby|splitmethod": "fasta", "splitby|nameOrCount": {"src": "hda", "id": "77d4412f77f6b180"}}, "job": {"inputs": {"nameOrCount": {"src": "hda", "id": "77d4412f77f6b180", "uuid": "e91d0fcc-18a6-4a8a-8a57-d58f08d5d4af"}, "taxonomy": {"src": "hda", "id": "3529226cbbc41f8d", "uuid": "07076206-9095-48f8-9629-8ad06d34a2f9"}, "fasta": {"src": "hda", "id": "f8fb2d243923edf0", "uuid": "73a485b3-aa97-46b3-aba3-2badac802195"}}, "update_time": "2018-02-08T17:11:20.597824", "tool_id": "mothur_cluster_split", "outputs": {"rabund": {"src": "hda", "id": "c397987c596ee46a", "uuid": "6f652e8d-9dbb-4c3b-9c9b-95182510e58d"}, "logfile": {"src": "hda", "id": "7196b214b6870b7e", "uuid": "0ae1803c-9339-41a6-91f4-53e28da0bb6d"}, "otulist": {"src": "hda", "id": "94d7eab7ff1b5670", "uuid": "90d83bd3-0e54-4b4b-9d24-3c0e6339bf4c"}, "sabund": {"src": "hda", "id": "d5962eb1211503b9", "uuid": "b6587fd2-8292-457a-9b9a-e4f8b659d078"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster.split(splitmethod=fasta,fasta=splitby.fasta.dat,taxonomy=splitb \ry.taxonomy.dat,name=splitby.nameOrCount.dat,taxlevel=3,classic=false,method=agc, \rprecision=100,large=false,cluster=true,runsensspec=true,processors=1)\n\nUsing 1 processors.\nSplitting the file...\n\nYou did not set a cutoff, using 0.03.\n/home/saskia/miniconda3/envs/mulled-v1-736475004b65901caa33ce32368de7bd390f9f20eaf8369d7ccbbf0be4fb73c4/bin/mothurvsearch file does not exist. Checking path... \nFound vsearch in your path, using /home/saskia/miniconda3/envs/mulled-v1-736475004b65901caa33ce32368de7bd390f9f20eaf8369d7ccbbf0be4fb73c4/bin/vsearch\nIt took 0 seconds to split the distance file.\n\nClustering splitby.fasta.dat.0.temp\nIt took 0 seconds to cluster\nMerging the clustered files...\nIt took 0 seconds to merge.\n\nOutput File Names: \nsplitby.fasta.agc.sabund\nsplitby.fasta.agc.rabund\nsplitby.fasta.agc.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_410.dat' splitby.fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_412.dat' splitby.nameOrCount.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_411.dat' splitby.taxonomy.dat && echo 'cluster.split( splitmethod=fasta, fasta=splitby.fasta.dat, taxonomy=splitby.taxonomy.dat, name=splitby.nameOrCount.dat, taxlevel=3, classic=false, method=agc, precision=100, large=false, cluster=true, runsensspec=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:11:15.331832", "params": {"runsensspec": "\"true\"", "cutoff": "\"0.0\"", "splitby": "{\"splitmethod\": \"fasta\", \"condmethod\": {\"method\": \"agc\", \"__current_case__\": 3}, \"classic\": \"false\", \"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 412}]}, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 411}]}, \"__current_case__\": 2, \"fasta\": {\"values\": [{\"src\": \"hda\", \"id\": 410}]}, \"taxlevel\": \"3\"}", "precision": "\"100\"", "dbkey": "\"hg17\"", "large": "\"false\"", "cluster": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "vsearch v2.6.0_linux_x86_64, 62.8GB RAM, 8 cores\nhttps://github.com/torognes/vsearch\n\nReading file splitby.fasta.dat.0.temp.sorted.fasta.temp 100%\n1873 nt in 2 seqs, min 930, max 943, avg 936\nMasking 100%\nCounting k-mers 100%\nClustering 100%\nSorting clusters 100%\nWriting clusters 100%\nClusters: 2 Size min 1, max 1, avg 1.0\nSingletons: 2, 100.0% of seqs, 100.0% of clusters\n", "job_metrics": [], "model_class": "Job", "external_id": "12940", "id": "3af8c7b9f683116f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_split.test_tool_000005", "has_data": true}, {"data": {"status": "success", "inputs": {"splitby|condmethod|method": "opti", "splitby|matrix|format": "phylip", "splitby|matrix|dist": {"src": "hda", "id": "f5edea7d52e42cd6"}, "splitby|splitmethod": "distance"}, "job": {"inputs": {"splitby|dist": {"src": "hda", "id": "f5edea7d52e42cd6", "uuid": "59e654f0-8e3f-40f2-a48d-7cb6cc2360f3"}}, "update_time": "2018-02-08T17:11:50.352932", "tool_id": "mothur_cluster_split", "outputs": {"rabund": {"src": "hda", "id": "69ae44680e47ff1d", "uuid": "90e27f2b-c64d-41c8-b138-04ab9781c74f"}, "sensspec": {"src": "hda", "id": "9fa13b46d25f1a47", "uuid": "ee1e6cc4-52ab-418d-aa6e-d5338c6319f3"}, "logfile": {"src": "hda", "id": "2be21af3e0b30a72", "uuid": "a41387cc-7003-4dc9-9946-85e75f38884b"}, "otulist": {"src": "hda", "id": "8f5442c8ae200d3a", "uuid": "3c429842-3285-4b6e-9296-2ed6722d7f27"}, "sabund": {"src": "hda", "id": "e6b222c9649e44d2", "uuid": "8c096a41-2fd1-4857-af5f-7d4ce21cef45"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\u001b[?1034h\nmothur > cluster.split(splitmethod=distance,phylip=splitby.matrix.dist.dat,metho \rd=opti,metric=mcc,initialize=singleton,delta=0.0001,iters=100,precision=100,larg \re=false,cluster=true,runsensspec=true,processors=1)\n\nUsing 1 processors.\nConverting to column format...\nIt took 0 seconds to convert the distance file.\nSplitting the file...\nIt took 0 seconds to split the distance file.\n\nYou did not set a cutoff, using 0.03.\n\nClustering splitby.matrix.dist.column.dist.2.temp\n\ntp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t3735\t0\t6\t0\t1\t0\t0.998396\t0\t0.998396\t0\t0\t\n\n\nYou did not set a cutoff, using 0.03.\n\nClustering splitby.matrix.dist.column.dist.0.temp\n\ntp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t3735\t0\t6\t0\t1\t0\t0.998396\t0\t0.998396\t0\t0\t\n\n\nYou did not set a cutoff, using 0.03.\n\nClustering splitby.matrix.dist.column.dist.3.temp\n\ntp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t3652\t0\t3\t0\t1\t0\t0.999179\t0\t0.999179\t0\t0\t\n\n\nYou did not set a cutoff, using 0.03.\n\nClustering splitby.matrix.dist.column.dist.1.temp\n\ntp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t3569\t0\t1\t0\t1\t0\t0.99972\t0\t0.99972\t0\t0\t\n\n\nYou did not set a cutoff, using 0.03.\n\nClustering splitby.matrix.dist.column.dist.4.temp\n\ntp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0\t3569\t0\t1\t0\t1\t0\t0.99972\t0\t0.99972\t0\t0\t\n\nIt took 0 seconds to cluster\nMerging the clustered files...\nIt took 0 seconds to merge.\n/******************************************/\nRunning command: sens.spec(cutoff=0.03, list=splitby.matrix.dist.column.opti_mcc.list, phylip=splitby.matrix.dist.dat, name=splitby.matrix.dist.dat.names)\n\nNOTE: sens.spec assumes that only unique sequences were used to generate the distance matrix.\n\n0.03\nIt took 0 to run sens.spec.\n\nOutput File Names: \nsplitby.matrix.dist.column.opti_mcc.sensspec\n\n/******************************************/\nDone.\n\n\nlabel\tcutoff\ttp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\tmcc\tf1score\n0.03\t0.03\t0\t4736\t0\t17\t0\t1\t0\t0.9964\t0\t0.9964\t0\t0\n\nOutput File Names: \nsplitby.matrix.dist.column.opti_mcc.sabund\nsplitby.matrix.dist.column.opti_mcc.rabund\nsplitby.matrix.dist.column.opti_mcc.list\nsplitby.matrix.dist.column.opti_mcc.sensspec\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_417.dat' splitby.matrix.dist.dat && ln -s 'None' splitby.matrix.nameOrCount.dat && echo 'cluster.split( splitmethod=distance, phylip=splitby.matrix.dist.dat, method=opti, metric=mcc, initialize=singleton, delta=0.0001, iters=100, precision=100, large=false, cluster=true, runsensspec=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:11:45.894758", "params": {"runsensspec": "\"true\"", "cutoff": "\"0.0\"", "splitby": "{\"splitmethod\": \"distance\", \"condmethod\": {\"iters\": \"100\", \"metric\": \"mcc\", \"__current_case__\": 3, \"delta\": \"0.0001\", \"initialize\": \"singleton\", \"method\": \"opti\"}, \"matrix\": {\"nameOrCount\": null, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 417}]}, \"__current_case__\": 1, \"format\": \"phylip\"}, \"__current_case__\": 0}", "precision": "\"100\"", "dbkey": "\"hg17\"", "large": "\"false\"", "cluster": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "", "job_metrics": [], "model_class": "Job", "external_id": "13078", "id": "b7d4a98a7bb9e1bc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cluster_split.test_tool_000006", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "6eb09fe0ca80e9ad"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "6eb09fe0ca80e9ad", "uuid": "d2d740da-4498-40f5-b809-01cb26b7e829"}}, "update_time": "2018-02-08T17:12:25.413981", "tool_id": "mothur_collect_shared", "outputs": {"__new_primary_file_thetayc|jabund__": {"src": "hda", "id": "09dbeac489d85549", "uuid": "d9c1ae28-881d-4501-85d5-33667b47309f"}, "__new_primary_file_thetayc|jest__": {"src": "hda", "id": "3a07e8fa101f66c3", "uuid": "3aa67a68-55bc-49be-970a-065c3e3f022b"}, "__new_primary_file_thetayc|sorclass__": {"src": "hda", "id": "457390d412d4922c", "uuid": "a9107de5-1ffa-412d-ab9a-c2b6f14ead9f"}, "__new_primary_file_thetayc|thetayc__": {"src": "hda", "id": "6c12052addbdbf10", "uuid": "99933db3-30b7-4f45-b0ca-e4e3cc1da9ee"}, "__new_primary_file_thetayc|sorabund__": {"src": "hda", "id": "7b32cfe10869d24e", "uuid": "7fa144d9-5695-473c-83a5-341fa500b861"}, "__new_primary_file_thetayc|shared.chao__": {"src": "hda", "id": "a8b7bad9a0464ba9", "uuid": "849e6208-1c61-4b1e-b3e2-4f29352f74bd"}, "__new_primary_file_thetayc|sorest__": {"src": "hda", "id": "3fc9b5ca07992501", "uuid": "34314ff0-2518-43f0-b5dc-d1129b3ad0fc"}, "__new_primary_file_thetayc|shared.sobs__": {"src": "hda", "id": "5f49ccb40e6bf114", "uuid": "7db453f9-365a-4cba-b0ec-97f034dd5d49"}, "__new_primary_file_thetayc|thetan__": {"src": "hda", "id": "2cfb598380799c5c", "uuid": "35caf54a-a243-4695-80a1-377ce870793a"}, "logfile": {"src": "hda", "id": "41fcf23659876b66", "uuid": "9c77450f-0cb7-4dac-baaa-ff4336aa23ed"}, "__new_primary_file_thetayc|jclass__": {"src": "hda", "id": "43c7ced58110ff4d", "uuid": "0d2d47c8-e779-425c-ad2f-cfa734b53eff"}, "__new_primary_file_thetayc|shared.ace__": {"src": "hda", "id": "07efabe7adaf6e12", "uuid": "cea5d499-2702-4f2f-9405-3d70e3d681a1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > collect.shared(shared=otu.dat,calc=sharedsobs-sharedchao-sharedace-jcla \rss-jest-sorclass-sorest-jabund-sorabund-thetan-thetayc,freq=100.0,all=true)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.shared.sobs\notu.shared.chao\notu.shared.ace\notu.jclass\notu.jest\notu.sorclass\notu.sorest\notu.jabund\notu.sorabund\notu.thetan\notu.thetayc\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_423.dat' otu.dat && echo 'collect.shared( shared=otu.dat, calc=sharedsobs-sharedchao-sharedace-jclass-jest-sorclass-sorest-jabund-sorabund-thetan-thetayc, freq=100.0, all=true )' | sed 's/ //g' | mothur | tee mothur.out.log && rm otu.dat", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:12:21.966900", "params": {"dbkey": "\"hg17\"", "label": "null", "groups": "null", "freq": "\"100.0\"", "calc": "[\"sharedsobs\", \"sharedchao\", \"sharedace\", \"jclass\", \"jest\", \"sorclass\", \"sorest\", \"jabund\", \"sorabund\", \"thetan\", \"thetayc\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13205", "id": "8984b162f62c6c24", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_collect_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"calc": ["sharedsobs", "sharedchao", "sharedace", "anderberg", "jclass", "jest", "kulczynski", "kulczynskicody", "kstest", "lennon", "ochiai", "sorclass", "sorest", "whittaker", "hamming", "memchi2", "memchord", "memeuclidean", "mempearson", "braycurtis", "jabund", "morisitahorn", "sorabund", "thetan", "thetayc", "canberra", "gower", "hellinger", "manhattan", "odum", "soergel", "spearman", "speciesprofile", "structchi2", "structchord", "structeuclidean", "structkulczynski", "structpearson", "sharednseqs"], "otu": {"src": "hda", "id": "3e47ebdf403a2dd1"}, "groups": ["forest", "pasture"], "label": ["0.03", "0.05", "0.22"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "3e47ebdf403a2dd1", "uuid": "c4207529-1bc3-44b7-9110-967e843f2544"}}, "update_time": "2018-02-08T17:12:45.362338", "tool_id": "mothur_collect_shared", "outputs": {"__new_primary_file_whittaker|mempearson__": {"src": "hda", "id": "2b215f192af96e2f", "uuid": "cecc2250-db1a-4c37-9d24-d73c011d1abc"}, "__new_primary_file_whittaker|manhattan__": {"src": "hda", "id": "07fd9a413201852e", "uuid": "d70a8e27-c95d-4554-a285-459f0e18354c"}, "__new_primary_file_whittaker|gower__": {"src": "hda", "id": "fd1e10e0f0d76fac", "uuid": "03420e9a-6924-4dc9-a224-b72db0e5558a"}, "__new_primary_file_whittaker|structpearson__": {"src": "hda", "id": "82d89e614ebda5c1", "uuid": "51ab641a-5e2e-40a9-88e8-e8037d9f1e6a"}, "__new_primary_file_whittaker|thetayc__": {"src": "hda", "id": "3df0a01a3ae34d52", "uuid": "546e7e77-f2c3-49f5-a1a0-014e2f5f400c"}, "__new_primary_file_whittaker|sorclass__": {"src": "hda", "id": "0d63eb5c811d9a5b", "uuid": "e1c6c74f-2af8-436e-ad8c-b688e7791215"}, "__new_primary_file_whittaker|whittaker__": {"src": "hda", "id": "fc6a9ef5f7630e87", "uuid": "7b5512d4-aa1f-48bf-bc5a-295406139240"}, "__new_primary_file_whittaker|hellinger__": {"src": "hda", "id": "78fdca853d645da8", "uuid": "c9c7c063-bdea-4576-9c17-707aa732667e"}, "__new_primary_file_whittaker|lennon__": {"src": "hda", "id": "eb492223fe45a3a1", "uuid": "55ecafe7-fdc9-4d09-821a-69a7bea023fa"}, "__new_primary_file_whittaker|anderberg__": {"src": "hda", "id": "f7cac463734b28ae", "uuid": "010a3fd5-5254-4d09-8562-fa3f38c26ae0"}, "__new_primary_file_whittaker|hamming__": {"src": "hda", "id": "032dc790b013bafc", "uuid": "4a8d06b3-ac49-431f-a96c-932e23af81c9"}, "__new_primary_file_whittaker|shared.sobs__": {"src": "hda", "id": "c9e276c91d77be76", "uuid": "5eeba6a8-f91f-491a-95ad-00b655abba36"}, "__new_primary_file_whittaker|sorabund__": {"src": "hda", "id": "cf6f5650773911ff", "uuid": "45d9148b-2992-46cf-ae88-a4024e68acd2"}, "__new_primary_file_whittaker|speciesprofile__": {"src": "hda", "id": "dd09e5318fcac9cd", "uuid": "21ec4299-981e-472f-9ee4-1af55871c4a4"}, "__new_primary_file_whittaker|structchi2__": {"src": "hda", "id": "cc61617d359bbeb4", "uuid": "98e5435d-ab04-4c9c-a8ef-bbcf8a0b396b"}, "__new_primary_file_whittaker|jest__": {"src": "hda", "id": "06134b0ededad71e", "uuid": "083dbc1c-3adb-4333-aac5-fc487c02b14b"}, "__new_primary_file_whittaker|thetan__": {"src": "hda", "id": "ace828d96e9bc93f", "uuid": "85aa130c-ed1d-4bc6-b4ae-bab5a4229910"}, "__new_primary_file_whittaker|shared.chao__": {"src": "hda", "id": "d27681472e68c286", "uuid": "d22d8971-fb37-4dab-a896-3c16da9cd88d"}, "__new_primary_file_whittaker|morisitahorn__": {"src": "hda", "id": "89eb04d15155113e", "uuid": "c5a36a03-64be-44d8-a3b1-9ac4042bc8ae"}, "__new_primary_file_whittaker|memchi2__": {"src": "hda", "id": "c70fd0f87d1321b9", "uuid": "cccbdcb1-95ea-4b3e-a01e-4389fe29dcf1"}, "__new_primary_file_whittaker|jclass__": {"src": "hda", "id": "4a03c449ab1f345a", "uuid": "7b7910a3-a461-4a15-97b6-0b6b5b0028dd"}, "__new_primary_file_whittaker|structeuclidean__": {"src": "hda", "id": "64eba53a47060775", "uuid": "0d3b86ba-b129-40f6-b7a7-17c6df06a266"}, "__new_primary_file_whittaker|structkulczynski__": {"src": "hda", "id": "8617c587cd9e4e77", "uuid": "b69d8972-f8c4-44ae-80f8-fbcd73a74e0f"}, "__new_primary_file_whittaker|memeuclidean__": {"src": "hda", "id": "5c48130196180838", "uuid": "5654d852-104b-46d4-b850-ba523b238c7f"}, "__new_primary_file_whittaker|structchord__": {"src": "hda", "id": "7206901401158c4a", "uuid": "677b89a0-54b2-43f5-96f8-df5422cea5ff"}, "__new_primary_file_whittaker|ochiai__": {"src": "hda", "id": "c9ef78ff932a2539", "uuid": "69a341de-3ccc-4e20-94b4-eead506e8d14"}, "__new_primary_file_whittaker|braycurtis__": {"src": "hda", "id": "3cb3ad12c0574547", "uuid": "cec9891f-dbec-40d8-bc6a-63c99c85f3d0"}, "__new_primary_file_whittaker|canberra__": {"src": "hda", "id": "010d772e12940e81", "uuid": "c484d80a-c5da-4b7d-b280-a49020407453"}, "__new_primary_file_whittaker|shared.nseqs__": {"src": "hda", "id": "11fff4f70c354168", "uuid": "66154bc9-063b-4970-b223-8f4734d31bf6"}, "logfile": {"src": "hda", "id": "36f33e00653500e8", "uuid": "25e5fc6d-b192-48f2-9a37-98afbb5e8744"}, "__new_primary_file_whittaker|memchord__": {"src": "hda", "id": "5c0379f640540f7d", "uuid": "12c00f31-5beb-4d47-89f8-2bc512ed9336"}, "__new_primary_file_whittaker|kulczynskicody__": {"src": "hda", "id": "0a0eeda241196907", "uuid": "41b900b0-e92e-4bd6-a8b9-6162181f6f3f"}, "__new_primary_file_whittaker|spearman__": {"src": "hda", "id": "6e055b0f6b730971", "uuid": "54ad0a10-a404-48f7-aeb8-1c0c12137878"}, "__new_primary_file_whittaker|shared.ace__": {"src": "hda", "id": "864ad45f69d33ad2", "uuid": "c34a956f-7b6d-44ac-abcd-13568970b2bf"}, "__new_primary_file_whittaker|soergel__": {"src": "hda", "id": "7536865915d87753", "uuid": "6f387274-a14a-4ade-ac1c-22d001bdf696"}, "__new_primary_file_whittaker|odum__": {"src": "hda", "id": "ab313dd72b645b75", "uuid": "a7ad4d37-2d02-4eb8-99fa-c6ff83f4ccf8"}, "__new_primary_file_whittaker|kstest__": {"src": "hda", "id": "446f6e70c8f6f247", "uuid": "4bdc0101-cb98-43a5-b4be-8673e035ca1d"}, "__new_primary_file_whittaker|sorest__": {"src": "hda", "id": "b8252606b6759e88", "uuid": "9577bc6a-357f-4bc0-8d49-c141496fd520"}, "__new_primary_file_whittaker|jabund__": {"src": "hda", "id": "a12cdd35a80cbdf3", "uuid": "f3c84a67-78c1-4581-8e51-e270e5baa92b"}, "__new_primary_file_whittaker|kulczynski__": {"src": "hda", "id": "2afa7a4578b8f4fd", "uuid": "18326c68-5ed7-49eb-9fe9-f1e23139b73a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > collect.shared(shared=otu.dat,label=0.03-0.05-0.22,calc=sharedsobs-shar \redchao-sharedace-anderberg-jclass-jest-kulczynski-kulczynskicody-kstest-lennon-o \rchiai-sorclass-sorest-whittaker-hamming-memchi2-memchord-memeuclidean-mempearson \r-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc-canberra-gower-hellinger \r-manhattan-odum-soergel-spearman-speciesprofile-structchi2-structchord-structeuc \rlidean-structkulczynski-structpearson-sharednseqs,groups=forest-pasture,freq=100 \r.0,all=true)\n0.03\n0.05\n0.22\n\nOutput File Names: \notu.shared.sobs\notu.shared.chao\notu.shared.ace\notu.anderberg\notu.jclass\notu.jest\notu.kulczynski\notu.kulczynskicody\notu.kstest\notu.lennon\notu.ochiai\notu.sorclass\notu.sorest\notu.whittaker\notu.hamming\notu.memchi2\notu.memchord\notu.memeuclidean\notu.mempearson\notu.braycurtis\notu.jabund\notu.morisitahorn\notu.sorabund\notu.thetan\notu.thetayc\notu.canberra\notu.gower\notu.hellinger\notu.manhattan\notu.odum\notu.soergel\notu.spearman\notu.speciesprofile\notu.structchi2\notu.structchord\notu.structeuclidean\notu.structkulczynski\notu.structpearson\notu.shared.nseqs\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_436.dat' otu.dat && echo 'collect.shared( shared=otu.dat, label=0.03-0.05-0.22, calc=sharedsobs-sharedchao-sharedace-anderberg-jclass-jest-kulczynski-kulczynskicody-kstest-lennon-ochiai-sorclass-sorest-whittaker-hamming-memchi2-memchord-memeuclidean-mempearson-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc-canberra-gower-hellinger-manhattan-odum-soergel-spearman-speciesprofile-structchi2-structchord-structeuclidean-structkulczynski-structpearson-sharednseqs, groups=forest-pasture, freq=100.0, all=true )' | sed 's/ //g' | mothur | tee mothur.out.log && rm otu.dat", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:12:40.316603", "params": {"dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\", \"0.22\"]", "groups": "[\"forest\", \"pasture\"]", "freq": "\"100.0\"", "calc": "[\"sharedsobs\", \"sharedchao\", \"sharedace\", \"anderberg\", \"jclass\", \"jest\", \"kulczynski\", \"kulczynskicody\", \"kstest\", \"lennon\", \"ochiai\", \"sorclass\", \"sorest\", \"whittaker\", \"hamming\", \"memchi2\", \"memchord\", \"memeuclidean\", \"mempearson\", \"braycurtis\", \"jabund\", \"morisitahorn\", \"sorabund\", \"thetan\", \"thetayc\", \"canberra\", \"gower\", \"hellinger\", \"manhattan\", \"odum\", \"soergel\", \"spearman\", \"speciesprofile\", \"structchi2\", \"structchord\", \"structeuclidean\", \"structkulczynski\", \"structpearson\", \"sharednseqs\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13306", "id": "71db30c33f7a1d97", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_collect_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "77c3626ab0594697"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "77c3626ab0594697", "uuid": "b215e272-d061-4228-b42c-f2ceb82e2668"}}, "update_time": "2018-02-08T17:13:04.454824", "tool_id": "mothur_collect_single", "outputs": {"__new_primary_file_sobs|ace__": {"src": "hda", "id": "191434f645ec622f", "uuid": "027519e4-1115-40a8-b787-fef65bb75865"}, "__new_primary_file_sobs|shannon__": {"src": "hda", "id": "9ee2e00a0d8ff0c1", "uuid": "db8e108e-cd33-4eb1-8889-a7214a6da043"}, "__new_primary_file_sobs|sobs__": {"src": "hda", "id": "f060dd6bec0b0c91", "uuid": "9aa5224d-5d1a-47b8-825a-a0ebdf95c615"}, "__new_primary_file_sobs|chao__": {"src": "hda", "id": "dd28ab0e62f6c657", "uuid": "6cc80384-1ab4-45fd-9747-33db889e16d8"}, "__new_primary_file_sobs|jack__": {"src": "hda", "id": "982b968aefffd7e6", "uuid": "ece0b874-fdca-4647-b5f0-340b0c38aa54"}, "__new_primary_file_sobs|npshannon__": {"src": "hda", "id": "4dfde39352bb574f", "uuid": "e53eda85-f247-4cfa-a1be-f1a80608d29f"}, "logfile": {"src": "hda", "id": "50eb45139d0d6a93", "uuid": "113d9767-5ec5-441d-8a41-ed74b6095e1b"}, "__new_primary_file_sobs|simpson__": {"src": "hda", "id": "2e7d279ca3333738", "uuid": "53f30268-939b-4087-9e34-adcd6250a341"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > collect.single(list=otu.dat,calc=ace-chao-jack-sobs-simpson-shannon-nps \rhannon,abund=10,freq=100.0)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.ace\notu.chao\notu.jack\notu.sobs\notu.simpson\notu.shannon\notu.npshannon\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_477.dat' otu.dat && echo 'collect.single( list=otu.dat, calc=ace-chao-jack-sobs-simpson-shannon-npshannon, abund=10, freq=100.0 )' | sed 's/ //g' | mothur | tee mothur.out.log && rm otu.dat", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:13:00.966122", "params": {"abund": "\"10\"", "dbkey": "\"hg17\"", "label": "null", "freq": "\"100.0\"", "calc": "[\"ace\", \"chao\", \"jack\", \"sobs\", \"simpson\", \"shannon\", \"npshannon\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13392", "id": "c6239e5379f31f0f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_collect_single.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"calc": ["ace", "bootstrap", "chao", "jack", "sobs", "simpsoneven", "shannoneven", "heip", "smithwilson", "bergerparker", "coverage", "goodscoverage", "simpson", "invsimpson", "qstat", "shannon", "npshannon", "boneh", "efron", "shen", "solow", "logseries", "geometric", "bstick", "nseqs"], "otu": {"src": "hda", "id": "599aa42a6f638c3c"}, "label": ["0.36", "0.38", "0.41"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "599aa42a6f638c3c", "uuid": "0933dde9-2f47-471a-a6d3-abec09250959"}}, "update_time": "2018-02-08T17:13:26.296010", "tool_id": "mothur_collect_single", "outputs": {"__new_primary_file_solow|simpson__": {"src": "hda", "id": "ddfa564d1c57beab", "uuid": "75ff5504-acd1-40aa-9031-5097db7dd66b"}, "__new_primary_file_solow|simpsoneven__": {"src": "hda", "id": "3808e741d551ae79", "uuid": "deb08319-362f-4c01-a945-2cce9b31fbc8"}, "__new_primary_file_solow|chao__": {"src": "hda", "id": "4c17a0c0b24f3d2a", "uuid": "62ed1247-d5d3-402f-af91-87380a3b9a17"}, "__new_primary_file_solow|sobs__": {"src": "hda", "id": "bd9ebfe83c09a924", "uuid": "2ee19aa2-3b9b-4e4c-a3f2-1ceb4fc294dc"}, "__new_primary_file_solow|bootstrap__": {"src": "hda", "id": "c33192ec797333a8", "uuid": "a7124b13-6151-4e62-a30a-59f6e1efd035"}, "__new_primary_file_solow|logseries__": {"src": "hda", "id": "30389f7c5465c626", "uuid": "d72c0749-4314-4300-9965-cb8ccec89074"}, "__new_primary_file_solow|ace__": {"src": "hda", "id": "d13b0aeade1f3b9f", "uuid": "9100a533-4087-4376-80dc-9892685d7a8b"}, "__new_primary_file_solow|shen__": {"src": "hda", "id": "b0746254f283297c", "uuid": "d6ef866c-0e64-4db7-8899-b45492e2cb44"}, "__new_primary_file_solow|shannoneven__": {"src": "hda", "id": "5300091d026f85af", "uuid": "088ccdc7-fd4d-4506-8531-2353c772eaa4"}, "__new_primary_file_solow|invsimpson__": {"src": "hda", "id": "b3c2b8853f254e86", "uuid": "72cefb8a-92dc-406f-8ea8-0478f9c8baf3"}, "__new_primary_file_solow|jack__": {"src": "hda", "id": "5932136d963c1318", "uuid": "af006a66-4002-4656-b6c7-1b5c105e8851"}, "__new_primary_file_solow|smithwilson__": {"src": "hda", "id": "de3955fb86630a7e", "uuid": "cb2307ab-a198-48e6-a9ee-93d01df34577"}, "__new_primary_file_solow|boneh__": {"src": "hda", "id": "98cd146bafa9f05e", "uuid": "e42d3b64-8117-4b4f-9930-e7ea9ce7d3d0"}, "__new_primary_file_solow|heip__": {"src": "hda", "id": "7a298366c9388d2f", "uuid": "81e2119b-a66b-4ff1-9796-90458fdc87bd"}, "__new_primary_file_solow|geometric__": {"src": "hda", "id": "2c905c266975a822", "uuid": "19e08439-6a2d-45e3-884e-ad716a4bdb6b"}, "__new_primary_file_solow|shannon__": {"src": "hda", "id": "9bebc27cdf46e887", "uuid": "9fc5a622-8063-41bb-8926-262d0bbe7a37"}, "__new_primary_file_solow|bergerparker__": {"src": "hda", "id": "a8a72597d313e674", "uuid": "6de9fb48-8aed-441e-9732-7ea6008adb0b"}, "__new_primary_file_solow|coverage__": {"src": "hda", "id": "5989b468f72bfcf5", "uuid": "5ddbac9d-e350-4d10-b2d0-b71c34a9da9f"}, "__new_primary_file_solow|npshannon__": {"src": "hda", "id": "3307079e08296ced", "uuid": "0c946a77-8e44-44a9-bb6d-b3b81b9c4d63"}, "__new_primary_file_solow|qstat__": {"src": "hda", "id": "bdfaaa58b77537a7", "uuid": "69617fe1-149e-4f11-952b-d2ffeb16d878"}, "logfile": {"src": "hda", "id": "480b3d56ed97c000", "uuid": "47827789-b03e-43e5-a90f-a3572067b330"}, "__new_primary_file_solow|goodscoverage__": {"src": "hda", "id": "d8859fda823215ee", "uuid": "069b6dc7-a02b-42d6-bf83-e8b5a99d8b83"}, "__new_primary_file_solow|nseqs__": {"src": "hda", "id": "b7c449f860774475", "uuid": "ab61d3db-886d-434c-9f90-b7e17ef7951c"}, "__new_primary_file_solow|bstick__": {"src": "hda", "id": "b0c02b917db38b13", "uuid": "1a591dcb-9e93-4488-afcb-7d14e6acb6ba"}, "__new_primary_file_solow|solow__": {"src": "hda", "id": "3679dac861a4e053", "uuid": "9d5f072d-49c9-413d-a968-364281350165"}, "__new_primary_file_solow|efron__": {"src": "hda", "id": "37b49f3ca84157b5", "uuid": "41d7ec1e-3b60-4640-ba13-dd2405473bea"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > collect.single(sabund=otu.dat,label=0.36-0.38-0.41,calc=ace-bootstrap-c \rhao-jack-sobs-simpsoneven-shannoneven-heip-smithwilson-bergerparker-coverage-goo \rdscoverage-simpson-invsimpson-qstat-shannon-npshannon-boneh-efron-shen-solow-log \rseries-geometric-bstick-nseqs,abund=10,freq=100.0)\n0.36\n0.38\n0.41\n\nOutput File Names: \notu.ace\notu.bootstrap\notu.chao\notu.jack\notu.sobs\notu.simpsoneven\notu.shannoneven\notu.heip\notu.smithwilson\notu.bergerparker\notu.coverage\notu.goodscoverage\notu.simpson\notu.invsimpson\notu.qstat\notu.shannon\notu.npshannon\notu.boneh\notu.efron\notu.shen\notu.solow\notu.logseries\notu.geometric\notu.bstick\notu.nseqs\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_486.dat' otu.dat && echo 'collect.single( sabund=otu.dat, label=0.36-0.38-0.41, calc=ace-bootstrap-chao-jack-sobs-simpsoneven-shannoneven-heip-smithwilson-bergerparker-coverage-goodscoverage-simpson-invsimpson-qstat-shannon-npshannon-boneh-efron-shen-solow-logseries-geometric-bstick-nseqs, abund=10, freq=100.0 )' | sed 's/ //g' | mothur | tee mothur.out.log && rm otu.dat", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:13:22.030750", "params": {"abund": "\"10\"", "dbkey": "\"hg17\"", "label": "[\"0.36\", \"0.38\", \"0.41\"]", "freq": "\"100.0\"", "calc": "[\"ace\", \"bootstrap\", \"chao\", \"jack\", \"sobs\", \"simpsoneven\", \"shannoneven\", \"heip\", \"smithwilson\", \"bergerparker\", \"coverage\", \"goodscoverage\", \"simpson\", \"invsimpson\", \"qstat\", \"shannon\", \"npshannon\", \"boneh\", \"efron\", \"shen\", \"solow\", \"logseries\", \"geometric\", \"bstick\", \"nseqs\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13485", "id": "cd5f25030bbf4788", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_collect_single.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "966d85c09a3ba224"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "966d85c09a3ba224", "uuid": "4e106005-f312-4492-9215-949aa781008a"}}, "update_time": "2018-02-08T17:13:46.721790", "tool_id": "mothur_consensus_seqs", "outputs": {"logfile": {"src": "hda", "id": "7dabb5bd245b7e86", "uuid": "3be51f90-2742-4388-a1ab-2fefa8ee76d8"}, "cons_fasta": {"src": "hda", "id": "e4b28fee36db3ded", "uuid": "f4dee734-7be1-4e34-82aa-6186612713aa"}, "summary": {"src": "hda", "id": "499ab5633737b2d3", "uuid": "213fe84b-bf79-40b9-9b5a-3e504993a354"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > consensus.seqs(fasta=fasta.dat)\nIt took 0 secs to find the consensus sequences.\nOutput File Names: \nfasta.cons.summary\nfasta.cons.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_513.dat' fasta.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'consensus.seqs( fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:13:42.630431", "params": {"count": "null", "cutoff": "\"\"", "name": "null", "dbkey": "\"hg17\"", "perotu": "{\"use\": \"no\", \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13578", "id": "33d716567e7a5529", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_consensus_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"count": {"src": "hda", "id": "83dfe49f50126b60"}, "perotu|otu": {"src": "hda", "id": "93ee5b88b9257311"}, "fasta": {"src": "hda", "id": "ed149d1c3c9443b2"}, "perotu|use": "yes"}, "job": {"inputs": {"count": {"src": "hda", "id": "83dfe49f50126b60", "uuid": "3620f06b-5ed4-4d25-8e52-d35f73c0e498"}, "fasta": {"src": "hda", "id": "ed149d1c3c9443b2", "uuid": "dadc920c-ef1b-476d-a7ad-c9abca0a2882"}, "otu": {"src": "hda", "id": "93ee5b88b9257311", "uuid": "e3746a8a-8017-4045-a09c-eb7e45d10277"}}, "update_time": "2018-02-08T17:14:23.581097", "tool_id": "mothur_consensus_seqs", "outputs": {"__new_primary_file_unique|0.30__": {"src": "hda", "id": "c9376b9862484ed4", "uuid": "1e9d5969-e4a9-4f38-b87f-401e7ca8b6c9"}, "logfile": {"src": "hda", "id": "6d049149a6f947d3", "uuid": "cb42d6d1-fa4d-4359-bb3b-0e99648b5f8d"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "a15361ef356dda4c", "uuid": "3abca939-41b6-4841-8cb9-2bdc41db1d6d"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "270b3503788ebdd6", "uuid": "160db0d3-3bb6-4f56-84c5-d915cf2ff6b0"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > consensus.seqs(fasta=fasta.dat,list=perotu.otu.dat,count=count.dat)\nunique\n0.30\n0.33\nIt took 1 secs to find the consensus sequences.\nOutput File Names: \nfasta.unique.cons.summary\nfasta.unique.cons.names\nfasta.unique.cons.fasta\nfasta.0.30.cons.summary\nfasta.0.30.cons.names\nfasta.0.30.cons.fasta\nfasta.0.33.cons.summary\nfasta.0.33.cons.names\nfasta.0.33.cons.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_517.dat' fasta.dat && ln -s 'None' name.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_519.dat' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_518.dat' perotu.otu.dat && echo 'consensus.seqs( fasta=fasta.dat ,list=perotu.otu.dat ,count=count.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:14:15.579381", "params": {"cutoff": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\"", "perotu": "{\"use\": \"yes\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 518}]}, \"__current_case__\": 0, \"label\": null}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13712", "id": "89c96313ae93d0a8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_consensus_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "c661245d3c9c7a1b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "c661245d3c9c7a1b", "uuid": "ef8e6508-b2c1-41ba-99a7-48b8f91816aa"}}, "update_time": "2018-02-08T17:14:56.139601", "tool_id": "mothur_cooccurrence", "outputs": {"logfile": {"src": "hda", "id": "691344dc3af3bae5", "uuid": "bf5e2572-adc7-48af-97ba-de7fbc4c5d67"}, "out_summary": {"src": "hda", "id": "9cb939e9f07d29cd", "uuid": "e5d7ca81-706e-4320-8012-af7c59eb71e9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > cooccurrence(shared=otu.dat,metric=cscore,matrixmodel=sim2,iters=1000)\nunique\nInitial c score: 0.505263\n\naverage metric score: 0.49971\nzscore: 0.688308\nstandard deviation: 0.00806771\nnon-parametric p-value: 0.081\n0.01\nInitial c score: 0.505495\n\naverage metric score: 0.499899\nzscore: 0.689761\nstandard deviation: 0.00811162\nnon-parametric p-value: 0.085\n0.02\nInitial c score: 0.505107\n\naverage metric score: 0.499893\nzscore: 0.603707\nstandard deviation: 0.00863748\nnon-parametric p-value: 0.334\n0.03\nInitial c score: 0.505609\n\naverage metric score: 0.500176\nzscore: 0.672499\nstandard deviation: 0.00807817\nnon-parametric p-value: 0.256\n0.04\nInitial c score: 0.506329\n\naverage metric score: 0.500085\nzscore: 0.730838\nstandard deviation: 0.00854372\nnon-parametric p-value: 0.17\n0.05\nInitial c score: 0.507042\n\naverage metric score: 0.499892\nzscore: 0.727804\nstandard deviation: 0.00982421\nnon-parametric p-value: 0.181\n0.06\nInitial c score: 0.508475\n\naverage metric score: 0.499489\nzscore: 0.738319\nstandard deviation: 0.01217\nnon-parametric p-value: 0.097\n0.07\nInitial c score: 0.509091\n\naverage metric score: 0.500385\nzscore: 0.7394\nstandard deviation: 0.0117742\nnon-parametric p-value: 0.106\n0.08\nInitial c score: 0.510638\n\naverage metric score: 0.500255\nzscore: 0.668373\nstandard deviation: 0.0155347\nnon-parametric p-value: 0.241\n0.09\nInitial c score: 0.511111\n\naverage metric score: 0.49986\nzscore: 0.739436\nstandard deviation: 0.0152159\nnon-parametric p-value: 0.117\n0.10\nInitial c score: 0.509756\n\naverage metric score: 0.500649\nzscore: 0.529354\nstandard deviation: 0.0172046\nnon-parametric p-value: 0.488\n0.11\nInitial c score: 0.513514\n\naverage metric score: 0.500045\nzscore: 0.691855\nstandard deviation: 0.0194672\nnon-parametric p-value: 0.262\n0.12\nInitial c score: 0.514286\n\naverage metric score: 0.500101\nzscore: 0.715402\nstandard deviation: 0.0198278\nnon-parametric p-value: 0.262\n0.13\nInitial c score: 0.516129\n\naverage metric score: 0.499629\nzscore: 0.670815\nstandard deviation: 0.024597\nnon-parametric p-value: 0.146\n0.14\nInitial c score: 0.518519\n\naverage metric score: 0.499396\nzscore: 0.660312\nstandard deviation: 0.0289598\nnon-parametric p-value: 0.29\n0.15\nInitial c score: 0.516923\n\naverage metric score: 0.50024\nzscore: 0.594084\nstandard deviation: 0.028082\nnon-parametric p-value: 0.446\n0.16\nInitial c score: 0.513333\n\naverage metric score: 0.499947\nzscore: 0.475889\nstandard deviation: 0.0281298\nnon-parametric p-value: 0.57\n0.17\nInitial c score: 0.513834\n\naverage metric score: 0.500664\nzscore: 0.406264\nstandard deviation: 0.0324173\nnon-parametric p-value: 0.615\n0.18\nInitial c score: 0.514286\n\naverage metric score: 0.499648\nzscore: 0.421505\nstandard deviation: 0.0347281\nnon-parametric p-value: 0.611\n0.19\nInitial c score: 0.51462\n\naverage metric score: 0.499287\nzscore: 0.382877\nstandard deviation: 0.0400476\nnon-parametric p-value: 0.645\n0.20\nInitial c score: 0.514706\n\naverage metric score: 0.501265\nzscore: 0.295044\nstandard deviation: 0.0455565\nnon-parametric p-value: 0.7\n0.21\nInitial c score: 0.525\n\naverage metric score: 0.501542\nzscore: 0.523122\nstandard deviation: 0.0448429\nnon-parametric p-value: 0.55\n0.22\nInitial c score: 0.527473\n\naverage metric score: 0.499813\nzscore: 0.515418\nstandard deviation: 0.0536639\nnon-parametric p-value: 0.582\n0.23\nInitial c score: 0.538462\n\naverage metric score: 0.498821\nzscore: 0.702445\nstandard deviation: 0.0564329\nnon-parametric p-value: 0.425\n0.24\nInitial c score: 0.533333\n\naverage metric score: 0.4974\nzscore: 0.468581\nstandard deviation: 0.0766854\nnon-parametric p-value: 0.65\n0.25\nInitial c score: 0.535714\n\naverage metric score: 0.5005\nzscore: 0.367823\nstandard deviation: 0.095737\nnon-parametric p-value: 0.708\n0.26\nInitial c score: 0.533333\n\naverage metric score: 0.4956\nzscore: 0.288774\nstandard deviation: 0.130667\nnon-parametric p-value: 0.761\n0.27\nInitial c score: 0.533333\n\naverage metric score: 0.4974\nzscore: 0.272986\nstandard deviation: 0.13163\nnon-parametric p-value: 0.776\n0.29\nInitial c score: 0.6\n\naverage metric score: 0.4894\nzscore: 0.65946\nstandard deviation: 0.167713\nnon-parametric p-value: 0.599\n0.32\nInitial c score: 0.5\n\naverage metric score: 0.496\nzscore: 0.0191454\nstandard deviation: 0.208927\nnon-parametric p-value: 0.867\n0.33\nInitial c score: 0.5\n\naverage metric score: 0.499833\nzscore: 0.000833623\nstandard deviation: 0.19993\nnon-parametric p-value: 0.88\n0.36\nInitial c score: 0.666667\n\naverage metric score: 0.503333\nzscore: 0.569652\nstandard deviation: 0.286725\nnon-parametric p-value: 0.755\n0.38\nInitial c score: 1\n\naverage metric score: 0.477\nzscore: 1.04711\nstandard deviation: 0.499471\nnon-parametric p-value: 0.477\n0.41\nInitial c score: 1\n\naverage metric score: 0.52\nzscore: 0.960769\nstandard deviation: 0.4996\nnon-parametric p-value: 0.52\n0.45\nInitial c score: -nan\n\naverage metric score: -nan\nzscore: -nan\nstandard deviation: -nan\nnon-parametric p-value: 0\n0.55\nNot enough OTUs for co-occurrence analysis, skipping\n\nOutput File Names: \notu.cooccurence.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_530.dat' otu.dat && echo 'cooccurrence( shared=otu.dat, metric=cscore, matrixmodel=sim2, iters=1000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:14:52.638168", "params": {"matrixmodel": "\"sim2\"", "iters": "\"1000\"", "metric": "\"cscore\"", "dbkey": "\"hg17\"", "label": "null", "groups": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13806", "id": "8b9818d7842d6e75", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cooccurrence.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"metric": "vratio", "otu": {"src": "hda", "id": "f1cb956746b7222f"}, "groups": ["forest", "pasture"], "label": ["0.05", "0.22", "0.41"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "f1cb956746b7222f", "uuid": "2253cdd5-860c-4546-bfcd-80b05a1479c9"}}, "update_time": "2018-02-08T17:15:16.391349", "tool_id": "mothur_cooccurrence", "outputs": {"logfile": {"src": "hda", "id": "9c51eb665ea2103a", "uuid": "12b819be-425e-44e4-91c8-36522b833d89"}, "out_summary": {"src": "hda", "id": "c59b1eb3addb92c6", "uuid": "6650870a-9871-4e0d-aa08-a94a01a4e784"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > cooccurrence(shared=otu.dat,metric=vratio,matrixmodel=sim2,iters=1000,l \rabel=0.05-0.22-0.41,groups=forest-pasture)\n0.05\nInitial c score: 0.0140845\n\naverage metric score: 0.0140845\nzscore: -1\nstandard deviation: 2.98372e-16\nnon-parametric p-value: 1\n0.22\nInitial c score: 0.285714\n\naverage metric score: 0.285714\nzscore: 1\nstandard deviation: 3.27516e-15\nnon-parametric p-value: 1\n0.41\nInitial c score: 0\n\naverage metric score: 0\nzscore: -nan\nstandard deviation: 0\nnon-parametric p-value: 1\n\nOutput File Names: \notu.cooccurence.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_533.dat' otu.dat && echo 'cooccurrence( shared=otu.dat, metric=vratio, matrixmodel=sim2, iters=1000 ,label=0.05-0.22-0.41 ,groups=forest-pasture )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:15:13.250684", "params": {"matrixmodel": "\"sim2\"", "iters": "\"1000\"", "metric": "\"vratio\"", "dbkey": "\"hg17\"", "label": "[\"0.05\", \"0.22\", \"0.41\"]", "groups": "[\"forest\", \"pasture\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "13891", "id": "b3dbb33ff37f6ca1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_cooccurrence.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"axes": {"src": "hda", "id": "3511dc9f211ca562"}, "input|source": "shared", "input|otu": {"src": "hda", "id": "b7614d7298eb8371"}}, "job": {"inputs": {"axes": {"src": "hda", "id": "3511dc9f211ca562", "uuid": "ad7e52e8-f6da-42c3-9118-9a115f5f0914"}, "otu": {"src": "hda", "id": "b7614d7298eb8371", "uuid": "b1349374-8445-467e-943b-25973a860ae3"}}, "update_time": "2018-02-08T17:15:37.113599", "tool_id": "mothur_corr_axes", "outputs": {"logfile": {"src": "hda", "id": "c068ba61abe27ec2", "uuid": "51756d9e-0966-4007-b404-9c56634d51fd"}, "corr_axes": {"src": "hda", "id": "751af820aa10c307", "uuid": "923c2fd2-a3bc-40ea-9eb2-abfc3900dc9b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > corr.axes(shared=input.otu.dat,method=pearson,axes=/tmp/saskia/tmpKSDp0 \rp/files/000/dataset_536.dat,numaxes=3)\nYou did not provide a label, I will use the first label in your inputfile.\n\nOutput File Names: \ninput.otu.pearson.corr.axes\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_537.dat' input.otu.dat && echo 'corr.axes( shared=input.otu.dat, method=pearson, axes=/tmp/saskia/tmpKSDp0p/files/000/dataset_536.dat, numaxes=3 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:15:33.982854", "params": {"numaxes": "\"3\"", "input": "{\"groups\": null, \"source\": \"shared\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 537}]}, \"__current_case__\": 0, \"label\": null}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"pearson\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14013", "id": "a6edf8654f66f4d6", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_corr_axes.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|metadata": {"src": "hda", "id": "c2b0116e87929f66"}, "axes": {"src": "hda", "id": "aa43a28a12fcf867"}, "input|source": "metadata"}, "job": {"inputs": {"axes": {"src": "hda", "id": "aa43a28a12fcf867", "uuid": "f4234459-a2f4-4fdb-8fa6-6cbcf5638eb3"}, "metadata": {"src": "hda", "id": "c2b0116e87929f66", "uuid": "2431fcfc-cdbb-4eba-a953-4ee99eaefe3a"}}, "update_time": "2018-02-08T17:15:58.839796", "tool_id": "mothur_corr_axes", "outputs": {"logfile": {"src": "hda", "id": "bb9931d062678360", "uuid": "556cb252-2dda-42fd-9167-6f44e15d12b2"}, "corr_axes": {"src": "hda", "id": "828c366ec88b9842", "uuid": "92def415-ab6a-42f2-935c-c574aad0b57c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > corr.axes(metadata=input.metadata.dat,method=pearson,axes=/tmp/saskia/t \rmpKSDp0p/files/000/dataset_540.dat,numaxes=3)\nYou did not provide a label, I will use the first label in your inputfile.\n\nOutput File Names: \ninput.metadata.pearson.corr.axes\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_541.dat' input.metadata.dat && echo 'corr.axes( metadata=input.metadata.dat, method=pearson, axes=/tmp/saskia/tmpKSDp0p/files/000/dataset_540.dat, numaxes=3 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:15:55.632585", "params": {"numaxes": "\"3\"", "input": "{\"source\": \"metadata\", \"__current_case__\": 1, \"metadata\": {\"values\": [{\"src\": \"hda\", \"id\": 541}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"pearson\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14126", "id": "e8a2248405ed0640", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_corr_axes.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|label": "0.05", "input|source": "shared", "input|groups": ["forest", "pasture"], "axes": {"src": "hda", "id": "76880adb125efe03"}, "input|otu": {"src": "hda", "id": "eafd24481bcc96df"}}, "job": {"inputs": {"axes": {"src": "hda", "id": "76880adb125efe03", "uuid": "49bbc3a7-5968-436f-b8bf-1c7d863a9a9a"}, "otu": {"src": "hda", "id": "eafd24481bcc96df", "uuid": "e53ae831-a4e6-4710-a763-420abb52caf2"}}, "update_time": "2018-02-08T17:16:19.486444", "tool_id": "mothur_corr_axes", "outputs": {"logfile": {"src": "hda", "id": "d36e0ad5b4ecc523", "uuid": "d9f1e3db-30eb-4d51-8fea-d9150db896a8"}, "corr_axes": {"src": "hda", "id": "f71b4098ab6a1836", "uuid": "b0f94268-023d-4674-be3f-a1562438a6fb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > corr.axes(relabund=input.otu.dat,label=0.05,groups=forest-pasture,metho \rd=pearson,axes=/tmp/saskia/tmpKSDp0p/files/000/dataset_544.dat,numaxes=3)\n\nOutput File Names: \ninput.otu.pearson.corr.axes\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_545.dat' input.otu.dat && echo 'corr.axes( relabund=input.otu.dat, label=0.05, groups=forest-pasture, method=pearson, axes=/tmp/saskia/tmpKSDp0p/files/000/dataset_544.dat, numaxes=3 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:16:16.360411", "params": {"numaxes": "\"3\"", "input": "{\"groups\": [\"forest\", \"pasture\"], \"source\": \"shared\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 545}]}, \"__current_case__\": 0, \"label\": \"0.05\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"pearson\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14234", "id": "168b8fc92b5c87b9", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_corr_axes.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "2055ef0ee953a321"}}, "job": {"inputs": {"group": {"src": "hda", "id": "2055ef0ee953a321", "uuid": "85f8a4fb-c98f-4e67-959c-8fa7b160350e"}}, "update_time": "2018-02-08T17:16:37.211383", "tool_id": "mothur_count_groups", "outputs": {"logfile": {"src": "hda", "id": "d1010cb72bf991e5", "uuid": "b339060b-210b-4a0e-8ca3-cfaeb05bab93"}, "grp_count": {"src": "hda", "id": "2b91a5aff526e014", "uuid": "330704c8-aa6d-489c-b5e0-4f3a1cd28aa8"}, "summary": {"src": "hda", "id": "39ed0b190e5aa078", "uuid": "be37c436-d733-40aa-9d3b-3ceec97a6a22"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > count.groups(shared=group.dat)\nforest contains 49.\npasture contains 49.\n\nTotal seqs: 98.\n\nOutput File Names: \ngroup.count.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_548.dat' group.dat && echo 'count.groups( shared=group.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && cat mothur.*.logfile | head -n-7 | sed '1,30d' > '/tmp/saskia/tmpKSDp0p/files/000/dataset_550.dat'", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:16:34.007477", "params": {"groupnames": "{\"source\": \"none\", \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14320", "id": "f28875befd5fbf72", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_count_groups.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"groupnames|groups": ["forest", "pasture"], "group": {"src": "hda", "id": "731d7fc7f6176125"}, "groupnames|source": "groups"}, "job": {"inputs": {"group": {"src": "hda", "id": "731d7fc7f6176125", "uuid": "2fb9ef4d-8299-4dab-abb7-022dac7f5b56"}}, "update_time": "2018-02-08T17:16:49.634091", "tool_id": "mothur_count_groups", "outputs": {"logfile": {"src": "hda", "id": "8710e509865c9aaa", "uuid": "0b718802-5d6d-4b8d-ae15-4b7a7c207bcb"}, "grp_count": {"src": "hda", "id": "64f19a468d4ecfd5", "uuid": "54dfe4be-87cd-4ddd-9a46-7a98f76edb5d"}, "summary": {"src": "hda", "id": "ced3352a0235cd8b", "uuid": "22d85b3f-4e99-41ca-b1b6-525a68e0a595"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > count.groups(shared=group.dat,groups=forest-pasture)\nforest contains 49.\npasture contains 49.\n\nTotal seqs: 98.\n\nOutput File Names: \ngroup.count.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_552.dat' group.dat && echo 'count.groups( shared=group.dat ,groups=forest-pasture )' | sed 's/ //g' | mothur | tee mothur.out.log && cat mothur.*.logfile | head -n-7 | sed '1,30d' > '/tmp/saskia/tmpKSDp0p/files/000/dataset_554.dat'", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:16:46.402985", "params": {"groupnames": "{\"source\": \"groups\", \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14410", "id": "0805ac7051fb8901", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_count_groups.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"name": {"src": "hda", "id": "2768baa09f52abc1"}}, "job": {"inputs": {"name": {"src": "hda", "id": "2768baa09f52abc1", "uuid": "877d12b1-a9ae-43bd-bd42-826b4b94e910"}}, "update_time": "2018-02-08T17:17:02.896150", "tool_id": "mothur_count_seqs", "outputs": {"logfile": {"src": "hda", "id": "8e15e2c734ba9663", "uuid": "a7bef60f-dcf4-4097-b6cc-dae34ad58be5"}, "seq_count": {"src": "hda", "id": "f4b2790380ce04e0", "uuid": "2c11e730-b181-4268-8b2b-1304ec1671b5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > count.seqs(name=name.dat)\n\nUsing 1 processors.\nIt took 0 secs to create a table for 98 sequences.\n\n\nTotal number of sequences: 98\n\nOutput File Names: \nname.count_table\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_556.dat' name.dat && echo 'count.seqs( name=name.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:16:59.097828", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "grouping": "{\"use\": \"no\", \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14500", "id": "6b84be122359b58b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_count_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"grouping|group": {"src": "hda", "id": "1e4cd37e942f1647"}, "grouping|use": "yes", "name": {"src": "hda", "id": "2ea80d0e66f18b07"}}, "job": {"inputs": {"group": {"src": "hda", "id": "1e4cd37e942f1647", "uuid": "103a5eb2-d49e-43d3-bac3-ccb2e1a53715"}, "name": {"src": "hda", "id": "2ea80d0e66f18b07", "uuid": "18a1e998-a6c8-4f4f-96dd-24a69a4d7652"}}, "update_time": "2018-02-08T17:17:25.704500", "tool_id": "mothur_count_seqs", "outputs": {"logfile": {"src": "hda", "id": "e57e8f741b8c587a", "uuid": "9bf1e448-c3f1-45f0-9192-20330890bfb6"}, "seq_count": {"src": "hda", "id": "9a68e8442a2ae0ec", "uuid": "efc00a4e-2573-489d-a8dd-58a6193eea62"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > count.seqs(group=grouping.group.dat,name=name.dat)\n\nUsing 1 processors.\nIt took 0 secs to create a table for 98 sequences.\n\n\nTotal number of sequences: 98\n\nOutput File Names: \nname.count_table\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_559.dat' name.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_560.dat' grouping.group.dat && echo 'count.seqs( group=grouping.group.dat, name=name.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:17:22.636543", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "grouping": "{\"use\": \"yes\", \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 560}]}, \"groups\": null, \"__current_case__\": 0}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14615", "id": "eb96e852c39cc9f1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_count_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"grouping|group": {"src": "hda", "id": "ba8874b7e3e0c2f3"}, "grouping|use": "yes", "name": {"src": "hda", "id": "60e341e237cd70c8"}, "grouping|groups": "pasture"}, "job": {"inputs": {"group": {"src": "hda", "id": "ba8874b7e3e0c2f3", "uuid": "536927dc-c192-4c3e-a6eb-a8c2fc4ce4ee"}, "name": {"src": "hda", "id": "60e341e237cd70c8", "uuid": "deb928d4-ad1e-4c1f-8098-30f2aea5b1e5"}}, "update_time": "2018-02-08T17:17:46.294616", "tool_id": "mothur_count_seqs", "outputs": {"logfile": {"src": "hda", "id": "ec153c27faccd8c3", "uuid": "60bf6227-8266-4dff-afe0-b41eddfc98e5"}, "seq_count": {"src": "hda", "id": "7e283a4b4d60f5b4", "uuid": "10feb9e6-0a1b-42a1-a03d-c040f1369ce4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > count.seqs(group=grouping.group.dat,groups=pasture,name=name.dat)\n\nUsing 1 processors.\nIt took 0 secs to create a table for 98 sequences.\n\n\nTotal number of sequences: 98\n\nOutput File Names: \nname.count_table\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_563.dat' name.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_564.dat' grouping.group.dat && echo 'count.seqs( group=grouping.group.dat, groups=pasture, name=name.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:17:43.317222", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "grouping": "{\"use\": \"yes\", \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 564}]}, \"groups\": \"pasture\", \"__current_case__\": 0}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14731", "id": "e63663c4a976dc8c", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_count_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"grouping|group": {"src": "hda", "id": "632f677f352f3520"}, "grouping|use": "yes", "name": {"src": "hda", "id": "cdf5fcd4ad6fb5ef"}, "grouping|groups": ["pasture", "forest"]}, "job": {"inputs": {"group": {"src": "hda", "id": "632f677f352f3520", "uuid": "2acbeca9-34f4-4ae5-9bd4-3a8f8d73b8b6"}, "name": {"src": "hda", "id": "cdf5fcd4ad6fb5ef", "uuid": "1883ab42-717c-4697-8567-f10bb2313628"}}, "update_time": "2018-02-08T17:18:06.896417", "tool_id": "mothur_count_seqs", "outputs": {"logfile": {"src": "hda", "id": "723d087f45888e63", "uuid": "30655e8b-a706-46a1-8f4b-907424e4e5a6"}, "seq_count": {"src": "hda", "id": "536b558fd30defca", "uuid": "d6e04181-dee8-45d0-9972-97111e7b319c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > count.seqs(group=grouping.group.dat,groups=pasture-forest,name=name.dat \r)\n\nUsing 1 processors.\nIt took 0 secs to create a table for 98 sequences.\n\n\nTotal number of sequences: 98\n\nOutput File Names: \nname.count_table\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_567.dat' name.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_568.dat' grouping.group.dat && echo 'count.seqs( group=grouping.group.dat, groups=pasture-forest, name=name.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:18:03.744174", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "grouping": "{\"use\": \"yes\", \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 568}]}, \"groups\": [\"pasture\", \"forest\"], \"__current_case__\": 0}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14840", "id": "ea1cd3f6f7bfdbc8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_count_seqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"nameOrCount": {"src": "hda", "id": "aa616977935bece4"}, "repfasta": {"src": "hda", "id": "b82be0a67dfc3ead"}, "otu": {"src": "hda", "id": "ecbb26f6b49a2189"}, "constaxonomy": {"src": "hda", "id": "c097cce02f6efe06"}, "label": "unique"}, "job": {"inputs": {"nameOrCount": {"src": "hda", "id": "aa616977935bece4", "uuid": "23d0a8a9-8cd1-4e1f-8066-e4f4c023df8c"}, "repfasta": {"src": "hda", "id": "b82be0a67dfc3ead", "uuid": "0c5fca4c-acb1-4344-91dd-3567a08e7173"}, "otu": {"src": "hda", "id": "ecbb26f6b49a2189", "uuid": "1cc67aa9-8f9f-4d4f-902f-47e2bbafd6a1"}, "constaxonomy": {"src": "hda", "id": "c097cce02f6efe06", "uuid": "44a0f4ed-ce6e-4a99-8c7f-fd15e74d7657"}}, "update_time": "2018-02-08T17:18:33.797429", "tool_id": "mothur_create_database", "outputs": {"logfile": {"src": "hda", "id": "4fcb2862e39bce1b", "uuid": "50452c1e-8865-490b-a150-ca3c4a03c0db"}, "database": {"src": "hda", "id": "0507eab7257c99fb", "uuid": "dd8a2598-7156-4ff5-8dd4-aa02af6af4cb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > create.database(list=otu.dat,repfasta=repfasta.dat,repname=nameOrCount. \rdat,constaxonomy=constaxonomy.dat,label=unique)\n\nOutput File Names: \notu.database\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_571.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_572.dat' repfasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_573.dat' nameOrCount.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_574.dat' constaxonomy.dat && ln -s 'None' group.dat && echo 'create.database( list=otu.dat ,repfasta=repfasta.dat ,repname=nameOrCount.dat ,constaxonomy=constaxonomy.dat ,label=unique )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:18:30.660644", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "group": "null", "dbkey": "\"hg17\"", "label": "\"unique\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "14992", "id": "1f643d6293754887", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_create_database.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"nameOrCount": {"src": "hda", "id": "66041b9fc316678f"}, "repfasta": {"src": "hda", "id": "ea961441905a3251"}, "otu": {"src": "hda", "id": "dad37bad3e582a03"}, "constaxonomy": {"src": "hda", "id": "f706247abc458287"}, "label": "unique"}, "job": {"inputs": {"nameOrCount": {"src": "hda", "id": "66041b9fc316678f", "uuid": "f8944112-9c77-460e-81c2-a543787690b9"}, "repfasta": {"src": "hda", "id": "ea961441905a3251", "uuid": "225fe3e4-bc37-4cb5-95a8-ed3b69f59be8"}, "otu": {"src": "hda", "id": "dad37bad3e582a03", "uuid": "8650be9a-feff-4bdb-8343-002b66ccf18b"}, "constaxonomy": {"src": "hda", "id": "f706247abc458287", "uuid": "063fc1c5-72fa-4744-b007-61c8c5f4ef78"}}, "update_time": "2018-02-08T17:19:01.552810", "tool_id": "mothur_create_database", "outputs": {"logfile": {"src": "hda", "id": "f39983d675d72056", "uuid": "0351c5e2-e001-48a3-a0d4-51c562891382"}, "database": {"src": "hda", "id": "c338e0c0b90362b9", "uuid": "69043eb9-dcfe-4429-8847-34dc04d2e380"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > create.database(list=otu.dat,repfasta=repfasta.dat,count=nameOrCount.da \rt,constaxonomy=constaxonomy.dat,label=unique)\n\nOutput File Names: \notu.database\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_577.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_578.dat' repfasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_579.dat' nameOrCount.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_580.dat' constaxonomy.dat && ln -s 'None' group.dat && echo 'create.database( list=otu.dat ,repfasta=repfasta.dat ,count=nameOrCount.dat ,constaxonomy=constaxonomy.dat ,label=unique )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:18:58.396784", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "group": "null", "dbkey": "\"hg17\"", "label": "\"unique\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15165", "id": "73f3912444e9fea9", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_create_database.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "445fd010406004cf"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "445fd010406004cf", "uuid": "350fa411-824d-4347-a194-594deaff7c95"}}, "update_time": "2018-02-08T17:19:19.237084", "tool_id": "mothur_degap_seqs", "outputs": {"logfile": {"src": "hda", "id": "acb17c34a39829bc", "uuid": "e5f43689-a962-449c-984b-3d0bd77b6e20"}, "out_fasta": {"src": "hda", "id": "756973d6ae6b9fe0", "uuid": "0b910abc-af11-48a8-b277-3b80ba2ba8bb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > degap.seqs(fasta=fasta.dat)\n\nUsing 1 processors.\nDegapping sequences from fasta.dat ...\n10\nIt took 0 secs to degap 10 sequences.\n\n\nOutput File Names: \nfasta.ng.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_583.dat' fasta.dat && echo 'degap.seqs( fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:19:16.126712", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15261", "id": "714401c2c9d376cc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_degap_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "e06eaaa480b62987"}, "inputtype|intype": "namesfile", "inputtype|names": {"src": "hda", "id": "bd5643b7bad6c5ee"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "e06eaaa480b62987", "uuid": "dc2e9af9-d7d9-436c-9619-c65fb4a17e58"}, "names": {"src": "hda", "id": "bd5643b7bad6c5ee", "uuid": "f76d6979-2c69-45f4-adb6-e30bd6908377"}}, "update_time": "2018-02-08T17:19:34.833603", "tool_id": "mothur_deunique_seqs", "outputs": {"groups_file": {"src": "hda", "id": "2e05a675c8e4effa", "uuid": "26b8ee44-3d29-4469-b2fd-b87f6522251a"}, "logfile": {"src": "hda", "id": "0326414b4e40019a", "uuid": "d990da53-bd56-4fb2-b0b6-f47de25d7270"}, "out_fasta": {"src": "hda", "id": "533f5f02878a870d", "uuid": "c25ac10e-52b9-49e8-9c10-6cdbe901225b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > deunique.seqs(name=names.dat,fasta=fasta.dat)\n\nOutput File Names: \nfasta.redundant.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_586.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_587.dat' names.dat && echo 'deunique.seqs( name=names.dat, fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:19:31.626015", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "inputtype": "{\"intype\": \"namesfile\", \"names\": {\"values\": [{\"src\": \"hda\", \"id\": 587}]}, \"__current_case__\": 0}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15371", "id": "32b5b014fd8ff7d7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_deunique_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "fea2f59e598c220b"}, "inputtype|intype": "countfile", "inputtype|names": {"src": "hda", "id": "89c39e6bc9d1ed43"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "fea2f59e598c220b", "uuid": "e91472b1-dad8-42dd-94d8-b94dadafed05"}, "names": {"src": "hda", "id": "89c39e6bc9d1ed43", "uuid": "59c434e9-21eb-4c7e-b650-d415e4c681fa"}}, "update_time": "2018-02-08T17:19:55.584258", "tool_id": "mothur_deunique_seqs", "outputs": {"groups_file": {"src": "hda", "id": "78187af971523bc5", "uuid": "a69e189f-7e4c-4720-bb47-ca41b7bcb0fc"}, "logfile": {"src": "hda", "id": "808438a09599e30a", "uuid": "172c6010-537e-44eb-a61d-c7d8ead283ea"}, "out_fasta": {"src": "hda", "id": "5f0fd33b40be7b90", "uuid": "29cc005e-a38f-4461-9f5a-7f6fec1ff42d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > deunique.seqs(count=names.dat,fasta=fasta.dat)\n\nOutput File Names: \nfasta.redundant.fasta\nnames.redundant.groups\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_591.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_592.dat' names.dat && echo 'deunique.seqs( count=names.dat, fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:19:52.400579", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "inputtype": "{\"intype\": \"countfile\", \"names\": {\"values\": [{\"src\": \"hda\", \"id\": 592}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15487", "id": "b722e15494aaed88", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_deunique_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "0fd8e817110724fa"}, "inputtype|intype": "countfile", "inputtype|names": {"src": "hda", "id": "8cf2c4d96fac8f30"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "0fd8e817110724fa", "uuid": "0ab27f57-35d3-414a-b873-a2a3638f8dc3"}, "names": {"src": "hda", "id": "8cf2c4d96fac8f30", "uuid": "2d94fcfa-9ec9-49e5-b797-a27b3680b1f3"}}, "update_time": "2018-02-08T17:20:21.581063", "tool_id": "mothur_deunique_seqs", "outputs": {"groups_file": {"src": "hda", "id": "26a7a34cb9e5bfcc", "uuid": "6ff5666d-cc51-457d-9faa-68081fcbbf0a"}, "logfile": {"src": "hda", "id": "d0739bd14cbff0fb", "uuid": "15127adf-a761-4cd5-b404-0dd5aefac5fa"}, "out_fasta": {"src": "hda", "id": "aaec100bcea4a774", "uuid": "6b20f501-a458-4912-84a8-f1f5db2ee785"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > deunique.seqs(count=names.dat,fasta=fasta.dat)\n\nOutput File Names: \nfasta.redundant.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_596.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_597.dat' names.dat && echo 'deunique.seqs( count=names.dat, fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:20:18.330376", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "inputtype": "{\"intype\": \"countfile\", \"names\": {\"values\": [{\"src\": \"hda\", \"id\": 597}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15598", "id": "3837873dd5f5f1f7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_deunique_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"tree": {"src": "hda", "id": "ed97b3e2ab207f95"}, "names": {"src": "hda", "id": "3e9d65cd9bd3cb5b"}}, "job": {"inputs": {"tree": {"src": "hda", "id": "ed97b3e2ab207f95", "uuid": "8171afc5-b70b-43d9-8cb2-54983b923226"}, "names": {"src": "hda", "id": "3e9d65cd9bd3cb5b", "uuid": "afc58f8a-27fd-448f-b908-bd15cad5024d"}}, "update_time": "2018-02-08T17:20:47.056523", "tool_id": "mothur_deunique_tree", "outputs": {"logfile": {"src": "hda", "id": "8733d0796a352268", "uuid": "49007554-1f8e-40d2-b876-b55356ff1837"}, "out_tree": {"src": "hda", "id": "9fbd2c401152ab55", "uuid": "440ed4e6-2f7e-4907-b481-13820836e2ad"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > deunique.tree(tree=tree.dat,name=names.dat)\n\nOutput File Names: \ntree.deunique.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_601.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_602.dat' names.dat && echo 'deunique.tree( tree=tree.dat, name=names.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:20:43.954435", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15720", "id": "12eb47432b3fa224", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_deunique_tree.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "4611eaf69222f4fc"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "4611eaf69222f4fc", "uuid": "e855b896-9810-401a-b333-c4e23384496d"}}, "update_time": "2018-02-08T17:20:59.418904", "tool_id": "mothur_dist_seqs", "outputs": {"logfile": {"src": "hda", "id": "11f90d7d2e7018d3", "uuid": "92e6a2d8-dc1e-4fae-bd9b-fc4cd45473ac"}, "out_dist": {"src": "hda", "id": "e310ea5c66f14aec", "uuid": "dd2805ef-d7e6-4ea6-8c2e-75f8d788f8f9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > dist.seqs(fasta=fasta.dat,countends=true,processors=1)\n\nUsing 1 processors.\n0\t0\n31\t0\n\nOutput File Names: \nfasta.dist\n\nIt took 0 seconds to calculate the distances for 32 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_605.dat' fasta.dat && echo 'dist.seqs( fasta=fasta.dat, countends=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:20:56.286624", "params": {"cutoff": "\"\"", "countends": "\"true\"", "dbkey": "\"hg17\"", "output": "\"\"", "calc": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15806", "id": "6194a3cf14a0177a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_dist_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"cutoff": "0.3", "fasta": {"src": "hda", "id": "3d3fb87387ce837c"}, "calc": "nogaps", "countends": false, "output": "lt"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "3d3fb87387ce837c", "uuid": "e197838d-144e-44fb-bac1-ca8ec8e3b339"}}, "update_time": "2018-02-08T17:21:16.984539", "tool_id": "mothur_dist_seqs", "outputs": {"logfile": {"src": "hda", "id": "619ac1d452a0c845", "uuid": "083fae16-a130-4737-91eb-0fef578c6f86"}, "out_dist": {"src": "hda", "id": "e150414f34961064", "uuid": "dc360c82-95d6-45f2-9ba7-591e518829a7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > dist.seqs(fasta=fasta.dat,calc=nogaps,countends=false,cutoff=0.3,output \r=lt,processors=1)\n\nUsing 1 processors.\n0\t0\n31\t0\n\nOutput File Names: \nfasta.phylip.dist\n\nIt took 0 seconds to calculate the distances for 32 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_608.dat' fasta.dat && echo 'dist.seqs( fasta=fasta.dat, calc=nogaps, countends=false, cutoff=0.3, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:21:13.826483", "params": {"cutoff": "\"0.3\"", "countends": "\"false\"", "dbkey": "\"hg17\"", "output": "\"lt\"", "calc": "\"nogaps\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15891", "id": "ce239e512e8f2197", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_dist_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "24493ccad6413f6e"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "24493ccad6413f6e", "uuid": "11f606c6-1b88-4fbc-a277-1b2d16fc55a2"}}, "update_time": "2018-02-08T17:21:38.102240", "tool_id": "mothur_dist_shared", "outputs": {"__new_primary_file_thetayc.unique.lt|jclass.0.18.lt__": {"src": "hda", "id": "0a063fcbe434cf24", "uuid": "6fd33918-5c64-4b5f-b40b-bce477f11d44"}, "__new_primary_file_thetayc.unique.lt|jclass.0.32.lt__": {"src": "hda", "id": "c7f95f7f9cd38954", "uuid": "63ade87b-4250-48bc-a55e-3a01cec0669b"}, "__new_primary_file_thetayc.unique.lt|jclass.0.24.lt__": {"src": "hda", "id": "0ab5259e4af4b72d", "uuid": "3a5a830b-ff9f-4f6f-8a24-4211042cfd6e"}, "__new_primary_file_thetayc.unique.lt|jclass.0.36.lt__": {"src": "hda", "id": "38956bd0aa358c3f", "uuid": "61d147dc-9a9c-474a-b48d-e1ad6330fcb7"}, "__new_primary_file_thetayc.unique.lt|jclass.0.38.lt__": {"src": "hda", "id": "4ece32d755307fe6", "uuid": "a0d2a58a-39b1-4a2f-a7d8-38679890e1e2"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.02.lt__": {"src": "hda", "id": "f85272b32a0e3096", "uuid": "9ac744ce-34a1-495f-9637-c9b08543095e"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.14.lt__": {"src": "hda", "id": "311536be0a100aff", "uuid": "e3657a6d-61d3-4da9-9e25-51c914eff687"}, "__new_primary_file_thetayc.unique.lt|jclass.0.10.lt__": {"src": "hda", "id": "028963dd9277afc4", "uuid": "482cff61-e544-4a47-8cda-20239be6889a"}, "__new_primary_file_thetayc.unique.lt|jclass.0.13.lt__": {"src": "hda", "id": "9a4816d29a176682", "uuid": "982fc818-63fe-4404-962f-2573ba90ff3d"}, "__new_primary_file_thetayc.unique.lt|jclass.0.19.lt__": {"src": "hda", "id": "211650f16125cac7", "uuid": "6c5299bb-003c-4e7b-9c6e-4a8f4fa13c62"}, "__new_primary_file_thetayc.unique.lt|jclass.0.07.lt__": {"src": "hda", "id": "cea2400696a35c76", "uuid": "3b4a152f-3f5d-4476-bd8b-3859fabfe85e"}, "__new_primary_file_thetayc.unique.lt|jclass.0.17.lt__": {"src": "hda", "id": "4dc472325bb05af1", "uuid": "81bb5b3e-58d8-4215-aa2f-65983fb2be9c"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.36.lt__": {"src": "hda", "id": "18c9a312be9dfd46", "uuid": "56f5c6aa-f992-4234-a202-29556acb60f6"}, "__new_primary_file_thetayc.unique.lt|jclass.0.41.lt__": {"src": "hda", "id": "2d4e92ce3c742824", "uuid": "4e326ab9-10f0-446d-9f9c-0bd609fc7a05"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.41.lt__": {"src": "hda", "id": "29caadb190f2e006", "uuid": "b7c11729-0e35-4fda-8709-8a3e7a3a2296"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.24.lt__": {"src": "hda", "id": "51217d9ce98f57c6", "uuid": "d268c6a7-e6b1-48f5-ae37-8d1e4c8b57a9"}, "__new_primary_file_thetayc.unique.lt|jclass.0.12.lt__": {"src": "hda", "id": "f941dab79996470b", "uuid": "a9bfe548-eb4c-4278-b957-faa446f98f71"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.09.lt__": {"src": "hda", "id": "202ba766860ff920", "uuid": "94014f6e-705c-4145-a239-08874facdec1"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.08.lt__": {"src": "hda", "id": "90dc81c6e452d321", "uuid": "9520cbb2-fc6c-49e0-a9ca-1c8d67f0ce61"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.04.lt__": {"src": "hda", "id": "394b142ac2ca2871", "uuid": "c9f4020e-3af8-4e2b-9761-efd6aa09df94"}, "__new_primary_file_thetayc.unique.lt|jclass.0.23.lt__": {"src": "hda", "id": "5230ad017bd30022", "uuid": "8dd1a251-415d-4177-affa-7e11718746bd"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.12.lt__": {"src": "hda", "id": "ab00489c29edf717", "uuid": "3f12ef85-3c64-49da-92fa-d05ff938dd5a"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.16.lt__": {"src": "hda", "id": "3fcf4993e0bb2ff7", "uuid": "9d0f3a5e-a81c-4f53-bd90-6462e3cfc077"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.26.lt__": {"src": "hda", "id": "071599f87a4de604", "uuid": "041bd740-14c3-48a5-a808-759cdf6ec303"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.55.lt__": {"src": "hda", "id": "b00043f2b99eaf89", "uuid": "d5966f55-354f-4953-a4eb-bd219a94e16b"}, "__new_primary_file_thetayc.unique.lt|jclass.0.11.lt__": {"src": "hda", "id": "cfc5d5e016367a16", "uuid": "0ba71551-b1f6-4db8-bc83-1e2c968855df"}, "__new_primary_file_thetayc.unique.lt|jclass.unique.lt__": {"src": "hda", "id": "b1bd9661e2dfab8b", "uuid": "365787d5-2c05-41e9-b978-a2247bde5f5a"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.27.lt__": {"src": "hda", "id": "0ea04a8e7f7f2841", "uuid": "2e5ff3a5-c354-45ed-b5dd-a45d1c2789bb"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.22.lt__": {"src": "hda", "id": "4449e124d499b380", "uuid": "c655ad33-5585-4664-a2f7-e5f159686d0c"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.32.lt__": {"src": "hda", "id": "8cfece4559d4fc3b", "uuid": "a40ece1b-2fc5-4dc3-a2b4-d7fef115d723"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.25.lt__": {"src": "hda", "id": "3c794ec071a1c21a", "uuid": "b7a74624-d5df-4eb7-a9a5-d7580828b764"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.07.lt__": {"src": "hda", "id": "473f2ef003f3d5dc", "uuid": "efb0f59b-5836-4666-a78c-f9ba3845497a"}, "__new_primary_file_thetayc.unique.lt|jclass.0.05.lt__": {"src": "hda", "id": "473d1cd995f5929a", "uuid": "a4fb7c44-893c-4ce4-a5ff-8f2e69e87fd3"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.03.lt__": {"src": "hda", "id": "e561f0821a7a597e", "uuid": "cd4a2ada-0ebe-41a7-968f-e366b6025742"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.18.lt__": {"src": "hda", "id": "be25131031e1ad95", "uuid": "ac392130-c44f-4118-98c2-2338b26bc05e"}, "__new_primary_file_thetayc.unique.lt|jclass.0.25.lt__": {"src": "hda", "id": "e70b3a347edd9ca6", "uuid": "24953264-3c9d-4a35-8905-d8ed7baa61f3"}, "__new_primary_file_thetayc.unique.lt|jclass.0.26.lt__": {"src": "hda", "id": "eb0dc5405ef2cc45", "uuid": "8be020d5-cb36-4ffa-95d9-1be777824afb"}, "__new_primary_file_thetayc.unique.lt|jclass.0.33.lt__": {"src": "hda", "id": "0679f69ae9556809", "uuid": "cc4f7db0-d13f-483c-ae39-3d9bd2208f84"}, "__new_primary_file_thetayc.unique.lt|jclass.0.21.lt__": {"src": "hda", "id": "a54a12fea7fba6f8", "uuid": "7d310388-8999-4ff6-94ec-863668770a76"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.15.lt__": {"src": "hda", "id": "2f1a29159e6c0d05", "uuid": "fc6b0f8d-6997-4450-b823-b61fb83e308b"}, "__new_primary_file_thetayc.unique.lt|jclass.0.03.lt__": {"src": "hda", "id": "0988466323c56cdf", "uuid": "7e1d5824-43c2-44a3-9605-0cffe7971692"}, "__new_primary_file_thetayc.unique.lt|jclass.0.29.lt__": {"src": "hda", "id": "8325c15a45021320", "uuid": "2df377d5-5212-4fa7-8ad0-f6e47e6bd3ac"}, "__new_primary_file_thetayc.unique.lt|jclass.0.02.lt__": {"src": "hda", "id": "f4374ecfbb413f78", "uuid": "39b72cea-947e-4203-a4f1-913152fa5a02"}, "__new_primary_file_thetayc.unique.lt|jclass.0.14.lt__": {"src": "hda", "id": "3b489b444bd4d351", "uuid": "700d115a-4c41-44c9-8fc1-84375445adeb"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.10.lt__": {"src": "hda", "id": "5358a640a429edd1", "uuid": "7fd6bb77-9c87-4d53-8046-54cae2ec37bb"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.29.lt__": {"src": "hda", "id": "0ad0507b49dffa58", "uuid": "805a42ed-f223-4e1d-b941-abd6b1b479e8"}, "__new_primary_file_thetayc.unique.lt|jclass.0.04.lt__": {"src": "hda", "id": "e221bbccd86327f3", "uuid": "4391f3dd-de4c-4dc4-b579-c28d6baa52f3"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.38.lt__": {"src": "hda", "id": "ab1e9441a316acd8", "uuid": "7e4d6e62-0afe-4a66-a8bd-a4528f902fd0"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.17.lt__": {"src": "hda", "id": "5038db98fbe5a439", "uuid": "31586e76-493f-4122-8046-b2ceb3aafd10"}, "__new_primary_file_thetayc.unique.lt|jclass.0.08.lt__": {"src": "hda", "id": "56c9b8f0467656be", "uuid": "fd13bb1a-ae2f-494a-b780-7c02f8793ea5"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.45.lt__": {"src": "hda", "id": "d47e822668688621", "uuid": "b691a75d-695b-4a9d-89a7-554cb3b64e18"}, "logfile": {"src": "hda", "id": "6dd0e474af427e2d", "uuid": "953cd602-5afa-478a-9e19-19ad86833023"}, "__new_primary_file_thetayc.unique.lt|jclass.0.09.lt__": {"src": "hda", "id": "1dd7987cfacb7830", "uuid": "e10f24b7-036a-466f-b7a2-0c0120b7c186"}, "__new_primary_file_thetayc.unique.lt|jclass.0.45.lt__": {"src": "hda", "id": "2cf8b9504cd1241a", "uuid": "0cc091ec-0cb9-445d-b40f-0b46cd147e94"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.11.lt__": {"src": "hda", "id": "83d790c814c9775c", "uuid": "27c22545-7f81-455d-a330-cd7401683b19"}, "__new_primary_file_thetayc.unique.lt|jclass.0.01.lt__": {"src": "hda", "id": "979544891205d23f", "uuid": "a76b3b49-c02c-49f8-ae61-c96a5ba5d368"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.33.lt__": {"src": "hda", "id": "05e82fbf4a2a081d", "uuid": "3f59f477-0f4d-41ea-8cca-f4e0f26064e9"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.06.lt__": {"src": "hda", "id": "06788ac74a6156ce", "uuid": "c32b1629-ee6d-4619-a63e-e657556e7aaa"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.05.lt__": {"src": "hda", "id": "3937f1a4bd2aee93", "uuid": "c4cfaf23-edb6-4ef0-b4e1-604066529d90"}, "__new_primary_file_thetayc.unique.lt|jclass.0.22.lt__": {"src": "hda", "id": "a9fd5735f9e9e011", "uuid": "fc2c0800-b484-4c5f-9030-176e2b72dea6"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.01.lt__": {"src": "hda", "id": "5e64ba0eb7841b04", "uuid": "3a7b11d8-1373-4871-8b9e-cb83a8e1a2ad"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.13.lt__": {"src": "hda", "id": "e9e479aeb9b0a25e", "uuid": "5789f74c-a2da-441f-b731-049b756328d4"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.20.lt__": {"src": "hda", "id": "b07688f4168e93bf", "uuid": "5c29fc78-ccdd-4175-aa4b-70d3e91cd0f9"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.23.lt__": {"src": "hda", "id": "978914f1b3729f41", "uuid": "6f66cb65-ec32-4420-9795-194ded4c028b"}, "__new_primary_file_thetayc.unique.lt|jclass.0.27.lt__": {"src": "hda", "id": "7474dd12a25623cb", "uuid": "7910ad0d-b90c-41ae-9bd9-97736fc01e4c"}, "__new_primary_file_thetayc.unique.lt|jclass.0.06.lt__": {"src": "hda", "id": "8e42baba49a36078", "uuid": "117d4d8a-e1d2-412c-b79d-b57d0692b17e"}, "__new_primary_file_thetayc.unique.lt|jclass.0.55.lt__": {"src": "hda", "id": "ce49eab21f44c35b", "uuid": "d9aacb56-a4e7-4b86-b33b-26df99b84aa6"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.21.lt__": {"src": "hda", "id": "b55d88427b65723f", "uuid": "8eff059b-de68-4d40-acd1-210d558a3b81"}, "__new_primary_file_thetayc.unique.lt|thetayc.unique.lt__": {"src": "hda", "id": "d19d4ec68e7448b5", "uuid": "7f768e59-7cb6-4a7d-bc9e-1227f3a56372"}, "__new_primary_file_thetayc.unique.lt|thetayc.0.19.lt__": {"src": "hda", "id": "d1af14f4da906d66", "uuid": "be3446ce-69c6-49b1-9c97-667f153ac558"}, "__new_primary_file_thetayc.unique.lt|jclass.0.15.lt__": {"src": "hda", "id": "825dec33847777b5", "uuid": "adb13a7f-e79e-4b3f-9f42-47430d91174d"}, "__new_primary_file_thetayc.unique.lt|jclass.0.16.lt__": {"src": "hda", "id": "ee234bf95ca1c311", "uuid": "55f3b565-c35a-446f-acda-1a80a908b9e7"}, "__new_primary_file_thetayc.unique.lt|jclass.0.20.lt__": {"src": "hda", "id": "53dfc6f5f1ee9e8c", "uuid": "fcec0cce-78e6-4410-a5b4-60ea38791156"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > dist.shared(shared=otu.dat,calc=jclass-thetayc,output=lt,processors=1)\n\nUsing 1 processors.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.jclass.unique.lt.dist\notu.thetayc.unique.lt.dist\notu.jclass.0.01.lt.dist\notu.thetayc.0.01.lt.dist\notu.jclass.0.02.lt.dist\notu.thetayc.0.02.lt.dist\notu.jclass.0.03.lt.dist\notu.thetayc.0.03.lt.dist\notu.jclass.0.04.lt.dist\notu.thetayc.0.04.lt.dist\notu.jclass.0.05.lt.dist\notu.thetayc.0.05.lt.dist\notu.jclass.0.06.lt.dist\notu.thetayc.0.06.lt.dist\notu.jclass.0.07.lt.dist\notu.thetayc.0.07.lt.dist\notu.jclass.0.08.lt.dist\notu.thetayc.0.08.lt.dist\notu.jclass.0.09.lt.dist\notu.thetayc.0.09.lt.dist\notu.jclass.0.10.lt.dist\notu.thetayc.0.10.lt.dist\notu.jclass.0.11.lt.dist\notu.thetayc.0.11.lt.dist\notu.jclass.0.12.lt.dist\notu.thetayc.0.12.lt.dist\notu.jclass.0.13.lt.dist\notu.thetayc.0.13.lt.dist\notu.jclass.0.14.lt.dist\notu.thetayc.0.14.lt.dist\notu.jclass.0.15.lt.dist\notu.thetayc.0.15.lt.dist\notu.jclass.0.16.lt.dist\notu.thetayc.0.16.lt.dist\notu.jclass.0.17.lt.dist\notu.thetayc.0.17.lt.dist\notu.jclass.0.18.lt.dist\notu.thetayc.0.18.lt.dist\notu.jclass.0.19.lt.dist\notu.thetayc.0.19.lt.dist\notu.jclass.0.20.lt.dist\notu.thetayc.0.20.lt.dist\notu.jclass.0.21.lt.dist\notu.thetayc.0.21.lt.dist\notu.jclass.0.22.lt.dist\notu.thetayc.0.22.lt.dist\notu.jclass.0.23.lt.dist\notu.thetayc.0.23.lt.dist\notu.jclass.0.24.lt.dist\notu.thetayc.0.24.lt.dist\notu.jclass.0.25.lt.dist\notu.thetayc.0.25.lt.dist\notu.jclass.0.26.lt.dist\notu.thetayc.0.26.lt.dist\notu.jclass.0.27.lt.dist\notu.thetayc.0.27.lt.dist\notu.jclass.0.29.lt.dist\notu.thetayc.0.29.lt.dist\notu.jclass.0.32.lt.dist\notu.thetayc.0.32.lt.dist\notu.jclass.0.33.lt.dist\notu.thetayc.0.33.lt.dist\notu.jclass.0.36.lt.dist\notu.thetayc.0.36.lt.dist\notu.jclass.0.38.lt.dist\notu.thetayc.0.38.lt.dist\notu.jclass.0.41.lt.dist\notu.thetayc.0.41.lt.dist\notu.jclass.0.45.lt.dist\notu.thetayc.0.45.lt.dist\notu.jclass.0.55.lt.dist\notu.thetayc.0.55.lt.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_611.dat' otu.dat && echo 'dist.shared( shared=otu.dat, calc=jclass-thetayc, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:21:31.443852", "params": {"dbkey": "\"hg17\"", "label": "null", "groups": "null", "output": "\"lt\"", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "calc": "[\"jclass\", \"thetayc\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "15979", "id": "c786be9a5c4573e3", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_dist_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"calc": ["sharedsobs", "sharedchao", "sharedace", "anderberg", "jclass", "jest", "kulczynski", "kulczynskicody", "kstest", "lennon", "ochiai", "sorclass", "sorest", "whittaker", "hamming", "memchi2", "memchord", "memeuclidean", "mempearson", "braycurtis", "jabund", "morisitahorn", "sorabund", "thetan", "thetayc", "canberra", "gower", "hellinger", "manhattan", "odum", "soergel", "spearman", "speciesprofile", "structchi2", "structeuclidean", "structpearson", "sharednseqs", "sharedobserved"], "otu": {"src": "hda", "id": "41cb101ab8c7143d"}, "groups": ["forest", "pasture"], "label": ["0.05", "0.22"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "41cb101ab8c7143d", "uuid": "512586be-d3ce-458b-bc04-d6f1f8f5ec90"}}, "update_time": "2018-02-08T17:22:05.537905", "tool_id": "mothur_dist_shared", "outputs": {"__new_primary_file_whittaker.0.22.lt|structchi2.0.05.lt__": {"src": "hda", "id": "262bf9b3975abb37", "uuid": "fa686ffc-7e74-489c-9ddc-fef0951ef56b"}, "__new_primary_file_whittaker.0.22.lt|hamming.0.22.lt__": {"src": "hda", "id": "86691025752e063e", "uuid": "7ebee5d3-336c-45ac-a066-db1a5d42091f"}, "__new_primary_file_whittaker.0.22.lt|hamming.0.05.lt__": {"src": "hda", "id": "e1d20895c4a97cda", "uuid": "4503ea8a-a9ae-4b19-88e5-19b6b5da79a5"}, "__new_primary_file_whittaker.0.22.lt|anderberg.0.05.lt__": {"src": "hda", "id": "e1e5b8e8ee3824ac", "uuid": "237bf93f-55ac-45ae-98f7-48b93cae2306"}, "__new_primary_file_whittaker.0.22.lt|anderberg.0.22.lt__": {"src": "hda", "id": "e0b8f8f721986493", "uuid": "6f204ed0-aedc-433d-8303-405c4c4e3ff0"}, "__new_primary_file_whittaker.0.22.lt|kulczynski.0.22.lt__": {"src": "hda", "id": "211e907a60c908e9", "uuid": "dd64cb3b-db72-4b37-ac2f-386c6720aa8d"}, "__new_primary_file_whittaker.0.22.lt|ochiai.0.05.lt__": {"src": "hda", "id": "7f2e8e297ac8c925", "uuid": "3711d9eb-ab13-434d-9781-c52deb6050f9"}, "__new_primary_file_whittaker.0.22.lt|sharedsobs.0.22.lt__": {"src": "hda", "id": "cea82bf23afdf2c7", "uuid": "2d4efb20-b187-4dcf-9f4e-87c6fd6037b7"}, "__new_primary_file_whittaker.0.22.lt|memchi2.0.05.lt__": {"src": "hda", "id": "5390f7f50514cb9b", "uuid": "52dcea09-25d2-469b-b777-aff41b60e5b7"}, "__new_primary_file_whittaker.0.22.lt|kulczynskicody.0.05.lt__": {"src": "hda", "id": "b796764476d8a18d", "uuid": "d1620d29-5cde-43b6-9acf-1cc22e0c1e1c"}, "__new_primary_file_whittaker.0.22.lt|hellinger.0.22.lt__": {"src": "hda", "id": "227f734e4aa4c9b2", "uuid": "1ae178c9-f3ba-434c-af03-16048a6eabe9"}, "__new_primary_file_whittaker.0.22.lt|kulczynski.0.05.lt__": {"src": "hda", "id": "14bd7ae5c8d01dd1", "uuid": "b5a2c653-3320-464f-9ed6-be03b253fbb5"}, "__new_primary_file_whittaker.0.22.lt|manhattan.0.22.lt__": {"src": "hda", "id": "eaccacad29990d32", "uuid": "304e4d89-01ac-41a7-bf9f-f427f94931c4"}, "__new_primary_file_whittaker.0.22.lt|jabund.0.22.lt__": {"src": "hda", "id": "1b6c629c941c417e", "uuid": "db92d8ba-ab12-4bc9-93a8-6cd66457ff9b"}, "__new_primary_file_whittaker.0.22.lt|speciesprofile.0.22.lt__": {"src": "hda", "id": "f8da79f6641aaed3", "uuid": "45334916-3481-438c-a539-93b76a3f1deb"}, "__new_primary_file_whittaker.0.22.lt|jest.0.22.lt__": {"src": "hda", "id": "5bc2b2daf3f5f2ab", "uuid": "ab4f7054-49a2-4bea-b38e-af2047561913"}, "__new_primary_file_whittaker.0.22.lt|spearman.0.05.lt__": {"src": "hda", "id": "4c0191a034b58f8b", "uuid": "d92d4dc8-a8e5-4eba-842c-fe41b2def05e"}, "__new_primary_file_whittaker.0.22.lt|memchord.0.05.lt__": {"src": "hda", "id": "0b396aab4382c1fc", "uuid": "cb7bf153-744e-4740-b691-e31cfbfa19b8"}, "__new_primary_file_whittaker.0.22.lt|hellinger.0.05.lt__": {"src": "hda", "id": "34887f5453bafac5", "uuid": "0d5d2aba-396d-4d46-9b0e-b45978d29c5b"}, "__new_primary_file_whittaker.0.22.lt|sharedsobs.0.05.lt__": {"src": "hda", "id": "9ecc9b17e1423ee8", "uuid": "984ea5cd-2cf4-4dd6-96c6-0cd3ce78f248"}, "__new_primary_file_whittaker.0.22.lt|lennon.0.22.lt__": {"src": "hda", "id": "da5e6034d475aa69", "uuid": "5b5252a4-6f7a-46ad-9427-7b0aa48eb38b"}, "__new_primary_file_whittaker.0.22.lt|canberra.0.05.lt__": {"src": "hda", "id": "9052f357abd891b3", "uuid": "1b0791b1-a3a3-4ed2-84a4-65e0f69df6e3"}, "__new_primary_file_whittaker.0.22.lt|mempearson.0.05.lt__": {"src": "hda", "id": "f8b2cb69c4645c2d", "uuid": "ec9f28c8-4a7f-48ac-bc77-37b064ae2043"}, "__new_primary_file_whittaker.0.22.lt|thetayc.0.22.lt__": {"src": "hda", "id": "76bb1b91489711f4", "uuid": "ab8e7c46-5184-4e07-87ac-251a830ce6ad"}, "__new_primary_file_whittaker.0.22.lt|manhattan.0.05.lt__": {"src": "hda", "id": "b2c5ddb42b4715c3", "uuid": "65b42caf-ccea-4a96-9a74-01b82fdbaa12"}, "__new_primary_file_whittaker.0.22.lt|sorest.0.22.lt__": {"src": "hda", "id": "fcbae05a9235b066", "uuid": "405f35df-5286-4698-abdb-05b66fe64719"}, "__new_primary_file_whittaker.0.22.lt|memeuclidean.0.22.lt__": {"src": "hda", "id": "35c110361200e678", "uuid": "82b29583-7880-4daa-9237-7eeeffe8a3a5"}, "__new_primary_file_whittaker.0.22.lt|memchi2.0.22.lt__": {"src": "hda", "id": "9f64a3239082dab3", "uuid": "fca13252-ab37-4b7f-9569-08ada82aa1bf"}, "__new_primary_file_whittaker.0.22.lt|lennon.0.05.lt__": {"src": "hda", "id": "8dbde73257c73eb6", "uuid": "187975b2-28d8-406d-99ee-450b23c9ad04"}, "__new_primary_file_whittaker.0.22.lt|gower.0.22.lt__": {"src": "hda", "id": "31b269c20168f956", "uuid": "30291602-f3ee-4d69-8634-d237b92f3c10"}, "__new_primary_file_whittaker.0.22.lt|thetayc.0.05.lt__": {"src": "hda", "id": "f5308c8c32aa1ac3", "uuid": "0eb12ee3-f2ca-41fe-9c22-790d09ea02b0"}, "__new_primary_file_whittaker.0.22.lt|odum.0.05.lt__": {"src": "hda", "id": "8398b6d40e2a8a5d", "uuid": "d9f2ccb5-ff8b-49c7-bc84-c8666873d6bf"}, "__new_primary_file_whittaker.0.22.lt|sorabund.0.05.lt__": {"src": "hda", "id": "5e7183f2c467f16e", "uuid": "00f76891-c215-4d74-b825-748c9242ee2b"}, "__new_primary_file_whittaker.0.22.lt|soergel.0.22.lt__": {"src": "hda", "id": "7ec799cf0545a3b8", "uuid": "1707622a-991b-40e5-a779-a156088e522f"}, "__new_primary_file_whittaker.0.22.lt|sharedchao.0.05.lt__": {"src": "hda", "id": "a97fae24847b82ef", "uuid": "3c40aace-208e-4a28-acc4-a8b07c541811"}, "__new_primary_file_whittaker.0.22.lt|sharednseqs.0.05.lt__": {"src": "hda", "id": "9633d7b12d9b72d5", "uuid": "d64515dd-f6d9-45b2-8532-74fd8f1d4f35"}, "__new_primary_file_whittaker.0.22.lt|morisitahorn.0.05.lt__": {"src": "hda", "id": "3f65e49d411bc75a", "uuid": "7108bb92-d0a9-4f62-b300-3c2209373e1c"}, "__new_primary_file_whittaker.0.22.lt|spearman.0.22.lt__": {"src": "hda", "id": "3299fdcb51cc47eb", "uuid": "21572f48-5f12-4d6b-8d35-53b972c5e404"}, "__new_primary_file_whittaker.0.22.lt|whittaker.0.22.lt__": {"src": "hda", "id": "40537184298763b3", "uuid": "b0d60e42-d4e2-497f-a414-4a5f2c8f7579"}, "__new_primary_file_whittaker.0.22.lt|braycurtis.0.22.lt__": {"src": "hda", "id": "d6426a4d60e6ca5f", "uuid": "81e2464c-6ccc-4924-9f9f-917ce722017f"}, "__new_primary_file_whittaker.0.22.lt|speciesprofile.0.05.lt__": {"src": "hda", "id": "036ab379ba7d8935", "uuid": "816c7182-645e-4ccc-b5a7-12a15ea7e349"}, "__new_primary_file_whittaker.0.22.lt|sharedace.0.05.lt__": {"src": "hda", "id": "54bb0d166d2d57fd", "uuid": "85158032-bada-4cc9-92ba-994b6d4620d9"}, "__new_primary_file_whittaker.0.22.lt|structeuclidean.0.22.lt__": {"src": "hda", "id": "28ff0d67f20f4379", "uuid": "988ea572-5a4f-4fd2-8477-6c1e4bde0d90"}, "__new_primary_file_whittaker.0.22.lt|jclass.0.05.lt__": {"src": "hda", "id": "0a751ae1f530d3b0", "uuid": "f5ad568b-15e0-4cd9-969b-401be84cfdd5"}, "__new_primary_file_whittaker.0.22.lt|memeuclidean.0.05.lt__": {"src": "hda", "id": "cf48cc1d82636611", "uuid": "ff9c15ea-a73f-44cb-b5af-bd66e5145d67"}, "__new_primary_file_whittaker.0.22.lt|structpearson.0.05.lt__": {"src": "hda", "id": "431ddb95d563c7de", "uuid": "2152403a-989a-41da-91bd-9f4eb4150bb8"}, "__new_primary_file_whittaker.0.22.lt|thetan.0.22.lt__": {"src": "hda", "id": "973cca1598618f36", "uuid": "f1a317b0-afc5-4343-bbee-087ecdc6d574"}, "__new_primary_file_whittaker.0.22.lt|structeuclidean.0.05.lt__": {"src": "hda", "id": "5ec3eb8d82ca9724", "uuid": "abc9b68c-c1c1-4cb8-9ee0-24853ec67d13"}, "__new_primary_file_whittaker.0.22.lt|canberra.0.22.lt__": {"src": "hda", "id": "b1af620203024fad", "uuid": "873d057d-21aa-4f65-bcb0-8c855fcc9b98"}, "__new_primary_file_whittaker.0.22.lt|sharedchao.0.22.lt__": {"src": "hda", "id": "81aa42cc3b98fce7", "uuid": "0209d03e-0e10-4b1e-8ffd-5498f26b4e34"}, "__new_primary_file_whittaker.0.22.lt|soergel.0.05.lt__": {"src": "hda", "id": "ff94a8bff60da0b4", "uuid": "544a3559-03b3-4818-80a3-2b4a64ae7fb2"}, "__new_primary_file_whittaker.0.22.lt|jabund.0.05.lt__": {"src": "hda", "id": "dcab094ab95178de", "uuid": "3340aeb2-ecd8-4a28-a311-d6fc4512da56"}, "__new_primary_file_whittaker.0.22.lt|braycurtis.0.05.lt__": {"src": "hda", "id": "12a2c8e46bfcfb96", "uuid": "7a28c879-9c50-4bbe-b7d1-d1cd34244527"}, "logfile": {"src": "hda", "id": "5cbdb2164e87278b", "uuid": "443414d5-be05-4c61-8fb6-17e85a35d9dc"}, "__new_primary_file_whittaker.0.22.lt|odum.0.22.lt__": {"src": "hda", "id": "de006ebe01a753f3", "uuid": "bf216d7e-916b-41ef-aa19-fa85d68f6c75"}, "__new_primary_file_whittaker.0.22.lt|sorclass.0.22.lt__": {"src": "hda", "id": "ad1b5556b60832c2", "uuid": "7a3e2b87-af85-4ace-86f5-da5d61336aa3"}, "__new_primary_file_whittaker.0.22.lt|sorclass.0.05.lt__": {"src": "hda", "id": "6814230246389984", "uuid": "814f398c-7aa6-49c7-850b-80dfca0b945a"}, "__new_primary_file_whittaker.0.22.lt|kstest.0.05.lt__": {"src": "hda", "id": "60d98c65896dc107", "uuid": "aca4cef3-7d23-41f3-bb39-f95b7e26da91"}, "__new_primary_file_whittaker.0.22.lt|morisitahorn.0.22.lt__": {"src": "hda", "id": "17722d0e5cefd1ad", "uuid": "91680419-53d6-420c-9f95-0b990b01e8d7"}, "__new_primary_file_whittaker.0.22.lt|kstest.0.22.lt__": {"src": "hda", "id": "25291f5c38a3933e", "uuid": "c4bbdf16-7eb5-423d-9c7e-19adcd5fb7cf"}, "__new_primary_file_whittaker.0.22.lt|ochiai.0.22.lt__": {"src": "hda", "id": "5e88180b10a9ebfa", "uuid": "26004881-94f6-486b-8741-3a6ce83cb184"}, "__new_primary_file_whittaker.0.22.lt|thetan.0.05.lt__": {"src": "hda", "id": "f625822a9112fb52", "uuid": "446db58e-70e6-42fd-a8d5-0e12dabc15ea"}, "__new_primary_file_whittaker.0.22.lt|memchord.0.22.lt__": {"src": "hda", "id": "97b9d06753322a7d", "uuid": "fa38519c-c58e-49ef-ba70-ac3455b20106"}, "__new_primary_file_whittaker.0.22.lt|structchi2.0.22.lt__": {"src": "hda", "id": "8ef1d4aff90ec17a", "uuid": "e604291f-3802-4038-95f1-5df643dbb2d8"}, "__new_primary_file_whittaker.0.22.lt|jclass.0.22.lt__": {"src": "hda", "id": "d4c7c64f8097c7e3", "uuid": "6875af93-528f-4296-b440-eb1cef990173"}, "__new_primary_file_whittaker.0.22.lt|whittaker.0.05.lt__": {"src": "hda", "id": "faf4e505dc24cb4d", "uuid": "f88894b5-973d-4d7e-aa1e-b25df9e4ae86"}, "__new_primary_file_whittaker.0.22.lt|sorest.0.05.lt__": {"src": "hda", "id": "5d14d4d6e1b26e70", "uuid": "b6e81a3a-bf3e-4705-85ae-9db7a8a1fefb"}, "__new_primary_file_whittaker.0.22.lt|kulczynskicody.0.22.lt__": {"src": "hda", "id": "0a2f8c1113cd2df5", "uuid": "f769fe63-c783-4969-87e5-54be177029e8"}, "__new_primary_file_whittaker.0.22.lt|jest.0.05.lt__": {"src": "hda", "id": "821ad9bcbb2bbe9b", "uuid": "5286828e-32a2-4413-90ef-0626c3446fc4"}, "__new_primary_file_whittaker.0.22.lt|sorabund.0.22.lt__": {"src": "hda", "id": "25d0f693a44d3b63", "uuid": "0bb75d42-b881-4f10-9e26-843a452c79b2"}, "__new_primary_file_whittaker.0.22.lt|sharedace.0.22.lt__": {"src": "hda", "id": "f4140b0f3e683fb7", "uuid": "e1f9a4e0-5150-4dd0-9654-d4fd1a8cfb10"}, "__new_primary_file_whittaker.0.22.lt|mempearson.0.22.lt__": {"src": "hda", "id": "27dd330ceb35c837", "uuid": "4dc9b5df-0826-4faa-b01e-859fe5726867"}, "__new_primary_file_whittaker.0.22.lt|gower.0.05.lt__": {"src": "hda", "id": "a4a6e47454aeba8e", "uuid": "35129200-5454-46ab-9498-584451cb60fd"}, "__new_primary_file_whittaker.0.22.lt|structpearson.0.22.lt__": {"src": "hda", "id": "45a4f11c8f7e7223", "uuid": "2bdde3cd-797c-40d3-bd31-70325d55d785"}, "__new_primary_file_whittaker.0.22.lt|sharednseqs.0.22.lt__": {"src": "hda", "id": "b726424360e35364", "uuid": "1d58ebaa-35df-4000-8fb3-966eb5384dc0"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > dist.shared(shared=otu.dat,label=0.05-0.22,groups=forest-pasture,calc=s \rharedsobs-sharedchao-sharedace-anderberg-jclass-jest-kulczynski-kulczynskicody-k \rstest-lennon-ochiai-sorclass-sorest-whittaker-hamming-memchi2-memchord-memeuclid \rean-mempearson-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc-canberra-g \rower-hellinger-manhattan-odum-soergel-spearman-speciesprofile-structchi2-structe \ruclidean-structpearson-sharednseqs-sharedobserved,output=lt,processors=1)\n\nUsing 1 processors.\nsharedobserved is not a valid estimator for the matrix.output command and will be disregarded. Valid estimators are anderberg, braycurtis, canberra, gower, hamming, hellinger, jabund, jclass, jest, jsd, kstest, kulczynski, kulczynskicody, lennon, manhattan, memchi2, memchord, memeuclidean, mempearson, morisitahorn, ochiai, odum, rjsd, sharedace, sharedchao, sharednseqs, sharedsobs, soergel, sorabund, sorclass, sorest, spearman, speciesprofile, structchi2, structchord, structeuclidean, structkulczynski, structpearson, thetan, thetayc, whittaker, \n0.05\n0.22\n\nOutput File Names: \notu.sharedsobs.0.05.lt.dist\notu.sharedchao.0.05.lt.dist\notu.sharedace.0.05.lt.dist\notu.anderberg.0.05.lt.dist\notu.jclass.0.05.lt.dist\notu.jest.0.05.lt.dist\notu.kulczynski.0.05.lt.dist\notu.kulczynskicody.0.05.lt.dist\notu.kstest.0.05.lt.dist\notu.lennon.0.05.lt.dist\notu.ochiai.0.05.lt.dist\notu.sorclass.0.05.lt.dist\notu.sorest.0.05.lt.dist\notu.whittaker.0.05.lt.dist\notu.hamming.0.05.lt.dist\notu.memchi2.0.05.lt.dist\notu.memchord.0.05.lt.dist\notu.memeuclidean.0.05.lt.dist\notu.mempearson.0.05.lt.dist\notu.braycurtis.0.05.lt.dist\notu.jabund.0.05.lt.dist\notu.morisitahorn.0.05.lt.dist\notu.sorabund.0.05.lt.dist\notu.thetan.0.05.lt.dist\notu.thetayc.0.05.lt.dist\notu.canberra.0.05.lt.dist\notu.gower.0.05.lt.dist\notu.hellinger.0.05.lt.dist\notu.manhattan.0.05.lt.dist\notu.odum.0.05.lt.dist\notu.soergel.0.05.lt.dist\notu.spearman.0.05.lt.dist\notu.speciesprofile.0.05.lt.dist\notu.structchi2.0.05.lt.dist\notu.structeuclidean.0.05.lt.dist\notu.structpearson.0.05.lt.dist\notu.sharednseqs.0.05.lt.dist\notu.sharedsobs.0.22.lt.dist\notu.sharedchao.0.22.lt.dist\notu.sharedace.0.22.lt.dist\notu.anderberg.0.22.lt.dist\notu.jclass.0.22.lt.dist\notu.jest.0.22.lt.dist\notu.kulczynski.0.22.lt.dist\notu.kulczynskicody.0.22.lt.dist\notu.kstest.0.22.lt.dist\notu.lennon.0.22.lt.dist\notu.ochiai.0.22.lt.dist\notu.sorclass.0.22.lt.dist\notu.sorest.0.22.lt.dist\notu.whittaker.0.22.lt.dist\notu.hamming.0.22.lt.dist\notu.memchi2.0.22.lt.dist\notu.memchord.0.22.lt.dist\notu.memeuclidean.0.22.lt.dist\notu.mempearson.0.22.lt.dist\notu.braycurtis.0.22.lt.dist\notu.jabund.0.22.lt.dist\notu.morisitahorn.0.22.lt.dist\notu.sorabund.0.22.lt.dist\notu.thetan.0.22.lt.dist\notu.thetayc.0.22.lt.dist\notu.canberra.0.22.lt.dist\notu.gower.0.22.lt.dist\notu.hellinger.0.22.lt.dist\notu.manhattan.0.22.lt.dist\notu.odum.0.22.lt.dist\notu.soergel.0.22.lt.dist\notu.spearman.0.22.lt.dist\notu.speciesprofile.0.22.lt.dist\notu.structchi2.0.22.lt.dist\notu.structeuclidean.0.22.lt.dist\notu.structpearson.0.22.lt.dist\notu.sharednseqs.0.22.lt.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_685.dat' otu.dat && echo 'dist.shared( shared=otu.dat, label=0.05-0.22, groups=forest-pasture, calc=sharedsobs-sharedchao-sharedace-anderberg-jclass-jest-kulczynski-kulczynskicody-kstest-lennon-ochiai-sorclass-sorest-whittaker-hamming-memchi2-memchord-memeuclidean-mempearson-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc-canberra-gower-hellinger-manhattan-odum-soergel-spearman-speciesprofile-structchi2-structeuclidean-structpearson-sharednseqs-sharedobserved, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:21:58.880697", "params": {"dbkey": "\"hg17\"", "label": "[\"0.05\", \"0.22\"]", "groups": "[\"forest\", \"pasture\"]", "output": "\"lt\"", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "calc": "[\"sharedsobs\", \"sharedchao\", \"sharedace\", \"anderberg\", \"jclass\", \"jest\", \"kulczynski\", \"kulczynskicody\", \"kstest\", \"lennon\", \"ochiai\", \"sorclass\", \"sorest\", \"whittaker\", \"hamming\", \"memchi2\", \"memchord\", \"memeuclidean\", \"mempearson\", \"braycurtis\", \"jabund\", \"morisitahorn\", \"sorabund\", \"thetan\", \"thetayc\", \"canberra\", \"gower\", \"hellinger\", \"manhattan\", \"odum\", \"soergel\", \"spearman\", \"speciesprofile\", \"structchi2\", \"structeuclidean\", \"structpearson\", \"sharednseqs\", \"sharedobserved\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16068", "id": "90653ba0c3bbef25", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_dist_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"output": "square", "calc": "canberra", "otu": {"src": "hda", "id": "baf2364ee29b3107"}, "subsampling|use": "yes", "label": ["0.03", "0.33"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "baf2364ee29b3107", "uuid": "d4951c32-9e65-48e0-a3e6-c87cd597d149"}}, "update_time": "2018-02-08T17:22:29.803485", "tool_id": "mothur_dist_shared", "outputs": {"__new_primary_file_canberra.0.33.square.std|canberra.0.03.square.ave__": {"src": "hda", "id": "0cc52239f966e8d8", "uuid": "1e0e7251-b715-4310-9902-f07e202040a9"}, "__new_primary_file_canberra.0.33.square.std|canberra.0.33.square__": {"src": "hda", "id": "26abeaa977847256", "uuid": "24dd2c79-5195-41b7-a6db-cb56d8fe607f"}, "__new_primary_file_canberra.0.33.square.std|canberra.0.33.square.ave__": {"src": "hda", "id": "20daa85480c5e233", "uuid": "c644c065-62d7-4f8c-b217-9b8a45e0d06c"}, "__new_primary_file_canberra.0.33.square.std|canberra.0.33.square.std__": {"src": "hda", "id": "68b1b014e79dbbac", "uuid": "0bee9b58-e601-4cdc-9005-442df905d104"}, "__new_primary_file_canberra.0.33.square.std|canberra.0.03.square__": {"src": "hda", "id": "9aa847d0f9b17c8b", "uuid": "7fc00040-a3e2-44b2-814f-12d3f0f9c5e7"}, "logfile": {"src": "hda", "id": "b46b161a6298a88e", "uuid": "00339ae5-b634-4c23-8bd4-3ba23fb04806"}, "__new_primary_file_canberra.0.33.square.std|canberra.0.03.square.std__": {"src": "hda", "id": "4a18607ffedf0072", "uuid": "799afe6d-3a56-4571-a4a0-ebcb0ad5a168"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > dist.shared(shared=otu.dat,label=0.03-0.33,calc=canberra,subsample=T,it \rers=1000,output=square,processors=1)\n\nUsing 1 processors.\n0.03\n100\n200\n300\n400\n500\n600\n700\n800\n900\n1000\n0.33\n100\n200\n300\n400\n500\n600\n700\n800\n900\n1000\n\nOutput File Names: \notu.canberra.0.03.square.dist\notu.canberra.0.03.square.ave.dist\notu.canberra.0.03.square.std.dist\notu.canberra.0.33.square.dist\notu.canberra.0.33.square.ave.dist\notu.canberra.0.33.square.std.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_761.dat' otu.dat && echo 'dist.shared( shared=otu.dat, label=0.03-0.33, calc=canberra, subsample=T, iters=1000, output=square, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:22:26.360733", "params": {"dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.33\"]", "groups": "null", "output": "\"square\"", "subsampling": "{\"iters\": \"1000\", \"subsample\": \"\", \"use\": \"yes\", \"__current_case__\": 0}", "calc": "\"canberra\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16161", "id": "06bb318fcaf8f1eb", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_dist_shared.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"subsampling|use": "yes", "label": "0.10", "otu": {"src": "hda", "id": "cfc54229b67d91e3"}, "subsampling|subsample": "2", "output": "square", "calc": "canberra", "subsampling|iters": "42"}, "job": {"inputs": {"otu": {"src": "hda", "id": "cfc54229b67d91e3", "uuid": "20daefca-def5-4876-946d-4cf232dfb9b0"}}, "update_time": "2018-02-08T17:22:47.020234", "tool_id": "mothur_dist_shared", "outputs": {"__new_primary_file_canberra.0.10.square.std|canberra.0.10.square.ave__": {"src": "hda", "id": "e6723b9768a74d82", "uuid": "79dcde89-0d4b-440f-ad9b-335794b42c15"}, "logfile": {"src": "hda", "id": "71eba17e79d46ea5", "uuid": "bcc4be41-17fa-4a06-b847-718aa331d440"}, "__new_primary_file_canberra.0.10.square.std|canberra.0.10.square__": {"src": "hda", "id": "617cf9f340bd6e86", "uuid": "2ce97851-6f4d-4494-9ef3-797b888ad973"}, "__new_primary_file_canberra.0.10.square.std|canberra.0.10.square.std__": {"src": "hda", "id": "ed1b8cbf308ff665", "uuid": "d49683ab-1105-4341-983b-1203f49ab877"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > dist.shared(shared=otu.dat,label=0.10,calc=canberra,subsample=2,iters=4 \r2,output=square,processors=1)\n\nUsing 1 processors.\n0.10\n\nOutput File Names: \notu.canberra.0.10.square.dist\notu.canberra.0.10.square.ave.dist\notu.canberra.0.10.square.std.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_769.dat' otu.dat && echo 'dist.shared( shared=otu.dat, label=0.10, calc=canberra, subsample=2, iters=42, output=square, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:22:43.797807", "params": {"dbkey": "\"hg17\"", "label": "\"0.10\"", "groups": "null", "output": "\"square\"", "subsampling": "{\"iters\": \"42\", \"subsample\": \"2\", \"use\": \"yes\", \"__current_case__\": 0}", "calc": "\"canberra\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16253", "id": "dec5e0baf08c9f80", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_dist_shared.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"oligo|add": "no", "fastq": {"src": "hda", "id": "e033f1f6a16a5fdb"}, "pacbio": false, "format": "sanger"}, "job": {"inputs": {"fastq": {"src": "hda", "id": "e033f1f6a16a5fdb", "uuid": "77438fba-535e-4216-8327-0e768915addb"}}, "update_time": "2018-02-08T17:23:04.684646", "tool_id": "mothur_fastq_info", "outputs": {"qfile_out": {"src": "hda", "id": "6c35ab7e615cea5a", "uuid": "dcefa944-94d0-4b60-97bd-2c4dc8eaecd0"}, "qfile_scrap_out": {"src": "hda", "id": "030656b247de0efe", "uuid": "9b1c11b7-5927-4d58-8b93-e90c055527c0"}, "fasta_scrap_out": {"src": "hda", "id": "a32e6dbc1964b80f", "uuid": "10697ffc-6f5b-49e7-9485-bdcba92bedeb"}, "fasta_out": {"src": "hda", "id": "f691a5951523571b", "uuid": "ed80280c-a610-4d2a-8521-7b0cde8c8754"}, "logfile": {"src": "hda", "id": "aa4dc5fa9f74231b", "uuid": "22ec9601-e7f9-40ca-b8d9-171c3ecbc0bd"}, "fastq_scrap_out": {"src": "hda", "id": "824db84bb730ff40", "uuid": "267a7c53-6bc5-4dde-850b-682f61bf72f7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > fastq.info(fastq=fastq.dat,pacbio=false,format=sanger)\n25\n\nOutput File Names: \nfastq.fasta\nfastq.qual\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_774.dat' fastq.dat && echo 'fastq.info( fastq=fastq.dat, pacbio=false, format=sanger )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:23:01.321492", "params": {"oligo": "{\"add\": \"no\", \"__current_case__\": 1}", "format": "\"sanger\"", "pacbio": "\"false\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16337", "id": "01949e60fe484dc7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_fastq_info.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"oligo|tdiffs": "3", "oligo|oligos": {"src": "hda", "id": "35610b944eae1662"}, "format": "sanger", "oligo|add": "yes", "fastq": {"src": "hda", "id": "bf2647e7c02a9611"}, "oligo|pdiffs": "3", "pacbio": false, "oligo|sdiffs": "7", "oligo|bdiffs": "1", "oligo|ldiffs": "3"}, "job": {"inputs": {"oligos": {"src": "hda", "id": "35610b944eae1662", "uuid": "81848543-318d-40ec-9f24-7e56a060ab4d"}, "fastq": {"src": "hda", "id": "bf2647e7c02a9611", "uuid": "7809aabd-ef88-4cbe-9bed-d0d4bde19717"}}, "update_time": "2018-02-08T17:23:25.374084", "tool_id": "mothur_fastq_info", "outputs": {"qfile_out": {"src": "hda", "id": "fdd788dd2ce60116", "uuid": "0d1ddeba-9f32-4378-9f89-54550cfe540f"}, "qfile_scrap_out": {"src": "hda", "id": "d1ff5636c3d156c1", "uuid": "ecc11736-d5b3-433a-99a7-5bfe26291fd9"}, "fasta_scrap_out": {"src": "hda", "id": "0a9daec53650332d", "uuid": "3ced0477-7b8f-4826-9fa3-dc8c00c7c3a9"}, "fasta_out": {"src": "hda", "id": "0f7bfbeda1808692", "uuid": "439b73c1-c987-439f-b470-01fca30b9187"}, "logfile": {"src": "hda", "id": "8e338a85ec192878", "uuid": "39bb7c9b-3632-4e54-a7af-06f6f0ced455"}, "fastq_scrap_out": {"src": "hda", "id": "32e4cd7ce068c585", "uuid": "4265a7df-7cb5-49ab-9add-e74293195c8a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > fastq.info(fastq=fastq.dat,pacbio=false,format=sanger,oligos=oligo.olig \ros.dat,bdiffs=1,pdiffs=3,tdiffs=3,ldiffs=3,sdiffs=7)\n25\n\nOutput File Names: \nfastq.fasta\nfastq.qual\nfastq.scrap.fastq\nfastq.scrap.fasta\nfastq.scrap.qual\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_781.dat' fastq.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_782.dat' oligo.oligos.dat && echo 'fastq.info( fastq=fastq.dat, pacbio=false, format=sanger ,oligos=oligo.oligos.dat ,bdiffs=1 ,pdiffs=3 ,tdiffs=3 ,ldiffs=3 ,sdiffs=7 )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fastq.scrap.fasta scrap.fasta && mv fastq.scrap.qual scrap.qual", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:23:21.806144", "params": {"oligo": "{\"bdiffs\": \"1\", \"sdiffs\": \"7\", \"ldiffs\": \"3\", \"pdiffs\": \"3\", \"tdiffs\": \"3\", \"add\": \"yes\", \"__current_case__\": 0, \"oligos\": {\"values\": [{\"src\": \"hda\", \"id\": 782}]}}", "format": "\"sanger\"", "pacbio": "\"false\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16448", "id": "10a6a0683c3e243b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_fastq_info.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"oligo|tdiffs": "3", "oligo|oligos": {"src": "hda", "id": "1380d0b9d445228e"}, "format": "sanger", "oligo|add": "yes", "fastq": {"src": "hda", "id": "9926857060044181"}, "oligo|pdiffs": "3", "pacbio": false, "oligo|sdiffs": "7", "oligo|bdiffs": "1", "oligo|ldiffs": "3"}, "job": {"inputs": {"oligos": {"src": "hda", "id": "1380d0b9d445228e", "uuid": "8c307d4a-4b92-49ff-a385-b7e66a389056"}, "fastq": {"src": "hda", "id": "9926857060044181", "uuid": "eaf7180b-c799-4fd3-b0c0-e3813deaac9d"}}, "update_time": "2018-02-08T17:24:09.682399", "tool_id": "mothur_fastq_info", "outputs": {"qfile_out": {"src": "hda", "id": "1c98d06fd14cd58f", "uuid": "890802e0-d230-4124-8616-65dc4330f583"}, "qfile_scrap_out": {"src": "hda", "id": "743a8d5f0b93543f", "uuid": "8fd611e9-658c-4b48-b9c7-2bc7030b1ffa"}, "fasta_scrap_out": {"src": "hda", "id": "d2877f6f2610c2e2", "uuid": "8b46de15-d1f8-476f-b274-7dae66d698af"}, "fasta_out": {"src": "hda", "id": "0127e3e8a6471eea", "uuid": "c62929d1-5324-4bd1-b277-4e260a3f43d1"}, "logfile": {"src": "hda", "id": "36389a8523644138", "uuid": "edadd9bc-8711-4aa2-b098-b0871e3c3982"}, "fastq_scrap_out": {"src": "hda", "id": "da235095819aad8a", "uuid": "4ac12252-aa96-4911-90a0-c582f5cadc8c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > fastq.info(fastq=fastq.dat,pacbio=false,format=sanger,oligos=oligo.olig \ros.dat,bdiffs=1,pdiffs=3,tdiffs=3,ldiffs=3,sdiffs=7)\n[WARNING]: your oligos file does not contain any group names. mothur will not create a groupfile.\n25\n\nOutput File Names: \nfastq.fasta\nfastq.qual\nfastq.scrap.fastq\nfastq.scrap.fasta\nfastq.scrap.qual\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 2 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_789.dat' fastq.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_790.dat' oligo.oligos.dat && echo 'fastq.info( fastq=fastq.dat, pacbio=false, format=sanger ,oligos=oligo.oligos.dat ,bdiffs=1 ,pdiffs=3 ,tdiffs=3 ,ldiffs=3 ,sdiffs=7 )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fastq.scrap.fasta scrap.fasta && mv fastq.scrap.qual scrap.qual", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:24:05.898702", "params": {"oligo": "{\"bdiffs\": \"1\", \"sdiffs\": \"7\", \"ldiffs\": \"3\", \"pdiffs\": \"3\", \"tdiffs\": \"3\", \"add\": \"yes\", \"__current_case__\": 0, \"oligos\": {\"values\": [{\"src\": \"hda\", \"id\": 790}]}}", "format": "\"sanger\"", "pacbio": "\"false\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16578", "id": "e4a1e6f57e384175", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_fastq_info.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "8cd4beb5cf8a2f93"}, "inputs_0|fasta": {"src": "hda", "id": "c6b012dc2ec4a20b"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "8cd4beb5cf8a2f93", "uuid": "c9633e87-92ec-41e8-8681-cd3853616f18"}, "inputs_0|fasta": {"src": "hda", "id": "c6b012dc2ec4a20b", "uuid": "f202689a-78a7-4f16-a06c-193c6b7cadb5"}}, "update_time": "2018-02-08T17:24:28.595502", "tool_id": "mothur_filter_seqs", "outputs": {"__new_primary_file_Mock_S280_L001_R1_001_small.trim.contigs.good.align_head|HMP_MOCK.v35.align__": {"src": "hda", "id": "d12daff1a3ddfe3f", "uuid": "59b94fbc-28e9-478b-a3be-6f31b037432e"}, "__new_primary_file_Mock_S280_L001_R1_001_small.trim.contigs.good.align_head|Mock_S280_L001_R1_001_small.trim.contigs.good.align_head__": {"src": "hda", "id": "c9ec74100d9952dd", "uuid": "efb1b48b-884a-432c-b896-0f79354137c3"}, "logfile": {"src": "hda", "id": "e81ccf1738866a34", "uuid": "5253fc43-d4ff-48b4-b4bb-318955c58886"}, "out_filter": {"src": "hda", "id": "e400af07ae3fa77f", "uuid": "3d6ac024-1b0e-47fc-bcfc-4e19cf5b1c57"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > filter.seqs(fasta=fasta.dat-fasta0.dat,vertical=true,soft=0,processors= \r1)\n\nUsing 1 processors.\nCreating Filter... \n32\n10\n\n\nRunning Filter... \n32\n10\n\n\n\nLength of filtered alignment: 553\nNumber of columns removed: 49447\nLength of the original alignment: 50000\nNumber of sequences used to construct filter: 42\n\nOutput File Names: \nfastafasta0.filter\nfasta.filter.fasta\nfasta0.filter.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_797.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_798.dat' fasta0.dat && ln -s 'None' hard.dat && echo 'filter.seqs( fasta=fasta.dat-fasta0.dat, vertical=true, soft=0, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fasta.filter.fasta \"HMP_MOCK.v35.align\".filter.fasta && mv fasta0.filter.fasta \"Mock_S280_L001_R1_001_small.trim.contigs.good.align_head\".filter.fasta", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:24:25.233007", "params": {"inputs": "[{\"__index__\": 0, \"fasta\": {\"values\": [{\"src\": \"hda\", \"id\": 798}]}}]", "trump": "\"\"", "vertical": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "hard": "null", "dbkey": "\"hg17\"", "soft": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16693", "id": "3318d523831bcec2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_filter_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "d9eeaf6b2b0ea17f"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "d9eeaf6b2b0ea17f", "uuid": "d7d2e1f4-b3aa-4e9a-8a9b-cbffc910044f"}}, "update_time": "2018-02-08T17:24:49.016571", "tool_id": "mothur_filter_seqs", "outputs": {"filteredfasta": {"src": "hda", "id": "92afd254baae3cac", "uuid": "be76b447-ba3b-42ca-b0ea-02f97b7c93a5"}, "logfile": {"src": "hda", "id": "dc72314d29258a13", "uuid": "d09ac3a3-1577-4b8a-a837-2c45eb5a49f5"}, "out_filter": {"src": "hda", "id": "766e222ad152fb61", "uuid": "c46e69b4-a17e-43f6-a069-7b1a71eee36c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > filter.seqs(fasta=fasta.dat,vertical=true,soft=0,processors=1)\n\nUsing 1 processors.\nCreating Filter... \n32\n\n\nRunning Filter... \n32\n\n\n\nLength of filtered alignment: 553\nNumber of columns removed: 49447\nLength of the original alignment: 50000\nNumber of sequences used to construct filter: 32\n\nOutput File Names: \nfasta.filter\nfasta.filter.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_803.dat' fasta.dat && ln -s 'None' hard.dat && echo 'filter.seqs( fasta=fasta.dat, vertical=true, soft=0, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fasta.filter.fasta \"HMP_MOCK.v35.align\".filter.fasta", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:24:45.943706", "params": {"inputs": "[]", "trump": "\"\"", "vertical": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "hard": "null", "dbkey": "\"hg17\"", "soft": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16789", "id": "2c6815fe89528bcf", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_filter_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "4a879c43cb8448df"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "4a879c43cb8448df", "uuid": "82a3f9b7-2c8c-4581-99a3-28ee8ab509cf"}}, "update_time": "2018-02-08T17:25:01.250499", "tool_id": "mothur_filter_shared", "outputs": {"__new_primary_file_unique|unique__": {"src": "hda", "id": "093ebc9d412c603b", "uuid": "768abf77-cedd-4a5a-bddc-0b554cdf7081"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "b20d09ab9f40b4f6", "uuid": "2871a8d8-7e54-446f-b6b7-903707315190"}, "logfile": {"src": "hda", "id": "e39481c9f084a332", "uuid": "457b2a64-4e88-40ac-8c94-eb99e65a950c"}, "__new_primary_file_unique|0.10__": {"src": "hda", "id": "aab4584d69f5e8dc", "uuid": "3e67925b-3f5d-433f-9a0c-95ba91b13bab"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "ab005d4cdb71cef2", "uuid": "0a08a2d9-2415-4eb2-a834-bb5367999485"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > filter.shared(shared=otu.dat,minabund=0,minpercent=0,rarepercent=0,keep \rties=true,minnumsamples=0,minpercentsamples=0,mintotal=0,makerare=true)\nunique\n\nRemoved 0 OTUs.\n0.03\n\nRemoved 0 OTUs.\n0.05\n\nRemoved 0 OTUs.\n0.10\n\nRemoved 0 OTUs.\n\nOutput File Names: \notu.unique.filter.dat\notu.0.03.filter.dat\notu.0.05.filter.dat\notu.0.10.filter.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_807.dat' otu.dat && echo 'filter.shared( shared=otu.dat, minabund=0, minpercent=0, rarepercent=0, keepties=true, minnumsamples=0, minpercentsamples=0, mintotal=0, makerare=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:24:58.042706", "params": {"rarepercent": "\"0\"", "mintotal": "\"0\"", "makerare": "\"true\"", "minabund": "\"0\"", "keepties": "\"true\"", "label": "null", "dbkey": "\"hg17\"", "groups": "null", "minnumsamples": "\"0\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "minpercent": "\"0\"", "minpercentsamples": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16884", "id": "1475351371259894", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_filter_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"minabund": "1", "otu": {"src": "hda", "id": "3b15c7f26dc0569d"}, "groups": ["forest", "pasture"], "label": ["0.05", "0.29", "0.33"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "3b15c7f26dc0569d", "uuid": "5fb0d6d8-3073-4326-a70a-191ff53c54aa"}}, "update_time": "2018-02-08T17:25:18.973667", "tool_id": "mothur_filter_shared", "outputs": {"__new_primary_file_0.33|0.29__": {"src": "hda", "id": "6535d25f5d400f01", "uuid": "8e5e98b5-ad5e-42e7-85f6-e1460da8e9e1"}, "__new_primary_file_0.33|0.05__": {"src": "hda", "id": "ef11ae9dd5e1ab5d", "uuid": "247b8f50-45f4-4926-955a-c6c15494ecf3"}, "logfile": {"src": "hda", "id": "4065036011f723eb", "uuid": "6b0186d1-9972-485c-b3b4-4c252d55df05"}, "__new_primary_file_0.33|0.33__": {"src": "hda", "id": "72b2b39740f9703c", "uuid": "07092db3-77f7-4bf4-ac2b-167b728f30d0"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > filter.shared(shared=otu.dat,label=0.05-0.29-0.33,groups=forest-pasture \r,minabund=1,minpercent=0,rarepercent=0,keepties=true,minnumsamples=0,minpercents \ramples=0,mintotal=0,makerare=true)\n0.05\n\nRemoved 71 OTUs.\n0.29\n\nRemoved 5 OTUs.\n0.33\n\nRemoved 4 OTUs.\n\nOutput File Names: \notu.0.05.filter.dat\notu.0.29.filter.dat\notu.0.33.filter.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_813.dat' otu.dat && echo 'filter.shared( shared=otu.dat, label=0.05-0.29-0.33, groups=forest-pasture, minabund=1, minpercent=0, rarepercent=0, keepties=true, minnumsamples=0, minpercentsamples=0, mintotal=0, makerare=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:25:15.440162", "params": {"rarepercent": "\"0\"", "mintotal": "\"0\"", "makerare": "\"true\"", "minabund": "\"1\"", "keepties": "\"true\"", "label": "[\"0.05\", \"0.29\", \"0.33\"]", "dbkey": "\"hg17\"", "groups": "[\"forest\", \"pasture\"]", "minnumsamples": "\"0\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "minpercent": "\"0\"", "minpercentsamples": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "16968", "id": "8c2787e62639209d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_filter_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "da36c3eb2b3d65a2"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "da36c3eb2b3d65a2", "uuid": "cba3d5fe-09fc-4e04-91ab-7bbc05d36321"}}, "update_time": "2018-02-08T17:25:37.273222", "tool_id": "mothur_get_communitytype", "outputs": {"__new_primary_file_1.dmm.5.mix|1.dmm.2.mix__": {"src": "hda", "id": "46d9987333936090", "uuid": "b0623781-62e3-4150-ac7f-239be4a71b70"}, "parameters": {"src": "hda", "id": "dd4d919ea4ea0b29", "uuid": "d612eb45-53ea-47b8-95d4-873e5618fb69"}, "fit": {"src": "hda", "id": "e3f91a060b9b80d1", "uuid": "6a770929-dc86-4bc0-8900-c47fd74aaf88"}, "__new_primary_file_1.dmm.5.mix|1.dmm.4.mix__": {"src": "hda", "id": "80bd938d1e1607e1", "uuid": "1235a90e-f5b0-48e0-8831-411fc5e6dd2f"}, "__new_primary_file_1.dmm.5.mix|1.dmm.3.mix__": {"src": "hda", "id": "9140d1ef204facd8", "uuid": "1bf8cde3-d372-4fb5-b7e1-177508ce896f"}, "summary": {"src": "hda", "id": "45ca4a044ef44e98", "uuid": "51c92525-d990-4b94-aeb0-5f4b88275daf"}, "__new_primary_file_1.dmm.5.mix|1.dmm.5.mix__": {"src": "hda", "id": "fd784843823fdc6f", "uuid": "aad19a5d-9410-4cff-8b9a-20900d8dc2b7"}, "design": {"src": "hda", "id": "1fb72aa777fd09ee", "uuid": "3509ad1e-3446-40e3-aec1-788fa6b63e6d"}, "logfile": {"src": "hda", "id": "957ab5f6bc45f41a", "uuid": "8648dd7f-d3e4-45d9-974a-511fb5a40d0b"}, "__new_primary_file_1.dmm.5.mix|1.dmm.1.mix__": {"src": "hda", "id": "512bef0a5c0a6baf", "uuid": "fdc4d9b4-eca5-4859-ace7-6cb87f40b831"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.communitytype(shared=shared.dat,method=dmm,minpartitions=5,maxparti \rtions=10,optimizegap=3,processors=1)\nUsing 1 processor\n1\nK\tNLE\t\tlogDet\tBIC\t\tAIC\t\tLaplace\n1\t1216.81\t81.07\t1265.15\t1260.81\t1216.91\n2\t1277.35\t93.64\t1375.12\t1366.35\t1242.39\n3\t1394.29\t95.07\t1541.51\t1528.29\t1318.69\n4\t1506.74\t56.14\t1703.39\t1685.74\t1370.32\n5\t1609.90\t33.23\t1855.99\t1833.90\t1420.67\n\nOutput File Names: \nshared.1.dmm.mix.fit\nshared.1.dmm.1.mix.posterior\nshared.1.dmm.1.mix.relabund\nshared.1.dmm.2.mix.posterior\nshared.1.dmm.2.mix.relabund\nshared.1.dmm.3.mix.posterior\nshared.1.dmm.3.mix.relabund\nshared.1.dmm.4.mix.posterior\nshared.1.dmm.4.mix.relabund\nshared.1.dmm.5.mix.posterior\nshared.1.dmm.5.mix.relabund\nshared.1.dmm.mix.design\nshared.1.dmm.mix.parameters\nshared.1.dmm.mix.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_818.dat' shared.dat && echo 'get.communitytype( shared=shared.dat, method=dmm, minpartitions=5, maxpartitions=10, optimizegap=3, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:25:32.972501", "params": {"optimizegap": "\"3\"", "m": "{\"method\": \"dmm\", \"__current_case__\": 0}", "dbkey": "\"hg17\"", "label": "null", "subsample": "\"-1\"", "minpartitions": "\"5\"", "groups": "null", "maxpartitions": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17059", "id": "1347e273f5270371", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_communitytype.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"m|method": "kmeans", "label": "1", "subsample": "0", "groups": ["F003D000", "F003D002", "F003D006", "F003D008", "F003D142"], "m|iters": "100", "maxpartitions": "4", "otu": {"src": "hda", "id": "fa032b562e153122"}, "m|calc": "manhattan"}, "job": {"inputs": {"otu": {"src": "hda", "id": "fa032b562e153122", "uuid": "5bfd8e93-46fe-453c-a4da-48ec58a85d3e"}}, "update_time": "2018-02-08T17:26:23.046397", "tool_id": "mothur_get_communitytype", "outputs": {"__new_primary_file_1.kmeans.4.mix|1.kmeans.1.mix__": {"src": "hda", "id": "d094c18f3f0c4217", "uuid": "84368f6d-4d9c-4113-9bd6-257309aed486"}, "__new_primary_file_1.kmeans.4.mix|1.kmeans.4.mix__": {"src": "hda", "id": "af3fae2a84d45574", "uuid": "c2b87b12-c748-4afe-8fe5-c6df9b709939"}, "fit": {"src": "hda", "id": "b1d26ebda0776d51", "uuid": "58f10d11-2ccf-4f31-a25c-de3108ef4496"}, "__new_primary_file_1.kmeans.4.mix|1.kmeans.2.mix__": {"src": "hda", "id": "5498b8b462f50992", "uuid": "1248da22-bd19-4fd6-ad84-b8bb15632ed6"}, "__new_primary_file_1.kmeans.4.mix|1.kmeans.3.mix__": {"src": "hda", "id": "172394607370a660", "uuid": "31f888f5-2ccb-4958-a217-4eac5900c86e"}, "design": {"src": "hda", "id": "c1aa962b6790390b", "uuid": "a10310a9-90b9-4c09-9d30-bc836823e2d4"}, "logfile": {"src": "hda", "id": "8d9b160acaa0feca", "uuid": "d19c3919-9eb7-4dac-a914-7c053983d7b3"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.communitytype(shared=shared.dat,label=1,groups=F003D000-F003D002-F0 \r03D006-F003D008-F003D142,method=kmeans,calc=manhattan,iters=100,subsample=T,minp \rartitions=5,maxpartitions=4,optimizegap=3,processors=1)\nUsing 1 processor\n1\nK\tCH\tF003D000\tF003D002\tF003D006\tF003D008\tF003D142\n100\n1\t0.000000\t0.000000\t0.000000\t0.000000\t0.000000\t0.000000\n2\t4.168014\t0.296084\t0.201078\t0.496841\t0.122851\t0.606822\n3\t0.646053\t-0.138889\t0.000000\t0.399794\t-0.239057\t0.594163\n4\t0.182272\t-0.138889\t0.000000\t0.000000\t-0.239057\t0.000000\n\nOutput File Names: \nshared.1.kmeans.mix.fit\nshared.1.kmeans.1.mix.posterior\nshared.1.kmeans.1.mix.relabund\nshared.1.kmeans.2.mix.posterior\nshared.1.kmeans.2.mix.relabund\nshared.1.kmeans.3.mix.posterior\nshared.1.kmeans.3.mix.relabund\nshared.1.kmeans.4.mix.posterior\nshared.1.kmeans.4.mix.relabund\nshared.1.kmeans.mix.design\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_834.dat' shared.dat && echo 'get.communitytype( shared=shared.dat, label=1, groups=F003D000-F003D002-F003D006-F003D008-F003D142, method=kmeans, calc=manhattan, iters=100, subsample=T, minpartitions=5, maxpartitions=4, optimizegap=3, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:26:19.082655", "params": {"optimizegap": "\"3\"", "m": "{\"iters\": \"100\", \"calc\": \"manhattan\", \"method\": \"kmeans\", \"__current_case__\": 1}", "dbkey": "\"hg17\"", "label": "\"1\"", "subsample": "\"0\"", "minpartitions": "\"5\"", "groups": "[\"F003D000\", \"F003D002\", \"F003D006\", \"F003D008\", \"F003D142\"]", "maxpartitions": "\"4\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17158", "id": "4ffe0c6ec86fa835", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_communitytype.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "b7e286a9dc222a5c"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "b7e286a9dc222a5c", "uuid": "bdec2f8f-1198-44cc-b57e-a04799d0e832"}}, "update_time": "2018-02-08T17:26:59.775503", "tool_id": "mothur_get_coremicrobiome", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "a6d2cc1cc42ebc8f", "uuid": "233065b3-98ac-4c29-b30e-3b306f62aff7"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "2359309399418ebc", "uuid": "d78b6caa-de9d-4319-ada9-88432db48511"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "075a237cd5260f96", "uuid": "4f8c8914-582b-4740-b421-c7e4d86ec21e"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "ec7711f2346cbca2", "uuid": "654e2c05-b90c-4435-860a-97156d892f09"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "793e3e9c6f59a42d", "uuid": "3fc8cb23-3378-4f70-9b14-ee4904c6fff6"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "b870f50c8df3ba43", "uuid": "be1c738a-4a78-48d2-97cf-739fb8a700cf"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "464c0ed74865d74c", "uuid": "8171f1de-f71d-42a8-a7e3-447b4be12d61"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "1000d2466fcfad34", "uuid": "736b8b91-4f88-4616-9c7e-d0a27458847f"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "fbe5f3e3e3e03570", "uuid": "c79935f9-a980-4a16-8ee1-734ad89f89d1"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "dd222fd69f0dcf77", "uuid": "593ab8a8-e41a-467f-9e5f-73864cc64489"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "ff8b3978bcf080b9", "uuid": "634b157a-6818-4084-bb17-2a5e387c40f2"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "9f2ff1f2038a0454", "uuid": "078e742d-b87a-413f-aaaf-a67611bc6951"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "3d4c423d57259fbe", "uuid": "2985e026-f0ee-41dc-9889-62be13ea052f"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "aeb3a7d27531d8af", "uuid": "ad4e98b4-c643-4d4a-a391-e2b966da62aa"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "306d83d29e038396", "uuid": "6f9746f6-d36b-425a-bf6b-960f1f3e2b66"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "1bdec2d5353dc7ac", "uuid": "ab5376c5-c51d-4ef7-b34f-e9f1e8d7fa48"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "753f526c4fe64c6a", "uuid": "1d767ed6-fed9-4555-86b8-b7e57cb0ecff"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "0e57173360853a16", "uuid": "c68d169e-4ce1-4884-97e3-74695ade4348"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "6d4181f50c48e719", "uuid": "224c4143-b35f-41ec-ac34-4d49db58eeed"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "39aace9ebf1f79e7", "uuid": "dff73c25-fa2e-4d9d-bbba-c5bb39012224"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "9009f3fbd6374ed9", "uuid": "62b406ba-bcea-487a-befd-2df70395590b"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "e5cb57ff5e9a2036", "uuid": "142511d9-525c-4498-8b73-e6d5a6af8882"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "3a712f92b35e894a", "uuid": "39100123-be01-44f0-a652-52508139227c"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "ab53f78f19a8abb1", "uuid": "51d68092-e60d-400c-bf47-d6dd75569dba"}, "logfile": {"src": "hda", "id": "7bfed31e5ec18c3b", "uuid": "2d37f2f3-9ea3-4c56-babd-56e719ca5cad"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "a015212d4be18feb", "uuid": "ece7a697-24a6-42bc-a04c-2567edc4f37d"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "06d05dea0c9ced7b", "uuid": "74c220de-4196-497d-9a83-497883ef5336"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "c26638b7e7264d47", "uuid": "2a4a43d5-d028-44c6-9e80-401e0c943d70"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "cfd269e45b767b10", "uuid": "91742f4b-eca2-4b50-b0dd-f58a9bb2ea12"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "86305fdc0e529488", "uuid": "295d95a4-8e81-45c9-ba14-9df0fbc7a735"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "fd5c24c1cb65fd09", "uuid": "60e02f42-5541-40b7-ad8d-6a799983f01f"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "d0db08ce3cbc8382", "uuid": "f25a63c1-78e3-4655-86f4-e58b5b012e51"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "e2424d83ba170c8a", "uuid": "d0bb553a-75f1-4097-8a16-9b50032c5694"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "90ebacaedc3e1f42", "uuid": "0c90a057-a0f3-4382-a45b-8838caa3515b"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "2d9271a917bcfaf1", "uuid": "d2bee9b2-9f4e-4c58-b86a-07de1c2a2779"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "b13eb5b1dace709b", "uuid": "6f9bf0fa-95a7-44db-ae7d-0f44bf126dbc"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "fd9f0efd7554e81c", "uuid": "94481846-0b13-4170-b7b2-e96063435573"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.coremicrobiome(shared=otu.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.core.microbiome\notu.0.01.core.microbiome\notu.0.02.core.microbiome\notu.0.03.core.microbiome\notu.0.04.core.microbiome\notu.0.05.core.microbiome\notu.0.06.core.microbiome\notu.0.07.core.microbiome\notu.0.08.core.microbiome\notu.0.09.core.microbiome\notu.0.10.core.microbiome\notu.0.11.core.microbiome\notu.0.12.core.microbiome\notu.0.13.core.microbiome\notu.0.14.core.microbiome\notu.0.15.core.microbiome\notu.0.16.core.microbiome\notu.0.17.core.microbiome\notu.0.18.core.microbiome\notu.0.19.core.microbiome\notu.0.20.core.microbiome\notu.0.21.core.microbiome\notu.0.22.core.microbiome\notu.0.23.core.microbiome\notu.0.24.core.microbiome\notu.0.25.core.microbiome\notu.0.26.core.microbiome\notu.0.27.core.microbiome\notu.0.29.core.microbiome\notu.0.32.core.microbiome\notu.0.33.core.microbiome\notu.0.36.core.microbiome\notu.0.38.core.microbiome\notu.0.41.core.microbiome\notu.0.45.core.microbiome\notu.0.55.core.microbiome\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_846.dat' otu.dat && echo 'get.coremicrobiome( shared=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:26:55.029493", "params": {"abundance": "\"\"", "samples": "\"\"", "dbkey": "\"hg17\"", "label": "null", "groups": "null", "output": "\"fraction\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17250", "id": "6fb508dbe1736155", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_coremicrobiome.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"abundance": "30", "otu": {"src": "hda", "id": "58c9e52c4a64b228"}, "label": ["0.05", "0.22", "0.45"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "58c9e52c4a64b228", "uuid": "8ce00b7a-a8a2-430e-8bc6-84d7fbd2a3bf"}}, "update_time": "2018-02-08T17:27:19.754618", "tool_id": "mothur_get_coremicrobiome", "outputs": {"__new_primary_file_0.45|0.22__": {"src": "hda", "id": "afce6c63a9e7aea5", "uuid": "1845c435-5d48-4b12-b043-c80f08244f67"}, "logfile": {"src": "hda", "id": "c09e2ca1f1e4cd99", "uuid": "082703a5-d021-4379-b991-d1c9af2b43c6"}, "__new_primary_file_0.45|0.45__": {"src": "hda", "id": "9c87d501351cb89f", "uuid": "f88274c8-a2e6-41b8-849b-9f24bc40bdaf"}, "__new_primary_file_0.45|0.05__": {"src": "hda", "id": "816dd7bcb4c0fa93", "uuid": "60ee11c0-8707-40a1-afb8-324a92eecba5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.coremicrobiome(shared=otu.dat,label=0.05-0.22-0.45,abundance=30)\n0.05\n0.22\n0.45\n\nOutput File Names: \notu.0.05.core.microbiome\notu.0.05.core.microbiomelist\notu.0.22.core.microbiome\notu.0.22.core.microbiomelist\notu.0.45.core.microbiome\notu.0.45.core.microbiomelist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_884.dat' otu.dat && echo 'get.coremicrobiome( shared=otu.dat ,label=0.05-0.22-0.45 ,abundance=30 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:27:16.293030", "params": {"abundance": "\"30\"", "samples": "\"\"", "dbkey": "\"hg17\"", "label": "[\"0.05\", \"0.22\", \"0.45\"]", "groups": "null", "output": "\"fraction\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17337", "id": "38f13aa9fc15acbf", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_coremicrobiome.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|dist": {"src": "hda", "id": "da06cbb007a4cb61"}, "input|source": "phylip", "accnos": {"src": "hda", "id": "0126412added8c8e"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "0126412added8c8e", "uuid": "c191f3eb-cc95-4db0-9524-2f70d2b5e647"}, "dist": {"src": "hda", "id": "da06cbb007a4cb61", "uuid": "b1ed6156-408c-4f43-80fc-5536243e55e7"}}, "update_time": "2018-02-08T17:27:48.325338", "tool_id": "mothur_get_dists", "outputs": {"logfile": {"src": "hda", "id": "b3cba6951cf833ad", "uuid": "9013f911-7f16-4fbe-b982-75d3c13d2ab8"}, "pick_dist": {"src": "hda", "id": "26507515799dee2a", "uuid": "e3b28f5f-eb02-4fe6-bdd2-7b45e1539df4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.dists(accnos=accnos.dat,phylip=input.dist.dat)\nSelected 8 groups or sequences from your phylip file.\n\nOutput File names: \ninput.dist.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_893.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_892.dat' input.dist.dat && echo 'get.dists( accnos=accnos.dat, phylip=input.dist.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:27:45.313518", "params": {"input": "{\"source\": \"phylip\", \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 892}]}, \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17452", "id": "3ecde483422ba55d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_dists.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"shared": {"src": "hda", "id": "b792db3724607288"}}, "job": {"inputs": {"shared": {"src": "hda", "id": "b792db3724607288", "uuid": "ee9810f6-620b-469e-939d-54f8b55afc92"}}, "update_time": "2018-02-08T17:28:05.694410", "tool_id": "mothur_get_group", "outputs": {"bootgroups": {"src": "hda", "id": "f9be15f92a6fe6ec", "uuid": "5c5c9da1-3a70-476f-bef4-df34961637b2"}, "logfile": {"src": "hda", "id": "668671b8705dc162", "uuid": "0a519a4e-a481-4c50-bfea-ab7139416da0"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.group(shared=shared.dat)\nforest\npasture\n\nOutput File Names: \n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_896.dat' shared.dat && echo 'get.group( shared=shared.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && cat mothur.*.logfile | head -n-6 | sed '1,30d' > \"/tmp/saskia/tmpKSDp0p/files/000/dataset_898.dat\"", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:28:02.572268", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17539", "id": "6776b4c51106726f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_group.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"group_in": {"src": "hda", "id": "847f267ec407e762"}, "groupnames|groups": ["forest", "pasture"], "groupnames|source": "groups"}, "job": {"inputs": {"group_in": {"src": "hda", "id": "847f267ec407e762", "uuid": "52ca1b29-6082-4531-bade-d86f51e9f447"}}, "update_time": "2018-02-08T17:28:18.288203", "tool_id": "mothur_get_groups", "outputs": {"group_out": {"src": "hda", "id": "4561df7fd732de3f", "uuid": "3cda55f1-262a-4201-b49a-9e0c022a36e4"}, "logfile": {"src": "hda", "id": "aab4e8dd7c444bc2", "uuid": "4a0646f7-9b7f-472f-8bdd-7af6a790339d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.groups(group=group_in.dat,groups=forest-pasture)\nSelected 98 sequences from your group file.\n\nOutput File names: \ngroup_in.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_899.dat' group_in.dat && ln -s 'None' fasta_in.dat && ln -s 'None' name_in.dat && ln -s 'None' list_in.dat && ln -s 'None' shared_in.dat && ln -s 'None' taxonomy_in.dat && ln -s 'None' design_in.dat && echo 'get.groups( group=group_in.dat ,groups=forest-pasture )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:28:15.314231", "params": {"design_in": "null", "shared_in": "null", "fasta_in": "null", "dbkey": "\"hg17\"", "groupnames": "{\"source\": \"groups\", \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 0}", "taxonomy_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17626", "id": "7e438c048dc73282", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_groups.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"group_in": {"src": "hda", "id": "0650f1de48127da2"}, "groupnames|accnos": {"src": "hda", "id": "a614724d012c5b21"}, "groupnames|source": "accnos"}, "job": {"inputs": {"group_in": {"src": "hda", "id": "0650f1de48127da2", "uuid": "fd50498c-4bc4-4221-9e90-73e70d2a37ad"}, "accnos": {"src": "hda", "id": "a614724d012c5b21", "uuid": "e4dab025-9ff2-4b5a-81fb-f5519760b90d"}}, "update_time": "2018-02-08T17:28:38.840237", "tool_id": "mothur_get_groups", "outputs": {"group_out": {"src": "hda", "id": "4420605beb7b8bfb", "uuid": "2cd9f556-01d6-4537-b6a4-cfb46c181f17"}, "logfile": {"src": "hda", "id": "5bea13ccc5be4601", "uuid": "54f9eb15-cd81-4161-abe4-6a5298ccc88e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.groups(group=group_in.dat,accnos=groupnames.accnos.dat)\nSelected 98 sequences from your group file.\n\nOutput File names: \ngroup_in.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_902.dat' group_in.dat && ln -s 'None' fasta_in.dat && ln -s 'None' name_in.dat && ln -s 'None' list_in.dat && ln -s 'None' shared_in.dat && ln -s 'None' taxonomy_in.dat && ln -s 'None' design_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_903.dat' groupnames.accnos.dat && echo 'get.groups( group=group_in.dat ,accnos=groupnames.accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:28:35.903967", "params": {"design_in": "null", "shared_in": "null", "fasta_in": "null", "dbkey": "\"hg17\"", "groupnames": "{\"source\": \"accnos\", \"accnos\": {\"values\": [{\"src\": \"hda\", \"id\": 903}]}, \"__current_case__\": 1}", "taxonomy_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17749", "id": "daf78d18ceb29125", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_groups.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"shared_in": {"src": "hda", "id": "d67967a926798f5f"}, "fasta_in": {"src": "hda", "id": "35283c805171c447"}, "list_in": {"src": "hda", "id": "f607da3436fbec2f"}, "group_in": {"src": "hda", "id": "2678f705a638379e"}, "groupnames|source": "accnos", "groupnames|accnos": {"src": "hda", "id": "0cb926f24836ac7c"}, "name_in": {"src": "hda", "id": "cfe031a04a60c053"}}, "job": {"inputs": {"shared_in": {"src": "hda", "id": "d67967a926798f5f", "uuid": "51ef0239-4c60-46ca-968b-309399b500fe"}, "fasta_in": {"src": "hda", "id": "35283c805171c447", "uuid": "57d4d1b8-7ada-432f-9f75-b44c0176ba84"}, "group_in": {"src": "hda", "id": "2678f705a638379e", "uuid": "123b585d-dd83-4d4d-ad63-a21cca9786c2"}, "accnos": {"src": "hda", "id": "0cb926f24836ac7c", "uuid": "12c17915-dd32-45eb-a48a-2f7302e6b71f"}, "list_in": {"src": "hda", "id": "f607da3436fbec2f", "uuid": "642ba2bd-7ef7-491e-b46b-89ad138d6c91"}, "name_in": {"src": "hda", "id": "cfe031a04a60c053", "uuid": "7dadd403-a404-4254-8947-6231ad67f1d4"}}, "update_time": "2018-02-08T17:29:19.880133", "tool_id": "mothur_get_groups", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "e7b2fbcbe0130dc5", "uuid": "0fc85bad-a4cd-487b-9d9e-917735e5f337"}, "fasta_out": {"src": "hda", "id": "e3d34fd694cc8229", "uuid": "df83ec03-d83a-471f-9667-05c4c355b36d"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "49e0d2540b109fa1", "uuid": "0512e81e-973d-4e2c-b6aa-76f587ab07ae"}, "name_out": {"src": "hda", "id": "dc3d09c4b8e0106b", "uuid": "e2ef3817-ebec-4af6-9523-3162b6396cf0"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "28f4914f81d01a57", "uuid": "11bd60dd-fb43-41f9-a092-217e04111f0f"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "0c74b38aee0a0707", "uuid": "e22ad6ae-070b-4a3c-bf25-aa64d1b9ed46"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "d81fd9932dcc170a", "uuid": "041d0e7f-db5b-44eb-9fea-dcf4b2fb87c7"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "69399224f9256324", "uuid": "2ce57bef-5a87-49c8-9fb0-d8875771706a"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "f0a1b060065d5446", "uuid": "6cc32651-11ef-4e7f-9f83-92e41535b9a2"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "59577937f74245aa", "uuid": "8495987e-d861-4ba0-b99d-336fddc547e1"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "2b396abc964fbea2", "uuid": "8978e23d-4166-47e6-b9b2-5752815535b6"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "f21afe41a9b1581c", "uuid": "dc1d3cba-9e86-4969-9b92-b9a176495360"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "1ed3e70d24b98524", "uuid": "45b7a913-f48a-43d0-a013-afddb51f8ea6"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "1fd6dc2cbb454726", "uuid": "17866495-61a1-4938-a035-15962d8ab6d0"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "64114e2b118e5c93", "uuid": "5f3900a8-63e5-4c6d-b6fa-37f6c4e5cf66"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "0edc42988cb29650", "uuid": "6db90c67-7578-49e9-b756-d816a9106382"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "ba68b57cc8005e59", "uuid": "789ba415-6a47-4be9-a6b7-5dfd4b42ceec"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "00df4bed4eb73805", "uuid": "80186821-a510-4bcb-8006-c6b0c41c193c"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "63acbb87262a1307", "uuid": "0b55ba95-3740-4d53-bd41-150e5b5fc8dd"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "5c0d4def21b0cc81", "uuid": "aa6c782c-87a3-4853-b401-b017615f4c6f"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "835154436814778d", "uuid": "09dc6d61-399d-4a0e-b140-77741c901fef"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "55898ade0931da26", "uuid": "b06b0390-f7d6-4ade-b33d-daa143835a10"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "d10947b9879b82b2", "uuid": "c1bee6d0-b738-4568-9372-7ae85bdc2952"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "d30ef2c42df90932", "uuid": "1c58dab4-07f1-459a-aadb-6708836de56e"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "8b5aaaded4e2744a", "uuid": "ddd0691d-4c4a-480e-b33c-682dec6fd1a9"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "e4bf668168cf4d28", "uuid": "f61f63c3-eb97-4c8f-b84f-f83c84fc7029"}, "logfile": {"src": "hda", "id": "9991dcf0fd7f0858", "uuid": "f8771e9a-bf6e-416a-b94f-daff5d8d95d6"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "6106d47609a22f86", "uuid": "2afdba2a-cc11-4655-9ccc-b744a34bff5f"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "7ebdd79957123fd3", "uuid": "938d5e9a-2fdb-40fa-b33b-e4214fb89732"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "884d04d1bc49fbdb", "uuid": "a592c21e-ecf3-4904-9e4e-e737b0745087"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "498289f2374aaabc", "uuid": "2d5e7e5f-eb29-4c83-8ee2-76e8c2b04364"}, "group_out": {"src": "hda", "id": "f5bbc78947a4eedf", "uuid": "9d342395-a884-438a-a94a-869933812708"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "9b47053a34d461cf", "uuid": "bbfa83f3-3cf1-4a5a-8203-45444602993e"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "de60620e584e5f58", "uuid": "5934793a-5722-4ed0-a76d-002a7dc64b89"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "9d84a8c0f8b83109", "uuid": "6b911bb6-5197-49a3-a901-25346bf3ac3c"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "c2a06a3a7a66a110", "uuid": "57f7b1b4-b2f9-4724-b60b-48b5474918d6"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "e6fa111c52a4ac04", "uuid": "3d9d4e51-96cc-46e0-a698-edc16d5368ea"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "27741565111063db", "uuid": "4e53bb98-a46f-4c49-af70-69c408fadbd6"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "0bc7636427d365b6", "uuid": "473f7936-2596-4bf1-9ca1-07604f66f8a3"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "db7df1b0dd9c9f66", "uuid": "eaa9fc5a-aecb-45fc-abc5-3c51a2ea1257"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.groups(group=group_in.dat,accnos=groupnames.accnos.dat,fasta=fasta_ \rin.dat,name=name_in.dat,list=list_in.dat,shared=shared_in.dat)\nSelected 98 sequences from your name file.\nSelected 98 sequences from your fasta file.\nSelected 98 sequences from your group file.\nSelected 98 sequences from your list file.\nSelected groups: forest, pasture from your shared file.\n\nOutput File names: \nname_in.pick.dat\nfasta_in.pick.dat\ngroup_in.pick.dat\nlist_in.unique.pick.dat\nlist_in.0.01.pick.dat\nlist_in.0.02.pick.dat\nlist_in.0.03.pick.dat\nlist_in.0.04.pick.dat\nlist_in.0.05.pick.dat\nlist_in.0.06.pick.dat\nlist_in.0.07.pick.dat\nlist_in.0.08.pick.dat\nlist_in.0.09.pick.dat\nlist_in.0.10.pick.dat\nlist_in.0.11.pick.dat\nlist_in.0.12.pick.dat\nlist_in.0.13.pick.dat\nlist_in.0.14.pick.dat\nlist_in.0.15.pick.dat\nlist_in.0.16.pick.dat\nlist_in.0.17.pick.dat\nlist_in.0.18.pick.dat\nlist_in.0.19.pick.dat\nlist_in.0.20.pick.dat\nlist_in.0.21.pick.dat\nlist_in.0.22.pick.dat\nlist_in.0.23.pick.dat\nlist_in.0.24.pick.dat\nlist_in.0.25.pick.dat\nlist_in.0.26.pick.dat\nlist_in.0.27.pick.dat\nlist_in.0.29.pick.dat\nlist_in.0.32.pick.dat\nlist_in.0.33.pick.dat\nlist_in.0.36.pick.dat\nlist_in.0.38.pick.dat\nlist_in.0.41.pick.dat\nlist_in.0.45.pick.dat\nlist_in.0.55.pick.dat\nshared_in.unique.pick.dat\nshared_in.0.01.pick.dat\nshared_in.0.02.pick.dat\nshared_in.0.03.pick.dat\nshared_in.0.04.pick.dat\nshared_in.0.05.pick.dat\nshared_in.0.06.pick.dat\nshared_in.0.07.pick.dat\nshared_in.0.08.pick.dat\nshared_in.0.09.pick.dat\nshared_in.0.10.pick.dat\nshared_in.0.11.pick.dat\nshared_in.0.12.pick.dat\nshared_in.0.13.pick.dat\nshared_in.0.14.pick.dat\nshared_in.0.15.pick.dat\nshared_in.0.16.pick.dat\nshared_in.0.17.pick.dat\nshared_in.0.18.pick.dat\nshared_in.0.19.pick.dat\nshared_in.0.20.pick.dat\nshared_in.0.21.pick.dat\nshared_in.0.22.pick.dat\nshared_in.0.23.pick.dat\nshared_in.0.24.pick.dat\nshared_in.0.25.pick.dat\nshared_in.0.26.pick.dat\nshared_in.0.27.pick.dat\nshared_in.0.29.pick.dat\nshared_in.0.32.pick.dat\nshared_in.0.33.pick.dat\nshared_in.0.36.pick.dat\nshared_in.0.38.pick.dat\nshared_in.0.41.pick.dat\nshared_in.0.45.pick.dat\nshared_in.0.55.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_906.dat' group_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_908.dat' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_909.dat' name_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_910.dat' list_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_911.dat' shared_in.dat && ln -s 'None' taxonomy_in.dat && ln -s 'None' design_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_907.dat' groupnames.accnos.dat && echo 'get.groups( group=group_in.dat ,accnos=groupnames.accnos.dat ,fasta=fasta_in.dat ,name=name_in.dat ,list=list_in.dat ,shared=shared_in.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:29:09.781970", "params": {"design_in": "null", "taxonomy_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groupnames": "{\"source\": \"accnos\", \"accnos\": {\"values\": [{\"src\": \"hda\", \"id\": 907}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "17947", "id": "cda64434023ac031", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_groups.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "57529f16d280395b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "57529f16d280395b", "uuid": "32739e7b-3636-46fd-b3ac-cea446510cfb"}}, "update_time": "2018-02-08T17:30:01.971982", "tool_id": "mothur_get_label", "outputs": {"logfile": {"src": "hda", "id": "bc9fca4354129cac", "uuid": "067bdef1-3a84-4829-8c96-a48e32186d48"}, "labels_list": {"src": "hda", "id": "201e02e237ed0c72", "uuid": "4ba5be37-6f34-4c01-8556-825aa312902f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.label(sabund=otu.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_988.dat' otu.dat && echo 'get.label( sabund=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && cat mothur.*.logfile | head -n-3 | sed '1,30d' > '/tmp/saskia/tmpKSDp0p/files/000/dataset_990.dat'", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:29:58.831218", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18052", "id": "e038b12fcc34712c", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_label.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "49cb3d1841241873"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "49cb3d1841241873", "uuid": "3a2bc5f4-1e07-46cd-a0be-4cca2b665959"}}, "update_time": "2018-02-08T17:30:19.631582", "tool_id": "mothur_get_label", "outputs": {"logfile": {"src": "hda", "id": "ba98875ce3cc6214", "uuid": "f9116359-0d6b-4f41-b691-665ce1d3a1a7"}, "labels_list": {"src": "hda", "id": "ca6dcdef942ee1ff", "uuid": "8263f4f7-7637-44d9-8018-af63e1aaa888"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.label(rabund=otu.dat)\n0.03\n0.05\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_991.dat' otu.dat && echo 'get.label( rabund=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && cat mothur.*.logfile | head -n-3 | sed '1,30d' > '/tmp/saskia/tmpKSDp0p/files/000/dataset_993.dat'", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:30:16.297205", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18142", "id": "57d21b82f66bdde1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_label.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "8c90b885b85c197b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "8c90b885b85c197b", "uuid": "14ef5623-7a0b-48ec-a0f1-b67dfcf3c3df"}}, "update_time": "2018-02-08T17:30:37.243891", "tool_id": "mothur_get_label", "outputs": {"logfile": {"src": "hda", "id": "d0915a2b5dcfc5c8", "uuid": "4f7aa13b-d0c7-447d-b1ac-d33bfe1cd0c1"}, "labels_list": {"src": "hda", "id": "d63ffe6d4f3dca3c", "uuid": "7e207c4c-5c60-4eb8-9b35-7c17721e16b6"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.label(list=otu.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_994.dat' otu.dat && echo 'get.label( list=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && cat mothur.*.logfile | head -n-3 | sed '1,30d' > '/tmp/saskia/tmpKSDp0p/files/000/dataset_996.dat'", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:30:34.086402", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18244", "id": "b76e2c1d909ec95b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_label.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"file|taxonomy": {"src": "hda", "id": "e42f3afaf409615c"}, "file|filetype": "usetaxonomy", "taxon": "Bacteria;Firmicutes;"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "e42f3afaf409615c", "uuid": "e7dc8e71-b2d3-4775-aac9-a05c3db431de"}}, "update_time": "2018-02-08T17:30:54.719853", "tool_id": "mothur_get_lineage", "outputs": {"logfile": {"src": "hda", "id": "7ea54b244028000c", "uuid": "54d577a5-2051-4705-a621-041d2df19088"}, "taxonomy_out": {"src": "hda", "id": "370469ee2a7f9bfc", "uuid": "2d258268-f5c1-4efa-a6cd-1640a8072a07"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.lineage(taxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicutes;')\n\nOutput File Names: \nfile.taxonomy.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/000/dataset_997.dat' file.taxonomy.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && echo 'get.lineage( taxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;'\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:30:51.569064", "params": {"count": "null", "dups": "\"true\"", "fasta_in": "null", "taxon": "\"Bacteria;Firmicutes;\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 997}]}, \"filetype\": \"usetaxonomy\", \"taxons\": null, \"__current_case__\": 0}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18333", "id": "6cafac5eedb91caf", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_lineage.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta_in": {"src": "hda", "id": "9430897aec45eb57"}, "taxon": "Bacteria;Firmicutes;,Bacteria;Actinobacteria;", "list_in": {"src": "hda", "id": "c9e1a49c1225960d"}, "group_in": {"src": "hda", "id": "842c471bdfd9c887"}, "file|taxonomy": {"src": "hda", "id": "8e944aefd2c834c6"}, "alignreport_in": {"src": "hda", "id": "11a8d37cccceb071"}, "file|filetype": "usetaxonomy", "name_in": {"src": "hda", "id": "70c3e648e0bbdb1c"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "8e944aefd2c834c6", "uuid": "7c0d62a8-03c2-4142-8222-f461f4e3f089"}, "fasta_in": {"src": "hda", "id": "9430897aec45eb57", "uuid": "61c83e2c-ffd2-4517-8353-c672a56d39e9"}, "group_in": {"src": "hda", "id": "842c471bdfd9c887", "uuid": "517541bb-1156-4c61-bda2-341c4bdbc22d"}, "alignreport_in": {"src": "hda", "id": "11a8d37cccceb071", "uuid": "137a99fb-0157-4241-9d36-1f71de3a69be"}, "list_in": {"src": "hda", "id": "c9e1a49c1225960d", "uuid": "cc505d11-a571-4e10-a752-a7f3a0e884b7"}, "name_in": {"src": "hda", "id": "70c3e648e0bbdb1c", "uuid": "353c65e1-e56a-4583-be0b-444eda6d964f"}}, "update_time": "2018-02-08T17:31:21.642906", "tool_id": "mothur_get_lineage", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "1be6bbaba2ffb15b", "uuid": "7ca3cacf-7b8c-4c88-b17e-422f35c7a299"}, "fasta_out": {"src": "hda", "id": "72a1145ce219300b", "uuid": "30f3f211-b8b0-4603-b9c8-c33ed578429b"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "cc260ebfc536bb4b", "uuid": "987a49be-eefe-4d4f-9ae4-f72c618fbfb0"}, "name_out": {"src": "hda", "id": "ab97b488b33c6246", "uuid": "35a651dd-bed5-4a1a-b77d-b8b25f7d88e2"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "efc416652e1b4600", "uuid": "4ed1729d-b356-48bf-b60c-e0fb10ee177f"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "b6539af83432ffdf", "uuid": "e4dd59a4-8400-4c8b-8179-b00ccc99bf8f"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "31b6d67921f34be7", "uuid": "8e72d679-cfd8-47d7-b98c-9f6f22111f49"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "702034d3254f766a", "uuid": "e4f68036-9f09-44a8-a763-e05a6de05098"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "41e9dee505e6f6ca", "uuid": "bd89b938-82d9-4993-8161-276f5a35b59f"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "0da792b27e4b2b89", "uuid": "5185beb7-c38e-4ed2-bec0-9f2c91a67128"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "b5decc7b8262a098", "uuid": "532f331d-6944-4dd5-8a1c-b7441f6b8a5e"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "77b694bc117eb278", "uuid": "e12a1084-8f13-48ef-a3f6-146edd55811b"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "c8578f7fa756d7dc", "uuid": "e4eb002f-a4a4-4544-bfa4-9870a934f008"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "bc78784f4198424f", "uuid": "a08cc5b6-7e2d-444b-888d-112d58a2c302"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "ae6b27a2a1be3099", "uuid": "22bcbc31-0869-4336-a32f-e4d58103e730"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "c591040bd2b14dd3", "uuid": "9b1f67ef-057b-4613-acda-f0c5b8826759"}, "alignreport_out": {"src": "hda", "id": "1baefa50ed047fb0", "uuid": "c5b12544-fd55-41ad-a788-9decdb0f1bc3"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "543831fe8c81ade5", "uuid": "99208dbe-5ec3-4374-aaba-187815d1be6d"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "52c9abe36b090e71", "uuid": "4369cad3-3550-439d-a8f0-5c8c1ed28e2e"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "da3475a4d107f9d1", "uuid": "f25ff534-3003-4df5-8146-84e5167635e3"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "144a078b556f47ea", "uuid": "cdf8dcfc-f819-4c9c-9510-db1f9f05c3ce"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "652c409017f14add", "uuid": "ba8ee72c-2392-447e-86ad-75b27988c828"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "35abc15c823ac5f4", "uuid": "99be985a-c7ad-4f2f-af1d-948fec3666c1"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "8b2fddb4124acac3", "uuid": "17886915-baae-41ea-850b-63d48eeb1c95"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "3903fb6e0491d27a", "uuid": "92928c00-4d65-4244-b86f-4cf7c8dc3ea5"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "989b9f0457b89a0c", "uuid": "642287d6-7e73-4ac7-8fb3-bfc6d0d636b2"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "cd0b3415a2fdc60c", "uuid": "eac00c64-d9ee-4f7b-90ef-d55bb9b140e5"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "6c012b61d3ae01f5", "uuid": "c40d0e64-8dc4-4bb1-94d0-fdb98aa6a657"}, "logfile": {"src": "hda", "id": "d10cbc331e025114", "uuid": "25c3c7f7-2000-4396-b489-361f38da2e2d"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "8d8458d090ea7578", "uuid": "b8e4e7fa-032d-4fe8-99d0-60987b3bf8ff"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "a6ac437f8fe6da83", "uuid": "c961a1d0-d8aa-4859-96ec-a4b13b0e32a6"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "33b542efcfdd85ba", "uuid": "17c7677a-e8e1-468e-9124-3a8b486fa25f"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "6e25a68c2db30b46", "uuid": "fd6d2289-e2cd-4ee3-b979-0716f49fe7e4"}, "group_out": {"src": "hda", "id": "1baa7dc76fe18c68", "uuid": "f259dc8e-36fe-4e85-a55d-bf1992a8017d"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "2120d409550c595f", "uuid": "bed45e08-c284-49fa-9ce4-e418765ad6c8"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "4c9169af38dd62d7", "uuid": "bd68e773-91e9-4185-8ee9-81f4a853f391"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "bb3f644dc2fb6063", "uuid": "63a818fa-628d-42cb-8c21-69a8a9080aa1"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "38a761b89b9e6074", "uuid": "48f52554-6068-45cb-ab25-9a670e34afb6"}, "taxonomy_out": {"src": "hda", "id": "ed2ad3b822e9d9d3", "uuid": "6cf6e55c-2d40-4ae6-a182-299667b2a8cb"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "02434fd7d2885f87", "uuid": "a0205d2e-87a9-4052-8ce6-47d54c76632c"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "292bd36a691be581", "uuid": "c93c2459-e6a4-4d0e-9854-0756ffa9c70b"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "9552c7f8dd8e973e", "uuid": "3e07b209-bb24-4fff-8c0d-6db82c2c3664"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.lineage(taxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicutes;-Bact \reria;Actinobacteria;',fasta=fasta_in.dat,group=group_in.dat,alignreport=alignrep \rort_in.dat,list=list_in.dat,name=name_in.dat,dups=true)\n[WARNING]: You did not provide a label, I will use the first label in your inputfile.\nYour file contains does not contain any sequences from Bacteria;Firmicutes;-Bacteria;Actinobacteria;.\nYour file contains does not contain any sequences from Bacteria;Firmicutes;-Bacteria;Actinobacteria;.\n\nOutput File Names: \nfile.taxonomy.pick.dat\nname_in.pick.dat\nfasta_in.pick.dat\ngroup_in.pick.dat\nalignreport_in.pick.align.report\nlist_in.unique.pick.dat\nlist_in.0.01.pick.dat\nlist_in.0.02.pick.dat\nlist_in.0.03.pick.dat\nlist_in.0.04.pick.dat\nlist_in.0.05.pick.dat\nlist_in.0.06.pick.dat\nlist_in.0.07.pick.dat\nlist_in.0.08.pick.dat\nlist_in.0.09.pick.dat\nlist_in.0.10.pick.dat\nlist_in.0.11.pick.dat\nlist_in.0.12.pick.dat\nlist_in.0.13.pick.dat\nlist_in.0.14.pick.dat\nlist_in.0.15.pick.dat\nlist_in.0.16.pick.dat\nlist_in.0.17.pick.dat\nlist_in.0.18.pick.dat\nlist_in.0.19.pick.dat\nlist_in.0.20.pick.dat\nlist_in.0.21.pick.dat\nlist_in.0.22.pick.dat\nlist_in.0.23.pick.dat\nlist_in.0.24.pick.dat\nlist_in.0.25.pick.dat\nlist_in.0.26.pick.dat\nlist_in.0.27.pick.dat\nlist_in.0.29.pick.dat\nlist_in.0.32.pick.dat\nlist_in.0.33.pick.dat\nlist_in.0.36.pick.dat\nlist_in.0.38.pick.dat\nlist_in.0.41.pick.dat\nlist_in.0.45.pick.dat\nlist_in.0.55.pick.dat\n\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1000.dat' file.taxonomy.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1001.dat' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1002.dat' group_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1003.dat' alignreport_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1004.dat' list_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1005.dat' name_in.dat && ln -s 'None' count.dat && echo 'get.lineage( taxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;-Bacteria;Actinobacteria;'\"' ,fasta=fasta_in.dat ,group=group_in.dat ,alignreport=alignreport_in.dat ,list=list_in.dat ,name=name_in.dat ,dups=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:31:14.507752", "params": {"count": "null", "dups": "\"true\"", "taxon": "\"Bacteria;Firmicutes;,Bacteria;Actinobacteria;\"", "dbkey": "\"hg17\"", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 1000}]}, \"filetype\": \"usetaxonomy\", \"taxons\": null, \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18531", "id": "349f287fcb778b99", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_lineage.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"file|taxonomy": {"src": "hda", "id": "6f78f21b003042c4"}, "file|taxons": ["Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Dorea(99);", "Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Roseburia(47);"], "file|filetype": "usetaxonomy"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "6f78f21b003042c4", "uuid": "a34f0692-a2db-4929-8627-e2e626069020"}}, "update_time": "2018-02-08T17:32:00.703931", "tool_id": "mothur_get_lineage", "outputs": {"logfile": {"src": "hda", "id": "fc9d58b578cf8af3", "uuid": "2490501b-95be-4366-b70a-7ac863f83736"}, "taxonomy_out": {"src": "hda", "id": "bdb1e7b62cbbd487", "uuid": "7afddbee-f1ec-4f8a-934d-2dcf0c5ed1ea"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.lineage(taxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicutes;Clost \rridia;Clostridiales;Lachnospiraceae;Dorea;-Bacteria;Firmicutes;Clostridia;Clostr \ridiales;Lachnospiraceae;Roseburia;')\n\nOutput File Names: \nfile.taxonomy.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1048.dat' file.taxonomy.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && echo 'get.lineage( taxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Dorea;-Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Roseburia;'\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:31:57.562198", "params": {"count": "null", "dups": "\"true\"", "fasta_in": "null", "taxon": "\"\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 1048}]}, \"filetype\": \"usetaxonomy\", \"taxons\": [\"Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Dorea(99);\", \"Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Roseburia(47);\"], \"__current_case__\": 0}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18638", "id": "f66e4e467d639b46", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_lineage.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"file|taxonomy": {"src": "hda", "id": "3747b718aaba1b94"}, "file|filetype": "useconstaxonomy", "taxon": "Bacteria;Bacteroidetes;"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "3747b718aaba1b94", "uuid": "848176ca-3663-40b3-ad42-2ca5bf3a3aa6"}}, "update_time": "2018-02-08T17:32:07.933961", "tool_id": "mothur_get_lineage", "outputs": {"logfile": {"src": "hda", "id": "40866b2ef26dac92", "uuid": "f1d9cb2c-7f1f-4fa5-91a9-d1a7f8bf7b48"}, "taxonomy_out": {"src": "hda", "id": "ad30ab610baf0fe8", "uuid": "90c595ff-def3-4094-80f8-7aeeadd6a528"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.lineage(constaxonomy=file.taxonomy.dat,taxon='Bacteria;Bacteroidete \rs;')\n\nOutput File Names: \nfile.taxonomy.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1051.dat' file.taxonomy.dat && ln -s 'None' file.shared.dat && ln -s 'None' file.list.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && echo 'get.lineage( constaxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Bacteroidetes;'\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:32:04.835077", "params": {"count": "null", "dups": "\"true\"", "fasta_in": "null", "taxon": "\"Bacteria;Bacteroidetes;\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 1051}]}, \"filetype\": \"useconstaxonomy\", \"list\": null, \"taxons\": null, \"__current_case__\": 1, \"shared\": null}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18729", "id": "513510c2b856e80e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_lineage.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"file|taxonomy": {"src": "hda", "id": "1801e6a1fcd5e06c"}, "file|taxons": ["Bacteria(100);Firmicutes(100);Clostridia(70);Clostridiales(70);Lachnospiraceae(51);unclassified;", "Bacteria(100);Proteobacteria(100);Gammaproteobacteria(100);unclassified;unclassified;unclassified;"], "file|filetype": "useconstaxonomy"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "1801e6a1fcd5e06c", "uuid": "e852ff59-b576-44ec-8a29-eac7fa18e1ba"}}, "update_time": "2018-02-08T17:32:15.209631", "tool_id": "mothur_get_lineage", "outputs": {"logfile": {"src": "hda", "id": "97f0f46b65c7979f", "uuid": "2ce2929d-499b-480c-8d75-1cf4bacf3de4"}, "taxonomy_out": {"src": "hda", "id": "9a6bce08b3fe7407", "uuid": "38612f05-7677-4b22-bafc-9ecaa5766156"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.lineage(constaxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicutes;C \rlostridia;Clostridiales;Lachnospiraceae;unclassified;-Bacteria;Proteobacteria;Ga \rmmaproteobacteria;unclassified;unclassified;unclassified;')\n\nOutput File Names: \nfile.taxonomy.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1054.dat' file.taxonomy.dat && ln -s 'None' file.shared.dat && ln -s 'None' file.list.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && echo 'get.lineage( constaxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;unclassified;-Bacteria;Proteobacteria;Gammaproteobacteria;unclassified;unclassified;unclassified;'\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:32:12.085958", "params": {"count": "null", "dups": "\"true\"", "fasta_in": "null", "taxon": "\"\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 1054}]}, \"filetype\": \"useconstaxonomy\", \"list\": null, \"taxons\": [\"Bacteria(100);Firmicutes(100);Clostridia(70);Clostridiales(70);Lachnospiraceae(51);unclassified;\", \"Bacteria(100);Proteobacteria(100);Gammaproteobacteria(100);unclassified;unclassified;unclassified;\"], \"__current_case__\": 1, \"shared\": null}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18823", "id": "25de304670fe7732", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_lineage.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"input|filetype": "group", "input|infile": {"src": "hda", "id": "89d9aa21c72ed3c7"}}, "job": {"inputs": {"infile": {"src": "hda", "id": "89d9aa21c72ed3c7", "uuid": "488e2f2d-d7ae-452d-898f-9f6f1d80ea64"}}, "update_time": "2018-02-08T17:32:22.411197", "tool_id": "mothur_get_mimarkspackage", "outputs": {"logfile": {"src": "hda", "id": "8013a1d7cf129351", "uuid": "c2d1a36f-3d5b-48c8-a2e5-ed63db8e4ec0"}, "package_out": {"src": "hda", "id": "426b952bd444adde", "uuid": "354ae98b-75db-4e76-9d1f-e7318f16b114"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.mimarkspackage(group=input.infile.dat,package=miscellaneous,require \rdonly=false)\n\nOutput File Names: \ninput.infile.tsv\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1057.dat' input.infile.dat && echo 'get.mimarkspackage( group=input.infile.dat, package=miscellaneous, requiredonly=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:32:19.295899", "params": {"input": "{\"filetype\": \"group\", \"infile\": {\"values\": [{\"src\": \"hda\", \"id\": 1057}]}, \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "requiredonly": "\"false\"", "dbkey": "\"hg17\"", "package": "\"miscellaneous\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "18920", "id": "d57022ef22692475", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_mimarkspackage.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"package": "human_associated", "input|filetype": "oligos", "requiredonly": true, "input|infile": {"src": "hda", "id": "4a96cd4627e246f4"}}, "job": {"inputs": {"infile": {"src": "hda", "id": "4a96cd4627e246f4", "uuid": "388018a5-3429-42ff-a1c6-82941ad8176c"}}, "update_time": "2018-02-08T17:32:39.918619", "tool_id": "mothur_get_mimarkspackage", "outputs": {"logfile": {"src": "hda", "id": "3190333ac07edb13", "uuid": "227555a5-3417-4443-a05f-1a8f6b461e65"}, "package_out": {"src": "hda", "id": "234cb682c356f1ab", "uuid": "1e5c3119-a427-4614-a687-49a89283a86a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.mimarkspackage(oligos=input.infile.dat,package=human_associated,req \ruiredonly=true)\n\nOutput File Names: \ninput.infile.tsv\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1060.dat' input.infile.dat && echo 'get.mimarkspackage( oligos=input.infile.dat, package=human_associated, requiredonly=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:32:36.779382", "params": {"input": "{\"filetype\": \"oligos\", \"infile\": {\"values\": [{\"src\": \"hda\", \"id\": 1060}]}, \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "requiredonly": "\"true\"", "dbkey": "\"hg17\"", "package": "\"human_associated\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19016", "id": "9b36a3aa47b79bf2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_mimarkspackage.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|label": "0.22", "accnos": {"src": "hda", "id": "7655e53fa1ea970d"}, "infile|otu": {"src": "hda", "id": "df211d5332576ec7"}, "infile|intype": "in_shared"}, "job": {"inputs": {"accnos": {"src": "hda", "id": "7655e53fa1ea970d", "uuid": "a4d2e512-5b1e-40a8-9426-0dd4f92d86ea"}, "otu": {"src": "hda", "id": "df211d5332576ec7", "uuid": "2039f857-077f-4c50-9567-19e37479e17b"}}, "update_time": "2018-02-08T17:33:00.529600", "tool_id": "mothur_get_otulabels", "outputs": {"pick_out": {"src": "hda", "id": "75d344c42dc42fbd", "uuid": "280149a7-f5ed-42f7-8baf-92b5769c1742"}, "logfile": {"src": "hda", "id": "dca46da602361c10", "uuid": "5f8de98c-4fd6-495a-820f-be954f81dd62"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.otulabels(shared=infile.otu.dat,label=0.22,accnos=accnos.dat)\nYour file does not contain any OTUs from the .accnos file.\nSelected 0 OTUs from your shared file.\n\nOutput File Names: \ninfile.otu.0.22.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1064.dat' infile.otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1063.dat' accnos.dat && echo 'get.otulabels( shared=infile.otu.dat, label=0.22, accnos=accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:32:57.371646", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_shared\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1064}]}, \"__current_case__\": 0, \"label\": \"0.22\"}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19126", "id": "24a1da3a8e5693fe", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_otulabels.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|intype": "in_other", "accnos": {"src": "hda", "id": "34e6c2e9e95d8f5b"}, "infile|otu": {"src": "hda", "id": "99e402de1bba2f0d"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "34e6c2e9e95d8f5b", "uuid": "4929e9c0-5b6b-4f48-a881-487a21d2202c"}, "otu": {"src": "hda", "id": "99e402de1bba2f0d", "uuid": "d40ef2c8-d38f-435a-b210-2b21774b9155"}}, "update_time": "2018-02-08T17:33:21.098179", "tool_id": "mothur_get_otulabels", "outputs": {"pick_out": {"src": "hda", "id": "22857389d798733d", "uuid": "8a727fb8-62de-4743-933f-6046086727fa"}, "logfile": {"src": "hda", "id": "f079ce0ad2349821", "uuid": "fffb75ac-8124-4205-9fff-c61e61e3471b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.otulabels(corraxes=infile.otu.dat,accnos=accnos.dat)\nSelected 3 lines from your corr.axes file.\n\nOutput File Names: \ninfile.otu.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1068.dat' infile.otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1067.dat' accnos.dat && echo 'get.otulabels( corraxes=infile.otu.dat, accnos=accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:33:17.955974", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_other\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1068}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19238", "id": "8543024575f6f30b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_otulabels.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "51b6da2201439bf7"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "51b6da2201439bf7", "uuid": "51f6010d-d1d0-46d1-89ee-3bfbcab06111"}}, "update_time": "2018-02-08T17:33:40.377632", "tool_id": "mothur_get_otulist", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "c778881db4f7e02e", "uuid": "b173a65d-467c-4045-bee3-fbdf52304014"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "eb9c10339397af09", "uuid": "be8ed080-334f-4c29-ae4e-367049fb2a97"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "f9a0977992bfb9ba", "uuid": "2d0a77a9-0751-4610-bc66-25ab889081d0"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "e6a4ded894b6f5fa", "uuid": "8beb9edc-760a-42da-af4c-953585c0ca25"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "3bf74cdfe204f463", "uuid": "5ab3735f-5d97-493d-b0ff-4ce508562fea"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "153ecf05259735e5", "uuid": "773eef8c-a03e-438f-aac0-b954b1b32ab6"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "4ba65871d102d69d", "uuid": "3c40c6ca-758d-4b93-8821-e375a1267e0d"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "1e62b3b8018b2fc6", "uuid": "600dfbaa-4811-47a3-84e3-dc7c90c84a0d"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "8fe9921e6d7dbafc", "uuid": "a5392bd0-046a-4266-a9a0-152c9e451f92"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "68a07b8eb9e4a63b", "uuid": "aee16746-2c8e-4fc6-990a-c5cee5436cdb"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "f2786a3b53d84563", "uuid": "a5ad18f2-5b98-45f6-802c-dc87a6d11c4a"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "2ddd0affa57a5a37", "uuid": "df7243a2-ecce-4d2e-a4be-430ad666cf9f"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "cb6f70c43fa71834", "uuid": "2947c836-d283-484c-a40e-cd893227cc87"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "68f8799b51cd39a2", "uuid": "7ed1c56c-a6b8-4516-a523-7026512de1df"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "62147ed004c8781f", "uuid": "4e8c99c2-5413-4073-abd2-0e3af081b082"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "6666372c4fab48c4", "uuid": "9af8f2b5-b3db-4d45-b716-920429a85b0f"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "eb38b861ea77d447", "uuid": "eea105e0-ad99-4952-a69a-d5a6761d334d"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "9f7279a088a67da9", "uuid": "18e2c6cf-65e7-49cd-99f3-08efa94556ce"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "9a4581073136ed09", "uuid": "6f6ce176-5ef2-4e40-bb91-77e7f9dedc47"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "f38022c92a0f7f7b", "uuid": "4cf0fa53-3f7e-45a6-ab9d-806e15f7903c"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "708b991ac9f806e1", "uuid": "17f747ef-57f5-49ad-aee7-458525b4ce6f"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "5bc01bd5935f41c1", "uuid": "683c7d93-6656-4a64-932a-f6034f55246a"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "2d25c0be08883c54", "uuid": "0ff99942-64cc-40cb-b1ad-96c25c2028aa"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "4a58f5a4317a3c0d", "uuid": "dda6a4e9-ded3-403e-8e94-9fc84e6acba7"}, "logfile": {"src": "hda", "id": "5b67fe605870f3c1", "uuid": "0ce5e213-7fb1-4789-8ded-a50cf998d596"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "b2e7f29c6e6f4615", "uuid": "68ac73b3-6188-4a84-9f67-803eeb8a4820"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "84bd3054481cbbc7", "uuid": "ff4452b9-605a-4c94-985e-81af102ec3db"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "ab352c0b18312637", "uuid": "531c68fc-392f-4651-9657-06386d0015c1"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "e47a18097101ae28", "uuid": "126ff3b8-6f66-4bd6-9c7e-d8df71e54451"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "e9997d6b1fbf571c", "uuid": "c43a5aec-e58e-4ba6-8157-12407ee64a4a"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "c1b250e6ee924774", "uuid": "d5ba1691-b71e-46e9-8035-cdbf7853d7e5"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "ac2a2c496e4cb460", "uuid": "67de3c2d-4d07-4d49-a71f-33e9dec1d5dd"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "ba8455fb60b4981e", "uuid": "c2308bf6-aa53-4d11-94a0-ce788ada056e"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "6c06a1831dcb5d3f", "uuid": "2eb4ca1e-3619-410f-b26e-e2f1a5f05b6e"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "89a5a72f6f25aac7", "uuid": "a1d0db62-1e7d-467f-96e0-c78875629ddd"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "71ce468762f23cf3", "uuid": "97a17ca3-ec2c-4024-8c88-04505a334415"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "6b320855e1131164", "uuid": "b47f9106-ecc3-4128-8d22-bb8ca5e63fe1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.otulist(list=otu.dat,sort=otu)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.otu\notu.0.01.otu\notu.0.02.otu\notu.0.03.otu\notu.0.04.otu\notu.0.05.otu\notu.0.06.otu\notu.0.07.otu\notu.0.08.otu\notu.0.09.otu\notu.0.10.otu\notu.0.11.otu\notu.0.12.otu\notu.0.13.otu\notu.0.14.otu\notu.0.15.otu\notu.0.16.otu\notu.0.17.otu\notu.0.18.otu\notu.0.19.otu\notu.0.20.otu\notu.0.21.otu\notu.0.22.otu\notu.0.23.otu\notu.0.24.otu\notu.0.25.otu\notu.0.26.otu\notu.0.27.otu\notu.0.29.otu\notu.0.32.otu\notu.0.33.otu\notu.0.36.otu\notu.0.38.otu\notu.0.41.otu\notu.0.45.otu\notu.0.55.otu\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1071.dat' otu.dat && echo 'get.otulist( list=otu.dat, sort=otu )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:33:35.450862", "params": {"sort": "\"otu\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19324", "id": "c8288be11b30d2bc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_otulist.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "a2c166d4f307d0c8"}, "label": ["0.03", "0.38", "0.41", "0.45"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "a2c166d4f307d0c8", "uuid": "d782722b-b6ac-4f74-9bbc-c412dec690a0"}}, "update_time": "2018-02-08T17:33:59.277768", "tool_id": "mothur_get_otulist", "outputs": {"__new_primary_file_0.45|0.03__": {"src": "hda", "id": "3d2f7571dd3f526d", "uuid": "3a4dbde5-5d8f-4749-bae9-8cc89431844e"}, "logfile": {"src": "hda", "id": "d6e970b870fc412a", "uuid": "b4bea723-db34-4add-82fa-88018028a987"}, "__new_primary_file_0.45|0.41__": {"src": "hda", "id": "07562b49fba381a7", "uuid": "bb6b1e54-2bcd-4c2b-9524-1b7b9116beaf"}, "__new_primary_file_0.45|0.38__": {"src": "hda", "id": "ba7c7bcdabc0857e", "uuid": "7adf7cf1-dcd0-47fc-9848-c7882490fb65"}, "__new_primary_file_0.45|0.45__": {"src": "hda", "id": "d2fb07980323f68c", "uuid": "6f62cad4-b96a-481b-a5a4-b8665aeb88dc"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.otulist(list=otu.dat,label=0.03-0.38-0.41-0.45,sort=otu)\n0.03\n0.38\n0.41\n0.45\n\nOutput File Names: \notu.0.03.otu\notu.0.38.otu\notu.0.41.otu\notu.0.45.otu\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1109.dat' otu.dat && echo 'get.otulist( list=otu.dat, label=0.03-0.38-0.41-0.45, sort=otu )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:33:56.020360", "params": {"sort": "\"otu\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.38\", \"0.41\", \"0.45\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19410", "id": "466b5293998bb5d6", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_otulist.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"method_condition|matrix_condition|dist": {"src": "hda", "id": "416075c69c435f24"}, "method_condition|method_switch": "distance", "method_condition|matrix_condition|matrix_format": "phylip", "method_condition|matrix_condition|nameOrCount": {"src": "hda", "id": "41fd880cfa9a87dd"}, "otu": {"src": "hda", "id": "93a3cb8d32c9fc8d"}}, "job": {"inputs": {"method_condition|dist": {"src": "hda", "id": "416075c69c435f24", "uuid": "651b1fe5-7d73-42e9-abc3-337dc0082bc4"}, "otu": {"src": "hda", "id": "93a3cb8d32c9fc8d", "uuid": "e3460105-26cd-46af-8ab3-19b8cc079558"}, "method_condition|nameOrCount": {"src": "hda", "id": "41fd880cfa9a87dd", "uuid": "7369cd69-029a-46dd-b78d-c926c82835b4"}}, "update_time": "2018-02-08T17:34:25.314721", "tool_id": "mothur_get_oturep", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "30bdbac696e3ceef", "uuid": "d00fedc6-1efb-42e4-b37f-f45f957e2b92"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "da8aa8fdc0218a93", "uuid": "8361ade7-0f32-46f2-a1a8-8ee6da9ce758"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "730ca47799cf02d3", "uuid": "c4c5a461-029b-4cc1-a593-68c5ce286fde"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "40c1ea605096e77f", "uuid": "904130ae-a436-4559-8ffc-a6b7c5afe75b"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "2f333f7cf7d78907", "uuid": "9273fcb8-d4bb-445e-9c4f-5b6b41be00b3"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "b407a3967cd6ca6a", "uuid": "d369d2f3-aff3-427b-ab64-480645b2f587"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "6d61de378375ad0e", "uuid": "d49df779-4ccd-4711-b383-676527d79fcd"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "aebe4bc76827cb48", "uuid": "4e8ef798-8342-4168-853c-7614ec9bec61"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "977529368f8029da", "uuid": "e5d7a12b-aaea-4fc7-a31d-379fe2e8e0e9"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "12fc8f013fcd6fa2", "uuid": "66bda59f-99f7-4d50-8343-884cf5fb559a"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "8a763f8178031e3a", "uuid": "a4e2810b-5abd-40e3-8a4d-35c4a24d0ba1"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "3d8ba95917e241a3", "uuid": "9f08379d-c6b9-4c8a-9700-c9f9a8b5e3d9"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "7bb8be40a694582d", "uuid": "229d4590-77d5-4fed-89d2-09075640edde"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "0f0ea7742d2f7a9c", "uuid": "4c270c1a-b961-4106-afd3-5561dffb11c8"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "5b683d70bee32138", "uuid": "43437a44-842b-463d-abd6-0a5d964ea42c"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "24f92017f4321b90", "uuid": "9fcc26f4-d414-4037-acd8-5f5740d46cba"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "f9659e23aabc1e0c", "uuid": "8830819f-b9d2-4e58-9ca9-577c70136f8c"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "e1bf44ffb4951bed", "uuid": "32267982-3d31-4cd7-ae5d-9864dbff86c8"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "44b7656f117551f6", "uuid": "eb7395a0-011b-4a13-bafb-eeab65b98b20"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "51c23b5ceed9c18d", "uuid": "d172a29d-bb33-4b2c-a2f6-d91bde3b546f"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "1048228746240cdf", "uuid": "8459e654-0094-4c4e-87ce-9f5b73061296"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "723e4e10e4eecc59", "uuid": "029e3382-9a04-4548-baa2-e63b84d11e16"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "db87f06412e7adc0", "uuid": "c238c158-81e4-400b-85cf-28fcd2dd4061"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "00e13cdc183f52a5", "uuid": "cba7bc5b-73b3-4620-9218-7533386b618f"}, "logfile": {"src": "hda", "id": "f78a9bc7e1b3c5b0", "uuid": "a882b0e9-9a6f-4d01-915f-911d89ce8a26"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "8fc6a110eb2265d3", "uuid": "acbd8207-5ea5-40c0-9cd1-a60c84ddedfb"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "d4eed87b276e13c1", "uuid": "c9dadca8-883f-4f02-8bb8-bdc3908015c2"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "d19ff3dd0342839a", "uuid": "b18b0941-7b73-4b1f-a8db-5460a0cd2c57"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "19a46808e9dc1c5e", "uuid": "751d8de8-ddf8-40ed-863d-ba0e09096f8b"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "fe4f1a00cf04fcf3", "uuid": "1fca2b37-632d-40ba-b337-31b86a484895"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "555713c20c62ccd8", "uuid": "611a22bc-02f3-43ba-af20-d309b5e3f6db"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "7d80d946c53c84eb", "uuid": "7d937db3-7669-48c8-ac91-7c6f22dd7604"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "1fe9146927bcc3d0", "uuid": "cf5a33eb-e7c1-4396-a03b-c17a9ad4c3d0"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "7da19e3d7c19664a", "uuid": "35d9c97d-f75c-4881-bb73-cf9c906638f5"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "9c891a5a995773c1", "uuid": "485aaddf-1d54-47a0-baf6-85f127aff543"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "8281173e1dd8fbe2", "uuid": "5ed26988-c989-4ca7-a830-54782b46355b"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "f2d7713593c3c9fc", "uuid": "86ef6768-6f66-4e03-a4ce-127adc736dcd"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.oturep(list=otu.dat,method=distance,phylip=dist.dat,name=nameOrCoun \rt.dat,large=false)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nunique\t96\n0.01\t93\n0.02\t90\n0.03\t88\n0.04\t83\n0.05\t78\n0.06\t69\n0.07\t65\n0.08\t56\n0.09\t55\n0.10\t49\n0.11\t45\n0.12\t43\n0.13\t40\n0.14\t36\n0.15\t35\n0.16\t34\n0.17\t33\n0.18\t31\n0.19\t30\n0.20\t27\n0.21\t25\n0.22\t23\n0.23\t21\n0.24\t17\n0.25\t15\n0.26\t13\n0.27\t12\n0.29\t9\n0.32\t7\n0.33\t6\n0.36\t5\n0.38\t4\n0.41\t3\n0.45\t2\n0.55\t1\n\nOutput File Names: \notu.unique.rep.names\notu.0.01.rep.names\notu.0.02.rep.names\notu.0.03.rep.names\notu.0.04.rep.names\notu.0.05.rep.names\notu.0.06.rep.names\notu.0.07.rep.names\notu.0.08.rep.names\notu.0.09.rep.names\notu.0.10.rep.names\notu.0.11.rep.names\notu.0.12.rep.names\notu.0.13.rep.names\notu.0.14.rep.names\notu.0.15.rep.names\notu.0.16.rep.names\notu.0.17.rep.names\notu.0.18.rep.names\notu.0.19.rep.names\notu.0.20.rep.names\notu.0.21.rep.names\notu.0.22.rep.names\notu.0.23.rep.names\notu.0.24.rep.names\notu.0.25.rep.names\notu.0.26.rep.names\notu.0.27.rep.names\notu.0.29.rep.names\notu.0.32.rep.names\notu.0.33.rep.names\notu.0.36.rep.names\notu.0.38.rep.names\notu.0.41.rep.names\notu.0.45.rep.names\notu.0.55.rep.names\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1115.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1116.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1117.dat' nameOrCount.dat && ln -s 'None' fasta.dat && echo 'get.oturep( list=otu.dat, method=distance, phylip=dist.dat, name=nameOrCount.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:34:19.832670", "params": {"sorted": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method_condition": "{\"matrix_condition\": {\"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 1117}]}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 1116}]}, \"__current_case__\": 1, \"matrix_format\": \"phylip\"}, \"large\": \"false\", \"__current_case__\": 0, \"pick\": {\"type\": \"no\", \"__current_case__\": 0}, \"fasta\": null, \"method_switch\": \"distance\"}", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19539", "id": "8078f99fccaa607a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_oturep.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"method_condition|matrix_condition|dist": {"src": "hda", "id": "aed4888e53be2c29"}, "method_condition|method_switch": "distance", "label": ["unique", "0.05", "0.27", "0.45"], "method_condition|matrix_condition|matrix_format": "column", "method_condition|matrix_condition|nameOrCount": {"src": "hda", "id": "73d20dc7f05cb923"}, "otu": {"src": "hda", "id": "0fb95b6100ab75ac"}}, "job": {"inputs": {"method_condition|dist": {"src": "hda", "id": "aed4888e53be2c29", "uuid": "96cd93f8-13f1-4f66-91f7-f472d543e547"}, "otu": {"src": "hda", "id": "0fb95b6100ab75ac", "uuid": "5ffb4a90-dbe5-4368-9174-0b8e26c34032"}, "method_condition|nameOrCount": {"src": "hda", "id": "73d20dc7f05cb923", "uuid": "c6cb40a8-1e8d-44bf-a814-70d1f319f2b8"}}, "update_time": "2018-02-08T17:34:50.940943", "tool_id": "mothur_get_oturep", "outputs": {"__new_primary_file_unique|0.27__": {"src": "hda", "id": "ca68502e42c4e7cc", "uuid": "912df286-c4c3-4ada-b486-05d0ffb119df"}, "logfile": {"src": "hda", "id": "d1da4bfb123cb5f7", "uuid": "96a5082d-9fc0-4b22-9a61-66513477c1d4"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "b385cc8f12ae4655", "uuid": "f10d0810-0145-4cba-8dbc-39c44f07d928"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "f5a2e6053244a622", "uuid": "e46476d5-e0a7-486f-a012-e2f903c615b5"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "13c1cf6c966b3c28", "uuid": "39f76377-6d8a-4358-94e0-b5e54fd992cb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.oturep(list=otu.dat,label=unique-0.05-0.27-0.45,method=distance,col \rumn=dist.dat,name=nameOrCount.dat,large=false)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nunique\t96\n0.05\t78\n0.27\t12\n0.45\t2\n\nOutput File Names: \notu.unique.rep.names\notu.0.05.rep.names\notu.0.27.rep.names\notu.0.45.rep.names\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1155.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1156.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1157.dat' nameOrCount.dat && ln -s 'None' fasta.dat && echo 'get.oturep( list=otu.dat, label=unique-0.05-0.27-0.45, method=distance, column=dist.dat, name=nameOrCount.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:34:47.568188", "params": {"sorted": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method_condition": "{\"matrix_condition\": {\"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 1157}]}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 1156}]}, \"__current_case__\": 0, \"matrix_format\": \"column\"}, \"large\": \"false\", \"__current_case__\": 0, \"pick\": {\"type\": \"no\", \"__current_case__\": 0}, \"fasta\": null, \"method_switch\": \"distance\"}", "dbkey": "\"hg17\"", "label": "[\"unique\", \"0.05\", \"0.27\", \"0.45\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19677", "id": "aa70baf734620bdc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_oturep.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"method_condition|matrix_condition|dist": {"src": "hda", "id": "b7f71ad5197d9e0a"}, "method_condition|method_switch": "distance", "label": ["0.05", "0.27"], "method_condition|fasta": {"src": "hda", "id": "dec68a77ca6fab55"}, "sorted": "name", "method_condition|matrix_condition|matrix_format": "phylip", "otu": {"src": "hda", "id": "8bcaa6ddefe62301"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "dec68a77ca6fab55", "uuid": "920ebc87-4daf-49bb-91ba-0cf172a8a7dc"}, "method_condition|dist": {"src": "hda", "id": "b7f71ad5197d9e0a", "uuid": "92fe70a5-1c0a-49a6-935a-b931d3a5ec9f"}, "otu": {"src": "hda", "id": "8bcaa6ddefe62301", "uuid": "da9a90c4-f59b-45f4-9450-e14e8ee4c35d"}}, "update_time": "2018-02-08T17:35:18.183092", "tool_id": "mothur_get_oturep", "outputs": {"logfile": {"src": "hda", "id": "a3c766aaa70cf6ac", "uuid": "efc1c573-1a6b-41d7-81a4-76689dcc7e00"}, "__new_primary_file_0.27|0.27__": {"src": "hda", "id": "e52776a59fe07134", "uuid": "5a7ca434-6a13-4855-8a02-e98754a14ca1"}, "__new_primary_file_0.27|0.05__": {"src": "hda", "id": "d4a90b8ec5d7a12a", "uuid": "07714f97-9622-4c39-a222-ec47f5cf059b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.oturep(list=otu.dat,sorted=name,label=0.05-0.27,method=distance,phy \rlip=dist.dat,fasta=fasta.dat,large=false)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n0.05\t78\n0.27\t12\n\nOutput File Names: \notu.0.05.rep.names\notu.0.27.rep.names\notu.0.05.rep.fasta\notu.0.27.rep.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1163.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1164.dat' dist.dat && ln -s 'None' nameOrCount.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1165.dat' fasta.dat && echo 'get.oturep( list=otu.dat, sorted=name, label=0.05-0.27, method=distance, phylip=dist.dat, fasta=fasta.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:35:14.684754", "params": {"sorted": "\"name\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method_condition": "{\"matrix_condition\": {\"nameOrCount\": null, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 1164}]}, \"__current_case__\": 1, \"matrix_format\": \"phylip\"}, \"large\": \"false\", \"__current_case__\": 0, \"pick\": {\"type\": \"no\", \"__current_case__\": 0}, \"fasta\": {\"values\": [{\"src\": \"hda\", \"id\": 1165}]}, \"method_switch\": \"distance\"}", "dbkey": "\"hg17\"", "label": "[\"0.05\", \"0.27\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19808", "id": "3b972a2e0d2ad508", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_oturep.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"method_condition|matrix_condition|dist": {"src": "hda", "id": "bd8b611863ed9308"}, "method_condition|pick|type": "yes", "method_condition|method_switch": "distance", "method_condition|pick|groups": ["forest", "pasture"], "label": ["unique", "0.05", "0.27", "0.45"], "method_condition|pick|group": {"src": "hda", "id": "880bb69112fd68b6"}, "method_condition|matrix_condition|matrix_format": "column", "method_condition|matrix_condition|nameOrCount": {"src": "hda", "id": "d3518d8bb3652466"}, "otu": {"src": "hda", "id": "99ed50059af5bb02"}}, "job": {"inputs": {"method_condition|dist": {"src": "hda", "id": "bd8b611863ed9308", "uuid": "0cb40344-36cb-44fb-a8cc-d07691846f66"}, "method_condition|group": {"src": "hda", "id": "880bb69112fd68b6", "uuid": "b205373d-838d-4be6-9e37-3bfa2b3382d3"}, "method_condition|nameOrCount": {"src": "hda", "id": "d3518d8bb3652466", "uuid": "af6179b3-ab69-450c-8357-6407ea905dd6"}, "otu": {"src": "hda", "id": "99ed50059af5bb02", "uuid": "fe690c4f-e026-44af-b323-634907cdf208"}}, "update_time": "2018-02-08T17:35:53.329170", "tool_id": "mothur_get_oturep", "outputs": {"__new_primary_file_unique.pasture|0.45.pasture__": {"src": "hda", "id": "fd31441a4aa60ede", "uuid": "544892b7-e41c-48c3-8897-89fa5c24865e"}, "__new_primary_file_unique.pasture|0.05.forest__": {"src": "hda", "id": "777ec9c5caa78d86", "uuid": "5301c818-c0f1-4e1d-94c8-06a2fdd5667b"}, "__new_primary_file_unique.pasture|0.45.forest__": {"src": "hda", "id": "d6f1701a9167dd73", "uuid": "814d1e54-4320-46a1-a6dd-c3d0f0d2ddc3"}, "__new_primary_file_unique.pasture|0.27.forest__": {"src": "hda", "id": "9faf5e4358ec058f", "uuid": "3ddef2ce-68da-40ef-943a-4d7a1fa8627f"}, "__new_primary_file_unique.pasture|0.27.pasture__": {"src": "hda", "id": "7543a3403ae6979a", "uuid": "9f91fa26-e088-4c63-853d-5f9c14989542"}, "__new_primary_file_unique.pasture|unique.forest__": {"src": "hda", "id": "fde429e6e97b9f81", "uuid": "480db91e-8bbf-4a1d-85f1-890eb1ec7265"}, "__new_primary_file_unique.pasture|unique.pasture__": {"src": "hda", "id": "f408fc8f9300835d", "uuid": "10810240-3e47-4233-b28c-189c679d5571"}, "__new_primary_file_unique.pasture|0.05.pasture__": {"src": "hda", "id": "93aeb4de827d6c47", "uuid": "bd646759-619e-4204-94c1-0432fc92542c"}, "logfile": {"src": "hda", "id": "f87690ae06d59048", "uuid": "27b54f17-ddd9-4c42-a15b-894f8a8a5ea3"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.oturep(list=otu.dat,label=unique-0.05-0.27-0.45,method=distance,col \rumn=dist.dat,name=nameOrCount.dat,group=group.dat,groups=forest-pasture,large=fa \rlse)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nunique\t96\n0.05\t78\n0.27\t12\n0.45\t2\n\nOutput File Names: \notu.unique.forest.rep.names\notu.unique.pasture.rep.names\notu.0.05.forest.rep.names\notu.0.05.pasture.rep.names\notu.0.27.forest.rep.names\notu.0.27.pasture.rep.names\notu.0.45.forest.rep.names\notu.0.45.pasture.rep.names\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1171.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1172.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1173.dat' nameOrCount.dat && ln -s 'None' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1174.dat' group.dat && echo 'get.oturep( list=otu.dat, label=unique-0.05-0.27-0.45, method=distance, column=dist.dat, name=nameOrCount.dat, group=group.dat, groups=forest-pasture, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:35:49.660708", "params": {"sorted": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method_condition": "{\"matrix_condition\": {\"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 1173}]}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 1172}]}, \"__current_case__\": 0, \"matrix_format\": \"column\"}, \"large\": \"false\", \"__current_case__\": 0, \"pick\": {\"group\": {\"values\": [{\"src\": \"hda\", \"id\": 1174}]}, \"type\": \"yes\", \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 1}, \"fasta\": null, \"method_switch\": \"distance\"}", "dbkey": "\"hg17\"", "label": "[\"unique\", \"0.05\", \"0.27\", \"0.45\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "19976", "id": "ffc368cd972b6cba", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_oturep.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"method_condition|matrix_condition|dist": {"src": "hda", "id": "958f42f7df38196a"}, "method_condition|method_switch": "distance", "label": ["unique", "0.05", "0.27"], "method_condition|matrix_condition|matrix_format": "phylip", "method_condition|matrix_condition|nameOrCount": {"src": "hda", "id": "000295148157cfd1"}, "otu": {"src": "hda", "id": "373650fcf8f1288e"}}, "job": {"inputs": {"method_condition|dist": {"src": "hda", "id": "958f42f7df38196a", "uuid": "400e1660-0d20-4d5c-830a-3772755a3393"}, "otu": {"src": "hda", "id": "373650fcf8f1288e", "uuid": "07cf7628-7743-4274-a93e-de87a21c1ccf"}, "method_condition|nameOrCount": {"src": "hda", "id": "000295148157cfd1", "uuid": "fc4b5d83-a6f1-45de-b081-d489ab5d6fd3"}}, "update_time": "2018-02-08T17:36:19.731566", "tool_id": "mothur_get_oturep", "outputs": {"__new_primary_file_unique|0.27__": {"src": "hda", "id": "333420e1d962f11c", "uuid": "4df77d09-1a1f-408d-b20e-042b1034ec40"}, "logfile": {"src": "hda", "id": "df814c1a97206794", "uuid": "4f24dc30-58c5-4090-b123-c1d740dda48e"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "0eb134575c8781c5", "uuid": "4e4a889b-eac7-456a-b098-c81ec17a6690"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "0f8c488416e0bcc6", "uuid": "4e9b21fb-c2f3-4e3f-99a3-ef7edc44b7a3"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.oturep(list=otu.dat,label=unique-0.05-0.27,method=distance,phylip=d \rist.dat,count=nameOrCount.dat,large=false)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nunique\t96\n0.05\t78\n0.27\t12\n\nOutput File Names: \notu.unique.rep.count_table\notu.0.05.rep.count_table\notu.0.27.rep.count_table\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1184.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1185.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1186.dat' nameOrCount.dat && ln -s 'None' fasta.dat && echo 'get.oturep( list=otu.dat, label=unique-0.05-0.27, method=distance, phylip=dist.dat, count=nameOrCount.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:36:16.372153", "params": {"sorted": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method_condition": "{\"matrix_condition\": {\"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 1186}]}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 1185}]}, \"__current_case__\": 1, \"matrix_format\": \"phylip\"}, \"large\": \"false\", \"__current_case__\": 0, \"pick\": {\"type\": \"no\", \"__current_case__\": 0}, \"fasta\": null, \"method_switch\": \"distance\"}", "dbkey": "\"hg17\"", "label": "[\"unique\", \"0.05\", \"0.27\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20116", "id": "555065f5aff402d2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_oturep.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"method_condition|method_switch": "abundance", "sorted": "name", "otu": {"src": "hda", "id": "d833ede7810d07eb"}, "method_condition|nameOrCount": {"src": "hda", "id": "d98e0261251f3c05"}, "label": ["0.27", "unique"]}, "job": {"inputs": {"nameOrCount": {"src": "hda", "id": "d98e0261251f3c05", "uuid": "8ec5ddb4-55fd-4945-9e26-1b1a27ce00ca"}, "otu": {"src": "hda", "id": "d833ede7810d07eb", "uuid": "78a8119d-6cfb-4966-b6a8-e8a9bfd6d4c5"}}, "update_time": "2018-02-08T17:36:43.502738", "tool_id": "mothur_get_oturep", "outputs": {"__new_primary_file_unique|0.27__": {"src": "hda", "id": "9323df72f1a4c803", "uuid": "8478ad40-7eff-4304-b99b-0f4f722801c5"}, "logfile": {"src": "hda", "id": "9e9b9c71a17f9730", "uuid": "8db390b1-489a-42db-90e1-b0f5c2534c60"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "5f798f9781df9c30", "uuid": "a377f0e3-2c9e-4de5-b1e9-cb6ef2872533"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.oturep(list=otu.dat,sorted=name,label=0.27-unique,method=abundance, \rcount=nameOrCount.dat)\nunique\t96\n0.27\t12\n\nOutput File Names: \notu.unique.rep.count_table\notu.0.27.rep.count_table\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1191.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1192.dat' nameOrCount.dat && echo 'get.oturep( list=otu.dat, sorted=name, label=0.27-unique, method=abundance, count=nameOrCount.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:36:40.304148", "params": {"sorted": "\"name\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method_condition": "{\"nameOrCount\": {\"values\": [{\"src\": \"hda\", \"id\": 1192}]}, \"method_switch\": \"abundance\", \"__current_case__\": 1}", "dbkey": "\"hg17\"", "label": "[\"0.27\", \"unique\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20233", "id": "ea74846895a98ad3", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_oturep.test_tool_000005", "has_data": true}, {"data": {"status": "success", "inputs": {"accnos": {"src": "hda", "id": "a1bc33c7c6bf579d"}, "list": {"src": "hda", "id": "a2471179f56050c1"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "a1bc33c7c6bf579d", "uuid": "68ae3019-f0dc-4923-824d-edfddc8d9060"}, "list": {"src": "hda", "id": "a2471179f56050c1", "uuid": "34e8f19e-acf8-4c08-a1b1-c9ef0e042628"}}, "update_time": "2018-02-08T17:37:04.284293", "tool_id": "mothur_get_otus", "outputs": {"corraxes_out": {"src": "hda", "id": "981110199526228d", "uuid": "9cefca4b-082e-4454-bfc8-cd01cd83fd84"}, "list_out": {"src": "hda", "id": "2eb14780dee695c1", "uuid": "467173d6-22cb-4b24-bb51-8f26a5df802e"}, "otucorr_out": {"src": "hda", "id": "b45c9a5a1a91fef7", "uuid": "96768362-0f16-467e-a1f0-c16ac37103f2"}, "shared_out": {"src": "hda", "id": "e55896246ae83c97", "uuid": "aa3df8b6-e53a-4272-9b54-ad9ea1192d01"}, "logfile": {"src": "hda", "id": "6b2453e322eb9595", "uuid": "8616c117-8388-4dd3-b29c-05ff2a7ba0e0"}, "constaxonomy_out": {"src": "hda", "id": "91162ef60fa42a9a", "uuid": "4533757c-1612-4751-93a4-4493befbac61"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.otus(list=list.dat,accnos=accnos.dat)\nYou did not provide a label, I will use the first label in your inputfile.\nSelected 3 OTUs from your list file.\n\nOutput File Names: \nlist.unique.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1196.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1197.dat' list.dat && echo 'get.otus( list=list.dat, accnos=accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:37:00.894116", "params": {"corraxes": "null", "dbkey": "\"hg17\"", "otucorr": "null", "shared": "null", "labelsource": "{\"source\": \"list\", \"__current_case__\": 0, \"label\": null}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "constaxonomy": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20339", "id": "8ea35917f4649fec", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_otus.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"shared": {"src": "hda", "id": "76e195bd5a51c206"}, "labelsource|source": "shared", "accnos": {"src": "hda", "id": "597e90101763a05b"}, "labelsource|label": "0.03", "otucorr": {"src": "hda", "id": "7b95a997d2449dc0"}}, "job": {"inputs": {"shared": {"src": "hda", "id": "76e195bd5a51c206", "uuid": "89b37eef-3f9d-44e8-b962-d417da74c0d3"}, "accnos": {"src": "hda", "id": "597e90101763a05b", "uuid": "4d8dcce9-2afb-46b9-a0bf-d2f9fc7902a3"}, "otucorr": {"src": "hda", "id": "7b95a997d2449dc0", "uuid": "3ae2a72b-67e5-45c3-8539-c18b18baafaf"}}, "update_time": "2018-02-08T17:37:28.977887", "tool_id": "mothur_get_otus", "outputs": {"corraxes_out": {"src": "hda", "id": "9b61f34308fff2a9", "uuid": "f4b163d2-98cf-4b7e-8a3f-84e696308c4e"}, "list_out": {"src": "hda", "id": "51ff028a9c4e3d38", "uuid": "b0869f4c-8a97-4ea5-b3cb-b3a0f20cdf57"}, "otucorr_out": {"src": "hda", "id": "3f123558ac7162f4", "uuid": "39faed66-bef0-4e98-9a53-7e94365d63d8"}, "shared_out": {"src": "hda", "id": "c72e590e45abaffd", "uuid": "2cc58074-9cb0-44cd-b0d1-ea5b2b8ae892"}, "logfile": {"src": "hda", "id": "93c45a4fc85043cc", "uuid": "1cb7ccc9-5e1f-43b1-a078-fc434a62be91"}, "constaxonomy_out": {"src": "hda", "id": "5c870d3cd8d2cd2b", "uuid": "cb9391ce-9aa3-4410-b96c-b738f4a7f411"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.otus(shared=shared.dat,otucorr=otucorr.dat,accnos=accnos.dat,label= \r0.03)\nSelected 3 lines from your otu.corr file.\nSelected 3 OTUs from your shared file.\n\nOutput File Names: \notucorr.pick.dat\nshared.0.03.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1204.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1205.dat' shared.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1206.dat' otucorr.dat && echo 'get.otus( shared=shared.dat, otucorr=otucorr.dat, accnos=accnos.dat ,label=0.03 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:37:25.632339", "params": {"list": "null", "corraxes": "null", "dbkey": "\"hg17\"", "labelsource": "{\"source\": \"shared\", \"__current_case__\": 1, \"label\": \"0.03\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "constaxonomy": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20469", "id": "86fc1a32b14d4612", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_otus.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "bfb8462f158178af"}, "label": ["0.03", "0.05"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "bfb8462f158178af", "uuid": "9e10e7f7-f01c-4af2-8418-74c67d0e372d"}}, "update_time": "2018-02-08T17:37:46.140219", "tool_id": "mothur_get_rabund", "outputs": {"rabund": {"src": "hda", "id": "14ea0e9326ca1861", "uuid": "f9b65b0c-d862-4482-8b97-9fcf8bdb3d34"}, "logfile": {"src": "hda", "id": "697f459f9324ea39", "uuid": "0903f896-82ca-499b-8cf4-eb4d3fa25238"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.rabund(label=0.03-0.05,sabund=otu.dat,sorted=false)\n0.03\n0.05\n\nOutput File Names: \notu.rabund\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1213.dat' otu.dat && echo 'get.rabund( label=0.03-0.05, sabund=otu.dat, sorted=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:37:43.011652", "params": {"count": "null", "sorted": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20564", "id": "c2096fa94981c9cc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_rabund.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "e852cf3dc3c7e42b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "e852cf3dc3c7e42b", "uuid": "3b0701b3-41ab-4ddf-baaa-062ab5dcc4c4"}}, "update_time": "2018-02-08T17:38:03.722756", "tool_id": "mothur_get_rabund", "outputs": {"rabund": {"src": "hda", "id": "8bd0850a7e2f437b", "uuid": "9f88f7ab-3e6a-4d36-8fb7-b6d03ce3ef1a"}, "logfile": {"src": "hda", "id": "0d4414093f575fd4", "uuid": "5172947e-b101-420f-a161-b848fcbf0d4c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.rabund(list=otu.dat,sorted=false)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.rabund\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1216.dat' otu.dat && echo 'get.rabund( list=otu.dat, sorted=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:38:00.608880", "params": {"count": "null", "sorted": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20651", "id": "aa6cc630da5109fb", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_rabund.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "081df3333d4f9bbc"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "081df3333d4f9bbc", "uuid": "1b3a0577-d92e-424c-9c76-386b46161f6c"}}, "update_time": "2018-02-08T17:38:21.257992", "tool_id": "mothur_get_relabund", "outputs": {"logfile": {"src": "hda", "id": "782a500b6c6975dc", "uuid": "321e7030-ac8a-42cb-adb1-776f0c471f17"}, "relabund": {"src": "hda", "id": "a99a39c00943ef30", "uuid": "e959a3fd-2378-412e-9001-1150d4439ca4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.relabund(shared=otu.dat,scale=totalgroup)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.relabund\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1219.dat' otu.dat && echo 'get.relabund( shared=otu.dat, scale=totalgroup )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:38:18.141836", "params": {"scale": "\"totalgroup\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groups": "null", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20739", "id": "4c469a959b869c08", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_relabund.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "350367f7bcfdf2dd"}, "groups": "forest", "label": ["0.03", "0.05", "0.22"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "350367f7bcfdf2dd", "uuid": "5c37e7ee-4648-49dc-b771-adc2e70fe1cd"}}, "update_time": "2018-02-08T17:38:38.840628", "tool_id": "mothur_get_relabund", "outputs": {"logfile": {"src": "hda", "id": "3819ce922fdcf9e5", "uuid": "707f17eb-240b-45df-afe9-ce959eeaeeef"}, "relabund": {"src": "hda", "id": "41db60f4cf5f2831", "uuid": "07b85144-a45d-494e-a79f-071c71396902"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.relabund(shared=otu.dat,label=0.03-0.05-0.22,groups=forest,scale=to \rtalgroup)\n0.03\n0.05\n0.22\n\nOutput File Names: \notu.relabund\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1222.dat' otu.dat && echo 'get.relabund( shared=otu.dat, label=0.03-0.05-0.22, groups=forest, scale=totalgroup )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:38:35.746126", "params": {"scale": "\"totalgroup\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groups": "\"forest\"", "label": "[\"0.03\", \"0.05\", \"0.22\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20829", "id": "3d5f803521123c6e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_relabund.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "8a4ff393c0f15cf9"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "8a4ff393c0f15cf9", "uuid": "ec1c0799-83fe-4d5a-9068-6835c6412863"}}, "update_time": "2018-02-08T17:38:56.557586", "tool_id": "mothur_get_sabund", "outputs": {"logfile": {"src": "hda", "id": "d0f68e425dbbc775", "uuid": "ad4bd606-afc2-4016-9ce2-47640ddef2e0"}, "sabund": {"src": "hda", "id": "2fe4b83a9267275d", "uuid": "e734f708-7b0f-4796-b0ab-9a6890e53b30"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sabund(rabund=otu.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.sabund\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1225.dat' otu.dat && ln -s 'None' count.dat && echo 'get.sabund( rabund=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:38:53.435236", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "20916", "id": "ec0fb831200675f4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sabund.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "a0a2ae0841f1568c"}, "label": ["0.03", "0.05"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "a0a2ae0841f1568c", "uuid": "7ed19e3e-c6bb-435f-bb82-90d8c7b36cdd"}}, "update_time": "2018-02-08T17:39:14.113078", "tool_id": "mothur_get_sabund", "outputs": {"logfile": {"src": "hda", "id": "24da0eeb3eec1daa", "uuid": "c1698ca0-1cde-4dd4-a1ca-fc3d5d5626a8"}, "sabund": {"src": "hda", "id": "3f9f964fe6121e92", "uuid": "8e27ffcb-96a8-490d-b26c-61861a529567"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sabund(label=0.03-0.05,list=otu.dat)\n0.03\n0.05\n\nOutput File Names: \notu.sabund\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1228.dat' otu.dat && ln -s 'None' count.dat && echo 'get.sabund( label=0.03-0.05, list=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:39:11.000346", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21004", "id": "f1f75462f416e186", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sabund.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"accnos": {"src": "hda", "id": "61d69f53aecda797"}, "fasta_in": {"src": "hda", "id": "c58efa153eba9565"}, "dups": false}, "job": {"inputs": {"accnos": {"src": "hda", "id": "61d69f53aecda797", "uuid": "ee95bfe3-7425-4e29-806a-84a726cab72c"}, "fasta_in": {"src": "hda", "id": "c58efa153eba9565", "uuid": "f541b4af-c928-4167-8bfd-84236cc32cb3"}}, "update_time": "2018-02-08T17:39:34.986176", "tool_id": "mothur_get_seqs", "outputs": {"logfile": {"src": "hda", "id": "5e3a9652455a7ed3", "uuid": "3b977c88-368c-44a6-940c-2d5b765bfe9e"}, "fasta_out": {"src": "hda", "id": "631e6f3f808d1daa", "uuid": "f7c805f9-9e85-41bb-b789-56c2b8e433b9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.seqs(accnos=accnos.dat,fasta=fasta_in.dat,dups=false)\nSelected 3 sequences from your fasta file.\n\nOutput File Names: \nfasta_in.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1231.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1232.dat' fasta_in.dat && ln -s 'None' fastq_in.dat && ln -s 'None' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'get.seqs( accnos=accnos.dat, fasta=fasta_in.dat, dups=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:39:31.864369", "params": {"fastq_in": "null", "dups": "\"false\"", "count_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21125", "id": "f3e7443ed4070d7c", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fastq_in": {"src": "hda", "id": "011edc069103d7ec"}, "accnos": {"src": "hda", "id": "96df66444a6ec901"}}, "job": {"inputs": {"fastq_in": {"src": "hda", "id": "011edc069103d7ec", "uuid": "2a4e4303-b583-4bb7-8dc3-090ac8d784fb"}, "accnos": {"src": "hda", "id": "96df66444a6ec901", "uuid": "5f09f2d8-e815-481e-8319-680abfc1ee55"}}, "update_time": "2018-02-08T17:39:50.405005", "tool_id": "mothur_get_seqs", "outputs": {"logfile": {"src": "hda", "id": "11e2f427f678fd46", "uuid": "c8919f6f-d45e-476c-b870-02cd51988a1e"}, "fastq_out": {"src": "hda", "id": "aecf4c8180e80a4e", "uuid": "ebc254ae-cb1a-41b9-9b0d-dba079754227"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.seqs(accnos=accnos.dat,fastq=fastq_in.dat,dups=dups)\nSelected 3 sequences from your fastq file.\n\nOutput File Names: \nfastq_in.pick.dat\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1235.dat' accnos.dat && ln -s 'None' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1236.dat' fastq_in.dat && ln -s 'None' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'get.seqs( accnos=accnos.dat, fastq=fastq_in.dat, dups=dups )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:39:47.449707", "params": {"dups": "\"true\"", "fasta_in": "null", "count_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21248", "id": "a5170ff908b4401b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fastq_in": {"src": "hda", "id": "f34bcbdd0a72e0b4"}, "accnos": {"src": "hda", "id": "429998073c64a880"}, "fasta_in": {"src": "hda", "id": "ae159bf1c2125429"}, "dups": false}, "job": {"inputs": {"fastq_in": {"src": "hda", "id": "f34bcbdd0a72e0b4", "uuid": "d71804cd-863d-4cf8-9f8e-12a37d7ec74c"}, "fasta_in": {"src": "hda", "id": "ae159bf1c2125429", "uuid": "fd50d748-91bc-4253-b3a7-57b119542771"}, "accnos": {"src": "hda", "id": "429998073c64a880", "uuid": "ff206f5a-eecf-4f9d-9f49-88d2a2c7f8e8"}}, "update_time": "2018-02-08T17:40:10.037647", "tool_id": "mothur_get_seqs", "outputs": {"fasta_out": {"src": "hda", "id": "cc004dc337e74e6b", "uuid": "ec9de38c-7807-4109-aaac-4e2422131fd7"}, "logfile": {"src": "hda", "id": "38134c7758ca35f5", "uuid": "d334d6cc-a785-427d-b0e3-653a1cee3dc4"}, "fastq_out": {"src": "hda", "id": "a0e87d70eb117c6b", "uuid": "bb5beb8c-57ac-4fb0-8a64-98519ef3e355"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.seqs(accnos=accnos.dat,fasta=fasta_in.dat,fastq=fastq_in.dat,dups=f \ralse)\nSelected 3 sequences from your fasta file.\nSelected 3 sequences from your fastq file.\n\nOutput File Names: \nfasta_in.pick.dat\nfastq_in.pick.dat\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1239.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1240.dat' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1241.dat' fastq_in.dat && ln -s 'None' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'get.seqs( accnos=accnos.dat, fasta=fasta_in.dat, fastq=fastq_in.dat, dups=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:40:06.074352", "params": {"dups": "\"false\"", "count_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21397", "id": "2b49763c55874680", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"accnos": {"src": "hda", "id": "2af669c98ffba1bc"}, "count_in": {"src": "hda", "id": "28ef132ecd41da41"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "2af669c98ffba1bc", "uuid": "495fec17-107e-4eee-8610-1c4e96f58a6d"}, "count_in": {"src": "hda", "id": "28ef132ecd41da41", "uuid": "f7cdf3dd-535d-4b35-883b-54caf42d9374"}}, "update_time": "2018-02-08T17:40:27.491400", "tool_id": "mothur_get_seqs", "outputs": {"logfile": {"src": "hda", "id": "7ccd0d003f1c770e", "uuid": "2b67b8c6-c764-4f46-ae9b-fe8bec450035"}, "count_out": {"src": "hda", "id": "0a69fafee8fab989", "uuid": "00faa3ff-4c97-424a-b5ef-5abf56f80208"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.seqs(accnos=accnos.dat,count=count_in.dat,dups=dups)\nSelected 8 sequences from your count file.\n\nOutput File Names: \ncount_in.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1245.dat' accnos.dat && ln -s 'None' fasta_in.dat && ln -s 'None' fastq_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1246.dat' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'get.seqs( accnos=accnos.dat, count=count_in.dat, dups=dups )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:40:24.388969", "params": {"fastq_in": "null", "dups": "\"true\"", "fasta_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21528", "id": "a5b8d21ac8fc30ea", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_seqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|intype": "in_shared", "infile|otu": {"src": "hda", "id": "8991ff1b69b89ded"}, "infile|seqsfrom|selection": "shared"}, "job": {"inputs": {"otu": {"src": "hda", "id": "8991ff1b69b89ded", "uuid": "872bf3b7-9f50-4f08-8cae-3392147d7120"}}, "update_time": "2018-02-08T17:40:42.546493", "tool_id": "mothur_get_sharedseqs", "outputs": {"__new_primary_file_0.55.unique.forest_pasture|0.01.unique.forest_pasture__": {"src": "hda", "id": "fe96fd381a33cce5", "uuid": "6e62e8a0-9565-42a2-9211-7f4045d9802e"}, "__new_primary_file_0.55.unique.forest_pasture|0.03.unique.forest_pasture__": {"src": "hda", "id": "abbd1960cbf160f9", "uuid": "03fd6ca0-4f2c-465a-8cb8-dbe825c563f1"}, "__new_primary_file_0.55.unique.forest_pasture|0.12.unique.forest_pasture__": {"src": "hda", "id": "d07b459d41c7c945", "uuid": "03f90a30-0551-4910-97a7-dc0c226679fb"}, "__new_primary_file_0.55.unique.forest_pasture|0.08.unique.forest_pasture__": {"src": "hda", "id": "0bb3941465c9f795", "uuid": "5c0613c1-f9a1-484d-a2b3-26a54e649ee9"}, "__new_primary_file_0.55.unique.forest_pasture|0.36.unique.forest_pasture__": {"src": "hda", "id": "c785bef273d68b1e", "uuid": "1b0a9c63-56b9-4972-8b9f-02ba5c02c04f"}, "__new_primary_file_0.55.unique.forest_pasture|0.33.unique.forest_pasture__": {"src": "hda", "id": "696fb5296f68042e", "uuid": "271c55c4-3601-4cfa-8890-aa71391cd4e4"}, "__new_primary_file_0.55.unique.forest_pasture|0.23.unique.forest_pasture__": {"src": "hda", "id": "1705da10f105bf38", "uuid": "95d04c9c-0972-45cb-81b3-61f008596f88"}, "__new_primary_file_0.55.unique.forest_pasture|0.32.unique.forest_pasture__": {"src": "hda", "id": "94b2b05bccf8c5b7", "uuid": "f0f831e2-5c81-40f5-af81-a6174cf1a4e5"}, "__new_primary_file_0.55.unique.forest_pasture|0.06.unique.forest_pasture__": {"src": "hda", "id": "ee43e48dbb3db358", "uuid": "a4e1ae3d-6947-49bb-8b50-ab5d37eacbea"}, "__new_primary_file_0.55.unique.forest_pasture|0.45.unique.forest_pasture__": {"src": "hda", "id": "e959a6a79feb9b78", "uuid": "860cb981-ff58-4f47-ba3f-7859fb678339"}, "__new_primary_file_0.55.unique.forest_pasture|0.38.unique.forest_pasture__": {"src": "hda", "id": "af849d2a7341fcce", "uuid": "68ec2522-535a-423f-89de-ac8ee8073ae1"}, "__new_primary_file_0.55.unique.forest_pasture|0.04.unique.forest_pasture__": {"src": "hda", "id": "e1caecba7fa68b40", "uuid": "038e3223-f87e-4d54-b647-e80c270d7fde"}, "__new_primary_file_0.55.unique.forest_pasture|0.20.unique.forest_pasture__": {"src": "hda", "id": "93d3f7925ba4d071", "uuid": "b43ed593-75eb-4c3f-bfda-2a684feb05d9"}, "__new_primary_file_0.55.unique.forest_pasture|0.26.unique.forest_pasture__": {"src": "hda", "id": "98949929b1176202", "uuid": "7b478ce3-2d42-4a2f-b821-11a03d939363"}, "__new_primary_file_0.55.unique.forest_pasture|0.15.unique.forest_pasture__": {"src": "hda", "id": "c3ce2a80c0d89459", "uuid": "92173f88-ce59-4d94-96f8-4eb3b91721df"}, "__new_primary_file_0.55.unique.forest_pasture|0.02.unique.forest_pasture__": {"src": "hda", "id": "2114951d23217870", "uuid": "30bbdd45-8509-476d-8500-7fb15c01fbfc"}, "__new_primary_file_0.55.unique.forest_pasture|0.10.unique.forest_pasture__": {"src": "hda", "id": "5f161a30c8b2f408", "uuid": "9dc304f3-b581-4555-b2f0-4fcc85d063a6"}, "__new_primary_file_0.55.unique.forest_pasture|0.17.unique.forest_pasture__": {"src": "hda", "id": "b9bb71cf44c7a0e7", "uuid": "cddaf8f8-e410-4633-aa7a-2bbec88cbc5c"}, "__new_primary_file_0.55.unique.forest_pasture|0.29.unique.forest_pasture__": {"src": "hda", "id": "b4a250cf71b57d6e", "uuid": "06f5481a-e0b3-479a-8508-9a91fc743a7a"}, "__new_primary_file_0.55.unique.forest_pasture|0.09.unique.forest_pasture__": {"src": "hda", "id": "22ee6ec8bba94753", "uuid": "7c493108-e4fa-4a7e-bb29-e20ede7859ab"}, "__new_primary_file_0.55.unique.forest_pasture|0.22.unique.forest_pasture__": {"src": "hda", "id": "e79f5a70b4d84628", "uuid": "98be88e4-5708-41e8-ac3d-b8d99af0623f"}, "__new_primary_file_0.55.unique.forest_pasture|0.16.unique.forest_pasture__": {"src": "hda", "id": "c0880ab75f60a05d", "uuid": "d1962c02-1150-42c4-a0b5-53f95b28f23b"}, "__new_primary_file_0.55.unique.forest_pasture|0.14.unique.forest_pasture__": {"src": "hda", "id": "ae5dfc6c4ccf9fa5", "uuid": "440852d5-6a57-4390-beca-0da217e15cb3"}, "__new_primary_file_0.55.unique.forest_pasture|0.05.unique.forest_pasture__": {"src": "hda", "id": "39ba608ca28de802", "uuid": "c5226c97-5550-4504-9368-9c34d154f7a0"}, "__new_primary_file_0.55.unique.forest_pasture|0.19.unique.forest_pasture__": {"src": "hda", "id": "c8711b8e31575185", "uuid": "e388917c-c66e-4775-a573-6876087759ce"}, "__new_primary_file_0.55.unique.forest_pasture|0.27.unique.forest_pasture__": {"src": "hda", "id": "a14db3cd22562c1c", "uuid": "facbec9c-ef23-4a49-832e-cb72d88e40c3"}, "__new_primary_file_0.55.unique.forest_pasture|0.25.unique.forest_pasture__": {"src": "hda", "id": "fb26921841cf93b6", "uuid": "4a208dfa-fb3b-406b-a7ec-1ebd75312147"}, "__new_primary_file_0.55.unique.forest_pasture|0.21.unique.forest_pasture__": {"src": "hda", "id": "a53b61a2057d1d37", "uuid": "2b481e20-a397-492d-8c8e-4ae5e926d273"}, "__new_primary_file_0.55.unique.forest_pasture|0.11.unique.forest_pasture__": {"src": "hda", "id": "a2b4f906be8b27da", "uuid": "2d894fec-a661-443b-91f8-63eedcc74c30"}, "__new_primary_file_0.55.unique.forest_pasture|0.41.unique.forest_pasture__": {"src": "hda", "id": "3c94cd72eddabd04", "uuid": "4b0ad5ec-65dc-4e5f-acb3-836c68d942dd"}, "__new_primary_file_0.55.unique.forest_pasture|0.13.unique.forest_pasture__": {"src": "hda", "id": "81cefc9a8787c281", "uuid": "20a466e5-907c-40b2-97dc-aad52b3b7197"}, "__new_primary_file_0.55.unique.forest_pasture|0.55.unique.forest_pasture__": {"src": "hda", "id": "f9dbbadeec4a7667", "uuid": "d64b8575-454c-4727-ad23-b5d8c6fe59ca"}, "logfile": {"src": "hda", "id": "97dddce84ce4448e", "uuid": "42368fb8-aa6a-44b7-9809-9ca33a75f9a0"}, "__new_primary_file_0.55.unique.forest_pasture|0.24.unique.forest_pasture__": {"src": "hda", "id": "f4069f60e8f3e4ae", "uuid": "5a3e0161-4ff4-402f-9c1a-b5d52d8c353c"}, "__new_primary_file_0.55.unique.forest_pasture|0.07.unique.forest_pasture__": {"src": "hda", "id": "18db42ecae15c51a", "uuid": "92fd9874-876c-4b24-9dad-7a4a10b4177a"}, "__new_primary_file_0.55.unique.forest_pasture|0.18.unique.forest_pasture__": {"src": "hda", "id": "0bc713a3d3ce28f8", "uuid": "c8092fa4-b78d-4f24-acf5-7d3518cf5467"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sharedseqs(shared=infile_otu.dat)\nunique\t0 - No otus shared by groups forest pasture.\n0.01\t1\n0.02\t1\n0.03\t2\n0.04\t4\n0.05\t7\n0.06\t9\n0.07\t9\n0.08\t9\n0.09\t9\n0.10\t8\n0.11\t8\n0.12\t8\n0.13\t8\n0.14\t9\n0.15\t9\n0.16\t9\n0.17\t10\n0.18\t10\n0.19\t11\n0.20\t10\n0.21\t9\n0.22\t9\n0.23\t8\n0.24\t7\n0.25\t7\n0.26\t7\n0.27\t6\n0.29\t4\n0.32\t3\n0.33\t2\n0.36\t2\n0.38\t2\n0.41\t1\n0.45\t1\n0.55\t1\n\nOutput File Names: \ninfile_otu.0.01.unique.forest_pasture.shared.seqs\ninfile_otu.0.02.unique.forest_pasture.shared.seqs\ninfile_otu.0.03.unique.forest_pasture.shared.seqs\ninfile_otu.0.04.unique.forest_pasture.shared.seqs\ninfile_otu.0.05.unique.forest_pasture.shared.seqs\ninfile_otu.0.06.unique.forest_pasture.shared.seqs\ninfile_otu.0.07.unique.forest_pasture.shared.seqs\ninfile_otu.0.08.unique.forest_pasture.shared.seqs\ninfile_otu.0.09.unique.forest_pasture.shared.seqs\ninfile_otu.0.10.unique.forest_pasture.shared.seqs\ninfile_otu.0.11.unique.forest_pasture.shared.seqs\ninfile_otu.0.12.unique.forest_pasture.shared.seqs\ninfile_otu.0.13.unique.forest_pasture.shared.seqs\ninfile_otu.0.14.unique.forest_pasture.shared.seqs\ninfile_otu.0.15.unique.forest_pasture.shared.seqs\ninfile_otu.0.16.unique.forest_pasture.shared.seqs\ninfile_otu.0.17.unique.forest_pasture.shared.seqs\ninfile_otu.0.18.unique.forest_pasture.shared.seqs\ninfile_otu.0.19.unique.forest_pasture.shared.seqs\ninfile_otu.0.20.unique.forest_pasture.shared.seqs\ninfile_otu.0.21.unique.forest_pasture.shared.seqs\ninfile_otu.0.22.unique.forest_pasture.shared.seqs\ninfile_otu.0.23.unique.forest_pasture.shared.seqs\ninfile_otu.0.24.unique.forest_pasture.shared.seqs\ninfile_otu.0.25.unique.forest_pasture.shared.seqs\ninfile_otu.0.26.unique.forest_pasture.shared.seqs\ninfile_otu.0.27.unique.forest_pasture.shared.seqs\ninfile_otu.0.29.unique.forest_pasture.shared.seqs\ninfile_otu.0.32.unique.forest_pasture.shared.seqs\ninfile_otu.0.33.unique.forest_pasture.shared.seqs\ninfile_otu.0.36.unique.forest_pasture.shared.seqs\ninfile_otu.0.38.unique.forest_pasture.shared.seqs\ninfile_otu.0.41.unique.forest_pasture.shared.seqs\ninfile_otu.0.45.unique.forest_pasture.shared.seqs\ninfile_otu.0.55.unique.forest_pasture.shared.seqs\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1249.dat' infile_otu.dat && echo 'get.sharedseqs( shared=infile_otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:40:37.022378", "params": {"output": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_shared\", \"seqsfrom\": {\"selection\": \"shared\", \"groups\": null, \"__current_case__\": 1}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1249}]}, \"__current_case__\": 0, \"label\": null}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21699", "id": "84069f8e0a4c5a8e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sharedseqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|intype": "in_listgroup", "infile|otu": {"src": "hda", "id": "4b7d958e0a57cf76"}, "infile|group": {"src": "hda", "id": "22e37d6ba86e2a2e"}}, "job": {"inputs": {"group": {"src": "hda", "id": "22e37d6ba86e2a2e", "uuid": "57e7e54e-4d04-466e-aee7-80aab3ddf238"}, "otu": {"src": "hda", "id": "4b7d958e0a57cf76", "uuid": "094a5b5c-cacc-4fa3-bb7d-4cdd0535c932"}}, "update_time": "2018-02-08T17:41:06.572855", "tool_id": "mothur_get_sharedseqs", "outputs": {"__new_primary_file_0.55.unique.forest_pasture|0.01.unique.forest_pasture__": {"src": "hda", "id": "a6e53d78c2aa075a", "uuid": "30f325e4-4f11-4b7d-bde7-36f0f667cfa3"}, "__new_primary_file_0.55.unique.forest_pasture|0.03.unique.forest_pasture__": {"src": "hda", "id": "e129f12cdcbea9f8", "uuid": "6bbf9fcb-96d3-4ae7-b4a5-ab6216cc6e48"}, "__new_primary_file_0.55.unique.forest_pasture|0.12.unique.forest_pasture__": {"src": "hda", "id": "993d97a54f58371d", "uuid": "393135e9-fa41-4153-9aa3-2660c092c92c"}, "__new_primary_file_0.55.unique.forest_pasture|0.08.unique.forest_pasture__": {"src": "hda", "id": "87221f8fb11b5cc8", "uuid": "9c6f73d1-4c93-40cb-8252-899acd0218a6"}, "__new_primary_file_0.55.unique.forest_pasture|0.36.unique.forest_pasture__": {"src": "hda", "id": "983b943d65d6c7d7", "uuid": "e0b99c1d-e30f-4277-bf5c-f419f0638f89"}, "__new_primary_file_0.55.unique.forest_pasture|0.33.unique.forest_pasture__": {"src": "hda", "id": "1c22c17396d9a02a", "uuid": "4196bbee-376f-4c74-b415-d84fb2253cea"}, "__new_primary_file_0.55.unique.forest_pasture|0.23.unique.forest_pasture__": {"src": "hda", "id": "f39de65e2034ed3a", "uuid": "c79dcaf1-76cf-4441-981b-f6a2c2d1aef4"}, "__new_primary_file_0.55.unique.forest_pasture|0.32.unique.forest_pasture__": {"src": "hda", "id": "c8f16105fabce55c", "uuid": "5dffad01-87c3-4695-a705-cf92f638cffb"}, "__new_primary_file_0.55.unique.forest_pasture|0.06.unique.forest_pasture__": {"src": "hda", "id": "35de84ce53a9c828", "uuid": "4ba701d9-96ce-476d-9d70-091352681b8f"}, "__new_primary_file_0.55.unique.forest_pasture|0.45.unique.forest_pasture__": {"src": "hda", "id": "9d80b37e646651a2", "uuid": "cca381a8-f0b1-451f-a0ca-4e21ff97a0ce"}, "__new_primary_file_0.55.unique.forest_pasture|0.38.unique.forest_pasture__": {"src": "hda", "id": "1f5f52e2309ff559", "uuid": "d706fac0-066c-4140-a107-93c7a7dadc7b"}, "__new_primary_file_0.55.unique.forest_pasture|0.04.unique.forest_pasture__": {"src": "hda", "id": "914cc9e62ef5365f", "uuid": "d748bcde-2616-4fe2-8ba0-70fc5002f414"}, "__new_primary_file_0.55.unique.forest_pasture|0.20.unique.forest_pasture__": {"src": "hda", "id": "fad0ab3aea5cc191", "uuid": "23e411ec-733c-4172-b226-749c7bcc3a3b"}, "__new_primary_file_0.55.unique.forest_pasture|0.26.unique.forest_pasture__": {"src": "hda", "id": "6b853ad1a5dc9670", "uuid": "d152f781-531f-4064-ac9e-77870a5fad59"}, "__new_primary_file_0.55.unique.forest_pasture|0.15.unique.forest_pasture__": {"src": "hda", "id": "5b7a47d04f2ce92e", "uuid": "e272186f-af71-4f73-931c-caf7ff00bb2b"}, "__new_primary_file_0.55.unique.forest_pasture|0.02.unique.forest_pasture__": {"src": "hda", "id": "fde35c4f1f75764c", "uuid": "21a7781c-a131-4cb1-9782-18fd7c7f2ae3"}, "__new_primary_file_0.55.unique.forest_pasture|0.10.unique.forest_pasture__": {"src": "hda", "id": "c3e3c95393385769", "uuid": "8f838ca7-cb0a-49ed-92a0-7af2587aa95a"}, "__new_primary_file_0.55.unique.forest_pasture|0.17.unique.forest_pasture__": {"src": "hda", "id": "bd17947ec32bf83e", "uuid": "cc13beef-971d-43d5-b420-278a82c15ab7"}, "__new_primary_file_0.55.unique.forest_pasture|0.29.unique.forest_pasture__": {"src": "hda", "id": "89f023fa51ac47b1", "uuid": "e3ec40de-c3d1-4752-a9b1-eaa6a8c5df14"}, "__new_primary_file_0.55.unique.forest_pasture|0.09.unique.forest_pasture__": {"src": "hda", "id": "e87af5eb583a6a0d", "uuid": "60bb585e-a501-4162-a97e-a817c7190865"}, "__new_primary_file_0.55.unique.forest_pasture|0.22.unique.forest_pasture__": {"src": "hda", "id": "eef93538df20bc17", "uuid": "5a98686b-b17a-412a-8304-bcf4cb4d7a3d"}, "__new_primary_file_0.55.unique.forest_pasture|0.16.unique.forest_pasture__": {"src": "hda", "id": "bdaadc18ac151cd2", "uuid": "4595f913-1a6d-402a-bc6e-db035606e6c5"}, "__new_primary_file_0.55.unique.forest_pasture|0.14.unique.forest_pasture__": {"src": "hda", "id": "461683b0bc43792a", "uuid": "7c11441b-93c0-440a-bd46-3d9a53018f5a"}, "__new_primary_file_0.55.unique.forest_pasture|0.05.unique.forest_pasture__": {"src": "hda", "id": "ad58d1ed1e353fc6", "uuid": "28520fde-77ab-44e6-a2b3-975f4aa7024d"}, "__new_primary_file_0.55.unique.forest_pasture|0.19.unique.forest_pasture__": {"src": "hda", "id": "f8b18a16ce2a2213", "uuid": "26ed470f-185b-429e-8f93-f995c357df9d"}, "__new_primary_file_0.55.unique.forest_pasture|0.27.unique.forest_pasture__": {"src": "hda", "id": "b45a8ae42a18587e", "uuid": "59e2a1d6-bb25-439e-9308-b5a96a05b7de"}, "__new_primary_file_0.55.unique.forest_pasture|0.25.unique.forest_pasture__": {"src": "hda", "id": "0534db83ede63e64", "uuid": "be926160-a075-45d4-ad37-46cbf886ed43"}, "__new_primary_file_0.55.unique.forest_pasture|0.21.unique.forest_pasture__": {"src": "hda", "id": "9a87b669ba9ab9db", "uuid": "d4f58cdd-b711-400e-a76e-0cda681abfd8"}, "__new_primary_file_0.55.unique.forest_pasture|0.11.unique.forest_pasture__": {"src": "hda", "id": "e2e4c35d5ff4266b", "uuid": "12a6ac0f-1db6-4b96-875a-fcb7009814f4"}, "__new_primary_file_0.55.unique.forest_pasture|0.41.unique.forest_pasture__": {"src": "hda", "id": "220fe64dce861a50", "uuid": "c057e845-b61a-4d4c-bb84-90eb7387d194"}, "__new_primary_file_0.55.unique.forest_pasture|0.13.unique.forest_pasture__": {"src": "hda", "id": "64d82fdd6e113cc6", "uuid": "f10dd2e4-d8e1-4baa-9451-3d5d9bc74197"}, "__new_primary_file_0.55.unique.forest_pasture|0.55.unique.forest_pasture__": {"src": "hda", "id": "cca4740627632b2c", "uuid": "7dd79344-3624-4f33-99e7-040a5fe90020"}, "logfile": {"src": "hda", "id": "76f3dabcdd118837", "uuid": "134d204a-412b-4b70-98a3-76345bf064c8"}, "__new_primary_file_0.55.unique.forest_pasture|0.24.unique.forest_pasture__": {"src": "hda", "id": "eb651194166b0289", "uuid": "a6ed694b-7c67-4583-8274-10269dabae15"}, "__new_primary_file_0.55.unique.forest_pasture|0.07.unique.forest_pasture__": {"src": "hda", "id": "a552f60ce7ee1aa3", "uuid": "799d8b21-d71e-4298-8675-6b790f0b7e06"}, "__new_primary_file_0.55.unique.forest_pasture|0.18.unique.forest_pasture__": {"src": "hda", "id": "8c4aac77b9acb762", "uuid": "92b51647-e348-4bb0-988f-91020a0076da"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sharedseqs(list=infile_otu.dat,group=infile.group.dat)\nunique\t0 - No otus shared by groups forest pasture.\n0.01\t1\n0.02\t1\n0.03\t2\n0.04\t4\n0.05\t7\n0.06\t9\n0.07\t9\n0.08\t9\n0.09\t9\n0.10\t8\n0.11\t8\n0.12\t8\n0.13\t8\n0.14\t9\n0.15\t9\n0.16\t9\n0.17\t10\n0.18\t10\n0.19\t11\n0.20\t10\n0.21\t9\n0.22\t9\n0.23\t8\n0.24\t7\n0.25\t7\n0.26\t7\n0.27\t6\n0.29\t4\n0.32\t3\n0.33\t2\n0.36\t2\n0.38\t2\n0.41\t1\n0.45\t1\n0.55\t1\n\nOutput File Names: \ninfile_otu.0.01.unique.forest_pasture.shared.seqs\ninfile_otu.0.02.unique.forest_pasture.shared.seqs\ninfile_otu.0.03.unique.forest_pasture.shared.seqs\ninfile_otu.0.04.unique.forest_pasture.shared.seqs\ninfile_otu.0.05.unique.forest_pasture.shared.seqs\ninfile_otu.0.06.unique.forest_pasture.shared.seqs\ninfile_otu.0.07.unique.forest_pasture.shared.seqs\ninfile_otu.0.08.unique.forest_pasture.shared.seqs\ninfile_otu.0.09.unique.forest_pasture.shared.seqs\ninfile_otu.0.10.unique.forest_pasture.shared.seqs\ninfile_otu.0.11.unique.forest_pasture.shared.seqs\ninfile_otu.0.12.unique.forest_pasture.shared.seqs\ninfile_otu.0.13.unique.forest_pasture.shared.seqs\ninfile_otu.0.14.unique.forest_pasture.shared.seqs\ninfile_otu.0.15.unique.forest_pasture.shared.seqs\ninfile_otu.0.16.unique.forest_pasture.shared.seqs\ninfile_otu.0.17.unique.forest_pasture.shared.seqs\ninfile_otu.0.18.unique.forest_pasture.shared.seqs\ninfile_otu.0.19.unique.forest_pasture.shared.seqs\ninfile_otu.0.20.unique.forest_pasture.shared.seqs\ninfile_otu.0.21.unique.forest_pasture.shared.seqs\ninfile_otu.0.22.unique.forest_pasture.shared.seqs\ninfile_otu.0.23.unique.forest_pasture.shared.seqs\ninfile_otu.0.24.unique.forest_pasture.shared.seqs\ninfile_otu.0.25.unique.forest_pasture.shared.seqs\ninfile_otu.0.26.unique.forest_pasture.shared.seqs\ninfile_otu.0.27.unique.forest_pasture.shared.seqs\ninfile_otu.0.29.unique.forest_pasture.shared.seqs\ninfile_otu.0.32.unique.forest_pasture.shared.seqs\ninfile_otu.0.33.unique.forest_pasture.shared.seqs\ninfile_otu.0.36.unique.forest_pasture.shared.seqs\ninfile_otu.0.38.unique.forest_pasture.shared.seqs\ninfile_otu.0.41.unique.forest_pasture.shared.seqs\ninfile_otu.0.45.unique.forest_pasture.shared.seqs\ninfile_otu.0.55.unique.forest_pasture.shared.seqs\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1286.dat' infile_otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1287.dat' infile.group.dat && ln -s 'None' infile_fasta.dat && ln -s 'None' count_in.dat && echo 'get.sharedseqs( list=infile_otu.dat ,group=infile.group.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:41:01.432445", "params": {"output": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"group\": {\"values\": [{\"src\": \"hda\", \"id\": 1287}]}, \"intype\": \"in_listgroup\", \"seqsfrom\": {\"selection\": \"all\", \"__current_case__\": 2}, \"count_in\": null, \"label\": null, \"__current_case__\": 1, \"fasta\": null, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1286}]}}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21859", "id": "ec3c9d08d9062ead", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sharedseqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|seqsfrom|groups": ["forest", "pasture"], "infile|intype": "in_shared", "infile|otu": {"src": "hda", "id": "702df83b8d383f91"}, "infile|seqsfrom|selection": "shared", "infile|label": ["0.03", "0.33", "0.41"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "702df83b8d383f91", "uuid": "5f1cc371-ef50-4a1b-a8c9-5f0ddde4d111"}}, "update_time": "2018-02-08T17:41:26.288697", "tool_id": "mothur_get_sharedseqs", "outputs": {"__new_primary_file_0.41.forest_pasture|0.33.forest_pasture__": {"src": "hda", "id": "54f6c1e83cddf017", "uuid": "7fc3b6d7-cb7e-4156-a9a4-c6db5eee51a6"}, "logfile": {"src": "hda", "id": "4520cfd618792d79", "uuid": "83f35ee5-b93d-4d5c-ada4-b251a4b542b2"}, "__new_primary_file_0.41.forest_pasture|0.41.forest_pasture__": {"src": "hda", "id": "a47f21eee894769a", "uuid": "a2ea857a-c68b-47fc-8e4f-5617cbf4906b"}, "__new_primary_file_0.41.forest_pasture|0.03.forest_pasture__": {"src": "hda", "id": "edbb972fe95b9ac8", "uuid": "7ac4d017-b073-481c-bce7-ec153444bc1f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sharedseqs(shared=infile_otu.dat,label=0.03-0.33-0.41,sharedgroups= \rforest-pasture)\n0.03\t2\n0.33\t2\n0.41\t1\n\nOutput File Names: \ninfile_otu.0.03.forest_pasture.shared.seqs\ninfile_otu.0.33.forest_pasture.shared.seqs\ninfile_otu.0.41.forest_pasture.shared.seqs\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1324.dat' infile_otu.dat && echo 'get.sharedseqs( shared=infile_otu.dat ,label=0.03-0.33-0.41 ,sharedgroups=forest-pasture )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:41:23.089850", "params": {"output": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_shared\", \"seqsfrom\": {\"selection\": \"shared\", \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 1}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1324}]}, \"__current_case__\": 0, \"label\": [\"0.03\", \"0.33\", \"0.41\"]}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "21958", "id": "802ffc5c50268813", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sharedseqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|seqsfrom|groups": "pasture", "infile|otu": {"src": "hda", "id": "c8023bd8606946c1"}, "infile|seqsfrom|selection": "unique", "infile|intype": "in_shared"}, "job": {"inputs": {"otu": {"src": "hda", "id": "c8023bd8606946c1", "uuid": "9333bd68-810e-4038-a81c-69f6b19fe400"}}, "update_time": "2018-02-08T17:41:45.507774", "tool_id": "mothur_get_sharedseqs", "outputs": {"__new_primary_file_unique.unique.pasture|0.02.unique.pasture__": {"src": "hda", "id": "3f577f2345e462ae", "uuid": "389726b7-6e66-4f21-af77-918c4fa800ff"}, "__new_primary_file_unique.unique.pasture|0.17.unique.pasture__": {"src": "hda", "id": "1051479745a019c3", "uuid": "b6f6e2d2-8d64-4423-8ba4-de195b2e4b06"}, "__new_primary_file_unique.unique.pasture|0.13.unique.pasture__": {"src": "hda", "id": "d1a9e52845840800", "uuid": "e77a422a-81af-41a8-8cda-c47a4601f4c9"}, "__new_primary_file_unique.unique.pasture|0.16.unique.pasture__": {"src": "hda", "id": "58bf1d0ea28ad39d", "uuid": "6b9687e9-7b07-46af-8b56-7f0575751939"}, "__new_primary_file_unique.unique.pasture|0.07.unique.pasture__": {"src": "hda", "id": "547dde384e3b6a29", "uuid": "b1a80092-fc04-4452-8809-59ed8dbc52b7"}, "__new_primary_file_unique.unique.pasture|0.06.unique.pasture__": {"src": "hda", "id": "fcd56e94d175000a", "uuid": "84b9cd98-591f-4e49-b863-e9077d4387d3"}, "__new_primary_file_unique.unique.pasture|0.32.unique.pasture__": {"src": "hda", "id": "b1f82c5e1406130e", "uuid": "949a768c-0f8b-469b-9593-eb1561dee43a"}, "__new_primary_file_unique.unique.pasture|0.20.unique.pasture__": {"src": "hda", "id": "2dabc8e196f33f11", "uuid": "a5c54946-b5e3-466c-9679-5c2ea79bd37f"}, "__new_primary_file_unique.unique.pasture|0.09.unique.pasture__": {"src": "hda", "id": "c08963815c2b5a83", "uuid": "a01509e5-9712-46e0-befa-b910588c5905"}, "__new_primary_file_unique.unique.pasture|0.22.unique.pasture__": {"src": "hda", "id": "94f70b574060c9d1", "uuid": "ba88e709-5a51-43e1-b653-a65f901202f2"}, "__new_primary_file_unique.unique.pasture|0.18.unique.pasture__": {"src": "hda", "id": "9099f171c3563201", "uuid": "f6e48820-b9a6-4452-bc86-a31e6a55c681"}, "__new_primary_file_unique.unique.pasture|0.41.unique.pasture__": {"src": "hda", "id": "544cc4ca9245289d", "uuid": "4cd8cee7-bd99-43ce-b79f-09a58f6cee55"}, "__new_primary_file_unique.unique.pasture|0.14.unique.pasture__": {"src": "hda", "id": "6038958fffcae8aa", "uuid": "be2077b6-7958-4ca9-bcd2-f7a8f8e874fc"}, "__new_primary_file_unique.unique.pasture|0.12.unique.pasture__": {"src": "hda", "id": "cdf7e255cbf9ad98", "uuid": "1fdca5fb-0bb8-4b2f-9874-4960f3b23105"}, "__new_primary_file_unique.unique.pasture|0.23.unique.pasture__": {"src": "hda", "id": "50ee543b25a9233d", "uuid": "d19028de-2f78-42bb-bf30-69fe847e1718"}, "__new_primary_file_unique.unique.pasture|0.36.unique.pasture__": {"src": "hda", "id": "c5a46b89f297f5cc", "uuid": "d5d615f3-7ef5-48df-93b5-39dcc2af1e5e"}, "__new_primary_file_unique.unique.pasture|unique.unique.pasture__": {"src": "hda", "id": "7e2564a05bcc37a3", "uuid": "adbcacd7-f625-44e8-aff6-c182a725a54b"}, "__new_primary_file_unique.unique.pasture|0.29.unique.pasture__": {"src": "hda", "id": "eb329b1ce8fe2773", "uuid": "8cf75325-c1aa-4857-b009-74a8f25c8851"}, "__new_primary_file_unique.unique.pasture|0.27.unique.pasture__": {"src": "hda", "id": "011d5380a212a555", "uuid": "dda5a7f8-54ff-48df-af64-3ff6130a0023"}, "__new_primary_file_unique.unique.pasture|0.19.unique.pasture__": {"src": "hda", "id": "a77423a55da368e3", "uuid": "f1239609-5743-4c9f-9243-76c541bdb9bb"}, "__new_primary_file_unique.unique.pasture|0.26.unique.pasture__": {"src": "hda", "id": "6261490a58dd5bd4", "uuid": "baa0b45e-cb4c-4929-ad1c-ffba063ccb02"}, "__new_primary_file_unique.unique.pasture|0.15.unique.pasture__": {"src": "hda", "id": "3fe313b443859214", "uuid": "570ab633-d41d-48d8-9cf7-e771d2c3cc2f"}, "__new_primary_file_unique.unique.pasture|0.04.unique.pasture__": {"src": "hda", "id": "0f4fd06d624bc101", "uuid": "bf126e7c-1646-461b-bc1d-3d83eff9a600"}, "__new_primary_file_unique.unique.pasture|0.08.unique.pasture__": {"src": "hda", "id": "85e8ecefb7a860ea", "uuid": "17fbd0f3-46e0-488b-9961-937fea3cba44"}, "__new_primary_file_unique.unique.pasture|0.24.unique.pasture__": {"src": "hda", "id": "371b51682aba3c7b", "uuid": "302f844f-f79f-4a42-b4e7-890e4d85bd45"}, "__new_primary_file_unique.unique.pasture|0.01.unique.pasture__": {"src": "hda", "id": "efb1b99b3edb7343", "uuid": "f449d3c5-8b9e-45df-971b-0d1e6fd4e853"}, "__new_primary_file_unique.unique.pasture|0.10.unique.pasture__": {"src": "hda", "id": "06eac525c92ec5de", "uuid": "0d13a28c-8c50-4d7f-8ebe-079ef9ec2874"}, "__new_primary_file_unique.unique.pasture|0.11.unique.pasture__": {"src": "hda", "id": "85d8593222a5f623", "uuid": "a2ba2714-ae96-436e-86b7-c67e97c34670"}, "__new_primary_file_unique.unique.pasture|0.21.unique.pasture__": {"src": "hda", "id": "7e35c6c406c695d9", "uuid": "7bcb4870-2a34-4170-98df-b02bcaffa8e3"}, "__new_primary_file_unique.unique.pasture|0.33.unique.pasture__": {"src": "hda", "id": "c3a0cd9a34f8c4f4", "uuid": "1f85a875-70d0-4a38-84b6-ee7cfed4b764"}, "logfile": {"src": "hda", "id": "035475ec449588b1", "uuid": "2240c935-ca06-45ff-838f-8f41eef1319d"}, "__new_primary_file_unique.unique.pasture|0.03.unique.pasture__": {"src": "hda", "id": "f70fd0893b00e2ab", "uuid": "7cb952af-0619-4a0f-afc4-9d1eb18a232c"}, "__new_primary_file_unique.unique.pasture|0.38.unique.pasture__": {"src": "hda", "id": "491bfe2fea6003a3", "uuid": "122cae7c-aa29-4832-8ce7-3c4ebc850373"}, "__new_primary_file_unique.unique.pasture|0.05.unique.pasture__": {"src": "hda", "id": "35f0f6185017fb1f", "uuid": "d0439572-964a-48e3-8d3e-e74ee882c6c2"}, "__new_primary_file_unique.unique.pasture|0.25.unique.pasture__": {"src": "hda", "id": "d9e7f0348948aedc", "uuid": "ff32829c-1011-488f-ad52-8432f3ec5913"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sharedseqs(shared=infile_otu.dat,uniquegroups=pasture)\nunique\t48\n0.01\t46\n0.02\t43\n0.03\t42\n0.04\t39\n0.05\t35\n0.06\t30\n0.07\t28\n0.08\t23\n0.09\t23\n0.10\t22\n0.11\t19\n0.12\t17\n0.13\t16\n0.14\t13\n0.15\t12\n0.16\t11\n0.17\t10\n0.18\t9\n0.19\t8\n0.20\t7\n0.21\t7\n0.22\t6\n0.23\t6\n0.24\t4\n0.25\t3\n0.26\t2\n0.27\t2\n0.29\t2\n0.32\t1\n0.33\t1\n0.36\t1\n0.38\t1\n0.41\t1\n0.45\t0 - No otus shared by groups pasture.\n0.55\t0 - No otus shared by groups pasture.\n\nOutput File Names: \ninfile_otu.unique.unique.pasture.shared.seqs\ninfile_otu.0.01.unique.pasture.shared.seqs\ninfile_otu.0.02.unique.pasture.shared.seqs\ninfile_otu.0.03.unique.pasture.shared.seqs\ninfile_otu.0.04.unique.pasture.shared.seqs\ninfile_otu.0.05.unique.pasture.shared.seqs\ninfile_otu.0.06.unique.pasture.shared.seqs\ninfile_otu.0.07.unique.pasture.shared.seqs\ninfile_otu.0.08.unique.pasture.shared.seqs\ninfile_otu.0.09.unique.pasture.shared.seqs\ninfile_otu.0.10.unique.pasture.shared.seqs\ninfile_otu.0.11.unique.pasture.shared.seqs\ninfile_otu.0.12.unique.pasture.shared.seqs\ninfile_otu.0.13.unique.pasture.shared.seqs\ninfile_otu.0.14.unique.pasture.shared.seqs\ninfile_otu.0.15.unique.pasture.shared.seqs\ninfile_otu.0.16.unique.pasture.shared.seqs\ninfile_otu.0.17.unique.pasture.shared.seqs\ninfile_otu.0.18.unique.pasture.shared.seqs\ninfile_otu.0.19.unique.pasture.shared.seqs\ninfile_otu.0.20.unique.pasture.shared.seqs\ninfile_otu.0.21.unique.pasture.shared.seqs\ninfile_otu.0.22.unique.pasture.shared.seqs\ninfile_otu.0.23.unique.pasture.shared.seqs\ninfile_otu.0.24.unique.pasture.shared.seqs\ninfile_otu.0.25.unique.pasture.shared.seqs\ninfile_otu.0.26.unique.pasture.shared.seqs\ninfile_otu.0.27.unique.pasture.shared.seqs\ninfile_otu.0.29.unique.pasture.shared.seqs\ninfile_otu.0.32.unique.pasture.shared.seqs\ninfile_otu.0.33.unique.pasture.shared.seqs\ninfile_otu.0.36.unique.pasture.shared.seqs\ninfile_otu.0.38.unique.pasture.shared.seqs\ninfile_otu.0.41.unique.pasture.shared.seqs\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1329.dat' infile_otu.dat && echo 'get.sharedseqs( shared=infile_otu.dat ,uniquegroups=pasture )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:41:40.469435", "params": {"output": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_shared\", \"seqsfrom\": {\"selection\": \"unique\", \"groups\": \"pasture\", \"__current_case__\": 0}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1329}]}, \"__current_case__\": 0, \"label\": null}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "22093", "id": "6cc323ea174af743", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sharedseqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|intype": "in_shared", "infile|otu": {"src": "hda", "id": "b411495052c9266d"}, "output": "accnos"}, "job": {"inputs": {"otu": {"src": "hda", "id": "b411495052c9266d", "uuid": "7c6eb3c4-6f8d-4d18-9537-c10cfa1e409d"}}, "update_time": "2018-02-08T17:42:06.077218", "tool_id": "mothur_get_sharedseqs", "outputs": {"__new_primary_file_0.55.unique.forest_pasture|0.01.unique.forest_pasture__": {"src": "hda", "id": "9d500f70f1832c83", "uuid": "ac9d5a45-2acb-46d5-b1f9-5e003ed19514"}, "__new_primary_file_0.55.unique.forest_pasture|0.03.unique.forest_pasture__": {"src": "hda", "id": "c1f59ad8186b7258", "uuid": "e7996e0e-6d7b-408b-856d-41452e493a71"}, "__new_primary_file_0.55.unique.forest_pasture|0.12.unique.forest_pasture__": {"src": "hda", "id": "38ac28315a9c1e7b", "uuid": "b1741da4-5466-4887-83be-ad3bc92a2f29"}, "__new_primary_file_0.55.unique.forest_pasture|0.08.unique.forest_pasture__": {"src": "hda", "id": "48cc0123b280b7cb", "uuid": "22a4a8fe-eff7-4452-8a4e-230423b1bf66"}, "__new_primary_file_0.55.unique.forest_pasture|0.36.unique.forest_pasture__": {"src": "hda", "id": "c0a3fdb58381b5de", "uuid": "8c5f4133-31e3-4bf6-8fbc-47df79c017e0"}, "__new_primary_file_0.55.unique.forest_pasture|0.33.unique.forest_pasture__": {"src": "hda", "id": "8616db7f86b8b1fb", "uuid": "c4da094f-0bfc-4e51-a648-16d96bad383e"}, "__new_primary_file_0.55.unique.forest_pasture|0.23.unique.forest_pasture__": {"src": "hda", "id": "0426db8ff8502d52", "uuid": "3f614b76-8d01-41d3-8f0f-43d0654f09c1"}, "__new_primary_file_0.55.unique.forest_pasture|0.32.unique.forest_pasture__": {"src": "hda", "id": "df800ebdaa3024a1", "uuid": "1c15724b-6716-4d9a-8181-a56a0a8edf5d"}, "__new_primary_file_0.55.unique.forest_pasture|0.06.unique.forest_pasture__": {"src": "hda", "id": "7c8b5be6333b2d1a", "uuid": "1ef15538-f50f-4ab3-8b25-a8a105d4218e"}, "__new_primary_file_0.55.unique.forest_pasture|0.45.unique.forest_pasture__": {"src": "hda", "id": "ad0acee00d55703d", "uuid": "4dc1095b-f3a7-42bc-8062-13c9429b332f"}, "__new_primary_file_0.55.unique.forest_pasture|0.38.unique.forest_pasture__": {"src": "hda", "id": "e9a3b80d63e9de81", "uuid": "be08a878-a184-4bdf-9a94-36c570cf0c83"}, "__new_primary_file_0.55.unique.forest_pasture|0.04.unique.forest_pasture__": {"src": "hda", "id": "eb160ab98cd3f367", "uuid": "ad491664-70d2-44b4-87b0-a6c8a8a8c3ce"}, "__new_primary_file_0.55.unique.forest_pasture|0.20.unique.forest_pasture__": {"src": "hda", "id": "f41ba0754147b197", "uuid": "7ded26bf-5321-4726-958d-2e47645beb8d"}, "__new_primary_file_0.55.unique.forest_pasture|0.26.unique.forest_pasture__": {"src": "hda", "id": "354372befa8340f4", "uuid": "b4bd2385-535a-47b6-9a64-11a0d1ef2871"}, "__new_primary_file_0.55.unique.forest_pasture|0.15.unique.forest_pasture__": {"src": "hda", "id": "51ebda391f6af4df", "uuid": "74879c3a-0dd0-4396-b425-74c4f3dabde6"}, "__new_primary_file_0.55.unique.forest_pasture|0.02.unique.forest_pasture__": {"src": "hda", "id": "46d062e2f01a1ecb", "uuid": "10358e21-ef57-425f-b57a-558c9887ed3f"}, "__new_primary_file_0.55.unique.forest_pasture|0.10.unique.forest_pasture__": {"src": "hda", "id": "5f8360fb2204373b", "uuid": "5a37fb75-d0bd-46bb-9201-feab6e8dd465"}, "__new_primary_file_0.55.unique.forest_pasture|0.17.unique.forest_pasture__": {"src": "hda", "id": "7e220261cc1c0de1", "uuid": "a9f9bf84-5ffb-4fd0-a213-69fd1ef62f66"}, "__new_primary_file_0.55.unique.forest_pasture|0.29.unique.forest_pasture__": {"src": "hda", "id": "9d600998684d58e9", "uuid": "8383c705-f2ee-4916-b05a-387552913311"}, "__new_primary_file_0.55.unique.forest_pasture|0.09.unique.forest_pasture__": {"src": "hda", "id": "70c41ebe9fe356e1", "uuid": "a0b9b8e4-2ead-4664-ab22-5a26d0e10b87"}, "__new_primary_file_0.55.unique.forest_pasture|0.22.unique.forest_pasture__": {"src": "hda", "id": "32d143676e069a01", "uuid": "4f54818c-c01b-425d-b9b1-c35bfb348cba"}, "__new_primary_file_0.55.unique.forest_pasture|0.16.unique.forest_pasture__": {"src": "hda", "id": "93f6fc8df710787a", "uuid": "3387ece6-c5f5-4515-9ec5-a9af2c72187f"}, "__new_primary_file_0.55.unique.forest_pasture|0.14.unique.forest_pasture__": {"src": "hda", "id": "0cc0680429283dfc", "uuid": "5efa1f57-520b-4118-9352-c5d7eb89081c"}, "__new_primary_file_0.55.unique.forest_pasture|0.05.unique.forest_pasture__": {"src": "hda", "id": "a57ebb089e76dd90", "uuid": "f9c6e61e-1668-4453-965e-bc29da5bd541"}, "__new_primary_file_0.55.unique.forest_pasture|0.19.unique.forest_pasture__": {"src": "hda", "id": "b0b67d4068ae0475", "uuid": "37dca42d-d112-48a6-b47e-fd2935922124"}, "__new_primary_file_0.55.unique.forest_pasture|0.27.unique.forest_pasture__": {"src": "hda", "id": "1071ff2ef49f04a3", "uuid": "c22998ee-cf2d-40cd-aa75-e5eb706b811f"}, "__new_primary_file_0.55.unique.forest_pasture|0.25.unique.forest_pasture__": {"src": "hda", "id": "8c1fbe4c8d09a4f1", "uuid": "591cca04-40ce-440c-871c-a56201b4b2fe"}, "__new_primary_file_0.55.unique.forest_pasture|0.21.unique.forest_pasture__": {"src": "hda", "id": "bb747ea2094b72f9", "uuid": "ccee3ad4-dade-45eb-b50c-f1e52a66a5ba"}, "__new_primary_file_0.55.unique.forest_pasture|0.11.unique.forest_pasture__": {"src": "hda", "id": "96ad708bb449c3ab", "uuid": "14d7a1e1-dff2-4cc7-b6de-e126d0799ba7"}, "__new_primary_file_0.55.unique.forest_pasture|0.41.unique.forest_pasture__": {"src": "hda", "id": "26447d823670d91d", "uuid": "fafdd585-9a02-47f0-b77d-924961aa608f"}, "__new_primary_file_0.55.unique.forest_pasture|0.13.unique.forest_pasture__": {"src": "hda", "id": "e4017c53abb4d64e", "uuid": "3b1bb461-c82b-48b9-8244-6dbb7e580786"}, "__new_primary_file_0.55.unique.forest_pasture|0.55.unique.forest_pasture__": {"src": "hda", "id": "461a1be07c3de467", "uuid": "4205bfbb-e0f6-4c3d-a99b-010ad75aa6a7"}, "logfile": {"src": "hda", "id": "c800ba3fbc6b74ec", "uuid": "be48e703-21fe-4856-ab8f-8ca6a45c7695"}, "__new_primary_file_0.55.unique.forest_pasture|0.24.unique.forest_pasture__": {"src": "hda", "id": "d65b4a99cdfc8e57", "uuid": "60d7e552-e4e2-414d-8bc3-1a6c30e518c9"}, "__new_primary_file_0.55.unique.forest_pasture|0.07.unique.forest_pasture__": {"src": "hda", "id": "fe0fc1f57508fe50", "uuid": "9b88c871-293e-4e8f-a1e7-1487e70e943e"}, "__new_primary_file_0.55.unique.forest_pasture|0.18.unique.forest_pasture__": {"src": "hda", "id": "f74cebaa6e844ba8", "uuid": "48485671-082f-47e6-bff4-267b328a813c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sharedseqs(shared=infile_otu.dat,output=accnos)\nunique\t0 - No otus shared by groups forest pasture.\n0.01\t1\n0.02\t1\n0.03\t2\n0.04\t4\n0.05\t7\n0.06\t9\n0.07\t9\n0.08\t9\n0.09\t9\n0.10\t8\n0.11\t8\n0.12\t8\n0.13\t8\n0.14\t9\n0.15\t9\n0.16\t9\n0.17\t10\n0.18\t10\n0.19\t11\n0.20\t10\n0.21\t9\n0.22\t9\n0.23\t8\n0.24\t7\n0.25\t7\n0.26\t7\n0.27\t6\n0.29\t4\n0.32\t3\n0.33\t2\n0.36\t2\n0.38\t2\n0.41\t1\n0.45\t1\n0.55\t1\n\nOutput File Names: \ninfile_otu.0.01.unique.forest_pasture.accnos\ninfile_otu.0.02.unique.forest_pasture.accnos\ninfile_otu.0.03.unique.forest_pasture.accnos\ninfile_otu.0.04.unique.forest_pasture.accnos\ninfile_otu.0.05.unique.forest_pasture.accnos\ninfile_otu.0.06.unique.forest_pasture.accnos\ninfile_otu.0.07.unique.forest_pasture.accnos\ninfile_otu.0.08.unique.forest_pasture.accnos\ninfile_otu.0.09.unique.forest_pasture.accnos\ninfile_otu.0.10.unique.forest_pasture.accnos\ninfile_otu.0.11.unique.forest_pasture.accnos\ninfile_otu.0.12.unique.forest_pasture.accnos\ninfile_otu.0.13.unique.forest_pasture.accnos\ninfile_otu.0.14.unique.forest_pasture.accnos\ninfile_otu.0.15.unique.forest_pasture.accnos\ninfile_otu.0.16.unique.forest_pasture.accnos\ninfile_otu.0.17.unique.forest_pasture.accnos\ninfile_otu.0.18.unique.forest_pasture.accnos\ninfile_otu.0.19.unique.forest_pasture.accnos\ninfile_otu.0.20.unique.forest_pasture.accnos\ninfile_otu.0.21.unique.forest_pasture.accnos\ninfile_otu.0.22.unique.forest_pasture.accnos\ninfile_otu.0.23.unique.forest_pasture.accnos\ninfile_otu.0.24.unique.forest_pasture.accnos\ninfile_otu.0.25.unique.forest_pasture.accnos\ninfile_otu.0.26.unique.forest_pasture.accnos\ninfile_otu.0.27.unique.forest_pasture.accnos\ninfile_otu.0.29.unique.forest_pasture.accnos\ninfile_otu.0.32.unique.forest_pasture.accnos\ninfile_otu.0.33.unique.forest_pasture.accnos\ninfile_otu.0.36.unique.forest_pasture.accnos\ninfile_otu.0.38.unique.forest_pasture.accnos\ninfile_otu.0.41.unique.forest_pasture.accnos\ninfile_otu.0.45.unique.forest_pasture.accnos\ninfile_otu.0.55.unique.forest_pasture.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1365.dat' infile_otu.dat && echo 'get.sharedseqs( shared=infile_otu.dat ,output=accnos )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:42:01.270327", "params": {"output": "\"accnos\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_shared\", \"seqsfrom\": {\"selection\": \"all\", \"__current_case__\": 2}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1365}]}, \"__current_case__\": 0, \"label\": null}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "22238", "id": "af2b33d2c4a65f6c", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sharedseqs.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|intype": "in_listgroup", "infile|otu": {"src": "hda", "id": "8d91fc817c607b8e"}, "infile|fasta": {"src": "hda", "id": "a6f3a03f0bffe083"}, "infile|group": {"src": "hda", "id": "52f04961369d0fd2"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "a6f3a03f0bffe083", "uuid": "2d9a27af-6077-4f21-9097-f6a9501d960c"}, "group": {"src": "hda", "id": "52f04961369d0fd2", "uuid": "fb77b6ff-8d4f-482a-87b1-bd2181197a17"}, "otu": {"src": "hda", "id": "8d91fc817c607b8e", "uuid": "76253355-c762-48e0-a725-f01d3acd4785"}}, "update_time": "2018-02-08T17:42:37.685956", "tool_id": "mothur_get_sharedseqs", "outputs": {"__new_primary_file_0.55.unique.forest_pasture|0.01.unique.forest_pasture__": {"src": "hda", "id": "511e5219be7d6707", "uuid": "b75edb7a-a1a7-46fa-8bd9-5b6c7f94ad1f"}, "__new_primary_file_0.55.unique.forest_pasture|0.03.unique.forest_pasture__": {"src": "hda", "id": "495f4784edb27bdf", "uuid": "0c2d0402-2f9a-43f9-ba87-40b8214ae564"}, "__new_primary_file_0.55.unique.forest_pasture|0.12.unique.forest_pasture__": {"src": "hda", "id": "9591777882159fea", "uuid": "028d0537-b9ab-4a69-93fc-0c8c44a0b8bf"}, "__new_primary_file_0.55.unique.forest_pasture|0.08.unique.forest_pasture__": {"src": "hda", "id": "6a717f18c0f373ef", "uuid": "16d90ea0-5922-4de6-a4d0-c81d4db1ad43"}, "__new_primary_file_0.55.unique.forest_pasture|0.36.unique.forest_pasture__": {"src": "hda", "id": "b4da54e0b157a0e8", "uuid": "a3762dc8-b855-4b87-bdac-ea10ce2b12cd"}, "__new_primary_file_0.55.unique.forest_pasture|0.33.unique.forest_pasture__": {"src": "hda", "id": "dbe0036ded1c1b07", "uuid": "79bbcc76-86f5-4afd-9e61-57fc3a8fb811"}, "__new_primary_file_0.55.unique.forest_pasture|0.23.unique.forest_pasture__": {"src": "hda", "id": "f6c1555750ef1ba5", "uuid": "19f1c7c2-ec2f-46c7-93da-845760389a1f"}, "__new_primary_file_0.55.unique.forest_pasture|0.32.unique.forest_pasture__": {"src": "hda", "id": "8701122ca649ef0e", "uuid": "fa3abfc6-e430-459f-b80b-45f289b43b73"}, "__new_primary_file_0.55.unique.forest_pasture|0.06.unique.forest_pasture__": {"src": "hda", "id": "c1456ecfdc824977", "uuid": "16b1c6bc-df83-4831-acf1-bab966123e0c"}, "__new_primary_file_0.55.unique.forest_pasture|0.45.unique.forest_pasture__": {"src": "hda", "id": "00a57718e499b089", "uuid": "34e53b49-a4f9-4760-8212-a8a75c95d923"}, "__new_primary_file_0.55.unique.forest_pasture|0.38.unique.forest_pasture__": {"src": "hda", "id": "bbd0b9f57a884d99", "uuid": "447bac35-36b3-4950-aa8a-92281792870d"}, "__new_primary_file_0.55.unique.forest_pasture|0.04.unique.forest_pasture__": {"src": "hda", "id": "db9feb02278bde1e", "uuid": "eff3a8da-9526-4a5c-9006-a4534adc087f"}, "__new_primary_file_0.55.unique.forest_pasture|0.20.unique.forest_pasture__": {"src": "hda", "id": "a0b6b71fdb91e8d6", "uuid": "07d2fd80-4a5a-4b71-a109-418ada75f9b0"}, "__new_primary_file_0.55.unique.forest_pasture|0.26.unique.forest_pasture__": {"src": "hda", "id": "fdc43dbaf89861e9", "uuid": "d9913622-9724-4e7a-a258-71e4b51d7e74"}, "__new_primary_file_0.55.unique.forest_pasture|0.15.unique.forest_pasture__": {"src": "hda", "id": "818a1a9068d181a2", "uuid": "0e930c59-88a7-4170-9b62-baeb973ba3d2"}, "__new_primary_file_0.55.unique.forest_pasture|0.02.unique.forest_pasture__": {"src": "hda", "id": "c192547d733b6f1c", "uuid": "1e0d0127-6b96-4f83-b731-a68c42755eb2"}, "__new_primary_file_0.55.unique.forest_pasture|0.10.unique.forest_pasture__": {"src": "hda", "id": "68ce0d2a7fd661e7", "uuid": "3a586980-5f0e-4267-afcb-cdb1ff68ac90"}, "__new_primary_file_0.55.unique.forest_pasture|0.17.unique.forest_pasture__": {"src": "hda", "id": "a4f459b907c399cc", "uuid": "81125254-4e5c-4a19-b1d9-ac782b94a317"}, "__new_primary_file_0.55.unique.forest_pasture|0.29.unique.forest_pasture__": {"src": "hda", "id": "19ae04e79b51d442", "uuid": "8bf52cda-02f4-4749-b29f-a3487c96dc6b"}, "__new_primary_file_0.55.unique.forest_pasture|0.09.unique.forest_pasture__": {"src": "hda", "id": "5d27d481e44c798e", "uuid": "3f7e8f14-2bf7-4ecc-92bb-38830620303a"}, "__new_primary_file_0.55.unique.forest_pasture|0.22.unique.forest_pasture__": {"src": "hda", "id": "dea178949647e385", "uuid": "c2bb8d24-ef0e-4f4d-b41c-9ec355fb161c"}, "__new_primary_file_0.55.unique.forest_pasture|0.16.unique.forest_pasture__": {"src": "hda", "id": "60abf49d2417a732", "uuid": "5ab2df46-7bf9-48cd-9f2a-8235c07b4ece"}, "__new_primary_file_0.55.unique.forest_pasture|0.14.unique.forest_pasture__": {"src": "hda", "id": "df7b712664e24f20", "uuid": "57cdb709-5dc3-4c57-9f22-724485952ec1"}, "__new_primary_file_0.55.unique.forest_pasture|0.05.unique.forest_pasture__": {"src": "hda", "id": "d4dc7f05ea35c530", "uuid": "511277c8-c696-4c57-9596-32ff3df816a5"}, "__new_primary_file_0.55.unique.forest_pasture|0.19.unique.forest_pasture__": {"src": "hda", "id": "600dc09e02076335", "uuid": "0d6d7fc0-6d50-40ff-a8e1-0a416fe81103"}, "__new_primary_file_0.55.unique.forest_pasture|0.27.unique.forest_pasture__": {"src": "hda", "id": "eec4effe5fe2e4fa", "uuid": "cc5bf893-19a5-4af9-a3b1-4d5be8a84477"}, "__new_primary_file_0.55.unique.forest_pasture|0.25.unique.forest_pasture__": {"src": "hda", "id": "694ae81ce1930e68", "uuid": "b5e2809c-a837-4e87-b2f7-0a3f5068ac37"}, "__new_primary_file_0.55.unique.forest_pasture|0.21.unique.forest_pasture__": {"src": "hda", "id": "7106c2d6deef3cfa", "uuid": "c3816365-54f1-46f7-b523-60785a851f05"}, "__new_primary_file_0.55.unique.forest_pasture|0.11.unique.forest_pasture__": {"src": "hda", "id": "37d3583ea310e337", "uuid": "2df63967-e61b-4b07-bb20-49fa9aa30f17"}, "__new_primary_file_0.55.unique.forest_pasture|0.41.unique.forest_pasture__": {"src": "hda", "id": "eafabd3a383ab29e", "uuid": "63045926-44cb-495f-b9fb-f5a3e2851045"}, "__new_primary_file_0.55.unique.forest_pasture|0.13.unique.forest_pasture__": {"src": "hda", "id": "48b1ebf5a933ed38", "uuid": "90e6083a-29ca-49e2-b0c2-b0df7d244195"}, "__new_primary_file_0.55.unique.forest_pasture|0.55.unique.forest_pasture__": {"src": "hda", "id": "cca6a764eaebccae", "uuid": "c04f97c4-be79-4d23-8380-e93ffe77f2a1"}, "logfile": {"src": "hda", "id": "739c965d51d75f3b", "uuid": "7863b87c-b2fe-429e-920d-4a3da20c400b"}, "__new_primary_file_0.55.unique.forest_pasture|0.24.unique.forest_pasture__": {"src": "hda", "id": "d759666b93a781e8", "uuid": "1ac20ea6-2a85-40e0-a743-1046218a57e4"}, "__new_primary_file_0.55.unique.forest_pasture|0.07.unique.forest_pasture__": {"src": "hda", "id": "e6e0520fd65a4854", "uuid": "d18d49ee-df35-44b8-be0e-d19c51c750e8"}, "__new_primary_file_0.55.unique.forest_pasture|0.18.unique.forest_pasture__": {"src": "hda", "id": "e3d16ba9dbc1647b", "uuid": "6f753123-ea6c-4c27-8326-f26036a39360"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > get.sharedseqs(list=infile_otu.dat,group=infile.group.dat,fasta=infile_ \rfasta.dat)\nunique\t0 - No otus shared by groups forest pasture.\n0.01\t1\n0.02\t1\n0.03\t2\n0.04\t4\n0.05\t7\n0.06\t9\n0.07\t9\n0.08\t9\n0.09\t9\n0.10\t8\n0.11\t8\n0.12\t8\n0.13\t8\n0.14\t9\n0.15\t9\n0.16\t9\n0.17\t10\n0.18\t10\n0.19\t11\n0.20\t10\n0.21\t9\n0.22\t9\n0.23\t8\n0.24\t7\n0.25\t7\n0.26\t7\n0.27\t6\n0.29\t4\n0.32\t3\n0.33\t2\n0.36\t2\n0.38\t2\n0.41\t1\n0.45\t1\n0.55\t1\n\nOutput File Names: \ninfile_otu.0.01.unique.forest_pasture.shared.seqs\ninfile_fasta.0.01.unique.forest_pasture.shared.fasta\ninfile_otu.0.02.unique.forest_pasture.shared.seqs\ninfile_fasta.0.02.unique.forest_pasture.shared.fasta\ninfile_otu.0.03.unique.forest_pasture.shared.seqs\ninfile_fasta.0.03.unique.forest_pasture.shared.fasta\ninfile_otu.0.04.unique.forest_pasture.shared.seqs\ninfile_fasta.0.04.unique.forest_pasture.shared.fasta\ninfile_otu.0.05.unique.forest_pasture.shared.seqs\ninfile_fasta.0.05.unique.forest_pasture.shared.fasta\ninfile_otu.0.06.unique.forest_pasture.shared.seqs\ninfile_fasta.0.06.unique.forest_pasture.shared.fasta\ninfile_otu.0.07.unique.forest_pasture.shared.seqs\ninfile_fasta.0.07.unique.forest_pasture.shared.fasta\ninfile_otu.0.08.unique.forest_pasture.shared.seqs\ninfile_fasta.0.08.unique.forest_pasture.shared.fasta\ninfile_otu.0.09.unique.forest_pasture.shared.seqs\ninfile_fasta.0.09.unique.forest_pasture.shared.fasta\ninfile_otu.0.10.unique.forest_pasture.shared.seqs\ninfile_fasta.0.10.unique.forest_pasture.shared.fasta\ninfile_otu.0.11.unique.forest_pasture.shared.seqs\ninfile_fasta.0.11.unique.forest_pasture.shared.fasta\ninfile_otu.0.12.unique.forest_pasture.shared.seqs\ninfile_fasta.0.12.unique.forest_pasture.shared.fasta\ninfile_otu.0.13.unique.forest_pasture.shared.seqs\ninfile_fasta.0.13.unique.forest_pasture.shared.fasta\ninfile_otu.0.14.unique.forest_pasture.shared.seqs\ninfile_fasta.0.14.unique.forest_pasture.shared.fasta\ninfile_otu.0.15.unique.forest_pasture.shared.seqs\ninfile_fasta.0.15.unique.forest_pasture.shared.fasta\ninfile_otu.0.16.unique.forest_pasture.shared.seqs\ninfile_fasta.0.16.unique.forest_pasture.shared.fasta\ninfile_otu.0.17.unique.forest_pasture.shared.seqs\ninfile_fasta.0.17.unique.forest_pasture.shared.fasta\ninfile_otu.0.18.unique.forest_pasture.shared.seqs\ninfile_fasta.0.18.unique.forest_pasture.shared.fasta\ninfile_otu.0.19.unique.forest_pasture.shared.seqs\ninfile_fasta.0.19.unique.forest_pasture.shared.fasta\ninfile_otu.0.20.unique.forest_pasture.shared.seqs\ninfile_fasta.0.20.unique.forest_pasture.shared.fasta\ninfile_otu.0.21.unique.forest_pasture.shared.seqs\ninfile_fasta.0.21.unique.forest_pasture.shared.fasta\ninfile_otu.0.22.unique.forest_pasture.shared.seqs\ninfile_fasta.0.22.unique.forest_pasture.shared.fasta\ninfile_otu.0.23.unique.forest_pasture.shared.seqs\ninfile_fasta.0.23.unique.forest_pasture.shared.fasta\ninfile_otu.0.24.unique.forest_pasture.shared.seqs\ninfile_fasta.0.24.unique.forest_pasture.shared.fasta\ninfile_otu.0.25.unique.forest_pasture.shared.seqs\ninfile_fasta.0.25.unique.forest_pasture.shared.fasta\ninfile_otu.0.26.unique.forest_pasture.shared.seqs\ninfile_fasta.0.26.unique.forest_pasture.shared.fasta\ninfile_otu.0.27.unique.forest_pasture.shared.seqs\ninfile_fasta.0.27.unique.forest_pasture.shared.fasta\ninfile_otu.0.29.unique.forest_pasture.shared.seqs\ninfile_fasta.0.29.unique.forest_pasture.shared.fasta\ninfile_otu.0.32.unique.forest_pasture.shared.seqs\ninfile_fasta.0.32.unique.forest_pasture.shared.fasta\ninfile_otu.0.33.unique.forest_pasture.shared.seqs\ninfile_fasta.0.33.unique.forest_pasture.shared.fasta\ninfile_otu.0.36.unique.forest_pasture.shared.seqs\ninfile_fasta.0.36.unique.forest_pasture.shared.fasta\ninfile_otu.0.38.unique.forest_pasture.shared.seqs\ninfile_fasta.0.38.unique.forest_pasture.shared.fasta\ninfile_otu.0.41.unique.forest_pasture.shared.seqs\ninfile_fasta.0.41.unique.forest_pasture.shared.fasta\ninfile_otu.0.45.unique.forest_pasture.shared.seqs\ninfile_fasta.0.45.unique.forest_pasture.shared.fasta\ninfile_otu.0.55.unique.forest_pasture.shared.seqs\ninfile_fasta.0.55.unique.forest_pasture.shared.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1402.dat' infile_otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1403.dat' infile.group.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1404.dat' infile_fasta.dat && ln -s 'None' count_in.dat && echo 'get.sharedseqs( list=infile_otu.dat ,group=infile.group.dat ,fasta=infile_fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:42:29.966838", "params": {"output": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"group\": {\"values\": [{\"src\": \"hda\", \"id\": 1403}]}, \"intype\": \"in_listgroup\", \"seqsfrom\": {\"selection\": \"all\", \"__current_case__\": 2}, \"count_in\": null, \"label\": null, \"__current_case__\": 1, \"fasta\": {\"values\": [{\"src\": \"hda\", \"id\": 1404}]}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1402}]}}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "22500", "id": "721a73f13e9921b7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_get_sharedseqs.test_tool_000005", "has_data": true}, {"data": {"status": "success", "inputs": {"input|has_groups": "no", "input|otu": {"src": "hda", "id": "5aa4434a5de39ae3"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "5aa4434a5de39ae3", "uuid": "3fad1be5-92c7-499a-ad97-4df17029bb79"}}, "update_time": "2018-02-08T17:43:07.439864", "tool_id": "mothur_heatmap_bin", "outputs": {"__new_primary_file_unique.heatmap|0.12.heatmap__": {"src": "hda", "id": "3736958d98c85038", "uuid": "a4133262-f568-437b-ae4f-0da9fcdc8592"}, "__new_primary_file_unique.heatmap|0.16.heatmap__": {"src": "hda", "id": "1d7e16e67c25e161", "uuid": "fdd59c4f-5407-4ed2-8d14-3e1fac5c483a"}, "__new_primary_file_unique.heatmap|0.19.heatmap__": {"src": "hda", "id": "8d3b08d9b3af5f9c", "uuid": "0936eae7-66f4-4c4d-9b32-6a9ecc1ceb1b"}, "__new_primary_file_unique.heatmap|0.17.heatmap__": {"src": "hda", "id": "470eb1f9703ec6ce", "uuid": "ed2b8799-1815-42b9-996e-a99acc109c9a"}, "__new_primary_file_unique.heatmap|0.15.heatmap__": {"src": "hda", "id": "f122c84b34480f3c", "uuid": "5b37b1a5-8639-4277-a8d7-e41cef4802b5"}, "__new_primary_file_unique.heatmap|0.04.heatmap__": {"src": "hda", "id": "191aad2a235a14a2", "uuid": "1955e26c-38f5-4edb-9875-4bf51ee8342c"}, "__new_primary_file_unique.heatmap|0.38.heatmap__": {"src": "hda", "id": "628d782395597178", "uuid": "cfa9705a-42a7-49f9-a6b8-eeda2fbf9a7d"}, "__new_primary_file_unique.heatmap|0.08.heatmap__": {"src": "hda", "id": "366694fb7dd8b44f", "uuid": "b38393d5-0012-44bf-87e5-0aa6e0ebe15d"}, "__new_primary_file_unique.heatmap|unique.heatmap__": {"src": "hda", "id": "8c18965d948ad2eb", "uuid": "60e0ce24-ffa5-4839-a210-6b1bf86df3f0"}, "__new_primary_file_unique.heatmap|0.03.heatmap__": {"src": "hda", "id": "df6c40d10f33a9c4", "uuid": "2479c797-9034-4618-aa53-3c362bfb967b"}, "__new_primary_file_unique.heatmap|0.05.heatmap__": {"src": "hda", "id": "fa1197388b314251", "uuid": "d249805c-a8b5-4ad7-94e5-6a31ed6955d9"}, "__new_primary_file_unique.heatmap|0.33.heatmap__": {"src": "hda", "id": "567a86d1273a635a", "uuid": "49e3f568-909e-4cde-843e-76d6e45160eb"}, "__new_primary_file_unique.heatmap|0.55.heatmap__": {"src": "hda", "id": "3dcdd65bc248798d", "uuid": "aa8e807a-e12a-4d81-ad9b-44d357fdf341"}, "__new_primary_file_unique.heatmap|0.25.heatmap__": {"src": "hda", "id": "80a31c7cff5bc197", "uuid": "6a95e2a7-00ad-4cca-85fa-7b81c163a913"}, "__new_primary_file_unique.heatmap|0.18.heatmap__": {"src": "hda", "id": "e2e89d7da5281839", "uuid": "d1514716-4259-4a64-b1dd-5c25fafd4840"}, "__new_primary_file_unique.heatmap|0.09.heatmap__": {"src": "hda", "id": "2daeae546a05fdec", "uuid": "062f23d1-8d05-42f6-80b3-814a5becc446"}, "__new_primary_file_unique.heatmap|0.22.heatmap__": {"src": "hda", "id": "b9010d0fbfd5e1f7", "uuid": "0eb1d487-49d3-4765-aede-99028c87eb25"}, "__new_primary_file_unique.heatmap|0.45.heatmap__": {"src": "hda", "id": "0ff6ef528fac88f3", "uuid": "19750f5c-20b0-4b56-8c88-233ed11b9cb0"}, "__new_primary_file_unique.heatmap|0.29.heatmap__": {"src": "hda", "id": "8b81c0162ce5557e", "uuid": "05a40fec-e894-49da-9985-93ef305650dd"}, "__new_primary_file_unique.heatmap|0.06.heatmap__": {"src": "hda", "id": "349e07445c4e628f", "uuid": "de68102a-f9cc-444d-91a9-01493c828eb8"}, "__new_primary_file_unique.heatmap|0.23.heatmap__": {"src": "hda", "id": "bdd6007a61f34fac", "uuid": "7596babd-1026-4a65-ba1a-686ee58ee90c"}, "__new_primary_file_unique.heatmap|0.01.heatmap__": {"src": "hda", "id": "43f1006025db5fee", "uuid": "e30e539b-e9a3-4679-b312-b8a7d9cbf0ac"}, "__new_primary_file_unique.heatmap|0.20.heatmap__": {"src": "hda", "id": "b47c5be399df737a", "uuid": "889338cc-898b-4c1b-9b56-7f4b8e8dfe4c"}, "__new_primary_file_unique.heatmap|0.41.heatmap__": {"src": "hda", "id": "fdeb460c0475206a", "uuid": "0175d58e-1ff2-4bc5-bd9a-43ffde415d18"}, "__new_primary_file_unique.heatmap|0.02.heatmap__": {"src": "hda", "id": "dd82c12810a978c9", "uuid": "0162abb7-41c1-4785-9bf5-a460d3c66373"}, "__new_primary_file_unique.heatmap|0.13.heatmap__": {"src": "hda", "id": "012f7b1e3f7879e3", "uuid": "16ce423b-1008-4ec2-91ac-f045cb5a5abd"}, "__new_primary_file_unique.heatmap|0.24.heatmap__": {"src": "hda", "id": "51e1e30118f27d1d", "uuid": "aa7d5d3a-c8e7-4637-9506-f5dc4713625d"}, "__new_primary_file_unique.heatmap|0.26.heatmap__": {"src": "hda", "id": "46d5d629e90b7c88", "uuid": "c4d18a20-3db4-4990-b571-659cb5f67d2b"}, "__new_primary_file_unique.heatmap|0.07.heatmap__": {"src": "hda", "id": "91a333426dbcec14", "uuid": "db8c22f8-2c63-45f5-bcf5-e8666607e632"}, "logfile": {"src": "hda", "id": "ef02fd8e80dbdfd0", "uuid": "aa179a93-b92f-4b4b-9123-4e1e6ab34654"}, "__new_primary_file_unique.heatmap|0.36.heatmap__": {"src": "hda", "id": "54e503415a2c0682", "uuid": "d217e5c4-2c11-4de9-ac5e-3cf61b04e274"}, "__new_primary_file_unique.heatmap|0.21.heatmap__": {"src": "hda", "id": "4900c210ae216634", "uuid": "84df347a-bca2-47af-8a5c-8dda81faf549"}, "__new_primary_file_unique.heatmap|0.27.heatmap__": {"src": "hda", "id": "896ea37ce7a39150", "uuid": "53367c7d-546e-4f64-b0d8-d45f2cea1880"}, "__new_primary_file_unique.heatmap|0.32.heatmap__": {"src": "hda", "id": "cf000b2b198e45cc", "uuid": "f69d2d62-be86-42bf-9de8-5485a3fa524d"}, "__new_primary_file_unique.heatmap|0.10.heatmap__": {"src": "hda", "id": "4ab6b94dd0ff726f", "uuid": "b5e27a95-bea7-4c09-972c-0df95a595e53"}, "__new_primary_file_unique.heatmap|0.11.heatmap__": {"src": "hda", "id": "c2eb533b1a115fca", "uuid": "09275784-5714-4597-9aac-4a47deffee64"}, "__new_primary_file_unique.heatmap|0.14.heatmap__": {"src": "hda", "id": "f991b410e4f25497", "uuid": "6cf90f48-02ed-4ec4-aa8f-2ecb520549c0"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > heatmap.bin(list=input_otu.dat,scale=log10,sorted=shared,numotu=0,fonts \rize=24)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.unique.heatmap.bin.svg\ninput_otu.0.01.heatmap.bin.svg\ninput_otu.0.02.heatmap.bin.svg\ninput_otu.0.03.heatmap.bin.svg\ninput_otu.0.04.heatmap.bin.svg\ninput_otu.0.05.heatmap.bin.svg\ninput_otu.0.06.heatmap.bin.svg\ninput_otu.0.07.heatmap.bin.svg\ninput_otu.0.08.heatmap.bin.svg\ninput_otu.0.09.heatmap.bin.svg\ninput_otu.0.10.heatmap.bin.svg\ninput_otu.0.11.heatmap.bin.svg\ninput_otu.0.12.heatmap.bin.svg\ninput_otu.0.13.heatmap.bin.svg\ninput_otu.0.14.heatmap.bin.svg\ninput_otu.0.15.heatmap.bin.svg\ninput_otu.0.16.heatmap.bin.svg\ninput_otu.0.17.heatmap.bin.svg\ninput_otu.0.18.heatmap.bin.svg\ninput_otu.0.19.heatmap.bin.svg\ninput_otu.0.20.heatmap.bin.svg\ninput_otu.0.21.heatmap.bin.svg\ninput_otu.0.22.heatmap.bin.svg\ninput_otu.0.23.heatmap.bin.svg\ninput_otu.0.24.heatmap.bin.svg\ninput_otu.0.25.heatmap.bin.svg\ninput_otu.0.26.heatmap.bin.svg\ninput_otu.0.27.heatmap.bin.svg\ninput_otu.0.29.heatmap.bin.svg\ninput_otu.0.32.heatmap.bin.svg\ninput_otu.0.33.heatmap.bin.svg\ninput_otu.0.36.heatmap.bin.svg\ninput_otu.0.38.heatmap.bin.svg\ninput_otu.0.41.heatmap.bin.svg\ninput_otu.0.45.heatmap.bin.svg\ninput_otu.0.55.heatmap.bin.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1476.dat' input_otu.dat && echo 'heatmap.bin( list=input_otu.dat, scale=log10, sorted=shared, numotu=0, fontsize=24 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:43:02.760839", "params": {"scale": "\"log10\"", "numotu": "\"0\"", "dbkey": "\"hg17\"", "fontsize": "\"24\"", "input": "{\"label\": null, \"has_groups\": \"no\", \"__current_case__\": 0, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1476}]}}", "sorted": "\"shared\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "22663", "id": "943b175492f370d8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_heatmap_bin.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|label": "0.26", "input|has_groups": "yes", "input|groups": "forest", "input|otu": {"src": "hda", "id": "1d330b92b21a7ce0"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "1d330b92b21a7ce0", "uuid": "69cae532-4ced-4046-9a3b-44ccc865523d"}}, "update_time": "2018-02-08T17:43:21.076293", "tool_id": "mothur_heatmap_bin", "outputs": {"__new_primary_file_0.26.heatmap|0.26.heatmap__": {"src": "hda", "id": "f381faf65e5272fe", "uuid": "52ee9e76-a05d-4262-a98c-53120394753d"}, "logfile": {"src": "hda", "id": "f2f802538148d8ec", "uuid": "cafa5f29-4a43-4d35-8911-c2515cd598bc"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > heatmap.bin(relabund=input_otu.dat,groups=forest,label=0.26,scale=log10 \r,sorted=shared,numotu=0,fontsize=24)\n0.26\n\nOutput File Names: \ninput_otu.0.26.heatmap.bin.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1514.dat' input_otu.dat && echo 'heatmap.bin( relabund=input_otu.dat, groups=forest, label=0.26, scale=log10, sorted=shared, numotu=0, fontsize=24 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:43:17.969781", "params": {"scale": "\"log10\"", "numotu": "\"0\"", "dbkey": "\"hg17\"", "fontsize": "\"24\"", "input": "{\"groups\": \"forest\", \"label\": \"0.26\", \"has_groups\": \"yes\", \"__current_case__\": 1, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1514}]}}", "sorted": "\"shared\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "22755", "id": "4b36d8f744e89cdc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_heatmap_bin.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"scale": "linear", "input|groups": ["forest", "pasture"], "input|label": ["0.03", "0.26", "0.55"], "input|otu": {"src": "hda", "id": "838bdf0d25da8928"}, "fontsize": "100", "input|has_groups": "yes", "sorted": "none"}, "job": {"inputs": {"otu": {"src": "hda", "id": "838bdf0d25da8928", "uuid": "a08df5d6-0bf7-453b-9dcd-797fff213c07"}}, "update_time": "2018-02-08T17:43:33.535279", "tool_id": "mothur_heatmap_bin", "outputs": {"__new_primary_file_0.55.heatmap|0.03.heatmap__": {"src": "hda", "id": "b56e6f3aa0b63b69", "uuid": "cc96fe1f-0c4d-4359-8aea-36af82e05f9d"}, "__new_primary_file_0.55.heatmap|0.55.heatmap__": {"src": "hda", "id": "b3785c43e2c86bb3", "uuid": "0f68e509-eec7-4eb9-94b3-8ba0fca3f4be"}, "logfile": {"src": "hda", "id": "662c759ed032ed85", "uuid": "75d94a1d-5eb2-4ac0-8a8b-9c392002d639"}, "__new_primary_file_0.55.heatmap|0.26.heatmap__": {"src": "hda", "id": "50241e2b025a0fb6", "uuid": "cc33ffac-52bc-4567-a598-9fe45db09331"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > heatmap.bin(shared=input_otu.dat,groups=forest-pasture,label=0.03-0.26- \r0.55,scale=linear,sorted=none,numotu=0,fontsize=100)\n0.03\n0.26\n0.55\n\nOutput File Names: \ninput_otu.0.03.heatmap.bin.svg\ninput_otu.0.26.heatmap.bin.svg\ninput_otu.0.55.heatmap.bin.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1517.dat' input_otu.dat && echo 'heatmap.bin( shared=input_otu.dat, groups=forest-pasture, label=0.03-0.26-0.55, scale=linear, sorted=none, numotu=0, fontsize=100 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:43:30.569021", "params": {"scale": "\"linear\"", "numotu": "\"0\"", "dbkey": "\"hg17\"", "fontsize": "\"100\"", "input": "{\"groups\": [\"forest\", \"pasture\"], \"label\": [\"0.03\", \"0.26\", \"0.55\"], \"has_groups\": \"yes\", \"__current_case__\": 1, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1517}]}}", "sorted": "\"none\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "22841", "id": "07fd1c8ec8f13176", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_heatmap_bin.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"input|dist": {"src": "hda", "id": "5580169e77bda3db"}, "input|source": "phylip"}, "job": {"inputs": {"dist": {"src": "hda", "id": "5580169e77bda3db", "uuid": "d08e5ac9-6b04-43ac-b405-96b8cb95a1c6"}}, "update_time": "2018-02-08T17:43:45.725058", "tool_id": "mothur_heatmap_sim", "outputs": {"logfile": {"src": "hda", "id": "464746096d792407", "uuid": "bf43794a-d69f-457a-9fbc-23a419950c7c"}, "heatmap": {"src": "hda", "id": "22a2b448f3100bc3", "uuid": "dba5e528-d34f-43f6-baf2-cf6b0b10961e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > heatmap.sim(phylip=input_dist.dat,fontsize=24)\n\nOutput File Names: \ninput_dist.heatmap.sim.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1522.dat' input_dist.dat && echo 'heatmap.sim( phylip=input_dist.dat, fontsize=24 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:43:42.621871", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "fontsize": "\"24\"", "dbkey": "\"hg17\"", "input": "{\"source\": \"phylip\", \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 1522}]}, \"__current_case__\": 2}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "22927", "id": "4b964545b41f57a8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_heatmap_sim.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|source": "shared", "input|otu": {"src": "hda", "id": "4265beaf3ba354f1"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "4265beaf3ba354f1", "uuid": "93279366-4f83-443c-bc00-9fb96b1d2d0e"}}, "update_time": "2018-02-08T17:44:01.685558", "tool_id": "mothur_heatmap_sim", "outputs": {"__new_primary_file_unique.thetayc.heatmap|0.15.thetayc.heatmap__": {"src": "hda", "id": "c4e4a5d9dc8d1120", "uuid": "a0adbef2-2d66-4920-9ce3-b64125941108"}, "__new_primary_file_unique.thetayc.heatmap|0.29.jest.heatmap__": {"src": "hda", "id": "180af9b3f848a9ac", "uuid": "28b31770-b932-4ba5-8759-2b02de62ddcc"}, "__new_primary_file_unique.thetayc.heatmap|0.04.thetayc.heatmap__": {"src": "hda", "id": "3586bb570babf8de", "uuid": "08bda45a-d895-4ed9-b2e3-f90932781ce8"}, "__new_primary_file_unique.thetayc.heatmap|0.18.jest.heatmap__": {"src": "hda", "id": "d3c7d1db6565c99f", "uuid": "98069c1b-96d6-4058-9e74-3f9bd14f375c"}, "__new_primary_file_unique.thetayc.heatmap|0.07.jest.heatmap__": {"src": "hda", "id": "51b118316409238c", "uuid": "2e5000b6-043f-4423-9843-c82800ca0689"}, "__new_primary_file_unique.thetayc.heatmap|0.04.jest.heatmap__": {"src": "hda", "id": "ce40f08a4c5ff084", "uuid": "1ba3d221-c019-4df6-a23d-d0e3f2d94911"}, "__new_primary_file_unique.thetayc.heatmap|0.02.jest.heatmap__": {"src": "hda", "id": "f6c11e10c580447f", "uuid": "186c5c11-8575-4bfa-88cc-91ea9233b3fb"}, "__new_primary_file_unique.thetayc.heatmap|0.01.thetayc.heatmap__": {"src": "hda", "id": "2661a717f546e3b3", "uuid": "6d4d2020-863d-40a0-9901-d66a043f8e03"}, "__new_primary_file_unique.thetayc.heatmap|0.22.thetayc.heatmap__": {"src": "hda", "id": "0f7d4a72d773ba0a", "uuid": "d652fc0c-36a6-4be2-b003-28cd245b0267"}, "__new_primary_file_unique.thetayc.heatmap|0.13.thetayc.heatmap__": {"src": "hda", "id": "fe71c2db0b5692f4", "uuid": "e9fab26d-083a-4e40-9b6f-d107e995b550"}, "__new_primary_file_unique.thetayc.heatmap|0.10.thetayc.heatmap__": {"src": "hda", "id": "97aa1ffb9ac3f2c4", "uuid": "e8f8906c-2aa3-44bc-b025-b31d0bbf7931"}, "__new_primary_file_unique.thetayc.heatmap|0.41.jest.heatmap__": {"src": "hda", "id": "6a9f6d6282ff7ad7", "uuid": "e88dcba9-34bf-47d1-a188-90c9780d5cf9"}, "__new_primary_file_unique.thetayc.heatmap|0.14.thetayc.heatmap__": {"src": "hda", "id": "30c58e9b8cdb761b", "uuid": "6ca1d288-f99b-4882-985f-3a1379038cd6"}, "__new_primary_file_unique.thetayc.heatmap|0.06.jest.heatmap__": {"src": "hda", "id": "e1f6e4d686a02e1c", "uuid": "ade3c8ad-37ec-4a19-a9bc-104c80843136"}, "__new_primary_file_unique.thetayc.heatmap|0.18.thetayc.heatmap__": {"src": "hda", "id": "f182b72ce68dba3b", "uuid": "621a6dc9-2f6c-4e7b-820a-bca58c7d0c44"}, "__new_primary_file_unique.thetayc.heatmap|0.16.jest.heatmap__": {"src": "hda", "id": "7f3108983743f974", "uuid": "5eb1910e-dc13-43e4-abe7-8efbf333aa66"}, "__new_primary_file_unique.thetayc.heatmap|0.02.thetayc.heatmap__": {"src": "hda", "id": "c1399bdeb7bb0b96", "uuid": "c1c8dc2a-b21e-4ef6-a1d1-4c62e1b866ba"}, "__new_primary_file_unique.thetayc.heatmap|0.36.thetayc.heatmap__": {"src": "hda", "id": "b17dd69ce4a6c92a", "uuid": "9c460567-673b-434e-a1b0-9274d7c9b0c6"}, "__new_primary_file_unique.thetayc.heatmap|0.03.jest.heatmap__": {"src": "hda", "id": "6f5f88291fc630a4", "uuid": "36dc39a0-9e0c-42d2-928b-d1e5e877589b"}, "__new_primary_file_unique.thetayc.heatmap|0.11.thetayc.heatmap__": {"src": "hda", "id": "075a45415949b3d9", "uuid": "bda362ec-af8d-49a8-bbec-1c50741f87fb"}, "__new_primary_file_unique.thetayc.heatmap|0.08.thetayc.heatmap__": {"src": "hda", "id": "3cafc91c25a578c3", "uuid": "9de9492a-332d-4c86-869e-a9079dd1be4a"}, "__new_primary_file_unique.thetayc.heatmap|0.24.thetayc.heatmap__": {"src": "hda", "id": "d905a52c86490aa9", "uuid": "5bf0e476-bd75-4b22-a3dd-c54ed31b8201"}, "__new_primary_file_unique.thetayc.heatmap|unique.jest.heatmap__": {"src": "hda", "id": "ecd1c6753e7f1590", "uuid": "75a2f6d5-53b9-45c8-ada4-f0854dfe978e"}, "__new_primary_file_unique.thetayc.heatmap|0.10.jest.heatmap__": {"src": "hda", "id": "abf9c4ff55d20272", "uuid": "9a29811f-871b-46da-ac69-70ddf6c31821"}, "__new_primary_file_unique.thetayc.heatmap|0.12.jest.heatmap__": {"src": "hda", "id": "87ffab3cd82b867a", "uuid": "fe8389cf-61fc-45e6-89f8-4b73e9bc94b3"}, "__new_primary_file_unique.thetayc.heatmap|0.21.jest.heatmap__": {"src": "hda", "id": "399e6426f627a60f", "uuid": "2b4d2b38-7fad-498f-bc78-b503eb6e6ee7"}, "__new_primary_file_unique.thetayc.heatmap|0.38.jest.heatmap__": {"src": "hda", "id": "a0417eda233d5437", "uuid": "6e3123a5-3b48-4adc-b7b4-0f35656af1d4"}, "__new_primary_file_unique.thetayc.heatmap|0.05.thetayc.heatmap__": {"src": "hda", "id": "627ee27a222faba6", "uuid": "31938492-969e-488d-b50f-7048c7370452"}, "__new_primary_file_unique.thetayc.heatmap|0.22.jest.heatmap__": {"src": "hda", "id": "d375c65bcca8b11f", "uuid": "6a623a0a-11ad-42a4-a970-41d30b77fe26"}, "__new_primary_file_unique.thetayc.heatmap|0.06.thetayc.heatmap__": {"src": "hda", "id": "d81ddba20ea6fdac", "uuid": "a0bfcc9d-62c3-43ac-8696-5f24235a3cd9"}, "__new_primary_file_unique.thetayc.heatmap|0.19.jest.heatmap__": {"src": "hda", "id": "ec382dfe788d855e", "uuid": "4a60e320-dfd2-4310-b73a-4b3784579401"}, "__new_primary_file_unique.thetayc.heatmap|0.26.jest.heatmap__": {"src": "hda", "id": "d2d6386808d42c08", "uuid": "e9e104f7-2fa5-4368-9437-876c31907b8c"}, "__new_primary_file_unique.thetayc.heatmap|0.26.thetayc.heatmap__": {"src": "hda", "id": "94434804054a7019", "uuid": "5cd804c7-9cd4-4ea7-9102-d79a93f3fa99"}, "__new_primary_file_unique.thetayc.heatmap|0.16.thetayc.heatmap__": {"src": "hda", "id": "531de3de626c47cb", "uuid": "aa82c292-e3ac-46f9-8275-f9a86ddfa97f"}, "__new_primary_file_unique.thetayc.heatmap|0.20.thetayc.heatmap__": {"src": "hda", "id": "36e7f5a8534de34e", "uuid": "7fafbb3e-40d8-4ded-a29f-a1e64ee93a99"}, "__new_primary_file_unique.thetayc.heatmap|0.17.thetayc.heatmap__": {"src": "hda", "id": "74bf5c1117d594bb", "uuid": "9852c8b5-07f9-42fb-9cce-c63468dc8144"}, "__new_primary_file_unique.thetayc.heatmap|0.24.jest.heatmap__": {"src": "hda", "id": "eb2f44379f3a257b", "uuid": "812f3ebb-f686-4191-b3b3-f3bf85026f06"}, "__new_primary_file_unique.thetayc.heatmap|0.33.thetayc.heatmap__": {"src": "hda", "id": "319b443d728c0591", "uuid": "ef3d6bab-8234-47ef-9ec4-4a07149f80e8"}, "__new_primary_file_unique.thetayc.heatmap|unique.thetayc.heatmap__": {"src": "hda", "id": "ecfd6f2be0aff1bc", "uuid": "11f15f0e-d5e4-49c2-a781-45cc3b11407e"}, "__new_primary_file_unique.thetayc.heatmap|0.36.jest.heatmap__": {"src": "hda", "id": "d95e4d5581180ee4", "uuid": "254a54e9-6071-44f9-85be-f9f091ffd08b"}, "__new_primary_file_unique.thetayc.heatmap|0.41.thetayc.heatmap__": {"src": "hda", "id": "e12283faed70e201", "uuid": "74b61069-dccc-4a7c-8f1f-efacb88d8e97"}, "__new_primary_file_unique.thetayc.heatmap|0.14.jest.heatmap__": {"src": "hda", "id": "26a000ad4d0437be", "uuid": "d2ae8da6-5f0d-48a9-8b01-b6849b437b12"}, "__new_primary_file_unique.thetayc.heatmap|0.17.jest.heatmap__": {"src": "hda", "id": "7fabedcd5eaa31af", "uuid": "25e5a63b-b36d-42ad-a667-40b0c32a897f"}, "__new_primary_file_unique.thetayc.heatmap|0.12.thetayc.heatmap__": {"src": "hda", "id": "c7b7b54dddfe8542", "uuid": "bd5c54fa-644e-4d86-b2ea-302d6fadc74a"}, "__new_primary_file_unique.thetayc.heatmap|0.38.thetayc.heatmap__": {"src": "hda", "id": "5a08e7f7c6972b7e", "uuid": "874e879f-02e7-44b6-b60e-8fc3a22c7c2f"}, "__new_primary_file_unique.thetayc.heatmap|0.45.thetayc.heatmap__": {"src": "hda", "id": "0e13440bbe86b59c", "uuid": "c18e83fc-0fdf-4e8d-b628-eb0fb577709f"}, "__new_primary_file_unique.thetayc.heatmap|0.27.thetayc.heatmap__": {"src": "hda", "id": "c4c4d05e3337f76a", "uuid": "58604af9-6807-4fc1-ad64-9c5a73cc1be8"}, "__new_primary_file_unique.thetayc.heatmap|0.03.thetayc.heatmap__": {"src": "hda", "id": "d0a896fbe2eb1316", "uuid": "73f274be-9a72-487a-9ec1-9515984580c9"}, "__new_primary_file_unique.thetayc.heatmap|0.55.jest.heatmap__": {"src": "hda", "id": "f5c809fe32817232", "uuid": "71ee4021-3a46-44be-89c3-485f098baded"}, "__new_primary_file_unique.thetayc.heatmap|0.21.thetayc.heatmap__": {"src": "hda", "id": "b849d1f82032b54d", "uuid": "cb6ef9b7-9007-49c9-bed2-f577a0eef6ad"}, "__new_primary_file_unique.thetayc.heatmap|0.15.jest.heatmap__": {"src": "hda", "id": "6f6c68569c74f67f", "uuid": "5f1b4fe1-ab23-46fe-8080-bd09fb414b87"}, "__new_primary_file_unique.thetayc.heatmap|0.05.jest.heatmap__": {"src": "hda", "id": "229ad64670d8ad60", "uuid": "106e2022-e72e-4724-a9da-260389dbd7d8"}, "__new_primary_file_unique.thetayc.heatmap|0.23.jest.heatmap__": {"src": "hda", "id": "8faba141af95bc64", "uuid": "2c390515-c7cc-44c3-9b52-a628af36839f"}, "logfile": {"src": "hda", "id": "c29ab6099fba2aa1", "uuid": "240da7a9-44f7-4803-8e59-393ea6a33af6"}, "__new_primary_file_unique.thetayc.heatmap|0.19.thetayc.heatmap__": {"src": "hda", "id": "78b8885c8cacb5bb", "uuid": "09ec1cd6-4308-4f06-bd42-7a44624b77a7"}, "__new_primary_file_unique.thetayc.heatmap|0.29.thetayc.heatmap__": {"src": "hda", "id": "057502b1b8032dfe", "uuid": "38e93f7b-35d5-4168-b52d-3c597989b303"}, "__new_primary_file_unique.thetayc.heatmap|0.33.jest.heatmap__": {"src": "hda", "id": "7e27be0380c976f8", "uuid": "3489ff9b-0043-4a59-85e3-e369eeabf921"}, "__new_primary_file_unique.thetayc.heatmap|0.55.thetayc.heatmap__": {"src": "hda", "id": "7287d543ad977f1e", "uuid": "a5e98bc5-f7a9-46a6-8026-319d79a1fb74"}, "__new_primary_file_unique.thetayc.heatmap|0.09.jest.heatmap__": {"src": "hda", "id": "8374c09174fced28", "uuid": "da106ae4-db29-4183-940d-dbefead390ef"}, "__new_primary_file_unique.thetayc.heatmap|0.45.jest.heatmap__": {"src": "hda", "id": "ec41825bcb3c7dfe", "uuid": "fc44c5be-793d-42f1-93da-3f2896c00154"}, "__new_primary_file_unique.thetayc.heatmap|0.25.thetayc.heatmap__": {"src": "hda", "id": "f45962210a1c1b1c", "uuid": "d81d1a7e-2f35-45d3-b183-ef89b3ab9324"}, "__new_primary_file_unique.thetayc.heatmap|0.25.jest.heatmap__": {"src": "hda", "id": "6c89a539eb5e59d3", "uuid": "384b0ded-431b-47ab-a0ab-3a725ee2f9f4"}, "__new_primary_file_unique.thetayc.heatmap|0.01.jest.heatmap__": {"src": "hda", "id": "8e46a33d3b76a2b1", "uuid": "10a4cec1-dd2d-4efb-a23e-841104148bdf"}, "__new_primary_file_unique.thetayc.heatmap|0.09.thetayc.heatmap__": {"src": "hda", "id": "904e4c855c1d3c13", "uuid": "74b7344d-0914-421c-b183-c2bcfbde9595"}, "__new_primary_file_unique.thetayc.heatmap|0.32.thetayc.heatmap__": {"src": "hda", "id": "256cf1684db697f2", "uuid": "507108c1-fc03-4c9e-b50a-1c25fc53a6a8"}, "__new_primary_file_unique.thetayc.heatmap|0.08.jest.heatmap__": {"src": "hda", "id": "54383a9e773e7ce7", "uuid": "fce7e350-6d03-4bca-b12d-dc85ee273db8"}, "__new_primary_file_unique.thetayc.heatmap|0.32.jest.heatmap__": {"src": "hda", "id": "ad574be7e6b6aebd", "uuid": "088b8655-c52c-4952-9975-afe3eff2d474"}, "__new_primary_file_unique.thetayc.heatmap|0.27.jest.heatmap__": {"src": "hda", "id": "0898b95704fa8260", "uuid": "736cbf06-4db0-4135-b3ab-710884ca9b58"}, "__new_primary_file_unique.thetayc.heatmap|0.23.thetayc.heatmap__": {"src": "hda", "id": "02c68994751c0c6d", "uuid": "83a53fac-18f9-4dfa-bce8-3334153ba6c6"}, "__new_primary_file_unique.thetayc.heatmap|0.20.jest.heatmap__": {"src": "hda", "id": "fc6d8959ec51886d", "uuid": "f51dcfdb-7c93-4b3f-9268-60a1ee921c67"}, "__new_primary_file_unique.thetayc.heatmap|0.13.jest.heatmap__": {"src": "hda", "id": "310a57d95f681718", "uuid": "9c8edca0-2995-44b0-b007-b80dd1c7ad36"}, "__new_primary_file_unique.thetayc.heatmap|0.11.jest.heatmap__": {"src": "hda", "id": "9551b524a295ab47", "uuid": "6baaca63-c25b-47f2-84ec-0bc9235a0d6f"}, "__new_primary_file_unique.thetayc.heatmap|0.07.thetayc.heatmap__": {"src": "hda", "id": "5d0784c229354ea3", "uuid": "7d384e6e-a769-465a-a0be-0d79f1939c40"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > heatmap.sim(shared=input_otu.dat,calc=jest-thetayc,fontsize=24)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.unique.jest.heatmap.sim.svg\ninput_otu.unique.thetayc.heatmap.sim.svg\ninput_otu.0.01.jest.heatmap.sim.svg\ninput_otu.0.01.thetayc.heatmap.sim.svg\ninput_otu.0.02.jest.heatmap.sim.svg\ninput_otu.0.02.thetayc.heatmap.sim.svg\ninput_otu.0.03.jest.heatmap.sim.svg\ninput_otu.0.03.thetayc.heatmap.sim.svg\ninput_otu.0.04.jest.heatmap.sim.svg\ninput_otu.0.04.thetayc.heatmap.sim.svg\ninput_otu.0.05.jest.heatmap.sim.svg\ninput_otu.0.05.thetayc.heatmap.sim.svg\ninput_otu.0.06.jest.heatmap.sim.svg\ninput_otu.0.06.thetayc.heatmap.sim.svg\ninput_otu.0.07.jest.heatmap.sim.svg\ninput_otu.0.07.thetayc.heatmap.sim.svg\ninput_otu.0.08.jest.heatmap.sim.svg\ninput_otu.0.08.thetayc.heatmap.sim.svg\ninput_otu.0.09.jest.heatmap.sim.svg\ninput_otu.0.09.thetayc.heatmap.sim.svg\ninput_otu.0.10.jest.heatmap.sim.svg\ninput_otu.0.10.thetayc.heatmap.sim.svg\ninput_otu.0.11.jest.heatmap.sim.svg\ninput_otu.0.11.thetayc.heatmap.sim.svg\ninput_otu.0.12.jest.heatmap.sim.svg\ninput_otu.0.12.thetayc.heatmap.sim.svg\ninput_otu.0.13.jest.heatmap.sim.svg\ninput_otu.0.13.thetayc.heatmap.sim.svg\ninput_otu.0.14.jest.heatmap.sim.svg\ninput_otu.0.14.thetayc.heatmap.sim.svg\ninput_otu.0.15.jest.heatmap.sim.svg\ninput_otu.0.15.thetayc.heatmap.sim.svg\ninput_otu.0.16.jest.heatmap.sim.svg\ninput_otu.0.16.thetayc.heatmap.sim.svg\ninput_otu.0.17.jest.heatmap.sim.svg\ninput_otu.0.17.thetayc.heatmap.sim.svg\ninput_otu.0.18.jest.heatmap.sim.svg\ninput_otu.0.18.thetayc.heatmap.sim.svg\ninput_otu.0.19.jest.heatmap.sim.svg\ninput_otu.0.19.thetayc.heatmap.sim.svg\ninput_otu.0.20.jest.heatmap.sim.svg\ninput_otu.0.20.thetayc.heatmap.sim.svg\ninput_otu.0.21.jest.heatmap.sim.svg\ninput_otu.0.21.thetayc.heatmap.sim.svg\ninput_otu.0.22.jest.heatmap.sim.svg\ninput_otu.0.22.thetayc.heatmap.sim.svg\ninput_otu.0.23.jest.heatmap.sim.svg\ninput_otu.0.23.thetayc.heatmap.sim.svg\ninput_otu.0.24.jest.heatmap.sim.svg\ninput_otu.0.24.thetayc.heatmap.sim.svg\ninput_otu.0.25.jest.heatmap.sim.svg\ninput_otu.0.25.thetayc.heatmap.sim.svg\ninput_otu.0.26.jest.heatmap.sim.svg\ninput_otu.0.26.thetayc.heatmap.sim.svg\ninput_otu.0.27.jest.heatmap.sim.svg\ninput_otu.0.27.thetayc.heatmap.sim.svg\ninput_otu.0.29.jest.heatmap.sim.svg\ninput_otu.0.29.thetayc.heatmap.sim.svg\ninput_otu.0.32.jest.heatmap.sim.svg\ninput_otu.0.32.thetayc.heatmap.sim.svg\ninput_otu.0.33.jest.heatmap.sim.svg\ninput_otu.0.33.thetayc.heatmap.sim.svg\ninput_otu.0.36.jest.heatmap.sim.svg\ninput_otu.0.36.thetayc.heatmap.sim.svg\ninput_otu.0.38.jest.heatmap.sim.svg\ninput_otu.0.38.thetayc.heatmap.sim.svg\ninput_otu.0.41.jest.heatmap.sim.svg\ninput_otu.0.41.thetayc.heatmap.sim.svg\ninput_otu.0.45.jest.heatmap.sim.svg\ninput_otu.0.45.thetayc.heatmap.sim.svg\ninput_otu.0.55.jest.heatmap.sim.svg\ninput_otu.0.55.thetayc.heatmap.sim.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1525.dat' input_otu.dat && echo 'heatmap.sim( shared=input_otu.dat, calc=jest-thetayc, fontsize=24 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:43:55.214842", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "fontsize": "\"24\"", "dbkey": "\"hg17\"", "input": "{\"__current_case__\": 0, \"label\": null, \"source\": \"shared\", \"groups\": null, \"calc\": [\"jest\", \"thetayc\"], \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1525}]}}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23014", "id": "732b43bd12cd060f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_heatmap_sim.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|label": ["0.03", "0.26", "0.55"], "input|source": "shared", "input|groups": ["forest", "pasture"], "input|calc": ["jclass", "jest", "sorclass", "sorest", "braycurtis", "jabund", "morisitahorn", "sorabund", "thetan", "thetayc"], "input|otu": {"src": "hda", "id": "0e4b67279a0941db"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "0e4b67279a0941db", "uuid": "9f549eac-d1a5-4fde-b3e9-902bf0757f61"}}, "update_time": "2018-02-08T17:44:17.923624", "tool_id": "mothur_heatmap_sim", "outputs": {"__new_primary_file_0.55.thetayc.heatmap|0.55.thetayc.heatmap__": {"src": "hda", "id": "97a1fd4764430d7d", "uuid": "126f6a6b-71ae-461c-8af1-bd714fd0f4ff"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.sorclass.heatmap__": {"src": "hda", "id": "440b08187b03ca78", "uuid": "2212efa2-29d8-48e5-9554-6f46f4d98ba0"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.morisitahorn.heatmap__": {"src": "hda", "id": "f7a22a56bf98efba", "uuid": "5f04e2bd-1506-469f-a5c8-b9a78e689794"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.jclass.heatmap__": {"src": "hda", "id": "fb48ee8a404d26a9", "uuid": "96252991-ed2c-4dc1-a35a-fac17f6d68c7"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.sorclass.heatmap__": {"src": "hda", "id": "6200b6b6e3e5d3c6", "uuid": "f61f9ef6-d00f-4e6c-ba5e-c0349ccbf8c3"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.jest.heatmap__": {"src": "hda", "id": "dfb5acc45c9e0393", "uuid": "32d7bbb8-b78c-4994-b5fd-f372bb4f1c54"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.jclass.heatmap__": {"src": "hda", "id": "4b0dcf789f89250e", "uuid": "c26de56e-5a88-454e-bd5f-851684f97089"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.sorabund.heatmap__": {"src": "hda", "id": "44753ae8c747323a", "uuid": "17bbbdb5-5e8a-493f-ac86-0f2a497e30d4"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.jclass.heatmap__": {"src": "hda", "id": "129ec904eaa7b025", "uuid": "e8f0c5ba-aa74-485c-8699-0643928426c4"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.sorest.heatmap__": {"src": "hda", "id": "ba44e50454176a40", "uuid": "1bd9af92-9e25-4124-9d7c-9fa25049917d"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.jest.heatmap__": {"src": "hda", "id": "3e552153c1355876", "uuid": "8ae431b0-596d-4231-8931-ef31e7a9ad93"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.thetayc.heatmap__": {"src": "hda", "id": "bf8f97fc9d2f53ad", "uuid": "78cda9a8-caff-4203-a1ef-63d0a5401087"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.braycurtis.heatmap__": {"src": "hda", "id": "52db18947e82628a", "uuid": "0dfee0e6-4d0d-4f37-b508-1adc585653c2"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.sorclass.heatmap__": {"src": "hda", "id": "6617d9e33373df14", "uuid": "a07948d5-4788-4678-ac13-cd8ada7bc7ef"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.sorabund.heatmap__": {"src": "hda", "id": "cadc96473f17a847", "uuid": "ec06c187-085e-46a5-be15-7fca21df5c1b"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.sorest.heatmap__": {"src": "hda", "id": "182f3c5e367f21ec", "uuid": "c76d1bf0-d70f-464a-90d8-ee4f478bf5d9"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.braycurtis.heatmap__": {"src": "hda", "id": "bfac8aa31a378884", "uuid": "c2d763e8-133a-466d-92eb-34c36f49daf5"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.jabund.heatmap__": {"src": "hda", "id": "be5c34656f56b1c8", "uuid": "bc8ea17e-e3fc-42f0-bc96-701c251b60d4"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.thetan.heatmap__": {"src": "hda", "id": "2c5c4a8381427e09", "uuid": "3e06e985-5947-4712-a497-833166777c18"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.morisitahorn.heatmap__": {"src": "hda", "id": "126bd5267c0c550c", "uuid": "52d36d37-f428-4e08-823f-9e7fd64a76f8"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.jabund.heatmap__": {"src": "hda", "id": "3adfe7a97cdc075a", "uuid": "2f4025aa-70f6-4987-9c60-cd38135a6eeb"}, "logfile": {"src": "hda", "id": "685dd60bfbef3aba", "uuid": "888d07e6-9a26-4129-8dcc-e6f10c65b9c1"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.jest.heatmap__": {"src": "hda", "id": "f8e11f8ada66d0f4", "uuid": "63b80517-8fd4-463a-906f-38c5fba20338"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.sorabund.heatmap__": {"src": "hda", "id": "1dc9e2614ae44c6f", "uuid": "10c8d90e-58dd-4bf2-837e-a9f3e6a08850"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.thetayc.heatmap__": {"src": "hda", "id": "9e4e9d5b1a0ea25c", "uuid": "b7db93e8-7e24-466b-a3cd-4c245586d39b"}, "__new_primary_file_0.55.thetayc.heatmap|0.55.morisitahorn.heatmap__": {"src": "hda", "id": "1223008bb03781ea", "uuid": "d9e21b06-1794-4676-8d9f-ceb098994400"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.thetan.heatmap__": {"src": "hda", "id": "a3a1edb65ca58d52", "uuid": "f90d3ab8-422e-4aa5-b443-773503c56691"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.thetan.heatmap__": {"src": "hda", "id": "3d67993e78966025", "uuid": "dc62680a-b693-4256-a475-f78fb1a093cd"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.sorest.heatmap__": {"src": "hda", "id": "4e3fce0b8fcfe562", "uuid": "d7e5d7ec-d097-4d9e-9852-04dc3bb3739a"}, "__new_primary_file_0.55.thetayc.heatmap|0.26.jabund.heatmap__": {"src": "hda", "id": "32fa0d439185428a", "uuid": "b55bd189-b583-4b1a-9325-399734daadcd"}, "__new_primary_file_0.55.thetayc.heatmap|0.03.braycurtis.heatmap__": {"src": "hda", "id": "b46a645fa458e7c7", "uuid": "f8aa1f3c-bb6f-400c-905a-1ee7ff72a4b8"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > heatmap.sim(shared=input_otu.dat,label=0.03-0.26-0.55,groups=forest-pas \rture,calc=jclass-jest-sorclass-sorest-braycurtis-jabund-morisitahorn-sorabund-th \retan-thetayc,fontsize=24)\n0.03\n0.26\n0.55\n\nOutput File Names: \ninput_otu.0.03.jclass.heatmap.sim.svg\ninput_otu.0.03.jest.heatmap.sim.svg\ninput_otu.0.03.sorclass.heatmap.sim.svg\ninput_otu.0.03.sorest.heatmap.sim.svg\ninput_otu.0.03.braycurtis.heatmap.sim.svg\ninput_otu.0.03.jabund.heatmap.sim.svg\ninput_otu.0.03.morisitahorn.heatmap.sim.svg\ninput_otu.0.03.sorabund.heatmap.sim.svg\ninput_otu.0.03.thetan.heatmap.sim.svg\ninput_otu.0.03.thetayc.heatmap.sim.svg\ninput_otu.0.26.jclass.heatmap.sim.svg\ninput_otu.0.26.jest.heatmap.sim.svg\ninput_otu.0.26.sorclass.heatmap.sim.svg\ninput_otu.0.26.sorest.heatmap.sim.svg\ninput_otu.0.26.braycurtis.heatmap.sim.svg\ninput_otu.0.26.jabund.heatmap.sim.svg\ninput_otu.0.26.morisitahorn.heatmap.sim.svg\ninput_otu.0.26.sorabund.heatmap.sim.svg\ninput_otu.0.26.thetan.heatmap.sim.svg\ninput_otu.0.26.thetayc.heatmap.sim.svg\ninput_otu.0.55.jclass.heatmap.sim.svg\ninput_otu.0.55.jest.heatmap.sim.svg\ninput_otu.0.55.sorclass.heatmap.sim.svg\ninput_otu.0.55.sorest.heatmap.sim.svg\ninput_otu.0.55.braycurtis.heatmap.sim.svg\ninput_otu.0.55.jabund.heatmap.sim.svg\ninput_otu.0.55.morisitahorn.heatmap.sim.svg\ninput_otu.0.55.sorabund.heatmap.sim.svg\ninput_otu.0.55.thetan.heatmap.sim.svg\ninput_otu.0.55.thetayc.heatmap.sim.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1599.dat' input_otu.dat && echo 'heatmap.sim( shared=input_otu.dat, label=0.03-0.26-0.55, groups=forest-pasture, calc=jclass-jest-sorclass-sorest-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc, fontsize=24 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:44:13.381299", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "fontsize": "\"24\"", "dbkey": "\"hg17\"", "input": "{\"__current_case__\": 0, \"label\": [\"0.03\", \"0.26\", \"0.55\"], \"source\": \"shared\", \"groups\": [\"forest\", \"pasture\"], \"calc\": [\"jclass\", \"jest\", \"sorclass\", \"sorest\", \"braycurtis\", \"jabund\", \"morisitahorn\", \"sorabund\", \"thetan\", \"thetayc\"], \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1599}]}}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23100", "id": "b7d5085eacaa6509", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_heatmap_sim.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"design": {"src": "hda", "id": "b75e6fd397636254"}, "dist": {"src": "hda", "id": "e781318b8db2a130"}}, "job": {"inputs": {"design": {"src": "hda", "id": "b75e6fd397636254", "uuid": "85c2ef82-3edd-4628-a8e1-83ee3078e9a2"}, "dist": {"src": "hda", "id": "e781318b8db2a130", "uuid": "6e3fccba-a0be-4020-9c3f-a1d7b22edff5"}}, "update_time": "2018-02-08T17:44:35.076991", "tool_id": "mothur_homova", "outputs": {"logfile": {"src": "hda", "id": "c27f325b0d5006b2", "uuid": "e59ee541-7405-47a1-a60c-100b5add88ed"}, "homova": {"src": "hda", "id": "05bd3a5145917735", "uuid": "90841dd8-01d4-4ef1-9c98-8705de5cc4d2"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > homova(phylip=dist.dat,design=design.dat,iters=1000,alpha=0.05)\nHOMOVA\tBValue\tP-value\tSSwithin/(Ni-1)_values\nA-B\t0.000158784\t0.983\t0.0491681\t0.0493482\nExperiment-wise error rate: 0.05\nIf you have borderline P-values, you should try increasing the number of iterations\n\nOutput File Names: \ndist.homova\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1631.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1632.dat' design.dat && echo 'homova( phylip=dist.dat, design=design.dat, iters=1000, alpha=0.05 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:44:31.897262", "params": {"iters": "\"1000\"", "alpha": "\"0.05\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "sets": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23208", "id": "7535296d23a37c60", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_homova.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"design": {"src": "hda", "id": "e3dee98f1c9649e3"}, "dist": {"src": "hda", "id": "633b54cb360cf9db"}, "sets": "A"}, "job": {"inputs": {"design": {"src": "hda", "id": "e3dee98f1c9649e3", "uuid": "908ca6b1-8c4c-4bea-a596-bdd91b839874"}, "dist": {"src": "hda", "id": "633b54cb360cf9db", "uuid": "deaecaee-ec95-4c03-b244-25f26b281919"}}, "update_time": "2018-02-08T17:44:55.739229", "tool_id": "mothur_homova", "outputs": {"logfile": {"src": "hda", "id": "c1fddc7a0d53eefd", "uuid": "e0ce6399-ff67-4c22-8cea-e623fe3b0216"}, "homova": {"src": "hda", "id": "d0a2e604f819e3c6", "uuid": "45572e52-1c5d-4123-a010-8850c8842c1f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > homova(phylip=dist.dat,design=design.dat,sets=A,iters=1000,alpha=0.05)\nHOMOVA\tBValue\tP-value\tSSwithin/(Ni-1)_values\nA\t-nan\t<0.001*\t0.0491681\nExperiment-wise error rate: 0.05\nIf you have borderline P-values, you should try increasing the number of iterations\n\nOutput File Names: \ndist.homova\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1635.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1636.dat' design.dat && echo 'homova( phylip=dist.dat, design=design.dat, sets=A, iters=1000, alpha=0.05 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:44:52.539310", "params": {"iters": "\"1000\"", "alpha": "\"0.05\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "sets": "\"A\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23326", "id": "957dec9f2200cbe4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_homova.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"withdesign|design": {"src": "hda", "id": "130add1cdbd710d8"}, "withdesign|groups": ["tardis", "dalek"], "withdesign|havedesign": "yes", "otu": {"src": "hda", "id": "71da8dd0f551f579"}, "label": "0.03"}, "job": {"inputs": {"design": {"src": "hda", "id": "130add1cdbd710d8", "uuid": "15911e5f-c171-4f42-9061-2f65d9e9a6e9"}, "otu": {"src": "hda", "id": "71da8dd0f551f579", "uuid": "4b9303dd-3e4b-4e6c-bf6d-33a8c6c28a87"}}, "update_time": "2018-02-08T17:45:16.789870", "tool_id": "mothur_indicator", "outputs": {"logfile": {"src": "hda", "id": "d3ae0c1d73470c9e", "uuid": "adfe74af-d747-4106-b553-74dfadcd5ede"}, "tree_out": {"src": "hda", "id": "b9f3ee2dd66df0a7", "uuid": "61fd6af0-ad22-457c-a4f2-00514ead459f"}, "summary": {"src": "hda", "id": "b84330ef16365123", "uuid": "747d571a-41a4-4dd5-b004-e17b52e62210"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > indicator(shared=otu.dat,label=0.03,groups=tardis-dalek,design=withdesi \rgn.design.dat,processors=1)\n\nUsing 1 processors.\n\nSpecies\tIndicator_Groups\tIndicatorValue\tpValue\n\n\nIt took 0 secs to find the indicator species.\n\nOutput File Names: \notu.indicator.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1639.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1640.dat' withdesign.design.dat && echo 'indicator( shared=otu.dat, label=0.03, groups=tardis-dalek, design=withdesign.design.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:45:13.218298", "params": {"withdesign": "{\"design\": {\"values\": [{\"src\": \"hda\", \"id\": 1640}]}, \"havedesign\": \"yes\", \"tree\": null, \"groups\": [\"tardis\", \"dalek\"], \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "\"0.03\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23436", "id": "c809b2abaed97358", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_indicator.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"withdesign|design": {"src": "hda", "id": "4d319bb7f31107cc"}, "withdesign|groups": "tardis", "otu": {"src": "hda", "id": "f291c23df814c8b2"}, "withdesign|havedesign": "yes"}, "job": {"inputs": {"design": {"src": "hda", "id": "4d319bb7f31107cc", "uuid": "f27eeb67-8afe-41c7-9c05-b619f5699688"}, "otu": {"src": "hda", "id": "f291c23df814c8b2", "uuid": "4b43aa5e-f1ee-497c-b108-5893d1f1a355"}}, "update_time": "2018-02-08T17:45:34.981694", "tool_id": "mothur_indicator", "outputs": {"logfile": {"src": "hda", "id": "0922d58fdca8782c", "uuid": "17ecbb2f-8aa3-4c45-9ee4-3148e749c893"}, "tree_out": {"src": "hda", "id": "358ee0efc1019ede", "uuid": "138af667-fb25-48f8-9b46-c4fe6b8c111c"}, "summary": {"src": "hda", "id": "b2b3ae4f6b3403ef", "uuid": "60c99c02-357b-44aa-98a6-e84288ae1b33"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > indicator(shared=otu.dat,groups=tardis,design=withdesign.design.dat,pro \rcessors=1)\nYou did not provide a label, I will use the first label in your inputfile.\n\nUsing 1 processors.\n\nSpecies\tIndicator_Groups\tIndicatorValue\tpValue\n\n\nIt took 0 secs to find the indicator species.\n\nOutput File Names: \notu.indicator.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1644.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1645.dat' withdesign.design.dat && echo 'indicator( shared=otu.dat, groups=tardis, design=withdesign.design.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:45:31.778529", "params": {"withdesign": "{\"design\": {\"values\": [{\"src\": \"hda\", \"id\": 1645}]}, \"havedesign\": \"yes\", \"tree\": null, \"groups\": \"tardis\", \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23575", "id": "63f8201b30d2cadd", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_indicator.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"withdesign|tree": {"src": "hda", "id": "cf368cb6bca06f2e"}, "withdesign|groups": ["forest", "pasture"], "otu": {"src": "hda", "id": "34863713120b282b"}, "withdesign|havedesign": "no"}, "job": {"inputs": {"tree": {"src": "hda", "id": "cf368cb6bca06f2e", "uuid": "fb91c6ca-5179-40d5-942b-9c0c41f565fe"}, "otu": {"src": "hda", "id": "34863713120b282b", "uuid": "a64db36f-188c-4ce3-aba8-b472e74488c1"}}, "update_time": "2018-02-08T17:45:51.764425", "tool_id": "mothur_indicator", "outputs": {"logfile": {"src": "hda", "id": "f90ecd13a46a1b7b", "uuid": "7c6a2d9d-ff55-4330-a2f1-353f525891a6"}, "tree_out": {"src": "hda", "id": "a7092c007b7a86a3", "uuid": "a828a14e-a4a1-4644-997f-34b2cd26c085"}, "summary": {"src": "hda", "id": "463c07f914921351", "uuid": "aed53623-3451-4cf4-8bdd-10ee5d8cc381"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > indicator(tree=withdesign.tree.dat,shared=otu.dat,groups=forest-pasture \r,processors=1)\nYou did not provide a label, I will use the first label in your inputfile.\n\nUsing 1 processors.\n\nNode\tSpecies\tIndicator_Groups\tIndicatorValue\tpValue\n\n\nIt took 0 secs to find the indicator species.\n\nOutput File Names: \notu.indicator.summary\nwithdesign.tree.indicator.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1649.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1650.dat' withdesign.tree.dat && echo 'indicator( tree=withdesign.tree.dat, shared=otu.dat, groups=forest-pasture, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:45:48.263076", "params": {"withdesign": "{\"havedesign\": \"no\", \"tree\": {\"values\": [{\"src\": \"hda\", \"id\": 1650}]}, \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23689", "id": "9c8aa3de76c5f0c4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_indicator.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"withdesign|tree": {"src": "hda", "id": "07756f5d8c72ca12"}, "withdesign|groups": "forest", "otu": {"src": "hda", "id": "52ebed6720d1663f"}, "withdesign|havedesign": "no"}, "job": {"inputs": {"tree": {"src": "hda", "id": "07756f5d8c72ca12", "uuid": "42c5f9ab-da25-4bd9-a714-f936b4738249"}, "otu": {"src": "hda", "id": "52ebed6720d1663f", "uuid": "77cd1cf9-2422-43c7-9e19-0030139b8dd6"}}, "update_time": "2018-02-08T17:46:10.011812", "tool_id": "mothur_indicator", "outputs": {"logfile": {"src": "hda", "id": "d5612dcbb5ce0366", "uuid": "fdb6bfce-1f1e-4b99-946a-998aa250c4eb"}, "tree_out": {"src": "hda", "id": "bf85d0c93ded3f21", "uuid": "4235f8b7-f464-457a-8eb2-54a0c6560517"}, "summary": {"src": "hda", "id": "84981bc5aab6e32e", "uuid": "604c93ea-ba6b-4c62-b777-8c1fbbd52fc7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > indicator(tree=withdesign.tree.dat,shared=otu.dat,groups=forest,process \rors=1)\nYou did not provide a label, I will use the first label in your inputfile.\n\nUsing 1 processors.\n\nNode\tSpecies\tIndicator_Groups\tIndicatorValue\tpValue\n\n\nIt took 0 secs to find the indicator species.\n\nOutput File Names: \notu.indicator.summary\nwithdesign.tree.indicator.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1654.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1655.dat' withdesign.tree.dat && echo 'indicator( tree=withdesign.tree.dat, shared=otu.dat, groups=forest, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:46:06.809366", "params": {"withdesign": "{\"havedesign\": \"no\", \"tree\": {\"values\": [{\"src\": \"hda\", \"id\": 1655}]}, \"groups\": \"forest\", \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23799", "id": "3529226cbbc41f8d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_indicator.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"design": {"src": "hda", "id": "4c8788abad1b338d"}, "otu": {"src": "hda", "id": "ea73bab1c36fe6e9"}}, "job": {"inputs": {"design": {"src": "hda", "id": "4c8788abad1b338d", "uuid": "76ccc0a4-267f-42e0-8370-c8833609cf74"}, "otu": {"src": "hda", "id": "ea73bab1c36fe6e9", "uuid": "3ae7682f-ce62-4425-b388-004af01134e7"}}, "update_time": "2018-02-08T17:46:26.299101", "tool_id": "mothur_lefse", "outputs": {"logfile": {"src": "hda", "id": "db96ea5535812b22", "uuid": "c2965e21-4799-42a6-aca3-7a0095ede7cc"}, "summary": {"src": "hda", "id": "a62d77069d50a785", "uuid": "f4d010af-638e-4311-8a51-e32990abbb71"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > lefse(shared=shared.dat,design=design.dat,aalpha=0.05,walpha=0.05,lda=2 \r.0,iters=30,fboots=0.67,strict=0,minc=10,wilc=T,curv=F,norm=T)\n\nYou did not provide a class, using dpw.\n\n1\n\nNumber of significantly discriminative features: 0 ( 0 ) before internal wilcoxon.\nNo features with significant differences between the classes.\n\nOutput File Names: \nshared.1.lefse_summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1659.dat' shared.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1660.dat' design.dat && echo 'lefse( shared=shared.dat, design=design.dat, aalpha=0.05, walpha=0.05, lda=2.0, iters=30, fboots=0.67, strict=0, minc=10, wilc=T, curv=F, norm=T )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:46:23.249880", "params": {"curv": "\"false\"", "aalpha": "\"0.05\"", "lda": "\"2.0\"", "sclass": "\"\"", "iters": "\"30\"", "minc": "\"10\"", "dbkey": "\"hg17\"", "label": "null", "strict": "\"0\"", "fboots": "\"0.67\"", "walpha": "\"0.05\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "class": "\"\"", "norm": "\"true\"", "wilc": "\"true\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "23913", "id": "c397987c596ee46a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_lefse.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"design": {"src": "hda", "id": "f2cb52eef4673733"}, "class": "dpw", "otu": {"src": "hda", "id": "e6bcd3f9b805457c"}, "label": "1"}, "job": {"inputs": {"design": {"src": "hda", "id": "f2cb52eef4673733", "uuid": "ce83be1e-e3f2-4832-9354-072e95c02005"}, "otu": {"src": "hda", "id": "e6bcd3f9b805457c", "uuid": "4a9e038b-4c1d-43ed-b0dc-956d4100cc25"}}, "update_time": "2018-02-08T17:46:47.849034", "tool_id": "mothur_lefse", "outputs": {"logfile": {"src": "hda", "id": "41697c66808448c5", "uuid": "0823ce30-2352-4a24-b35b-46a5ed46bc1e"}, "summary": {"src": "hda", "id": "cc3d3fc6d6226aa1", "uuid": "e66dff78-5bd6-43bb-b0ab-e1a54d06b08a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > lefse(shared=shared.dat,design=design.dat,class=dpw,label=1,aalpha=0.05 \r,walpha=0.05,lda=2.0,iters=30,fboots=0.67,strict=0,minc=10,wilc=T,curv=F,norm=T) \r\u001b[A\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[K)\n1\n\nNumber of significantly discriminative features: 0 ( 0 ) before internal wilcoxon.\nNo features with significant differences between the classes.\n\nOutput File Names: \nshared.1.lefse_summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1663.dat' shared.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1664.dat' design.dat && echo 'lefse( shared=shared.dat, design=design.dat, class=dpw, label=1, aalpha=0.05, walpha=0.05, lda=2.0, iters=30, fboots=0.67, strict=0, minc=10, wilc=T, curv=F, norm=T )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:46:44.723129", "params": {"curv": "\"false\"", "aalpha": "\"0.05\"", "lda": "\"2.0\"", "sclass": "\"\"", "iters": "\"30\"", "minc": "\"10\"", "dbkey": "\"hg17\"", "label": "\"1\"", "strict": "\"0\"", "fboots": "\"0.67\"", "walpha": "\"0.05\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "class": "\"dpw\"", "norm": "\"true\"", "wilc": "\"true\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24029", "id": "f5edea7d52e42cd6", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_lefse.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "0af819d9e24eaa3e"}, "dist": {"src": "hda", "id": "09113d1870481726"}}, "job": {"inputs": {"dist": {"src": "hda", "id": "09113d1870481726", "uuid": "5e9fd652-9864-48b9-a417-84a2afbcc375"}, "group": {"src": "hda", "id": "0af819d9e24eaa3e", "uuid": "2b23b0a7-96d9-4071-8c1a-a0d7c8e928ef"}}, "update_time": "2018-02-08T17:47:08.945526", "tool_id": "mothur_libshuff", "outputs": {"logfile": {"src": "hda", "id": "9a1d171d0e8eec98", "uuid": "28c0ee7e-69ee-48db-bda5-a8027c01c303"}, "coverage": {"src": "hda", "id": "cb463262cf10668c", "uuid": "91c4a6f2-c515-46c9-8348-65e34bc4d41f"}, "summary": {"src": "hda", "id": "ef6796f5d6fc008a", "uuid": "916bb2ff-845b-497b-a28e-9dfc1b69a58a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > libshuff(phylip=dist.dat,group=group.dat,sim=false,iters=10000)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n********************#****#****#****#****#****#****#****#****#****#****#\nforest-pasture ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nComparison \tdCXYScore\tSignificance\n\nforest-pasture \t0.00500262\t0.0098\n\npasture-forest \t0.00289600\t0.0625\n\n\nOutput File Names: \ndist.libshuff.summary\ndist.libshuff.coverage\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1667.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1668.dat' group.dat && echo 'libshuff( phylip=dist.dat, group=group.dat, sim=false, iters=10000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:47:05.439444", "params": {"form": "{\"form2\": \"integral\", \"__current_case__\": 0}", "iters": "\"10000\"", "dbkey": "\"hg17\"", "groups": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "sim": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24148", "id": "e6b222c9649e44d2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_libshuff.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"form|form2": "discrete", "dist": {"src": "hda", "id": "1c7735ec1b73fbb8"}, "groups": ["forest", "pasture"], "group": {"src": "hda", "id": "1616a3130c86f35d"}, "form|cutoff": "0.25", "form|step": "0.25"}, "job": {"inputs": {"dist": {"src": "hda", "id": "1c7735ec1b73fbb8", "uuid": "46fd625d-9858-41ff-bdfa-5bc20ff40823"}, "group": {"src": "hda", "id": "1616a3130c86f35d", "uuid": "fbf06a31-6643-4fc8-bf56-ed4bd0ca8e3e"}}, "update_time": "2018-02-08T17:47:27.398142", "tool_id": "mothur_libshuff", "outputs": {"logfile": {"src": "hda", "id": "af6859f1d0663d97", "uuid": "1f3ac1e6-70fd-450e-8bf0-0513298e6b9d"}, "coverage": {"src": "hda", "id": "79fc5e356a32badd", "uuid": "0f4f377a-5ab6-471e-9623-c7bf16bab1cf"}, "summary": {"src": "hda", "id": "3161fe67334a087c", "uuid": "99b3061a-4061-46a7-935b-6151908ee0ad"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > libshuff(phylip=dist.dat,group=group.dat,groups=forest-pasture,sim=fals \re,step=0.25,cutoff=0.25,iters=10000)\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n********************#****#****#****#****#****#****#****#****#****#****#\nforest-pasture ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nComparison \tdCXYScore\tSignificance\n\nforest-pasture \t0.00500262\t0.0086\n\npasture-forest \t0.00289600\t0.0615\n\n\nOutput File Names: \ndist.libshuff.summary\ndist.libshuff.coverage\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1672.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1673.dat' group.dat && echo 'libshuff( phylip=dist.dat, group=group.dat, groups=forest-pasture, sim=false, step=0.25, cutoff=0.25, iters=10000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:47:23.914400", "params": {"form": "{\"form2\": \"discrete\", \"step\": \"0.25\", \"__current_case__\": 1, \"cutoff\": \"0.25\"}", "iters": "\"10000\"", "dbkey": "\"hg17\"", "groups": "[\"forest\", \"pasture\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "sim": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24259", "id": "6eb09fe0ca80e9ad", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_libshuff.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "03515b901bb7065c"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "03515b901bb7065c", "uuid": "7d8f0902-b27b-482b-b7b2-68062efece02"}}, "update_time": "2018-02-08T17:47:44.898090", "tool_id": "mothur_list_otulabels", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "1d124e18e52f63d6", "uuid": "43571c49-d01e-49dd-b357-784a688b67b7"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "e4eea0d00dd11fc1", "uuid": "3bc47209-507b-4bef-a09e-2a470838ddf3"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "0f127131f3eb2bfd", "uuid": "f479223f-8830-4086-adec-517a1bbe14cf"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "e98378c72dd331ce", "uuid": "c303d2bf-1895-46f0-aa12-a075667eacd8"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "102e4f978a39c67b", "uuid": "c57020f8-a106-4414-84b1-8c90cddfe6fb"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "511779d6bc9751e8", "uuid": "b545984e-ffbb-4573-8967-34a02064b17c"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "da0dba679b1ff231", "uuid": "09097db4-4139-4801-b08f-9eaf37d6ebce"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "dfc4bdd80e844267", "uuid": "d976179c-5b00-45e2-849b-be48d3768b0f"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "29e2d6771c60c803", "uuid": "39c4051b-8b46-453e-84d7-f3bc7779c936"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "1f6c0bf0abda3a36", "uuid": "5f97d8d5-7362-4f87-b5fb-3755e0f8e3b7"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "046c583ea67d56fe", "uuid": "fc632040-56b9-47b0-8cff-625533d47792"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "6d3f04dcd4f83b40", "uuid": "dfaffc5e-216d-4867-91a6-25370405386f"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "bac292913e61351f", "uuid": "703444c0-9ba6-4550-b52b-3b20d36cd2cb"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "6c240f6767045bc7", "uuid": "7923dc0a-8dc7-4e53-aaf9-007771a94681"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "5d51f2eb28447d68", "uuid": "ff23e7fb-20d5-4922-8750-a01fe8aaa1a3"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "9efd53024480d419", "uuid": "18440ce6-14b8-4ba0-9a30-bc4897ee117f"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "5cee183d473e5065", "uuid": "fb9b3b63-f9fa-4dff-b85c-c2073fc04577"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "8ae7d654d115358b", "uuid": "0bdbe523-7a38-4898-bf1d-7b6ea5a81f9c"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "071905bbb8e343b5", "uuid": "8bddde77-2e1a-48c3-8194-396b5ab2af56"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "3e4dfa0ba4528210", "uuid": "89788c08-81a1-44d7-894f-cf9117672a38"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "207deb3ab3773d6e", "uuid": "032b2031-ad18-4990-b85a-2f7a69664241"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "4d7e2d7680b0f930", "uuid": "45702390-3a68-43d6-8611-7fa08fceab0c"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "ee5577484782be17", "uuid": "f6d7b004-22f6-4c71-973b-59a4b9d42703"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "9f1be559dcee58e4", "uuid": "338d2719-bd3a-4314-823e-fc375345a4cf"}, "logfile": {"src": "hda", "id": "eabc8b40ba5517ea", "uuid": "52bd6bf7-6519-4db6-90d9-2e94bd5cebea"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "84978e4e99593596", "uuid": "7159457d-d852-4043-a553-f6203c785eb6"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "791caff901bcced2", "uuid": "5d5663aa-90f1-4dd1-bcc3-7d75f5f1d512"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "a254ed162f2c861f", "uuid": "5449536b-602f-4cb2-b7f4-962f6ef68935"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "da52058ee935cacf", "uuid": "0510615d-706e-4a59-941a-42f81914f237"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "e42a943db0671336", "uuid": "e5f093e3-26e9-41eb-8a2f-b498242c876f"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "0f9af512d4e9c186", "uuid": "c8c56ede-3e49-41dc-a259-dafffc9cec14"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "9dd182eaaac31990", "uuid": "20386d9f-3bf1-4fb6-852f-8ff182f333df"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "566a42aa096b25c3", "uuid": "27d523b1-85da-4fc9-afa6-1dbbe5aec3f7"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "98d05f669e70824c", "uuid": "107b9482-ee08-47a5-83f0-4f1dc6429926"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "5d7f51f61764264a", "uuid": "9f25bddf-d98f-4a32-84c9-49bd1cb35377"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "94c8505ae27068a3", "uuid": "6d194638-4392-4ff1-a076-62bd7235a064"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "fdb3c5bd15bc0651", "uuid": "780b8b1b-3593-4a03-acf9-b0b75bd52b24"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > list.otulabels(list=otu.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.otulabels\notu.0.01.otulabels\notu.0.02.otulabels\notu.0.03.otulabels\notu.0.04.otulabels\notu.0.05.otulabels\notu.0.06.otulabels\notu.0.07.otulabels\notu.0.08.otulabels\notu.0.09.otulabels\notu.0.10.otulabels\notu.0.11.otulabels\notu.0.12.otulabels\notu.0.13.otulabels\notu.0.14.otulabels\notu.0.15.otulabels\notu.0.16.otulabels\notu.0.17.otulabels\notu.0.18.otulabels\notu.0.19.otulabels\notu.0.20.otulabels\notu.0.21.otulabels\notu.0.22.otulabels\notu.0.23.otulabels\notu.0.24.otulabels\notu.0.25.otulabels\notu.0.26.otulabels\notu.0.27.otulabels\notu.0.29.otulabels\notu.0.32.otulabels\notu.0.33.otulabels\notu.0.36.otulabels\notu.0.38.otulabels\notu.0.41.otulabels\notu.0.45.otulabels\notu.0.55.otulabels\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1677.dat' otu.dat && echo 'list.otulabels( list=otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:47:40.035318", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groups": "null", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24355", "id": "09dbeac489d85549", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_list_otulabels.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "7ce5ee5ae5d96148"}, "groups": "forest"}, "job": {"inputs": {"otu": {"src": "hda", "id": "7ce5ee5ae5d96148", "uuid": "629a26cb-120d-42bb-a917-3507c7a35418"}}, "update_time": "2018-02-08T17:48:11.584139", "tool_id": "mothur_list_otulabels", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "c77fbb66c7668cd4", "uuid": "e3a05278-a424-4f20-b031-29fa9a7fa9f8"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "717b2cf20a54ded4", "uuid": "4b2b6afc-25c4-4653-a862-79631562fb61"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "d2ce13293faca460", "uuid": "b6e06792-d467-48c8-b40b-51b038ab70ad"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "f0912769592a4e8c", "uuid": "e545aa5a-7692-42fb-b8d9-61ea22fe33a1"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "f0fe4746ca4a5cb1", "uuid": "dae9e7f3-2427-4449-90b8-17276da76712"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "5828ffd76b6255d8", "uuid": "3a2848ec-f49a-49a7-bdea-50917937318c"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "13115f036dcfbd13", "uuid": "eddceaf9-34d4-4a66-b453-ad1e42fb8dc1"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "e10a735ff6c491f5", "uuid": "2d058ae9-31bd-49b6-94ac-77b47d0246ee"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "09e374ba6c9df1b6", "uuid": "f90bc0fb-0b7e-44cf-b816-a72b1ed30834"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "aa1c99020c7a5496", "uuid": "746158e2-fa91-4263-8728-7bfbce770538"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "2ce508ad7dc7ffe8", "uuid": "2f412f03-52b6-4026-9667-a25b2be652be"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "96df058c67bf3756", "uuid": "b6f88151-19b5-441e-b4a4-29ba406a55de"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "1e1097535bca43f6", "uuid": "096f9562-7a76-42d3-ba5b-1d8004fbe29a"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "d9c53c113024c2ff", "uuid": "95f38409-54a2-458d-9c73-637d017ce72f"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "ae08f308b8be372c", "uuid": "644ef164-ef54-4991-b6e3-c14bf7306b09"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "b6c238a14dcfd0b8", "uuid": "33420052-8afa-4719-ac1c-c1821c4f9bf4"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "306338cd3056de25", "uuid": "3e5974d8-4c08-4504-b4b7-4b42af41f9a0"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "0ceb1b0e1e46c312", "uuid": "5a36fae3-2fa1-46f0-917f-76de86e29a70"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "330f23492086f076", "uuid": "b22bb044-989b-495e-be17-366d614a309a"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "861415528bc25cb7", "uuid": "f6afa0f8-20e6-4d0a-9a1c-1ae169842bfc"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "938c47791fccd58a", "uuid": "d4f17b45-c40e-4a6c-94f8-b631ec5d925c"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "035ac92f40b8d8a9", "uuid": "0b125a96-5b32-4501-b360-b982ce27236e"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "2ba6ff9c01b5db74", "uuid": "b4acf26a-f6b5-40c6-b960-ecec9fe811b6"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "79c26bac844e1a03", "uuid": "637026ef-b3ed-4e17-b0f9-8ca825ee950d"}, "logfile": {"src": "hda", "id": "2df65164c2a87bdc", "uuid": "56e7ab14-244b-4ee0-b40e-6215c9c539fa"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "aa19462bf237ee74", "uuid": "cad5634f-3445-42ec-bb8f-ee3141eb3459"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "bd16ccfcb6f28f4b", "uuid": "2a3390f4-a79b-40e4-a074-06c1b585f817"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "8cada7d471147894", "uuid": "f0021787-d9ed-44fc-aeb7-e5ca738fa31f"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "4618478724b1d128", "uuid": "35b26fef-9160-4e42-bffc-7a9a2c2acd41"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "00a9b8f80d5c35db", "uuid": "9ff0b0f4-e24b-4a5b-a9ef-3c99aaa43615"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "e699037a579b0cad", "uuid": "298b1cee-f6b6-42fb-b5bd-bbb7b4057061"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "0f4cd4de4fddb960", "uuid": "ba0f8840-ec46-40dd-9346-2daf3d11a964"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "be56adfd92e0d058", "uuid": "f63c2a9e-b301-45a4-8689-b0dfe4216641"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "4502c5e78b18d95e", "uuid": "1b2321ce-5b3f-4ec2-aee6-5463412c94a3"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "710278472322a44f", "uuid": "57996085-931a-4897-87e3-a3ba1dc7a451"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "6a9e5657586fa330", "uuid": "218dd813-729e-4edb-a210-9efd78a05d10"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "5f438a17e0a96676", "uuid": "9c0a9e33-9cbd-4a88-8105-46a2d7a26145"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > list.otulabels(shared=otu.dat,groups=forest)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.otulabels\notu.0.01.otulabels\notu.0.02.otulabels\notu.0.03.otulabels\notu.0.04.otulabels\notu.0.05.otulabels\notu.0.06.otulabels\notu.0.07.otulabels\notu.0.08.otulabels\notu.0.09.otulabels\notu.0.10.otulabels\notu.0.11.otulabels\notu.0.12.otulabels\notu.0.13.otulabels\notu.0.14.otulabels\notu.0.15.otulabels\notu.0.16.otulabels\notu.0.17.otulabels\notu.0.18.otulabels\notu.0.19.otulabels\notu.0.20.otulabels\notu.0.21.otulabels\notu.0.22.otulabels\notu.0.23.otulabels\notu.0.24.otulabels\notu.0.25.otulabels\notu.0.26.otulabels\notu.0.27.otulabels\notu.0.29.otulabels\notu.0.32.otulabels\notu.0.33.otulabels\notu.0.36.otulabels\notu.0.38.otulabels\notu.0.41.otulabels\notu.0.45.otulabels\notu.0.55.otulabels\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1715.dat' otu.dat && echo 'list.otulabels( shared=otu.dat ,groups=forest )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:48:06.700381", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groups": "\"forest\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24441", "id": "3a07e8fa101f66c3", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_list_otulabels.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"search|input": {"src": "hda", "id": "bddc530082ef8a20"}, "search|intype": "fasta"}, "job": {"inputs": {"input": {"src": "hda", "id": "bddc530082ef8a20", "uuid": "949ae96f-0362-4b67-92e8-be705e219275"}}, "update_time": "2018-02-08T17:48:30.417744", "tool_id": "mothur_list_seqs", "outputs": {"logfile": {"src": "hda", "id": "37b4fa647e89d65b", "uuid": "363b76a4-71ba-472d-b2af-a9993410eb84"}, "accnos": {"src": "hda", "id": "cc03cfa56ce85621", "uuid": "853392dc-4c63-478b-85cc-5f4a20fc9f9a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > list.seqs(fasta=search.input.dat)\n\nOutput File Names: \nsearch.input.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1753.dat' search.input.dat && echo 'list.seqs( fasta=search.input.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:48:27.251930", "params": {"search": "{\"input\": {\"values\": [{\"src\": \"hda\", \"id\": 1753}]}, \"intype\": \"fasta\", \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24527", "id": "a8b7bad9a0464ba9", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_list_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"search|input": {"src": "hda", "id": "8fd9b8ef17ae00b1"}, "search|intype": "count"}, "job": {"inputs": {"input": {"src": "hda", "id": "8fd9b8ef17ae00b1", "uuid": "71a0a345-5ef4-451a-81d5-830ab3ad315c"}}, "update_time": "2018-02-08T17:48:47.846109", "tool_id": "mothur_list_seqs", "outputs": {"logfile": {"src": "hda", "id": "14a780cce250e27d", "uuid": "d3f0444f-4f52-44ad-ad38-44a9bca04a96"}, "accnos": {"src": "hda", "id": "812d58a31cb0e2dc", "uuid": "048efb02-e858-49f5-959c-8a122946fa2f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > list.seqs(count=search.input.dat)\n\nOutput File Names: \nsearch.input.accnos\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1756.dat' search.input.dat && echo 'list.seqs( count=search.input.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:48:44.763422", "params": {"search": "{\"input\": {\"values\": [{\"src\": \"hda\", \"id\": 1756}]}, \"intype\": \"count\", \"__current_case__\": 7}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24617", "id": "7b32cfe10869d24e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_list_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "bfae85c1836289e5"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "bfae85c1836289e5", "uuid": "0f8f79f6-42d3-4908-9e5e-9fa7368630da"}}, "update_time": "2018-02-08T17:49:07.085680", "tool_id": "mothur_make_biom", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "0915854899960126", "uuid": "d64654a5-1a30-430a-ac1a-005c525a06b9"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "1b9599242429ea82", "uuid": "f55ce27e-c13d-493c-9d7f-c4444c538749"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "6a2c7b5090ae2641", "uuid": "2b0f00ed-c062-419e-929e-cb19c1e9cbc7"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "d8977dbfd5fe2600", "uuid": "016a6cad-0a69-4239-8e19-012adb3b3e06"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "1198cc8050ddcaae", "uuid": "6f6cae48-5375-443b-b28f-28d5ccfae448"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "4b2729dfe19d84de", "uuid": "8319c5c2-6b30-48d4-86a9-6bcfe0da2c84"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "7027bb045e039323", "uuid": "62102e99-f3ec-4cee-bde5-baa2ef469b14"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "5608a3ee5cd775a6", "uuid": "5855cbdf-9ef8-4e03-9e39-6b08f909ad14"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "fec153023f9b1d9e", "uuid": "77cb4dc6-b006-421b-a1de-07a50fc52ada"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "003c8452d769ee89", "uuid": "8fc0f9e9-8437-48e0-97a4-48819ad9d079"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "8163ea9a30f0397d", "uuid": "4661216f-bea5-40ce-ad43-7ec3be0de710"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "8f46422d2f09daf7", "uuid": "2824087a-7d29-4de4-bc5b-1e5d570c097f"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "a5a9105172fdd91a", "uuid": "c4b734f4-24d7-4db9-94d7-65c624345fb8"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "64eef14501ccd4ab", "uuid": "52662d8c-6207-41b7-b89e-efc9fb8ffd10"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "de02e3e208bf1269", "uuid": "c0b2f1ff-287f-42ff-91ac-b66d2c20b76c"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "e3f5b81c3cbfdcdf", "uuid": "4f669977-d70b-4bf9-ac7d-b151cd0519e9"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "11a4cfd609b30231", "uuid": "2a9fb9af-2e93-40c6-a070-1ddd29d71233"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "39f31be0d2a47263", "uuid": "c5860154-e79a-4168-92ad-b5cfa370c6c6"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "167e0067a671882a", "uuid": "d9b9dc3d-f24e-413d-9435-02b84aadc3b0"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "d19d640fc3be2602", "uuid": "0e8f323c-3c29-4dfb-8da4-6e5256b824b9"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "1530f791843ef8a6", "uuid": "a0444193-49e6-4494-91c9-f54559c5b2dd"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "3dc5251947e7e28a", "uuid": "77a5052b-e9d0-427d-a791-6a87225a01cc"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "eb8ff02f919a6d53", "uuid": "63062340-9cb6-428d-a49a-8279ece828a5"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "0dc27fbedcc45ffc", "uuid": "de5d6db7-b33f-485b-939e-273ff9ec3430"}, "logfile": {"src": "hda", "id": "15a27f85b655084f", "uuid": "26755b2e-9832-4f7d-acb2-9d1d847c2b51"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "e14d9e71cf2baa46", "uuid": "4c3dd9a9-86f0-4518-ba22-e93881251f9d"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "aae81213b7398bbb", "uuid": "d0a16ace-ab73-4d26-93c3-0724b3887a6d"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "8730f173539a4bd2", "uuid": "b9342ef9-4afa-4a3e-a1c5-5175e0fe0da8"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "5bd80237c4b2a4d2", "uuid": "2ae4018d-6c82-40ea-a836-e45678ec92c7"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "3e009a540553e32f", "uuid": "52b0efc8-143b-49a5-94a7-9c0e0cf686ba"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "bd8570a9749b756e", "uuid": "2629c96b-cff5-4116-8545-b1349908a6c9"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "cfc1466e3cee5ffe", "uuid": "3ad83ef3-d941-4dfe-ba65-2faebc5c943e"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "90655b23123ebb49", "uuid": "06c79f68-a6b2-486b-9256-d2a202109b22"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "4df3a051f1ec097e", "uuid": "3c9f80b5-e238-47da-87b7-e809ad9650d2"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "5ac9d236a72d89c9", "uuid": "dc1a9140-6481-4007-80d2-082030ded364"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "71ecf7184a915076", "uuid": "c8c31def-b63e-4562-97d7-b33efb01d479"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "faecacf595ac39e2", "uuid": "2afa052a-b65f-4497-8a1d-a0ac9586133e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.biom(shared=otu.dat,matrixtype=sparse)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.biom\notu.0.01.biom\notu.0.02.biom\notu.0.03.biom\notu.0.04.biom\notu.0.05.biom\notu.0.06.biom\notu.0.07.biom\notu.0.08.biom\notu.0.09.biom\notu.0.10.biom\notu.0.11.biom\notu.0.12.biom\notu.0.13.biom\notu.0.14.biom\notu.0.15.biom\notu.0.16.biom\notu.0.17.biom\notu.0.18.biom\notu.0.19.biom\notu.0.20.biom\notu.0.21.biom\notu.0.22.biom\notu.0.23.biom\notu.0.24.biom\notu.0.25.biom\notu.0.26.biom\notu.0.27.biom\notu.0.29.biom\notu.0.32.biom\notu.0.33.biom\notu.0.36.biom\notu.0.38.biom\notu.0.41.biom\notu.0.45.biom\notu.0.55.biom\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1759.dat' otu.dat && ln -s 'None' constaxonomy.dat && ln -s 'None' metadata.dat && echo 'make.biom( shared=otu.dat, matrixtype=sparse )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:49:02.186797", "params": {"matrixtype": "\"sparse\"", "picrustc": "{\"use\": \"no\", \"__current_case__\": 1}", "dbkey": "\"hg17\"", "label": "null", "groups": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "constaxonomy": "null", "metadata": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24703", "id": "3fc9b5ca07992501", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_biom.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "9f85b398b863e225"}, "groups": "forest", "label": ["0.36", "0.38", "0.41"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "9f85b398b863e225", "uuid": "60bfcab3-d3b9-44ff-aca3-32717277d27a"}}, "update_time": "2018-02-08T17:49:25.911998", "tool_id": "mothur_make_biom", "outputs": {"__new_primary_file_0.41|0.38__": {"src": "hda", "id": "6124a241728fed7b", "uuid": "b762f29a-2704-443f-b4d3-bbea479d086b"}, "logfile": {"src": "hda", "id": "101d321fbee7d3a2", "uuid": "83c2a1a4-92e5-4f94-83e5-cc2bb65c66bf"}, "__new_primary_file_0.41|0.36__": {"src": "hda", "id": "39279bb4f32c9cd5", "uuid": "0fef610e-5bb0-4a7f-90c3-a32bcb82e1cf"}, "__new_primary_file_0.41|0.41__": {"src": "hda", "id": "bcc6ea767bb5f894", "uuid": "8ad1e0bb-4ec2-4c11-8a8b-748de9043914"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.biom(shared=otu.dat,label=0.36-0.38-0.41,groups=forest,matrixtype= \rsparse)\n0.36\n0.38\n0.41\n\nOutput File Names: \notu.0.36.biom\notu.0.38.biom\notu.0.41.biom\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1797.dat' otu.dat && ln -s 'None' constaxonomy.dat && ln -s 'None' metadata.dat && echo 'make.biom( shared=otu.dat, label=0.36-0.38-0.41, groups=forest, matrixtype=sparse )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:49:22.733946", "params": {"matrixtype": "\"sparse\"", "picrustc": "{\"use\": \"no\", \"__current_case__\": 1}", "dbkey": "\"hg17\"", "label": "[\"0.36\", \"0.38\", \"0.41\"]", "groups": "\"forest\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "constaxonomy": "null", "metadata": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24791", "id": "6c12052addbdbf10", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_biom.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "45a7e4eec17b01cd"}, "constaxonomy": {"src": "hda", "id": "bf5dc6d85ce11a2a"}, "metadata": {"src": "hda", "id": "68fe6c8323c3e617"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "45a7e4eec17b01cd", "uuid": "c7c39dbf-9d32-4c75-aa2b-72d738c2356d"}, "constaxonomy": {"src": "hda", "id": "bf5dc6d85ce11a2a", "uuid": "2182557c-bb36-4e43-9f24-6026f34e8869"}, "metadata": {"src": "hda", "id": "68fe6c8323c3e617", "uuid": "b1eab905-87df-40e4-aaf2-697205e2c2ab"}}, "update_time": "2018-02-08T17:49:45.406914", "tool_id": "mothur_make_biom", "outputs": {"logfile": {"src": "hda", "id": "a54f199e2763d2d1", "uuid": "76e1e856-efb0-4095-9f38-8cb64dd2847e"}, "__new_primary_file_1|1__": {"src": "hda", "id": "7fc77adef3161147", "uuid": "56d5e4b4-b16b-44d9-9a30-7af0343c66cb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.biom(shared=otu.dat,constaxonomy=constaxonomy.dat,metadata=metadat \ra.dat,matrixtype=sparse)\n1\n\nOutput File Names: \notu.1.biom\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1802.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1803.dat' constaxonomy.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1804.dat' metadata.dat && echo 'make.biom( shared=otu.dat, constaxonomy=constaxonomy.dat, metadata=metadata.dat, matrixtype=sparse )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:49:42.311244", "params": {"matrixtype": "\"sparse\"", "picrustc": "{\"use\": \"no\", \"__current_case__\": 1}", "dbkey": "\"hg17\"", "label": "null", "groups": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "24934", "id": "3cb3ad12c0574547", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_biom.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"input_type|forward_fastq": {"src": "hda", "id": "40b793aeee43e4b6"}, "input_type|reverse_fastq": {"src": "hda", "id": "8da9ebed1ea03269"}, "input_type|type": "regular"}, "job": {"inputs": {"forward_fastq": {"src": "hda", "id": "40b793aeee43e4b6", "uuid": "d177e8df-000a-438c-866c-8da4fb15a7e8"}, "reverse_fastq": {"src": "hda", "id": "8da9ebed1ea03269", "uuid": "4183434a-6517-4bf4-8aef-45298a77e00e"}}, "update_time": "2018-02-08T17:50:06.290005", "tool_id": "mothur_make_contigs", "outputs": {"scrapqual": {"src": "hda", "id": "bb84ff5118ea4500", "uuid": "6a187a01-8e75-4077-aba6-27cf1b2efc0c"}, "scrapfasta": {"src": "hda", "id": "609fed3f705180b0", "uuid": "40ef29cd-1760-461e-837c-fb9cf9ef54fc"}, "qual": {"src": "hda", "id": "e106c55583a975c8", "uuid": "f8b1c8aa-4338-4084-9e20-156d7b490568"}, "report": {"src": "hda", "id": "9356319465a4ba53", "uuid": "1a949e57-40e4-4dfe-8baf-2eb21796226f"}, "fasta": {"src": "hda", "id": "a4b7a61fc28685f4", "uuid": "c618030d-ef87-4a9b-af99-137e62eaa53d"}, "logfile": {"src": "hda", "id": "67a1201bdc0a51a0", "uuid": "f83d1e2d-870d-42fe-9107-b5be8f0ddd26"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.contigs(ffastq=ffastq.dat,rfastq=rfastq.dat,align=needleman,match= \r1,mismatch=-1,gapopen=-2,gapextend=-1,processors=1)\n\nUsing 1 processors.\nMaking contigs...\n25\nDone.\nIt took 0 secs to process 25 sequences.\n\n\nOutput File Names: \nffastq.trim.contigs.fasta\nffastq.scrap.contigs.fasta\nffastq.trim.contigs.qual\nffastq.scrap.contigs.qual\nffastq.contigs.report\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1807.dat' ffastq.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1808.dat' rfastq.dat && echo 'make.contigs( ffastq=ffastq.dat, rfastq=rfastq.dat, align=needleman, match=1, mismatch=-1, gapopen=-2, gapextend=-1, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:50:02.824847", "params": {"oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "input_type": "{\"forward_fastq\": {\"values\": [{\"src\": \"hda\", \"id\": 1807}]}, \"reverse_fastq\": {\"values\": [{\"src\": \"hda\", \"id\": 1808}]}, \"type\": \"regular\", \"__current_case__\": 0}", "align": "\"needleman\"", "gapopen": "\"-2\"", "mismatch": "\"-1\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "gapextend": "\"-1\"", "match": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25043", "id": "032dc790b013bafc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_contigs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input_type|type": "simple_collection", "input_type|paired_collection": {"src": "hdca", "id": "b323ca264f40001e"}}, "job": {"inputs": {"paired_collection1": {"src": "hda", "id": "0e34f88fe3f1ff0f", "uuid": "c4b8cf08-3eaa-4a06-b0ce-2cfb892f5b33"}, "paired_collection2": {"src": "hda", "id": "f1d296c611fd20af", "uuid": "4980d4b2-7b82-452f-b610-85ef365a1cc6"}}, "update_time": "2018-02-08T17:50:39.239356", "tool_id": "mothur_make_contigs", "outputs": {"scrapqual": {"src": "hda", "id": "1c4bd19fb1ecc433", "uuid": "7b96413f-88d9-4095-8e81-41daaaf25b5b"}, "scrapfasta": {"src": "hda", "id": "5f1708e38b3558fc", "uuid": "50c50c4c-681f-4366-800b-0650b3179bcd"}, "qual": {"src": "hda", "id": "1bd9d366bb876da0", "uuid": "76592125-34b1-404a-bae8-e434bc0ecb57"}, "report": {"src": "hda", "id": "38241bcf61ff4dc4", "uuid": "e4407411-a51e-4918-be13-cae227dafa01"}, "fasta": {"src": "hda", "id": "0cf22b7aa65fb1a8", "uuid": "cec921c2-641b-47f7-b989-4a16060eb8bb"}, "logfile": {"src": "hda", "id": "2437f8b06af7836c", "uuid": "4998833e-6620-4888-8ebd-4427df633478"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.contigs(ffastq=ffastq.dat,rfastq=rfastq.dat,align=needleman,match= \r1,mismatch=-1,gapopen=-2,gapextend=-1,processors=1)\n\nUsing 1 processors.\nMaking contigs...\n25\nDone.\nIt took 0 secs to process 25 sequences.\n\n\nOutput File Names: \nffastq.trim.contigs.fasta\nffastq.scrap.contigs.fasta\nffastq.trim.contigs.qual\nffastq.scrap.contigs.qual\nffastq.contigs.report\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1815.dat' ffastq.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1816.dat' rfastq.dat && echo 'make.contigs( ffastq=ffastq.dat, rfastq=rfastq.dat, align=needleman, match=1, mismatch=-1, gapopen=-2, gapextend=-1, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:50:35.719002", "params": {"oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "input_type": "{\"paired_collection\": {\"values\": [{\"src\": \"hdca\", \"id\": 70}]}, \"type\": \"simple_collection\", \"__current_case__\": 1}", "align": "\"needleman\"", "gapopen": "\"-2\"", "mismatch": "\"-1\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "gapextend": "\"-1\"", "match": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25159", "id": "4a03c449ab1f345a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_contigs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input_type|type": "simple_collection", "input_type|paired_collection": {"src": "hdca", "id": "08fbf3fbfe908f7c"}, "align": "gotoh", "gapopen": "-3", "mismatch": "-2", "gapextend": "-2", "match": "2"}, "job": {"inputs": {"paired_collection1": {"src": "hda", "id": "91ae388b1da266fc", "uuid": "0b67f0e7-1839-4bf7-a7b6-7e9b43f66848"}, "paired_collection2": {"src": "hda", "id": "b97b38fe046d6cc3", "uuid": "86c5e085-9f4a-4f4c-9ae5-b8cfc143dd03"}}, "update_time": "2018-02-08T17:51:09.729195", "tool_id": "mothur_make_contigs", "outputs": {"scrapqual": {"src": "hda", "id": "d9efe2ab3f0b324f", "uuid": "b3333766-777b-4e7e-9ab5-93a62a99364f"}, "scrapfasta": {"src": "hda", "id": "8b7d704c8dec53b3", "uuid": "2ce03472-3cd8-484d-a1f2-740e8bd6573d"}, "qual": {"src": "hda", "id": "bd6616cdad8b15de", "uuid": "aa923b33-96f3-476e-8f3d-9c1698a89575"}, "report": {"src": "hda", "id": "9529b46206034a2c", "uuid": "ed4518c1-1549-4607-aa5d-0d416351c12c"}, "fasta": {"src": "hda", "id": "bde0ddf414dac721", "uuid": "04370737-4778-4385-9606-195aff41b2ac"}, "logfile": {"src": "hda", "id": "4c02de16bce2c9b2", "uuid": "7348bc0c-b9db-4660-81c0-f0822b689e9b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.contigs(ffastq=ffastq.dat,rfastq=rfastq.dat,align=gotoh,match=2,mi \rsmatch=-2,gapopen=-3,gapextend=-2,processors=1)\n\nUsing 1 processors.\nMaking contigs...\n25\nDone.\nIt took 1 secs to process 25 sequences.\n\n\nOutput File Names: \nffastq.trim.contigs.fasta\nffastq.scrap.contigs.fasta\nffastq.trim.contigs.qual\nffastq.scrap.contigs.qual\nffastq.contigs.report\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1823.dat' ffastq.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1824.dat' rfastq.dat && echo 'make.contigs( ffastq=ffastq.dat, rfastq=rfastq.dat, align=gotoh, match=2, mismatch=-2, gapopen=-3, gapextend=-2, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:51:06.412196", "params": {"oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "input_type": "{\"paired_collection\": {\"values\": [{\"src\": \"hdca\", \"id\": 71}]}, \"type\": \"simple_collection\", \"__current_case__\": 1}", "align": "\"gotoh\"", "gapopen": "\"-3\"", "mismatch": "\"-2\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "gapextend": "\"-2\"", "match": "\"2\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25275", "id": "2afa7a4578b8f4fd", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_contigs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"input_type|type": "list_collection", "input_type|list_paired_collection": {"src": "hdca", "id": "ca4ebafec84c6506"}}, "job": {"inputs": {"list_paired_collection4": {"src": "hda", "id": "99e29abee4bbbed4", "uuid": "a78035ab-1253-4bb6-a4ca-3dc8352d355a"}, "list_paired_collection2": {"src": "hda", "id": "e655594793c63949", "uuid": "17cbba95-5854-4048-b01a-ae8523a58668"}, "list_paired_collection3": {"src": "hda", "id": "d5278219f70ebcfa", "uuid": "d2403292-9ed0-42fd-ae7c-07fee2f5166e"}, "list_paired_collection1": {"src": "hda", "id": "374d576ea0abb1c1", "uuid": "658855be-1bc8-4e8f-8016-92a344cb7f32"}}, "update_time": "2018-02-08T17:51:47.835378", "tool_id": "mothur_make_contigs", "outputs": {"scrapqual": {"src": "hda", "id": "6ccb9232700adf3a", "uuid": "e60c1270-4bfa-43d0-9b2c-5283f50341c8"}, "group": {"src": "hda", "id": "7843946a99274b74", "uuid": "bcc33c04-5751-496d-8025-9ffd9c43579b"}, "scrapfasta": {"src": "hda", "id": "6149d2026be5ab0e", "uuid": "3748da5e-abcc-4af1-9add-34059b824fb5"}, "qual": {"src": "hda", "id": "a5ab925c30b3f870", "uuid": "775aeca4-234d-449e-bdf2-f0313c2f18d3"}, "report": {"src": "hda", "id": "77ac7afdfe20d572", "uuid": "16a48568-2560-4d63-abf6-55dfa871ad94"}, "fasta": {"src": "hda", "id": "712f958ac1325a99", "uuid": "2c779df1-4ec7-466e-9fc5-c43a09076140"}, "logfile": {"src": "hda", "id": "7f39cb8d0fec48fe", "uuid": "f44c09a3-d08f-4a8c-9938-d7a117de4e71"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.contigs(file=combo_fastq.dat,align=needleman,match=1,mismatch=-1,g \rapopen=-2,gapextend=-1,processors=1)\n\nUsing 1 processors.\n\n>>>>>\tProcessing file pair dataset_1831.dat - dataset_1832.dat (files 1 of 2)\t<<<<<\nMaking contigs...\n25\nDone.\n\nIt took 0 secs to assemble 25 reads.\n\n\n>>>>>\tProcessing file pair dataset_1833.dat - dataset_1834.dat (files 2 of 2)\t<<<<<\nMaking contigs...\n5\nDone.\n\nIt took 0 secs to assemble 5 reads.\n\nIt took 0 secs to process 30 sequences.\n\nGroup count: \nPair1\t25\nPair2\t5\n\nTotal of all groups is 30\n\nOutput File Names: \ncombo_fastq.trim.contigs.fasta\ncombo_fastq.trim.contigs.qual\ncombo_fastq.contigs.report\ncombo_fastq.scrap.contigs.fasta\ncombo_fastq.scrap.contigs.qual\ncombo_fastq.contigs.groups\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s /tmp/saskia/tmpKSDp0p/files/001/dataset_1831.dat `basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1831.dat` && ln -s /tmp/saskia/tmpKSDp0p/files/001/dataset_1832.dat `basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1832.dat` && echo -e \"Pair1\\t`basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1831.dat`\\t`basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1832.dat`\" >> combo_fastq.dat && ln -s /tmp/saskia/tmpKSDp0p/files/001/dataset_1833.dat `basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1833.dat` && ln -s /tmp/saskia/tmpKSDp0p/files/001/dataset_1834.dat `basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1834.dat` && echo -e \"Pair2\\t`basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1833.dat`\\t`basename /tmp/saskia/tmpKSDp0p/files/001/dataset_1834.dat`\" >> combo_fastq.dat && echo 'make.contigs( file=combo_fastq.dat, align=needleman, match=1, mismatch=-1, gapopen=-2, gapextend=-1, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:51:43.455820", "params": {"oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "input_type": "{\"type\": \"list_collection\", \"list_paired_collection\": {\"values\": [{\"src\": \"hdca\", \"id\": 72}]}, \"__current_case__\": 2}", "align": "\"needleman\"", "gapopen": "\"-2\"", "mismatch": "\"-1\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "gapextend": "\"-1\"", "match": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25436", "id": "5c0379f640540f7d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_contigs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"groupings_0|name": "tardis", "source": {"src": "hda", "id": "c0114fb85356a3fb"}, "groupings_1|name": "dalek", "groupings_0|groups": ["forest", "pasture"], "groupings_1|groups": "pasture"}, "job": {"inputs": {"source": {"src": "hda", "id": "c0114fb85356a3fb", "uuid": "59f866f6-6861-4466-9249-f035d655cb8b"}}, "update_time": "2018-02-08T17:52:23.285242", "tool_id": "mothur_make_design", "outputs": {"design": {"src": "hda", "id": "7c99b6a4ddb58575", "uuid": "2039e3c1-2b85-4d57-a319-396e9b39b9b3"}}, "stdout": "", "command_line": "set -o pipefail; echo -e \"forest\\ttardis\" >> /tmp/saskia/tmpKSDp0p/files/001/dataset_1843.dat; echo -e \"pasture\\ttardis\" >> /tmp/saskia/tmpKSDp0p/files/001/dataset_1843.dat; echo -e \"pasture\\tdalek\" >> /tmp/saskia/tmpKSDp0p/files/001/dataset_1843.dat;", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:52:20.357728", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groupings": "[{\"__index__\": 0, \"name\": \"tardis\", \"groups\": [\"forest\", \"pasture\"]}, {\"__index__\": 1, \"name\": \"dalek\", \"groups\": \"pasture\"}]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25542", "id": "2b215f192af96e2f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_design.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "4511ff07d3afd311"}, "qfile": {"src": "hda", "id": "ad82eee45b640977"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "4511ff07d3afd311", "uuid": "42033d28-15c3-43ee-8a75-a6338adcc78f"}, "qfile": {"src": "hda", "id": "ad82eee45b640977", "uuid": "b886b19e-0ebd-4723-b577-366f90f330eb"}}, "update_time": "2018-02-08T17:52:38.863124", "tool_id": "mothur_make_fastq", "outputs": {"fastq": {"src": "hda", "id": "41a06d54c9c9cb7c", "uuid": "ce1591c1-60c3-4e28-a73a-f8c98803cacd"}, "logfile": {"src": "hda", "id": "11da7bf4b3931f2a", "uuid": "057b847c-f6fe-4962-b476-b3b3cd574689"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.fastq(fasta=fasta.dat,qfile=qfile.dat)\n\nOutput File Names: \nfasta.fastq\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1844.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1845.dat' qfile.dat && echo 'make.fastq( fasta=fasta.dat, qfile=qfile.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:52:35.794214", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "chooseformat": "{\"use\": \"no\", \"__current_case__\": 1}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25644", "id": "ab313dd72b645b75", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_fastq.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "8e1caf8a5e3462d0"}, "chooseformat|use": "yes", "chooseformat|format": "illumina", "qfile": {"src": "hda", "id": "c6e05146e8b0a21e"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "8e1caf8a5e3462d0", "uuid": "e8632eb7-681b-4c70-898c-072215cc6faa"}, "qfile": {"src": "hda", "id": "c6e05146e8b0a21e", "uuid": "6eca077a-507f-4610-8455-e4bfecb1301c"}}, "update_time": "2018-02-08T17:52:59.564809", "tool_id": "mothur_make_fastq", "outputs": {"fastq": {"src": "hda", "id": "45c59e8d24947c4c", "uuid": "f306145c-649a-40d9-ba28-8f2bb5c8e5bf"}, "logfile": {"src": "hda", "id": "4855098d5a3d8633", "uuid": "a1bba381-c9dc-4f6f-95e4-bbe022811c74"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.fastq(fasta=fasta.dat,qfile=qfile.dat,format=illumina)\n\nOutput File Names: \nfasta.fastq\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1848.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1849.dat' qfile.dat && echo 'make.fastq( fasta=fasta.dat, qfile=qfile.dat ,format=illumina )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:52:56.419955", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "chooseformat": "{\"use\": \"yes\", \"__current_case__\": 0, \"format\": \"illumina\"}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25753", "id": "11fff4f70c354168", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_fastq.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"method|inputs_0|fasta": {"src": "hda", "id": "5690f3eca16a24c2"}, "method|inputs_1|group": "testgroup2", "method|inputs_0|group": "testgroup", "method|inputs_1|fasta": {"src": "hda", "id": "5690f3eca16a24c2"}, "method|how": "manually"}, "job": {"inputs": {"method|inputs_0|fasta": {"src": "hda", "id": "5690f3eca16a24c2", "uuid": "2e0c4243-034b-441f-b3b2-19e0a041de32"}, "method|inputs_1|fasta": {"src": "hda", "id": "5690f3eca16a24c2", "uuid": "2e0c4243-034b-441f-b3b2-19e0a041de32"}}, "update_time": "2018-02-08T17:53:21.184357", "tool_id": "mothur_make_group", "outputs": {"output": {"src": "hda", "id": "c2fd07bff4c5634d", "uuid": "c35e4cc0-bb7f-4b33-ad23-c8394419b96a"}, "logfile": {"src": "hda", "id": "3c09fc160c7c949a", "uuid": "8413a64d-b800-4ce9-9ef9-628ede96cdd6"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.group(fasta=fasta_0.dat-fasta_1.dat,groups=testgroup-testgroup2)\n\nOutput File Names: fasta_0.fasta_1.groups\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1853.dat' fasta_0.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1853.dat' fasta_1.dat && echo 'make.group( fasta=fasta_0.dat-fasta_1.dat, groups=testgroup-testgroup2 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:53:17.417101", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "{\"how\": \"manually\", \"__current_case__\": 1, \"inputs\": [{\"__index__\": 0, \"fasta\": {\"values\": [{\"src\": \"hda\", \"id\": 1853}]}, \"group\": \"testgroup\"}, {\"__index__\": 1, \"fasta\": {\"values\": [{\"src\": \"hda\", \"id\": 1853}]}, \"group\": \"testgroup2\"}]}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25879", "id": "cf6f5650773911ff", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_group.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"method|how": "collection", "method|fasta_collection": {"src": "hdca", "id": "b31f4d82ada5e956"}}, "job": {"inputs": {"fasta_collection2": {"src": "hda", "id": "ead8b19bd4100f06", "uuid": "9810929b-444b-47dd-aeb1-435bb19e9440"}, "fasta_collection1": {"src": "hda", "id": "ead8b19bd4100f06", "uuid": "9810929b-444b-47dd-aeb1-435bb19e9440"}}, "update_time": "2018-02-08T17:53:41.867928", "tool_id": "mothur_make_group", "outputs": {"output": {"src": "hda", "id": "1048ce0425f8cb59", "uuid": "11a01df2-365b-4ca7-8be2-27bc18e495c0"}, "logfile": {"src": "hda", "id": "8d7a576c822a8355", "uuid": "4b3ba1ce-f095-47d5-b798-fc7c8f5821d7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.group(fasta=fasta_testgroup.dat-fasta_testgroup2.dat,groups=testgr \roup-testgroup2)\n\nOutput File Names: fasta_testgroup.fasta_testgroup2.groups\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1857.dat' fasta_testgroup.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1857.dat' fasta_testgroup2.dat && echo 'make.group( fasta=fasta_testgroup.dat-fasta_testgroup2.dat, groups=testgroup-testgroup2 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:53:38.125674", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "{\"how\": \"collection\", \"fasta_collection\": {\"values\": [{\"src\": \"hdca\", \"id\": 73}]}, \"__current_case__\": 0}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "25990", "id": "6e055b0f6b730971", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_group.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "ecf48c02251dfb67"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "ecf48c02251dfb67", "uuid": "a1e67bd3-07a2-4356-a5c9-ddaf5aa4e700"}}, "update_time": "2018-02-08T17:53:56.373528", "tool_id": "mothur_make_lefse", "outputs": {"lefse_out": {"src": "hda", "id": "c30adaf179fc5aaa", "uuid": "02e1aead-76bc-4cc9-ba9e-9bcd1221ba6e"}, "logfile": {"src": "hda", "id": "388d1db82fb077e8", "uuid": "16207fbb-8b4a-4a67-8d62-dcf39553f42c"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.lefse(shared=otu.dat,scale=totalgroup)\nYou did not provide a label, I will use the first label in your inputfile.\n\nOutput File Names: \notu.unique.lefse\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1860.dat' otu.dat && ln -s 'None' design.dat && ln -s 'None' constaxonomy.dat && echo 'make.lefse( shared=otu.dat, scale=totalgroup )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:53:53.261854", "params": {"scale": "\"totalgroup\"", "dbkey": "\"hg17\"", "label": "null", "design": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "constaxonomy": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "26077", "id": "cc61617d359bbeb4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_lefse.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"design": {"src": "hda", "id": "2472375c89218954"}, "otu": {"src": "hda", "id": "4f48e12496476004"}, "label": "0.18"}, "job": {"inputs": {"design": {"src": "hda", "id": "2472375c89218954", "uuid": "40876580-3afb-4f31-8f7b-bab66411eed3"}, "otu": {"src": "hda", "id": "4f48e12496476004", "uuid": "e90c477f-8e02-4657-84ab-4900b982a6fc"}}, "update_time": "2018-02-08T17:54:18.037929", "tool_id": "mothur_make_lefse", "outputs": {"lefse_out": {"src": "hda", "id": "a5002b1773fb3add", "uuid": "b145b155-24a6-4ed1-9769-8142168681db"}, "logfile": {"src": "hda", "id": "293a2e724ad85605", "uuid": "66059d43-b491-40a9-be2c-d4d1f7b5a047"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.lefse(relabund=otu.dat,design=design.dat,label=0.18,scale=totalgro \rup)\n\nOutput File Names: \notu.0.18.lefse\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1863.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1864.dat' design.dat && ln -s 'None' constaxonomy.dat && echo 'make.lefse( relabund=otu.dat, design=design.dat, label=0.18, scale=totalgroup )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:54:14.907485", "params": {"scale": "\"totalgroup\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "constaxonomy": "null", "dbkey": "\"hg17\"", "label": "\"0.18\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "26188", "id": "8617c587cd9e4e77", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_lefse.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"reference|template": {"src": "hda", "id": "5383cf1b3b9fd9bd"}, "reference|source": "hist", "flow": {"src": "hda", "id": "dd4a25701e5bf03c"}, "error": {"src": "hda", "id": "ddb7b6e6b5a5748d"}}, "job": {"inputs": {"flow": {"src": "hda", "id": "dd4a25701e5bf03c", "uuid": "224fce87-9cc8-4912-bca5-c86096fedae9"}, "template": {"src": "hda", "id": "5383cf1b3b9fd9bd", "uuid": "60e32d13-d224-4951-89f2-827a0db4d984"}, "error": {"src": "hda", "id": "ddb7b6e6b5a5748d", "uuid": "05ddcf44-ecd1-45e4-989d-6ba2198d0fb5"}}, "update_time": "2018-02-08T17:54:42.911228", "tool_id": "mothur_make_lookup", "outputs": {"logfile": {"src": "hda", "id": "9695ced70a424d8b", "uuid": "0a0bb69d-b81a-4c73-988c-c32e3257d345"}, "lookup_out": {"src": "hda", "id": "7c234923b0122c52", "uuid": "e8efa2fc-1a1f-4ee8-acaf-f4a7f65a8999"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.lookup(reference=reference.template.dat,flow=flow.dat,error=error. \rdat,order=A,barcode=AACCGTGTC,key=TCAG,threshold=10000)\nGQY1XT001A8C6I != M00967_43_000000000-A3JHG_1_1101_11148_6457\nGQY1XT001BPRBN != M00967_43_000000000-A3JHG_1_1101_7079_6722\n\nData for homopolymer lengths of 0 and longer were imputed for this analysis\n\n\nOutput File Names: \nflow.lookup\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1867.dat' reference.template.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1868.dat' flow.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1869.dat' error.dat && echo 'make.lookup( reference=reference.template.dat, flow=flow.dat, error=error.dat, order=A, barcode=AACCGTGTC, key=TCAG, threshold=10000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:54:39.698392", "params": {"reference": "{\"source\": \"hist\", \"template\": {\"values\": [{\"src\": \"hda\", \"id\": 1867}]}, \"__current_case__\": 1}", "barcode": "\"AACCGTGTC\"", "dbkey": "\"hg17\"", "key": "\"TCAG\"", "threshold": "\"10000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "order": "\"A\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "26384", "id": "fc6a9ef5f7630e87", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_lookup.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"reference|template": {"src": "hda", "id": "3989eef2a0b46a62"}, "barcode": "XAXAXCXCXGXTXGXTXC", "flow": {"src": "hda", "id": "af2e40921cfe1b21"}, "reference|source": "hist", "key": "XTXCXAXGX", "error": {"src": "hda", "id": "7a7dcacb06603266"}}, "job": {"inputs": {"flow": {"src": "hda", "id": "af2e40921cfe1b21", "uuid": "c96ef4ba-fb78-4d80-9013-40185fe043db"}, "template": {"src": "hda", "id": "3989eef2a0b46a62", "uuid": "01d49cac-26ff-4b61-82c2-6d0f8f04a9c0"}, "error": {"src": "hda", "id": "7a7dcacb06603266", "uuid": "a4fd69ea-45f1-4bbb-ab55-5e84c6aa4e30"}}, "update_time": "2018-02-08T17:55:06.797669", "tool_id": "mothur_make_lookup", "outputs": {"logfile": {"src": "hda", "id": "a2907571b551cae9", "uuid": "f842ac50-4067-4e7a-9e11-39cad5e7a7d7"}, "lookup_out": {"src": "hda", "id": "54704a1dcf64f2e8", "uuid": "7696d203-cf2b-46c7-b147-001e0dc86df5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.lookup(reference=reference.template.dat,flow=flow.dat,error=error. \rdat,order=A,barcode=AACCGTGTC,key=TCAG,threshold=10000)\nGQY1XT001A8C6I != M00967_43_000000000-A3JHG_1_1101_11148_6457\nGQY1XT001BPRBN != M00967_43_000000000-A3JHG_1_1101_7079_6722\n\nData for homopolymer lengths of 0 and longer were imputed for this analysis\n\n\nOutput File Names: \nflow.lookup\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1872.dat' reference.template.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1873.dat' flow.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1874.dat' error.dat && echo 'make.lookup( reference=reference.template.dat, flow=flow.dat, error=error.dat, order=A, barcode=AACCGTGTC, key=TCAG, threshold=10000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:55:03.580091", "params": {"reference": "{\"source\": \"hist\", \"template\": {\"values\": [{\"src\": \"hda\", \"id\": 1872}]}, \"__current_case__\": 1}", "barcode": "\"XAXAXCXCXGXTXGXTXC\"", "dbkey": "\"hg17\"", "key": "\"XTXCXAXGX\"", "threshold": "\"10000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "order": "\"A\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "26513", "id": "dd28ab0e62f6c657", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_lookup.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"intype|infile": "biom", "intype|otu": {"src": "hda", "id": "9f7864eb5fec163b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "9f7864eb5fec163b", "uuid": "dd47f7cd-9004-4ed5-bd85-1c25d74c261c"}}, "update_time": "2018-02-08T17:55:24.413838", "tool_id": "mothur_make_shared", "outputs": {"shared": {"src": "hda", "id": "fd1c56392329a112", "uuid": "6784c2f8-881c-4339-84f6-d79007188b0b"}, "logfile": {"src": "hda", "id": "f78fa183df45cc17", "uuid": "90f3f7f2-1148-4fae-b6eb-3be63593972a"}, "groupout": {"src": "hda", "id": "e6696f8460301cd8", "uuid": "bb629e4d-c6ee-4f53-bb9c-a82ca1454555"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.shared(biom=intype_otu.dat)\n\nuserLabel\n\nOutput File Names: \nintype_otu.shared\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1877.dat' intype_otu.dat && echo 'make.shared( biom=intype_otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && mv mothur.*.logfile \"/tmp/saskia/tmpKSDp0p/files/001/dataset_1878.dat\" && mv intype_otu*.shared \"/tmp/saskia/tmpKSDp0p/files/001/dataset_1879.dat\"", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:55:21.200554", "params": {"intype": "{\"infile\": \"biom\", \"__current_case__\": 1, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1877}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "26602", "id": "4dfde39352bb574f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"intype|infile": "otulist", "intype|group": {"src": "hda", "id": "7f99cfb1de31b6f4"}, "intype|otu": {"src": "hda", "id": "d4490cd22d2e91a2"}}, "job": {"inputs": {"group": {"src": "hda", "id": "7f99cfb1de31b6f4", "uuid": "6d5585d0-a1f5-46f0-b357-325d6b02b5a2"}, "otu": {"src": "hda", "id": "d4490cd22d2e91a2", "uuid": "b85240a3-aaec-45f8-bf25-008930ce7ae9"}}, "update_time": "2018-02-08T17:55:45.993342", "tool_id": "mothur_make_shared", "outputs": {"shared": {"src": "hda", "id": "7967c060fcc2b0c3", "uuid": "65a75bf7-90f6-45d6-8be1-01d3a2cb6092"}, "logfile": {"src": "hda", "id": "d911dc399b1b3959", "uuid": "ae0a8ddf-438e-4ca9-b113-5bf60e2578b1"}, "groupout": {"src": "hda", "id": "a6619ad3bbdc2f3d", "uuid": "83193b9b-370e-4845-b426-943fc8a35c9f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.shared(group=intype_group.dat,list=intype_otu.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \nintype_otu.shared\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1881.dat' intype_otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1882.dat' intype_group.dat && echo 'make.shared( group=intype_group.dat, list=intype_otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && mv mothur.*.logfile \"/tmp/saskia/tmpKSDp0p/files/001/dataset_1883.dat\" && mv intype_otu*.shared \"/tmp/saskia/tmpKSDp0p/files/001/dataset_1884.dat\"", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:55:42.150192", "params": {"intype": "{\"group\": {\"values\": [{\"src\": \"hda\", \"id\": 1882}]}, \"__current_case__\": 0, \"label\": null, \"groups\": null, \"infile\": \"otulist\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1881}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "26721", "id": "f060dd6bec0b0c91", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"intype|infile": "otulist", "intype|group": {"src": "hda", "id": "11cbcf7169f85c4f"}, "intype|otu": {"src": "hda", "id": "3ac08cc66e07c165"}, "intype|groups": ["forest", "pasture"], "intype|label": ["0.03", "0.05", "0.22"]}, "job": {"inputs": {"group": {"src": "hda", "id": "11cbcf7169f85c4f", "uuid": "24f0a7f3-acf4-48e6-a19b-701ae5977f5b"}, "otu": {"src": "hda", "id": "3ac08cc66e07c165", "uuid": "b2fb6d6f-d5c1-4e8c-ba17-afa3ccf9791a"}}, "update_time": "2018-02-08T17:56:10.243068", "tool_id": "mothur_make_shared", "outputs": {"groupout": {"src": "hda", "id": "ca3baaede20d3608", "uuid": "187fa39c-3715-445d-b050-6e8e9df82e58"}, "__new_primary_file_0.22|0.22__": {"src": "hda", "id": "65fc46f73aabdfda", "uuid": "4d84238e-343f-48a4-9a0d-6ba323b6bbf8"}, "__new_primary_file_0.22|0.05__": {"src": "hda", "id": "16eec28fa6281f7f", "uuid": "5652e0e4-810d-45e7-8ea9-fb1a38d404d8"}, "shared": {"src": "hda", "id": "1bab9e4fed59ebfb", "uuid": "4dd2c469-e1db-4a00-b840-1e880cd3e460"}, "logfile": {"src": "hda", "id": "0d9db12bc460aef9", "uuid": "42cb6d93-e1a3-40a6-a678-c6c1c4d5d9b3"}, "__new_primary_file_0.22|0.03__": {"src": "hda", "id": "b042b0cfab22e670", "uuid": "6843b9dc-09d3-4a7c-b42e-ecbc82632993"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.shared(group=intype_group.dat,label=0.03-0.05-0.22,groups=forest-p \rasture,list=intype_otu.dat)\n0.03\n0.05\n0.22\n\nOutput File Names: \nintype_otu.forest.pasture.groups\nintype_otu.0.03.shared\nintype_otu.0.05.shared\nintype_otu.0.22.shared\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1886.dat' intype_otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1887.dat' intype_group.dat && echo 'make.shared( group=intype_group.dat, label=0.03-0.05-0.22, groups=forest-pasture, list=intype_otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log && mv mothur.*.logfile \"/tmp/saskia/tmpKSDp0p/files/001/dataset_1888.dat\" && mv intype_otu*.groups \"/tmp/saskia/tmpKSDp0p/files/001/dataset_1890.dat\"", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:56:06.575770", "params": {"intype": "{\"group\": {\"values\": [{\"src\": \"hda\", \"id\": 1887}]}, \"__current_case__\": 0, \"label\": [\"0.03\", \"0.05\", \"0.22\"], \"groups\": [\"forest\", \"pasture\"], \"infile\": \"otulist\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 1886}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n/tmp/saskia/tmpKSDp0p/job_working_directory/000/488/galaxy_488.sh: line 40: [: too many arguments\n", "job_metrics": [], "model_class": "Job", "external_id": "26831", "id": "d13b0aeade1f3b9f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_shared.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"project": {"src": "hda", "id": "55d802277995b0ed"}, "sff": {"src": "hda", "id": "9adfeb8ffc5068e4"}, "mimark": {"src": "hda", "id": "6124c38139ecb629"}, "oligos": {"src": "hda", "id": "14500b6333a1070c"}}, "job": {"inputs": {"project": {"src": "hda", "id": "55d802277995b0ed", "uuid": "bac32361-557f-42dc-8ca5-4cb8c17348a9"}, "oligos": {"src": "hda", "id": "14500b6333a1070c", "uuid": "a25517e0-bfdc-4afe-a916-8caaafb04375"}, "sff": {"src": "hda", "id": "9adfeb8ffc5068e4", "uuid": "4051a32d-cd21-4c47-b718-55969c1da954"}, "mimark": {"src": "hda", "id": "6124c38139ecb629", "uuid": "704c7182-88d1-43e6-a8dc-7133cba88d86"}}, "update_time": "2018-02-08T17:56:46.294658", "tool_id": "mothur_make_sra", "outputs": {"submission_xml": {"src": "hda", "id": "4f9964cac71ceae2", "uuid": "25e41557-5ee7-452d-8456-eea7543d75c7"}, "flow_out": {"src": "hda", "id": "a625551c8e7496b4", "uuid": "8e7b6655-e359-470c-9fc3-4e101bbf3b67"}, "qual_out": {"src": "hda", "id": "0d7bfb86ba13c2bf", "uuid": "3505c479-7e32-4834-aa0d-fd4583bfa61b"}, "fasta_out": {"src": "hda", "id": "269645e76dd38019", "uuid": "fa9e3c7a-4f42-4d4e-a835-df97df662e48"}, "scrap_sff": {"src": "hda", "id": "4f070c1374b9df0b", "uuid": "7b4ae88a-44a5-46c6-9bdc-118a5aa48166"}, "logfile": {"src": "hda", "id": "6d9db605bb466f8a", "uuid": "c25b3e9e-1b70-4be5-9b9f-eaeaf6c32309"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > make.sra(project=project.dat,sff=sff.dat,oligos=oligos.dat,mimark=mimar \rk.dat,bdiffs=0,pdiffs=0,tdiffs=0,ldiffs=0,sdiffs=0,checkorient=false,orientation \r=forward,platform=_LS454,instrument=454_GS,libstrategy=AMPLICON,libselection=PCR \r,libsource=METAGENOMIC,datatype=METAGENOME,trim=True,includescrap=True)\n\n/******************************************/\nRunning command: sffinfo(sff=sff.dat, oligos=oligos.dat, trim=True)\nExtracting info from sff.dat ...\n10\nIt took 0 secs to extract 10.\n\nOutput File Names: \nsff.fasta\nsff.qual\nsff.flow\nsff.scrap.sff\n\n/******************************************/\n\nOutput File Names: \nsff.fasta\nsff.qual\nsff.flow\nsff.scrap.sff\nsubmission.xml\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1894.dat' project.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1895.dat' sff.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1896.dat' oligos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1897.dat' mimark.dat && ln -s 'None' fastq.dat && echo 'make.sra( project=project.dat, sff=sff.dat, oligos=oligos.dat, mimark=mimark.dat, bdiffs=0, pdiffs=0, tdiffs=0, ldiffs=0, sdiffs=0, checkorient=false, orientation=forward, platform=_LS454, instrument=454_GS, libstrategy=AMPLICON, libselection=PCR, libsource=METAGENOMIC, datatype=METAGENOME, trim=True, includescrap=True )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:56:41.999131", "params": {"bdiffs": "\"0\"", "trim": "\"true\"", "sdiffs": "\"0\"", "libselection": "\"PCR\"", "ldiffs": "\"0\"", "libsource": "\"METAGENOMIC\"", "checkorient": "\"false\"", "fastq": "null", "pdiffs": "\"0\"", "dbkey": "\"hg17\"", "includescrap": "\"true\"", "instrument": "\"454_GS\"", "datatype": "\"METAGENOME\"", "orientation": "\"forward\"", "platform": "\"_LS454\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "libstrategy": "\"AMPLICON\"", "tdiffs": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "26993", "id": "4c17a0c0b24f3d2a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_make_sra.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"dist": {"src": "hda", "id": "72ec7f16ae254bf0"}, "dist2": {"src": "hda", "id": "96c8304a26dfa89d"}}, "job": {"inputs": {"dist": {"src": "hda", "id": "72ec7f16ae254bf0", "uuid": "69e3357c-572a-4248-ba48-1ae412fb9be5"}, "dist2": {"src": "hda", "id": "96c8304a26dfa89d", "uuid": "a043bab0-8e7d-4047-9d55-f3184fba1218"}}, "update_time": "2018-02-08T17:57:29.492577", "tool_id": "mothur_mantel", "outputs": {"logfile": {"src": "hda", "id": "0750df27179eb44a", "uuid": "0c3d1424-d5a6-4a69-b0fb-e01c603c2749"}, "mantel": {"src": "hda", "id": "a0d6fe44ad497cef", "uuid": "42af4d39-71bc-4850-90d1-5986cfc8e4a5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > mantel(phylip1=dist.dat,phylip2=dist2.dat,method=pearson,iters=1000)\n\nmantel = 0.304745\tpValue = 0.000000\n\nOutput File Names: \ndist.mantel\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1904.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1905.dat' dist2.dat && echo 'mantel( phylip1=dist.dat, phylip2=dist2.dat, method=pearson, iters=1000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:57:26.139913", "params": {"iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"pearson\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27140", "id": "2c905c266975a822", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_mantel.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"merge|type": "fasta", "merge|inputs": [{"src": "hda", "id": "de3e1eb0e9cadbab"}, {"src": "hda", "id": "417510e0ae171d2e"}, {"src": "hda", "id": "6e2b9e3a5eac2ec6"}]}, "job": {"inputs": {"inputs2": {"src": "hda", "id": "417510e0ae171d2e", "uuid": "9467c807-a9f3-4740-8c68-3ff70ccdcc9f"}, "inputs": {"src": "hda", "id": "de3e1eb0e9cadbab", "uuid": "0de05468-1a0f-4cf1-b8af-474e0cc3cf31"}, "inputs1": {"src": "hda", "id": "de3e1eb0e9cadbab", "uuid": "0de05468-1a0f-4cf1-b8af-474e0cc3cf31"}, "inputs3": {"src": "hda", "id": "6e2b9e3a5eac2ec6", "uuid": "354c013c-439a-4dcb-87a8-f5716c2cfec2"}}, "update_time": "2018-02-08T17:57:56.177705", "tool_id": "mothur_merge_files", "outputs": {"output": {"src": "hda", "id": "0fb2e145d63428e3", "uuid": "d1a7062b-9bce-4396-a7b8-2a276cefc398"}, "logfile": {"src": "hda", "id": "b8e3f2c4e0441645", "uuid": "88fa2ee1-a971-4a14-9fde-78c8e4124b17"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.files(input=input0.dat-input1.dat-input2.dat,output=/tmp/saskia/t \rmpKSDp0p/files/001/dataset_1912.dat)\n\nOutput File Names: \n/tmp/saskia/tmpKSDp0p/files/001/dataset_1912.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1908.dat' input0.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1909.dat' input1.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1910.dat' input2.dat && echo 'merge.files( input=input0.dat-input1.dat-input2.dat-, output=/tmp/saskia/tmpKSDp0p/files/001/dataset_1912.dat )' | sed 's/ //g' | sed 's/-,/,/g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:57:53.020816", "params": {"merge": "{\"inputs\": {\"values\": [{\"src\": \"hda\", \"id\": 1908}, {\"src\": \"hda\", \"id\": 1909}, {\"src\": \"hda\", \"id\": 1910}]}, \"type\": \"fasta\", \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27277", "id": "5932136d963c1318", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_files.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"design|source": "hist", "design|design_dataset": {"src": "hda", "id": "32a578a19336cfbe"}, "otu": {"src": "hda", "id": "78f9790ceb9e760a"}}, "job": {"inputs": {"design_dataset": {"src": "hda", "id": "32a578a19336cfbe", "uuid": "53411ffe-5c48-4de5-914e-2143f57be4fe"}, "otu": {"src": "hda", "id": "78f9790ceb9e760a", "uuid": "b01887a3-f0fe-408f-9ae7-e2a382c4c9f9"}}, "update_time": "2018-02-08T17:58:17.037551", "tool_id": "mothur_merge_groups", "outputs": {"merged_shared": {"src": "hda", "id": "46591abe7f08ccf9", "uuid": "036b9366-aeeb-4334-b1bc-28eba7afbf33"}, "logfile": {"src": "hda", "id": "b0f3daede2de0400", "uuid": "1f85c9aa-1a03-4684-96e1-6bc38e54b5ed"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.groups(design=design_dataset.dat,shared=otu.dat,method=sum)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.merge.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1913.dat' otu.dat && ln -s 'None' group.dat && ln -s 'None' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1914.dat' design_dataset.dat && echo 'merge.groups( design=design_dataset.dat ,shared=otu.dat ,method=sum )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:58:13.874471", "params": {"group": "null", "dbkey": "\"hg17\"", "label": "null", "design": "{\"source\": \"hist\", \"design_dataset\": {\"values\": [{\"src\": \"hda\", \"id\": 1914}]}, \"__current_case__\": 0}", "groups": "null", "fasta": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"sum\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27386", "id": "b7c449f860774475", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_groups.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"design|source": "hist", "design|design_dataset": {"src": "hda", "id": "41e5dce11cc91f7a"}, "otu": {"src": "hda", "id": "d36489c18c908bb1"}, "groups": ["forest", "pasture"], "label": ["0.05", "0.22", "0.38"]}, "job": {"inputs": {"design_dataset": {"src": "hda", "id": "41e5dce11cc91f7a", "uuid": "587ebff1-49e7-47f6-bd51-d7b2e4b3521a"}, "otu": {"src": "hda", "id": "d36489c18c908bb1", "uuid": "23cfb8bb-56fa-4193-84db-7d4adf3f91f1"}}, "update_time": "2018-02-08T17:58:38.787975", "tool_id": "mothur_merge_groups", "outputs": {"merged_shared": {"src": "hda", "id": "ab07adc211b2df50", "uuid": "bf4c1384-c484-4f17-a982-c58fbd809afd"}, "logfile": {"src": "hda", "id": "6b8aa44b4322962a", "uuid": "c5f34277-320d-489a-9e08-74a73979c558"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.groups(design=design_dataset.dat,shared=otu.dat,groups=forest-pas \rture,label=0.05-0.22-0.38,method=sum)\n0.05\n0.22\n0.38\n\nOutput File Names: \notu.merge.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1917.dat' otu.dat && ln -s 'None' group.dat && ln -s 'None' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1918.dat' design_dataset.dat && echo 'merge.groups( design=design_dataset.dat ,shared=otu.dat ,groups=forest-pasture ,label=0.05-0.22-0.38 ,method=sum )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:58:35.565687", "params": {"group": "null", "dbkey": "\"hg17\"", "label": "[\"0.05\", \"0.22\", \"0.38\"]", "design": "{\"source\": \"hist\", \"design_dataset\": {\"values\": [{\"src\": \"hda\", \"id\": 1918}]}, \"__current_case__\": 0}", "groups": "[\"forest\", \"pasture\"]", "fasta": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"sum\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27513", "id": "5300091d026f85af", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_groups.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"design|design_dataset": {"src": "hda", "id": "e4b594eefb7aada3"}, "design|source": "hist", "group": {"src": "hda", "id": "b81396351716a7ed"}}, "job": {"inputs": {"group": {"src": "hda", "id": "b81396351716a7ed", "uuid": "3b9b1091-7209-4254-88c3-d8ade7e87586"}, "design_dataset": {"src": "hda", "id": "e4b594eefb7aada3", "uuid": "9cb733df-b949-4852-ac5b-76459cd4cdac"}}, "update_time": "2018-02-08T17:58:59.407641", "tool_id": "mothur_merge_groups", "outputs": {"merged_group": {"src": "hda", "id": "58a81f0c48a42115", "uuid": "a1a56d3a-ac4a-4557-96a8-201b4e48ecd8"}, "logfile": {"src": "hda", "id": "d7ea930ce32eed6a", "uuid": "f3c9e925-f54a-4def-99c8-724daed3eeda"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.groups(design=design_dataset.dat,group=group.dat,method=sum)\n\nOutput File Names: \ngroup.merge.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1921.dat' group.dat && ln -s 'None' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1922.dat' design_dataset.dat && echo 'merge.groups( design=design_dataset.dat ,group=group.dat ,method=sum )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:58:56.393115", "params": {"dbkey": "\"hg17\"", "label": "null", "design": "{\"source\": \"hist\", \"design_dataset\": {\"values\": [{\"src\": \"hda\", \"id\": 1922}]}, \"__current_case__\": 0}", "groups": "null", "fasta": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"sum\"", "otu": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27627", "id": "3808e741d551ae79", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_groups.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"design|design_dataset": {"src": "hda", "id": "7e1cf2195f01e827"}, "fasta": {"src": "hda", "id": "8f85c19787d8d333"}, "design|source": "hist", "method": "median", "group": {"src": "hda", "id": "983faa3420093487"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "8f85c19787d8d333", "uuid": "621a07be-1a42-4c72-9e04-2f089737f369"}, "group": {"src": "hda", "id": "983faa3420093487", "uuid": "e36ee2d6-ce27-4d5d-ab87-3b6dea9473de"}, "design_dataset": {"src": "hda", "id": "7e1cf2195f01e827", "uuid": "7f20534c-ce2e-4dde-985b-6fbf6eaff13b"}}, "update_time": "2018-02-08T17:59:24.175570", "tool_id": "mothur_merge_groups", "outputs": {"merged_group": {"src": "hda", "id": "930b92102bb55843", "uuid": "821f7ea2-87d4-4404-a237-0e409f05737c"}, "logfile": {"src": "hda", "id": "c8e74883aba54288", "uuid": "8c385a77-3e61-47d5-89a0-0c42618d1bcc"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.groups(design=design_dataset.dat,count=group.dat,fasta=fasta.dat, \rmethod=median)\n\nOutput File Names: \ngroup.merge.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1925.dat' group.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1926.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1927.dat' design_dataset.dat && echo 'merge.groups( design=design_dataset.dat ,count=group.dat ,fasta=fasta.dat ,method=median )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:59:20.306073", "params": {"dbkey": "\"hg17\"", "label": "null", "design": "{\"source\": \"hist\", \"design_dataset\": {\"values\": [{\"src\": \"hda\", \"id\": 1927}]}, \"__current_case__\": 0}", "groups": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"median\"", "otu": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27759", "id": "966d85c09a3ba224", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_groups.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"design|groupings_1|groups": "pasture", "otu": {"src": "hda", "id": "f4fa0c7fbb0e3e2c"}, "design|groupings_1|name": "dalek", "design|source": "build", "design|groupings_0|name": "tardis", "design|groupings_0|groups": "forest"}, "job": {"inputs": {"otu": {"src": "hda", "id": "f4fa0c7fbb0e3e2c", "uuid": "bf95dd8a-844f-44de-948f-c2a3f12be527"}}, "update_time": "2018-02-08T17:59:43.854854", "tool_id": "mothur_merge_groups", "outputs": {"merged_shared": {"src": "hda", "id": "531aa3b82ca54fa4", "uuid": "ae812da7-ca13-425d-b496-10763dd23c3c"}, "logfile": {"src": "hda", "id": "d6bfe7e8caebca0c", "uuid": "797514f7-25de-4561-876c-0419c3f03080"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.groups(design=generated_design.dat,shared=otu.dat,method=sum)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.merge.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1930.dat' otu.dat && ln -s 'None' group.dat && ln -s 'None' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/job_working_directory/000/515/tmpqonpbe' generated_design.dat && echo 'merge.groups( design=generated_design.dat ,shared=otu.dat ,method=sum )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T17:59:40.668151", "params": {"group": "null", "dbkey": "\"hg17\"", "label": "null", "design": "{\"source\": \"build\", \"__current_case__\": 1, \"groupings\": [{\"__index__\": 0, \"name\": \"tardis\", \"groups\": \"forest\"}, {\"__index__\": 1, \"name\": \"dalek\", \"groups\": \"pasture\"}]}", "groups": "null", "fasta": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"sum\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27855", "id": "499ab5633737b2d3", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_groups.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"input": [{"src": "hda", "id": "ebca6ff66bc47ca1"}, {"src": "hda", "id": "a3e90b92a8eb33dd"}]}, "job": {"inputs": {"input2": {"src": "hda", "id": "a3e90b92a8eb33dd", "uuid": "3a88c872-f075-41ba-88e3-1918baa76798"}, "input": {"src": "hda", "id": "ebca6ff66bc47ca1", "uuid": "8adc62cb-4747-49d1-b76a-2d67dab4f20b"}, "input1": {"src": "hda", "id": "ebca6ff66bc47ca1", "uuid": "8adc62cb-4747-49d1-b76a-2d67dab4f20b"}}, "update_time": "2018-02-08T18:00:05.520447", "tool_id": "mothur_merge_sfffiles", "outputs": {"output": {"src": "hda", "id": "2c072c8536d83576", "uuid": "954a0bc5-6d95-4df0-a108-937947278295"}, "logfile": {"src": "hda", "id": "cfb1f8928a5313e1", "uuid": "ab073c04-3281-4dbe-9c2e-4e9f798c9477"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.sfffiles(sff=input0.dat-input1.dat,output=/tmp/saskia/tmpKSDp0p/f \riles/001/dataset_1936.dat)\n\nMerging info from input0.dat ...\n10\nIt took 0 secs to merge 10.\n\nMerging info from input1.dat ...\n10\nIt took 0 secs to merge 10.\n\nOutput File Names: \n/tmp/saskia/tmpKSDp0p/files/001/dataset_1936.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1933.dat' input0.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1934.dat' input1.dat && echo 'merge.sfffiles( sff=input0.dat-input1.dat-, output=/tmp/saskia/tmpKSDp0p/files/001/dataset_1936.dat )' | sed 's/ //g' | sed 's/-,/,/g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:00:02.377604", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "27963", "id": "93ee5b88b9257311", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_sfffiles.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input": [{"src": "hda", "id": "b0e21127fa89f6b7"}, {"src": "hda", "id": "d5b0791da63d7742"}]}, "job": {"inputs": {"input2": {"src": "hda", "id": "d5b0791da63d7742", "uuid": "d24e9354-aa59-4ca3-9534-d33059c79a3a"}, "input": {"src": "hda", "id": "b0e21127fa89f6b7", "uuid": "45c7f81e-3ec8-42db-a7cf-7843326d2ef2"}, "input1": {"src": "hda", "id": "b0e21127fa89f6b7", "uuid": "45c7f81e-3ec8-42db-a7cf-7843326d2ef2"}}, "update_time": "2018-02-08T18:00:27.242056", "tool_id": "mothur_merge_taxsummary", "outputs": {"output": {"src": "hda", "id": "0a1e7528e524af83", "uuid": "d4525a7a-178e-49f0-b2b7-832a173efeeb"}, "logfile": {"src": "hda", "id": "d8247bdcb1ad4f59", "uuid": "01051fd2-1cdf-4514-9f3f-a46f8633c19b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > merge.taxsummary(input=input0.dat-input1.dat,output=/tmp/saskia/tmpKSDp \r0p/files/001/dataset_1940.dat)\n\nOutput File Names: \n/tmp/saskia/tmpKSDp0p/files/001/dataset_1940.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1937.dat' input0.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1938.dat' input1.dat && echo 'merge.taxsummary( input=input0.dat-input1.dat-, output=/tmp/saskia/tmpKSDp0p/files/001/dataset_1940.dat )' | sed 's/ //g' | sed 's/-,/,/g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:00:24.083311", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28083", "id": "17228a24cf52bb1d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_merge_taxsummary.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"design": {"src": "hda", "id": "ccfc4e50dfc4db8c"}, "otu": {"src": "hda", "id": "5c8c831e231041b4"}}, "job": {"inputs": {"design": {"src": "hda", "id": "ccfc4e50dfc4db8c", "uuid": "0856f7dd-c311-4b6a-b610-c3e61e131c2d"}, "otu": {"src": "hda", "id": "5c8c831e231041b4", "uuid": "98c0269c-613d-4f6b-945b-b03e15c2eef8"}}, "update_time": "2018-02-08T18:00:49.964815", "tool_id": "mothur_metastats", "outputs": {"__new_primary_file_unique.tardis_dalek|0.25.tardis_dalek__": {"src": "hda", "id": "23edcc4e5b71eb61", "uuid": "e254a57d-6b92-485b-94b2-696a0f583f48"}, "__new_primary_file_unique.tardis_dalek|0.10.tardis_dalek__": {"src": "hda", "id": "6488c2c82f28f195", "uuid": "9d4229d8-efcf-49eb-8a99-7db53404486c"}, "__new_primary_file_unique.tardis_dalek|unique.tardis_dalek__": {"src": "hda", "id": "d5d307ba80698737", "uuid": "323b9c27-cfd3-4404-b148-460f4ae42f08"}, "__new_primary_file_unique.tardis_dalek|0.14.tardis_dalek__": {"src": "hda", "id": "0dd59bf0ff2d1808", "uuid": "dfe825b4-560d-46a6-a3fe-0ac86cc953f2"}, "__new_primary_file_unique.tardis_dalek|0.08.tardis_dalek__": {"src": "hda", "id": "8a43e709b6288a8e", "uuid": "7a35cb2e-6457-415a-b628-7c6428c66950"}, "__new_primary_file_unique.tardis_dalek|0.16.tardis_dalek__": {"src": "hda", "id": "e6e401f2a6b47613", "uuid": "e1a05933-bbad-4222-8b53-7677210586ab"}, "__new_primary_file_unique.tardis_dalek|0.17.tardis_dalek__": {"src": "hda", "id": "b1038f71a0d34df9", "uuid": "8e37a662-e02b-4176-a95b-fabfbd1b54c0"}, "__new_primary_file_unique.tardis_dalek|0.05.tardis_dalek__": {"src": "hda", "id": "89a6b602b1c79537", "uuid": "25ef581d-b984-4e1a-86e3-92a5c09ff2ea"}, "__new_primary_file_unique.tardis_dalek|0.13.tardis_dalek__": {"src": "hda", "id": "be88353ca733c0a1", "uuid": "f887bb42-5613-4c7f-b8ce-1a7e359f4d86"}, "__new_primary_file_unique.tardis_dalek|0.15.tardis_dalek__": {"src": "hda", "id": "6aa2efcb07ffa2aa", "uuid": "1c0e7350-e2a9-409a-9d75-f567ad255b0c"}, "__new_primary_file_unique.tardis_dalek|0.11.tardis_dalek__": {"src": "hda", "id": "b033e717893f975b", "uuid": "4af371eb-6d68-4208-b8a7-963d774c3d81"}, "__new_primary_file_unique.tardis_dalek|0.12.tardis_dalek__": {"src": "hda", "id": "c81b3d5aeaa214d9", "uuid": "0db9589f-a364-4371-8181-877bd52bdaca"}, "__new_primary_file_unique.tardis_dalek|0.32.tardis_dalek__": {"src": "hda", "id": "f438c8126c9bf9b0", "uuid": "1d1e9de4-e49b-4959-9b7b-cbd46afa9329"}, "__new_primary_file_unique.tardis_dalek|0.29.tardis_dalek__": {"src": "hda", "id": "f44604ff22d877c1", "uuid": "1899c047-5d53-4daa-86dd-d17c5916e643"}, "__new_primary_file_unique.tardis_dalek|0.07.tardis_dalek__": {"src": "hda", "id": "128c838a8d0d8ae0", "uuid": "97c67190-a01f-41cf-bedc-4dd3961ff510"}, "__new_primary_file_unique.tardis_dalek|0.04.tardis_dalek__": {"src": "hda", "id": "f3e6c274e0f9a8e4", "uuid": "2dc69c47-4aae-4a5e-ab1e-30b1373dc644"}, "__new_primary_file_unique.tardis_dalek|0.36.tardis_dalek__": {"src": "hda", "id": "03e89c7d01c2bc89", "uuid": "6b97a604-d0a5-448d-a089-ab2b10bc01a8"}, "__new_primary_file_unique.tardis_dalek|0.06.tardis_dalek__": {"src": "hda", "id": "976e02c1336449e2", "uuid": "04f6416e-10fa-42d7-af71-fd9beb5985fb"}, "__new_primary_file_unique.tardis_dalek|0.03.tardis_dalek__": {"src": "hda", "id": "26c4db6085811fea", "uuid": "4929f085-b59f-4194-bc17-1383398f70b3"}, "__new_primary_file_unique.tardis_dalek|0.09.tardis_dalek__": {"src": "hda", "id": "4981d0805809f979", "uuid": "8a11f0ad-8c4c-4d12-97e4-6bd9d22581c1"}, "__new_primary_file_unique.tardis_dalek|0.18.tardis_dalek__": {"src": "hda", "id": "81eed33b79c62dd6", "uuid": "fe2f8394-859e-4a4b-9ebe-4372133e3df7"}, "__new_primary_file_unique.tardis_dalek|0.01.tardis_dalek__": {"src": "hda", "id": "c17cb498f643f865", "uuid": "bbfb19a1-2947-41ab-b79d-db72dad84646"}, "__new_primary_file_unique.tardis_dalek|0.19.tardis_dalek__": {"src": "hda", "id": "e0803aa76a0a1bc2", "uuid": "afdb1fec-9dde-461d-ad0e-6a5ae28017fa"}, "__new_primary_file_unique.tardis_dalek|0.23.tardis_dalek__": {"src": "hda", "id": "5a2b531ed34953ef", "uuid": "cf779b61-a8ea-4883-87f5-c91c3e292dd9"}, "__new_primary_file_unique.tardis_dalek|0.55.tardis_dalek__": {"src": "hda", "id": "d275e0f086e8ba53", "uuid": "f5572494-b2a1-467c-a450-59d5ddee16c6"}, "__new_primary_file_unique.tardis_dalek|0.41.tardis_dalek__": {"src": "hda", "id": "a30e41ecd967d7a3", "uuid": "210829b9-80c0-465c-a757-f398c22b056a"}, "__new_primary_file_unique.tardis_dalek|0.38.tardis_dalek__": {"src": "hda", "id": "a93799b0b587d22c", "uuid": "a233d11b-6442-4375-ac8e-0fd1a4352846"}, "__new_primary_file_unique.tardis_dalek|0.22.tardis_dalek__": {"src": "hda", "id": "3eb471ae316d5ad9", "uuid": "f392ddea-025a-4c4d-8edf-a40147cb5a79"}, "__new_primary_file_unique.tardis_dalek|0.26.tardis_dalek__": {"src": "hda", "id": "c37b0acee3e6ddf8", "uuid": "a8c15b1f-1e11-4233-9f2f-4b151ac8cce6"}, "__new_primary_file_unique.tardis_dalek|0.33.tardis_dalek__": {"src": "hda", "id": "97255621df457a9d", "uuid": "9c76e42d-2704-4ca7-bc5e-941fc0640f2c"}, "__new_primary_file_unique.tardis_dalek|0.20.tardis_dalek__": {"src": "hda", "id": "f8c8bf4b82d11e77", "uuid": "4c8e26a6-19dd-44d6-812c-99d1043ee603"}, "__new_primary_file_unique.tardis_dalek|0.24.tardis_dalek__": {"src": "hda", "id": "19a2bc99dc38847c", "uuid": "1a182621-41c5-45e6-84b5-3c37158ba384"}, "__new_primary_file_unique.tardis_dalek|0.27.tardis_dalek__": {"src": "hda", "id": "7cddf8abc6fb76de", "uuid": "29a51c5e-589a-41e9-b6d3-cf95d9255dfc"}, "__new_primary_file_unique.tardis_dalek|0.21.tardis_dalek__": {"src": "hda", "id": "0bb6efe930f641f6", "uuid": "86a71f87-c4d6-493e-b5a1-09e26728f8a9"}, "logfile": {"src": "hda", "id": "21321643249e498c", "uuid": "b00f8c3e-8a53-4d25-b87d-906fd2778752"}, "__new_primary_file_unique.tardis_dalek|0.45.tardis_dalek__": {"src": "hda", "id": "8ecc395ead7daa5b", "uuid": "52cf9561-ba5e-4430-ba24-776b1fd17c80"}, "__new_primary_file_unique.tardis_dalek|0.02.tardis_dalek__": {"src": "hda", "id": "fe80aaa5fa3c02fc", "uuid": "60280cc1-03f0-4df8-9587-8cd48eeb6f91"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > metastats(shared=otu.dat,design=design.dat,iters=1000,threshold=0.05,pr \rocessors=1)\n\nUsing 1 processors.\nunique\nComparing tardis and dalek...\n\n\n\n0.01\nComparing tardis and dalek...\n\n\n\n0.02\nComparing tardis and dalek...\n\n\n\n0.03\nComparing tardis and dalek...\n\n\n\n0.04\nComparing tardis and dalek...\n\n\n\n0.05\nComparing tardis and dalek...\n\n\n\n0.06\nComparing tardis and dalek...\n\n\n\n0.07\nComparing tardis and dalek...\n\n\n\n0.08\nComparing tardis and dalek...\n\n\n\n0.09\nComparing tardis and dalek...\n\n\n\n0.10\nComparing tardis and dalek...\n\n\n\n0.11\nComparing tardis and dalek...\n\n\n\n0.12\nComparing tardis and dalek...\n\n\n\n0.13\nComparing tardis and dalek...\n\n\n\n0.14\nComparing tardis and dalek...\n\n\n\n0.15\nComparing tardis and dalek...\n\n\n\n0.16\nComparing tardis and dalek...\n\n\n\n0.17\nComparing tardis and dalek...\n\n\n\n0.18\nComparing tardis and dalek...\n\n\n\n0.19\nComparing tardis and dalek...\n\n\n\n0.20\nComparing tardis and dalek...\n\n\n\n0.21\nComparing tardis and dalek...\n\n\n\n0.22\nComparing tardis and dalek...\n\n\n\n0.23\nComparing tardis and dalek...\n\n\n\n0.24\nComparing tardis and dalek...\n\n\n\n0.25\nComparing tardis and dalek...\n\n\n\n0.26\nComparing tardis and dalek...\n\n\n\n0.27\nComparing tardis and dalek...\n\n\n\n0.29\nComparing tardis and dalek...\n\n\n\n0.32\nComparing tardis and dalek...\n\n\n\n0.33\nComparing tardis and dalek...\n\n\n\n0.36\nComparing tardis and dalek...\n\n\n\n0.38\nComparing tardis and dalek...\n\n\n\n0.41\nComparing tardis and dalek...\n\n\n\n0.45\nComparing tardis and dalek...\n\n\n\n0.55\nComparing tardis and dalek...\n\n\n\n\nOutput File Names: \notu.unique.tardis_dalek.metastats\notu.0.01.tardis_dalek.metastats\notu.0.02.tardis_dalek.metastats\notu.0.03.tardis_dalek.metastats\notu.0.04.tardis_dalek.metastats\notu.0.05.tardis_dalek.metastats\notu.0.06.tardis_dalek.metastats\notu.0.07.tardis_dalek.metastats\notu.0.08.tardis_dalek.metastats\notu.0.09.tardis_dalek.metastats\notu.0.10.tardis_dalek.metastats\notu.0.11.tardis_dalek.metastats\notu.0.12.tardis_dalek.metastats\notu.0.13.tardis_dalek.metastats\notu.0.14.tardis_dalek.metastats\notu.0.15.tardis_dalek.metastats\notu.0.16.tardis_dalek.metastats\notu.0.17.tardis_dalek.metastats\notu.0.18.tardis_dalek.metastats\notu.0.19.tardis_dalek.metastats\notu.0.20.tardis_dalek.metastats\notu.0.21.tardis_dalek.metastats\notu.0.22.tardis_dalek.metastats\notu.0.23.tardis_dalek.metastats\notu.0.24.tardis_dalek.metastats\notu.0.25.tardis_dalek.metastats\notu.0.26.tardis_dalek.metastats\notu.0.27.tardis_dalek.metastats\notu.0.29.tardis_dalek.metastats\notu.0.32.tardis_dalek.metastats\notu.0.33.tardis_dalek.metastats\notu.0.36.tardis_dalek.metastats\notu.0.38.tardis_dalek.metastats\notu.0.41.tardis_dalek.metastats\notu.0.45.tardis_dalek.metastats\notu.0.55.tardis_dalek.metastats\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1941.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1942.dat' design.dat && echo 'metastats( shared=otu.dat, design=design.dat, iters=1000, threshold=0.05, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:00:44.770100", "params": {"iters": "\"1000\"", "dbkey": "\"hg17\"", "label": "null", "groups": "null", "sets": "null", "threshold": "\"0.05\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28202", "id": "9c170123467f3230", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_metastats.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"iters": "42", "label": ["0.03", "0.05", "0.23"], "design": {"src": "hda", "id": "f5f83a2c2e2df452"}, "groups": ["forest", "pasture"], "sets": ["tardis", "dalek"], "threshold": "0.1", "otu": {"src": "hda", "id": "16015188b50ec89d"}}, "job": {"inputs": {"design": {"src": "hda", "id": "f5f83a2c2e2df452", "uuid": "b2bfb765-b8ed-45fb-8868-718771a6b982"}, "otu": {"src": "hda", "id": "16015188b50ec89d", "uuid": "ee5a9e25-e463-4fe6-94ca-fec5c0b46ae0"}}, "update_time": "2018-02-08T18:01:12.674158", "tool_id": "mothur_metastats", "outputs": {"__new_primary_file_0.23.tardis_dalek|0.03.tardis_dalek__": {"src": "hda", "id": "d300bc462cc13705", "uuid": "f876c2bb-7428-4ce4-81b8-3088bff3409f"}, "logfile": {"src": "hda", "id": "1f58a7ab4f77b22a", "uuid": "8984636b-b45c-4592-a0ee-afce3170e0c5"}, "__new_primary_file_0.23.tardis_dalek|0.23.tardis_dalek__": {"src": "hda", "id": "e03f21306103e4ea", "uuid": "f048a2fc-77e9-41ce-99bb-40045453e1e2"}, "__new_primary_file_0.23.tardis_dalek|0.05.tardis_dalek__": {"src": "hda", "id": "262c1246e01f8d26", "uuid": "47ee5a3d-772d-401e-b3e3-de1424399d36"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > metastats(shared=otu.dat,design=design.dat,label=0.03-0.05-0.23,groups= \rforest-pasture,sets=tardis-dalek,iters=42,threshold=0.1,processors=1)\n\nUsing 1 processors.\n0.03\nComparing tardis and dalek...\n\n\n\n0.05\nComparing tardis and dalek...\n\n\n\n0.23\nComparing tardis and dalek...\n\n\n\n\nOutput File Names: \notu.0.03.tardis_dalek.metastats\notu.0.05.tardis_dalek.metastats\notu.0.23.tardis_dalek.metastats\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1980.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1981.dat' design.dat && echo 'metastats( shared=otu.dat, design=design.dat, label=0.03-0.05-0.23, groups=forest-pasture, sets=tardis-dalek, iters=42, threshold=0.1, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:01:09.437646", "params": {"iters": "\"42\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\", \"0.23\"]", "groups": "[\"forest\", \"pasture\"]", "sets": "[\"tardis\", \"dalek\"]", "threshold": "\"0.1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28310", "id": "c9376b9862484ed4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_metastats.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"biosample_in": {"src": "hda", "id": "783b5c0953b1d59f"}}, "job": {"inputs": {"biosample_in": {"src": "hda", "id": "783b5c0953b1d59f", "uuid": "f04d010f-490e-47d7-9c58-638de0a0f112"}}, "update_time": "2018-02-08T18:01:30.104939", "tool_id": "mothur_mimarks_attributes", "outputs": {"logfile": {"src": "hda", "id": "7fc2bbf196a6c236", "uuid": "380bef89-2a78-4c3e-874a-739dcb8e6b44"}, "source_out": {"src": "hda", "id": "484bc14fb0641f5d", "uuid": "5f2c33dd-8ec2-49ef-8273-f4070a612f4b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > mimarks.attributes(xml=biosample_in.dat)\n\nOutput File Names: \nbiosample_in.source\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1986.dat' biosample_in.dat && echo 'mimarks.attributes( xml=biosample_in.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:01:27.084739", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28401", "id": "a15361ef356dda4c", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_mimarks_attributes.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"maxiters": "500", "dist": {"src": "hda", "id": "b5c63bdc9af8cbfc"}, "iters": "10", "epsilon": "1e-12", "axes": {"src": "hda", "id": "79c845a60c77ee0a"}, "mindim": "1", "maxdim": "2"}, "job": {"inputs": {"axes": {"src": "hda", "id": "79c845a60c77ee0a", "uuid": "daa0cf22-d069-4512-92c4-00ccec312827"}, "dist": {"src": "hda", "id": "b5c63bdc9af8cbfc", "uuid": "a5bd2d21-a2d7-4102-877c-fd2380c0f335"}}, "update_time": "2018-02-08T18:01:52.474808", "tool_id": "mothur_nmds", "outputs": {"nmds_axes": {"src": "hda", "id": "fb839e143095d9fa", "uuid": "081a3528-a9b7-4eaa-a884-7ff38c3a8191"}, "logfile": {"src": "hda", "id": "69390d7537a983f9", "uuid": "154d81fb-90af-4c69-82af-c808c507e7ae"}, "nmds_stress": {"src": "hda", "id": "ad8f0faec2def4cc", "uuid": "2323c312-fef4-440b-957e-a17723a6996e"}, "nmds_iters": {"src": "hda", "id": "d227a40fd9141984", "uuid": "2f3b4e0e-a3ce-41e0-8619-22f3456e16bf"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > nmds(phylip=dist.dat,axes=axes.dat,mindim=1,maxdim=2,iters=10,maxiters= \r500,epsilon=0.000000000001)\nProcessing Dimension: 1\n1\n2\n3\n4\n5\n6\n7\n8\n9\n10\nProcessing Dimension: 2\n1\n2\n3\n4\n5\n6\n7\n8\n9\n10\n\nNumber of dimensions:\t2\nLowest stress :\t0.291989\nR-squared for configuration:\t0.672714\n\nOutput File Names: \ndist.nmds.iters\ndist.nmds.stress\ndist.nmds.axes\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1989.dat' dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1990.dat' axes.dat && echo 'nmds( phylip=dist.dat ,axes=axes.dat ,mindim=1 ,maxdim=2 ,iters=10 ,maxiters=500 ,epsilon=0.000000000001 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:01:48.716400", "params": {"iters": "\"10\"", "epsilon": "\"1e-12\"", "maxiters": "\"500\"", "dbkey": "\"hg17\"", "mindim": "\"1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "maxdim": "\"2\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28517", "id": "9cb939e9f07d29cd", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_nmds.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "48c25e118b57ff38"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "48c25e118b57ff38", "uuid": "8a3f167d-d835-41c1-a038-18adbb58214e"}}, "update_time": "2018-02-08T18:02:08.863250", "tool_id": "mothur_normalize_shared", "outputs": {"__new_primary_file_unique.norm|0.07.norm__": {"src": "hda", "id": "7759c88734df315e", "uuid": "a75f4462-3a2f-4cc2-b859-9a340492b5a7"}, "__new_primary_file_unique.norm|0.19.norm__": {"src": "hda", "id": "e15558a60db6ce87", "uuid": "05f65c04-ef5e-4021-b38c-b24d1edabb41"}, "__new_primary_file_unique.norm|0.21.norm__": {"src": "hda", "id": "49f819ba53a576ae", "uuid": "287b454e-235d-448d-beb9-72c57e385e9f"}, "__new_primary_file_unique.norm|0.27.norm__": {"src": "hda", "id": "272369349a8921ab", "uuid": "c50e231d-00fb-4c12-aacd-2c55c6aed2b1"}, "__new_primary_file_unique.norm|0.02.norm__": {"src": "hda", "id": "c2d6d1dec01a4ef9", "uuid": "d5787ed8-9289-4c0d-8654-4559c8b67bd4"}, "__new_primary_file_unique.norm|0.10.norm__": {"src": "hda", "id": "90fe3cef3e1f3d0a", "uuid": "0dce828e-85e6-4778-9f4d-a737f5bf061d"}, "__new_primary_file_unique.norm|0.15.norm__": {"src": "hda", "id": "cfc3a68225d7a57a", "uuid": "fe6355f9-4e84-4c08-941d-f686872e9fa9"}, "__new_primary_file_unique.norm|0.32.norm__": {"src": "hda", "id": "3a39b817c56902e0", "uuid": "c50f8300-a0e6-4171-a176-b7b7eded04cc"}, "__new_primary_file_unique.norm|0.17.norm__": {"src": "hda", "id": "2f054c8ffebf41aa", "uuid": "5accca94-4b16-42d9-9947-ef9a7e2ffb6e"}, "__new_primary_file_unique.norm|0.16.norm__": {"src": "hda", "id": "46333212c23a3768", "uuid": "b5d1bda0-7373-413b-acbf-eeb5146961e2"}, "__new_primary_file_unique.norm|0.36.norm__": {"src": "hda", "id": "75cd1d05bb846784", "uuid": "77ba217e-f20f-474f-94f3-5f21264485f4"}, "__new_primary_file_unique.norm|0.18.norm__": {"src": "hda", "id": "b87b913e52a5d5c9", "uuid": "74191fb6-286c-44ee-a8f1-2ed5bdbdf1e9"}, "__new_primary_file_unique.norm|0.09.norm__": {"src": "hda", "id": "27e1efdc333ce8f0", "uuid": "8d783925-c7e6-447e-8cc7-6d3b3bfb94ec"}, "__new_primary_file_unique.norm|0.13.norm__": {"src": "hda", "id": "2d594f1751c3f1ca", "uuid": "9ba75684-ca69-4ab3-ac4a-e03abe56de6d"}, "__new_primary_file_unique.norm|0.04.norm__": {"src": "hda", "id": "1e9ece54ea08d532", "uuid": "3647f93e-adbb-46b8-be78-b4dd866a3c1a"}, "__new_primary_file_unique.norm|0.25.norm__": {"src": "hda", "id": "2c56b3e8d1933dff", "uuid": "bd5cb805-5151-4fa8-b6ad-04cd367774ec"}, "__new_primary_file_unique.norm|0.08.norm__": {"src": "hda", "id": "d1c342b47833ac58", "uuid": "01a00306-6ea4-4f89-af13-fecec911d3d0"}, "__new_primary_file_unique.norm|0.14.norm__": {"src": "hda", "id": "3c42490c0523ccef", "uuid": "77eda36d-e783-4d80-98b1-a478e6b72e29"}, "__new_primary_file_unique.norm|0.01.norm__": {"src": "hda", "id": "c824299315999632", "uuid": "fd126526-1c4c-40a5-aa68-bd3ab81d043d"}, "__new_primary_file_unique.norm|0.12.norm__": {"src": "hda", "id": "a47b8bff4e8d501d", "uuid": "3043e307-5930-4373-a1cf-d0b4f8652103"}, "__new_primary_file_unique.norm|0.20.norm__": {"src": "hda", "id": "73da0ed5a2fb6fff", "uuid": "a68dd3f4-94f3-4214-b2aa-885b42bad8e3"}, "__new_primary_file_unique.norm|0.11.norm__": {"src": "hda", "id": "40b29ef9311f652c", "uuid": "5a54bdc9-f200-46fd-bcda-65cc9a198ddb"}, "__new_primary_file_unique.norm|0.24.norm__": {"src": "hda", "id": "b54047d5cce3c175", "uuid": "046417cb-59f0-49bb-b84e-217d6f9fc6df"}, "__new_primary_file_unique.norm|0.33.norm__": {"src": "hda", "id": "36c9940fe6749118", "uuid": "facb3a3c-29f8-4b19-91eb-7f9d9cebb1eb"}, "__new_primary_file_unique.norm|0.06.norm__": {"src": "hda", "id": "81ad05cab5ca23e3", "uuid": "52ee6aff-4754-400d-871e-b63c5a579dac"}, "logfile": {"src": "hda", "id": "f6fa49db00a5d176", "uuid": "49c3d551-24d6-4177-aa4d-f30a2ed85679"}, "__new_primary_file_unique.norm|0.22.norm__": {"src": "hda", "id": "3d07c4b2ea0d3aa3", "uuid": "fd2adbbe-a2a9-46ed-b5e3-d851f5d8c826"}, "__new_primary_file_unique.norm|0.23.norm__": {"src": "hda", "id": "8d52c605ebf1b6c9", "uuid": "0c921b87-30c0-49c6-8055-863f572a2d44"}, "__new_primary_file_unique.norm|unique.norm__": {"src": "hda", "id": "60c77f9904c7dacb", "uuid": "4f1c6b3b-c49e-4cde-9bcf-bc3b9b24bf92"}, "__new_primary_file_unique.norm|0.55.norm__": {"src": "hda", "id": "ecbc034f3494529a", "uuid": "f5274456-1f23-4cb1-8d2a-8a283213cd9a"}, "__new_primary_file_unique.norm|0.29.norm__": {"src": "hda", "id": "977623ec5ac25552", "uuid": "49ca3d12-5f9b-43d5-99d2-bc253f076536"}, "__new_primary_file_unique.norm|0.05.norm__": {"src": "hda", "id": "43b804562da00ba8", "uuid": "6ef2e7b3-cbad-4fa8-b8ac-ef215b7a04ba"}, "__new_primary_file_unique.norm|0.41.norm__": {"src": "hda", "id": "eeea002e11b8cacd", "uuid": "b683fd5c-efcc-49d6-8bd8-005ee6c05de2"}, "__new_primary_file_unique.norm|0.45.norm__": {"src": "hda", "id": "eceb0fa9b153422c", "uuid": "82f45968-c33c-4374-a80e-58acd43b3a5f"}, "__new_primary_file_unique.norm|0.26.norm__": {"src": "hda", "id": "a9b1685bdd21a57d", "uuid": "e8ec4d17-2204-45d2-901b-7763a9eb00c6"}, "__new_primary_file_unique.norm|0.38.norm__": {"src": "hda", "id": "85d4d338e8b329c0", "uuid": "2be1bc01-fadd-4ae6-ae51-fc2fa9b83bb6"}, "__new_primary_file_unique.norm|0.03.norm__": {"src": "hda", "id": "ae1816dcf1be843e", "uuid": "5d23b3c7-215f-4720-ac0c-8fce664b4c0d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > normalize.shared(shared=otu.dat,makerelabund=false,method=totalgroup)\nNormalizing to 49.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.norm.shared\notu.0.01.norm.shared\notu.0.02.norm.shared\notu.0.03.norm.shared\notu.0.04.norm.shared\notu.0.05.norm.shared\notu.0.06.norm.shared\notu.0.07.norm.shared\notu.0.08.norm.shared\notu.0.09.norm.shared\notu.0.10.norm.shared\notu.0.11.norm.shared\notu.0.12.norm.shared\notu.0.13.norm.shared\notu.0.14.norm.shared\notu.0.15.norm.shared\notu.0.16.norm.shared\notu.0.17.norm.shared\notu.0.18.norm.shared\notu.0.19.norm.shared\notu.0.20.norm.shared\notu.0.21.norm.shared\notu.0.22.norm.shared\notu.0.23.norm.shared\notu.0.24.norm.shared\notu.0.25.norm.shared\notu.0.26.norm.shared\notu.0.27.norm.shared\notu.0.29.norm.shared\notu.0.32.norm.shared\notu.0.33.norm.shared\notu.0.36.norm.shared\notu.0.38.norm.shared\notu.0.41.norm.shared\notu.0.45.norm.shared\notu.0.55.norm.shared\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/001/dataset_1995.dat' otu.dat && echo 'normalize.shared( shared=otu.dat, makerelabund=false ,method=totalgroup )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:02:04.195701", "params": {"makerelabund": "\"false\"", "dbkey": "\"hg17\"", "label": "null", "groups": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"totalgroup\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28605", "id": "9c51eb665ea2103a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_normalize_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "9ba5a8797c4d0c42"}, "method": "zscore", "groups": ["forest", "pasture"], "label": ["0.03", "0.05", "0.22", "0.26"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "9ba5a8797c4d0c42", "uuid": "a4a49ce3-1b9f-49ae-aa48-ea0fc8e7daa7"}}, "update_time": "2018-02-08T18:02:27.725869", "tool_id": "mothur_normalize_shared", "outputs": {"__new_primary_file_0.26.norm|0.22.norm__": {"src": "hda", "id": "657c12bf3606453d", "uuid": "29a1882d-2c27-4382-8da0-48f9a2b9d275"}, "__new_primary_file_0.26.norm|0.03.norm__": {"src": "hda", "id": "0cced470bd87c555", "uuid": "6c7a4cab-4a52-4632-a961-fd87ee7abfe5"}, "logfile": {"src": "hda", "id": "d13e42b04e9821cb", "uuid": "7b373694-be5e-4685-a6a5-a70069e6c927"}, "__new_primary_file_0.26.norm|0.05.norm__": {"src": "hda", "id": "e58fc15b0924c233", "uuid": "3afbd0b9-3417-4574-a7c2-f5d92de0c7c2"}, "__new_primary_file_0.26.norm|0.26.norm__": {"src": "hda", "id": "4b63a0979ffefabe", "uuid": "084e8dac-f27e-40d4-a25a-2f528d29542f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > normalize.shared(relabund=otu.dat,label=0.03-0.05-0.22-0.26,groups=fore \rst-pasture,method=zscore)\n0.03\n0.05\n0.22\n0.26\n\nOutput File Names: \notu.0.03.norm.shared\notu.0.05.norm.shared\notu.0.22.norm.shared\notu.0.26.norm.shared\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2033.dat' otu.dat && echo 'normalize.shared( relabund=otu.dat ,label=0.03-0.05-0.22-0.26 ,groups=forest-pasture ,method=zscore )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:02:24.473973", "params": {"makerelabund": "\"false\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\", \"0.22\", \"0.26\"]", "groups": "[\"forest\", \"pasture\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"zscore\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28697", "id": "3511dc9f211ca562", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_normalize_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "87078348debd31f2"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "87078348debd31f2", "uuid": "9ff0bf1b-34a4-4486-a449-18e55d1e5577"}}, "update_time": "2018-02-08T18:02:47.222922", "tool_id": "mothur_otu_association", "outputs": {"__new_primary_file_unique.pearson|0.21.pearson__": {"src": "hda", "id": "c1f9b7f85ff447a6", "uuid": "a1aac0c9-3045-45c0-836d-1493ca8e591e"}, "__new_primary_file_unique.pearson|0.09.pearson__": {"src": "hda", "id": "7d1fdfaaecdf4192", "uuid": "190d3ceb-dbac-42b7-86f2-431ef542ade1"}, "__new_primary_file_unique.pearson|0.14.pearson__": {"src": "hda", "id": "15af681009ecbcd4", "uuid": "829a2d25-1d1f-4bd1-a94f-728b71ed4a8b"}, "__new_primary_file_unique.pearson|0.17.pearson__": {"src": "hda", "id": "114f907721fad498", "uuid": "b8e86fe8-b44b-43dd-832c-ccf1c29b1b49"}, "__new_primary_file_unique.pearson|0.32.pearson__": {"src": "hda", "id": "5c5398d0729f4c9a", "uuid": "f52b9ec3-a517-4374-8f13-d04f44eb252d"}, "__new_primary_file_unique.pearson|0.02.pearson__": {"src": "hda", "id": "c236b8a59d75a9c2", "uuid": "27ad07c8-efeb-4c4b-9c95-a68738ffb41e"}, "__new_primary_file_unique.pearson|0.12.pearson__": {"src": "hda", "id": "2c136d847c62c788", "uuid": "412122c9-714d-4070-8454-555b9ef659e1"}, "__new_primary_file_unique.pearson|0.25.pearson__": {"src": "hda", "id": "d771d09f3a90c00d", "uuid": "4a14d774-50c2-4eba-80e0-922cc5f421da"}, "__new_primary_file_unique.pearson|0.08.pearson__": {"src": "hda", "id": "72e972e8ff63ac2f", "uuid": "dabda07b-48d8-4e6f-875d-563a245f844d"}, "__new_primary_file_unique.pearson|0.38.pearson__": {"src": "hda", "id": "e3439702cb80e218", "uuid": "9612f8ee-101d-41d9-b93b-661a0e535b7a"}, "__new_primary_file_unique.pearson|unique.pearson__": {"src": "hda", "id": "aace3805315e657d", "uuid": "dc3a07bf-337a-4ec1-919a-f66776445489"}, "__new_primary_file_unique.pearson|0.01.pearson__": {"src": "hda", "id": "16d9810a1d73b5f1", "uuid": "597d9503-922e-40af-a9c1-984353ba0c8e"}, "__new_primary_file_unique.pearson|0.20.pearson__": {"src": "hda", "id": "c2043a758b5f655f", "uuid": "2a04f889-eb09-432c-9a25-3b114d0c5a41"}, "__new_primary_file_unique.pearson|0.41.pearson__": {"src": "hda", "id": "1fee3aaaf06b954f", "uuid": "cc55fe95-9ef5-4624-9387-90d471c056f0"}, "__new_primary_file_unique.pearson|0.04.pearson__": {"src": "hda", "id": "404e8272e390459f", "uuid": "d8f51365-827d-4a9a-ab9b-e2c8571868d0"}, "__new_primary_file_unique.pearson|0.45.pearson__": {"src": "hda", "id": "86b4eaf5162d2e94", "uuid": "966213a6-ce22-4c59-b398-d62b43dab95b"}, "__new_primary_file_unique.pearson|0.10.pearson__": {"src": "hda", "id": "018540e5bb755e48", "uuid": "7a545f3e-65a3-41a6-a5a8-11f2e53b34f3"}, "__new_primary_file_unique.pearson|0.11.pearson__": {"src": "hda", "id": "567e98a779203439", "uuid": "8ecdc785-ec0b-4254-9a79-2a7cc0cf79ac"}, "__new_primary_file_unique.pearson|0.18.pearson__": {"src": "hda", "id": "64554a81865d2173", "uuid": "c0bbdbf2-ee93-4e47-8d98-9909d31ab095"}, "__new_primary_file_unique.pearson|0.03.pearson__": {"src": "hda", "id": "54d5b172655ab5cf", "uuid": "4194c71d-db60-4f42-a995-90167d782a67"}, "__new_primary_file_unique.pearson|0.15.pearson__": {"src": "hda", "id": "7fcc2597b7ad9954", "uuid": "c6309615-8880-49ce-b9f5-a386be8bc8b7"}, "__new_primary_file_unique.pearson|0.36.pearson__": {"src": "hda", "id": "b60f79d04dee2eec", "uuid": "9ca41100-7ad9-45e8-a03a-64df3b213dbf"}, "__new_primary_file_unique.pearson|0.24.pearson__": {"src": "hda", "id": "94b253c013da9d07", "uuid": "03736b3b-ccba-4d40-a0de-b6d3d1709a5d"}, "__new_primary_file_unique.pearson|0.05.pearson__": {"src": "hda", "id": "cfcb788085ab492e", "uuid": "18fc98fb-2238-46e4-91cf-9a318eb3207a"}, "__new_primary_file_unique.pearson|0.33.pearson__": {"src": "hda", "id": "6e262c2ae2545ffb", "uuid": "06429343-666a-449b-bc23-94c807213edf"}, "logfile": {"src": "hda", "id": "73ed1fba7da78f4b", "uuid": "b005fd48-2d12-4e18-8471-b6a413a03e5e"}, "__new_primary_file_unique.pearson|0.19.pearson__": {"src": "hda", "id": "bc441ceb5a3223e1", "uuid": "7d6a6527-1daa-4624-b0fb-de3377b58c4c"}, "__new_primary_file_unique.pearson|0.16.pearson__": {"src": "hda", "id": "aa452a61ad24963a", "uuid": "1393e52e-a590-4174-9947-e9794deb3a10"}, "__new_primary_file_unique.pearson|0.55.pearson__": {"src": "hda", "id": "872f8bbac826a355", "uuid": "62d76d7a-216e-471b-9bc0-7db49cc077a4"}, "__new_primary_file_unique.pearson|0.13.pearson__": {"src": "hda", "id": "9c4915c8de2f90d1", "uuid": "4509cd1a-0c95-422e-84f4-e9c9a57fb559"}, "__new_primary_file_unique.pearson|0.27.pearson__": {"src": "hda", "id": "632437ce271bb8aa", "uuid": "8aa8d928-c084-41ec-83e4-c597839d9da7"}, "__new_primary_file_unique.pearson|0.26.pearson__": {"src": "hda", "id": "a842af6d14177fe6", "uuid": "1fa98059-5386-4b6f-9794-9cff5e7c3e67"}, "__new_primary_file_unique.pearson|0.22.pearson__": {"src": "hda", "id": "01ae29ee518639b6", "uuid": "5a789cc3-468b-4649-a3f5-7428b8f80c58"}, "__new_primary_file_unique.pearson|0.07.pearson__": {"src": "hda", "id": "3ac2939147b22342", "uuid": "0676e856-b147-48a4-9137-565323c071b6"}, "__new_primary_file_unique.pearson|0.29.pearson__": {"src": "hda", "id": "56dae71a8dfd28e4", "uuid": "4972bf5f-dc51-4616-8368-13e49a8b2efe"}, "__new_primary_file_unique.pearson|0.06.pearson__": {"src": "hda", "id": "13d8dea9ad27b203", "uuid": "0bb6d052-9c47-4c2d-9ff6-253d68a9705a"}, "__new_primary_file_unique.pearson|0.23.pearson__": {"src": "hda", "id": "652cc733e38b3fd8", "uuid": "a9988dbd-1aa0-400a-b0e7-cdd1473ae7b7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > otu.association(shared=otu.dat,method=pearson)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.unique.pearson.otu.corr\notu.0.01.pearson.otu.corr\notu.0.02.pearson.otu.corr\notu.0.03.pearson.otu.corr\notu.0.04.pearson.otu.corr\notu.0.05.pearson.otu.corr\notu.0.06.pearson.otu.corr\notu.0.07.pearson.otu.corr\notu.0.08.pearson.otu.corr\notu.0.09.pearson.otu.corr\notu.0.10.pearson.otu.corr\notu.0.11.pearson.otu.corr\notu.0.12.pearson.otu.corr\notu.0.13.pearson.otu.corr\notu.0.14.pearson.otu.corr\notu.0.15.pearson.otu.corr\notu.0.16.pearson.otu.corr\notu.0.17.pearson.otu.corr\notu.0.18.pearson.otu.corr\notu.0.19.pearson.otu.corr\notu.0.20.pearson.otu.corr\notu.0.21.pearson.otu.corr\notu.0.22.pearson.otu.corr\notu.0.23.pearson.otu.corr\notu.0.24.pearson.otu.corr\notu.0.25.pearson.otu.corr\notu.0.26.pearson.otu.corr\notu.0.27.pearson.otu.corr\notu.0.29.pearson.otu.corr\notu.0.32.pearson.otu.corr\notu.0.33.pearson.otu.corr\notu.0.36.pearson.otu.corr\notu.0.38.pearson.otu.corr\notu.0.41.pearson.otu.corr\notu.0.45.pearson.otu.corr\notu.0.55.pearson.otu.corr\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2039.dat' otu.dat && ln -s 'None' metadata.dat && echo 'otu.association( shared=otu.dat ,method=pearson )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:02:41.990561", "params": {"cutoff": "\"\"", "dbkey": "\"hg17\"", "label": "null", "groups": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"pearson\"", "metadata": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28785", "id": "c068ba61abe27ec2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_otu_association.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "a97c4449eeee3c89"}, "method": "kendall", "groups": ["forest", "pasture"], "label": ["0.03", "0.05", "0.36", "0.41", "0.55"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "a97c4449eeee3c89", "uuid": "2cc5e442-b3e7-4d4d-a33e-e8686510537f"}}, "update_time": "2018-02-08T18:03:05.842709", "tool_id": "mothur_otu_association", "outputs": {"__new_primary_file_0.55.kendall|0.05.kendall__": {"src": "hda", "id": "4f7f3fb5673240e3", "uuid": "75bfd5a1-ecd4-40d3-86d3-f46714fb2c06"}, "__new_primary_file_0.55.kendall|0.36.kendall__": {"src": "hda", "id": "b3f5ff2369d9d249", "uuid": "9750ce01-eeb2-49e6-bc87-8c742b5f7aca"}, "__new_primary_file_0.55.kendall|0.55.kendall__": {"src": "hda", "id": "9a70aaebc3d20bdd", "uuid": "96a76da6-1781-4a91-a55d-932954e630a4"}, "__new_primary_file_0.55.kendall|0.41.kendall__": {"src": "hda", "id": "d821d43764c03acb", "uuid": "5afaa011-1328-4ec7-9993-beebf0e70c38"}, "logfile": {"src": "hda", "id": "f7caa003b2842495", "uuid": "1d334062-244f-40a8-9707-99ea5d501792"}, "__new_primary_file_0.55.kendall|0.03.kendall__": {"src": "hda", "id": "664177380bb275d4", "uuid": "d146fe80-0495-49b1-8eb0-74d10be9c287"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > otu.association(relabund=otu.dat,label=0.03-0.05-0.36-0.41-0.55,groups= \rforest-pasture,method=kendall)\n0.03\n0.05\n0.36\n0.41\n0.55\n\nOutput File Names: \notu.0.03.kendall.otu.corr\notu.0.05.kendall.otu.corr\notu.0.36.kendall.otu.corr\notu.0.41.kendall.otu.corr\notu.0.55.kendall.otu.corr\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2077.dat' otu.dat && ln -s 'None' metadata.dat && echo 'otu.association( relabund=otu.dat ,label=0.03-0.05-0.36-0.41-0.55 ,groups=forest-pasture ,method=kendall )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:03:02.491040", "params": {"cutoff": "\"\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\", \"0.36\", \"0.41\", \"0.55\"]", "groups": "[\"forest\", \"pasture\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "method": "\"kendall\"", "metadata": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28873", "id": "aa43a28a12fcf867", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_otu_association.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"label1": "0.05", "label2": "0.03", "otu": {"src": "hda", "id": "8b1e72fab2ca9b47"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "8b1e72fab2ca9b47", "uuid": "ae2d5b50-ae44-4ed1-b9bf-1406cf8f52a4"}}, "update_time": "2018-02-08T18:03:26.014987", "tool_id": "mothur_otu_hierarchy", "outputs": {"hierarchy": {"src": "hda", "id": "143cb76ef3d4aedc", "uuid": "c008d314-8736-4660-bacf-06cd5e994100"}, "logfile": {"src": "hda", "id": "e4517ef02489f4b1", "uuid": "e4848545-6f0c-4a9f-b6b9-540bfef39a71"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > otu.hierarchy(list=otu.dat,label=0.05-0.03,output=name)\n\nOutput File Names: \notu.0.03._.0.05.otu.hierarchy\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2084.dat' otu.dat && echo 'otu.hierarchy( list=otu.dat, label=0.05-0.03, output=name )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:03:22.868182", "params": {"label1": "\"0.05\"", "label2": "\"0.03\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "output": "\"name\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "28961", "id": "bb9931d062678360", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_otu_hierarchy.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"cutoff": "0.0", "countends": true, "align": "needleman", "scoring|setby": "default", "output": "", "fasta": {"src": "hda", "id": "68cdc65b079e45ae"}, "calc": ""}, "job": {"inputs": {"fasta": {"src": "hda", "id": "68cdc65b079e45ae", "uuid": "a7869ff0-be51-454d-b445-4196d2c581e8"}}, "update_time": "2018-02-08T18:03:58.606414", "tool_id": "mothur_pairwise_seqs", "outputs": {"logfile": {"src": "hda", "id": "af3d6ad9d44f4b02", "uuid": "c4bc8b57-1e3c-4ef7-8950-19ac34479089"}, "out_dist": {"src": "hda", "id": "ff2fd427cb51c4ed", "uuid": "06c4d160-9614-45c9-a917-495ada390c3d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pairwise.seqs(fasta=fasta.dat,align=needleman,processors=1)\n\nUsing 1 processors.\nProcessing sequences from fasta.dat ...\n0\t0\n95\t15\nIt took 15 to calculate the distances for 96 sequences.\n\nOutput File Names: \nfasta.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2087.dat' fasta.dat && echo 'pairwise.seqs( fasta=fasta.dat, align=needleman, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:03:40.313049", "params": {"scoring": "{\"setby\": \"default\", \"__current_case__\": 0}", "cutoff": "\"0.0\"", "countends": "\"true\"", "align": "\"needleman\"", "dbkey": "\"hg17\"", "output": "\"\"", "calc": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29057", "id": "76880adb125efe03", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pairwise_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"cutoff": "0.01", "countends": false, "align": "gotoh", "scoring|gapopen": "-2", "scoring|mismatch": "-1", "scoring|match": "2", "output": "lt", "fasta": {"src": "hda", "id": "5b02825370c62dc1"}, "calc": "onegap", "scoring|gapextend": "-1", "scoring|setby": "user"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "5b02825370c62dc1", "uuid": "88a82267-fcb7-4a89-99f7-e5a2f4d6d863"}}, "update_time": "2018-02-08T18:04:36.354756", "tool_id": "mothur_pairwise_seqs", "outputs": {"logfile": {"src": "hda", "id": "fccad1b547140dd3", "uuid": "9d3772a7-d94e-4aa0-9c2c-ce4092e51ef0"}, "out_dist": {"src": "hda", "id": "41944e51b7eea955", "uuid": "1cdb9228-8450-4900-a3e2-f1f9e88e38a9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pairwise.seqs(fasta=fasta.dat,align=gotoh,calc=onegap,countends=false,c \rutoff=0.01,match=2,mismatch=-1,gapopen=-2,gapextend=-1,output=lt,processors=1)\n\nUsing 1 processors.\nProcessing sequences from fasta.dat ...\n0\t0\n95\t18\nIt took 18 to calculate the distances for 96 sequences.\n\nOutput File Names: \nfasta.phylip.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2090.dat' fasta.dat && echo 'pairwise.seqs( fasta=fasta.dat, align=gotoh, calc=onegap, countends=false, cutoff=0.01, match=2, mismatch=-1, gapopen=-2, gapextend=-1, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:04:14.828791", "params": {"scoring": "{\"gapopen\": \"-2\", \"mismatch\": \"-1\", \"__current_case__\": 1, \"setby\": \"user\", \"gapextend\": \"-1\", \"match\": \"2\"}", "cutoff": "\"0.01\"", "countends": "\"false\"", "align": "\"gotoh\"", "dbkey": "\"hg17\"", "output": "\"lt\"", "calc": "\"onegap\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29149", "id": "d36e0ad5b4ecc523", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pairwise_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "8afc4a870dadbd7d"}, "otu": {"src": "hda", "id": "31dbd8c6e9452ac3"}}, "job": {"inputs": {"group": {"src": "hda", "id": "8afc4a870dadbd7d", "uuid": "25515fae-47a6-4415-b726-2fca639df012"}, "otu": {"src": "hda", "id": "31dbd8c6e9452ac3", "uuid": "8f530433-634c-450d-a355-5baccd582764"}}, "update_time": "2018-02-08T18:05:00.623647", "tool_id": "mothur_parse_list", "outputs": {"__new_primary_file_pasture.unique|forest.0.13__": {"src": "hda", "id": "a85c51ad73ace21c", "uuid": "6a23b166-7009-4719-b04c-ffa7759be524"}, "__new_primary_file_pasture.unique|pasture.0.12__": {"src": "hda", "id": "3c9aa8dc96dd4037", "uuid": "cf71aa9d-2a2b-4b2c-aec0-2db9f47dc1b5"}, "__new_primary_file_pasture.unique|forest.0.06__": {"src": "hda", "id": "7407f06b1e052c43", "uuid": "47a0ec11-c781-4b0c-bbf4-2bb9f195e479"}, "__new_primary_file_pasture.unique|pasture.0.03__": {"src": "hda", "id": "afb54b8f1c8a1903", "uuid": "56eb91fa-64a2-486b-b9e9-f5a08781d96f"}, "__new_primary_file_pasture.unique|pasture.0.15__": {"src": "hda", "id": "a8ff40a3a195a77b", "uuid": "2a43e9cb-4686-4340-bce7-fecf5fc11fcc"}, "__new_primary_file_pasture.unique|forest.0.12__": {"src": "hda", "id": "57e39bb156480887", "uuid": "118bfa82-db72-4d78-98db-3b4ab0317f5f"}, "__new_primary_file_pasture.unique|forest.0.19__": {"src": "hda", "id": "3a89aaf65b4da934", "uuid": "38235792-7034-4faf-95a0-d62535622980"}, "__new_primary_file_pasture.unique|pasture.0.41__": {"src": "hda", "id": "686eaf07510a6daf", "uuid": "cc0ac23e-6c7a-4939-950f-8b014748f64c"}, "__new_primary_file_pasture.unique|forest.0.15__": {"src": "hda", "id": "03658f5433e82a2e", "uuid": "550438fa-1846-4449-9298-e05def3a211d"}, "__new_primary_file_pasture.unique|pasture.0.08__": {"src": "hda", "id": "bf4177214178aaac", "uuid": "6530c0a2-e3aa-4d5e-9e00-94a7eb76eebf"}, "__new_primary_file_pasture.unique|pasture.0.27__": {"src": "hda", "id": "ec73fd31f7fdd7ff", "uuid": "df4c822c-04d1-4daf-83d3-631aa695b6bf"}, "__new_primary_file_pasture.unique|forest.0.20__": {"src": "hda", "id": "947633482a2c76a9", "uuid": "645bfcc6-1f94-4944-a8e5-348033e8c9a5"}, "__new_primary_file_pasture.unique|forest.0.14__": {"src": "hda", "id": "387443286670d506", "uuid": "cc1c344e-c0e2-4b5d-8e9c-499b01b40486"}, "__new_primary_file_pasture.unique|forest.0.32__": {"src": "hda", "id": "ac851b4ae8518708", "uuid": "166ce5e6-b08d-40cb-88bf-038d4f768d59"}, "__new_primary_file_pasture.unique|pasture.0.13__": {"src": "hda", "id": "ca88bfbe9bd4fae9", "uuid": "6550f023-a974-4444-814c-5c14fbfd6dc3"}, "__new_primary_file_pasture.unique|pasture.0.09__": {"src": "hda", "id": "201c302e615535c1", "uuid": "0d637c85-d3ac-4c65-92fb-19b9d456ec3d"}, "__new_primary_file_pasture.unique|pasture.0.26__": {"src": "hda", "id": "7cec0fee27e98af5", "uuid": "7814f8bd-1d47-4b38-9e7d-4fb2433a3ad2"}, "__new_primary_file_pasture.unique|forest.0.27__": {"src": "hda", "id": "512df08d0be90f8e", "uuid": "0bc9a7fd-ed65-4372-a7c9-19db130814b4"}, "__new_primary_file_pasture.unique|pasture.0.36__": {"src": "hda", "id": "a143d43216ad7a75", "uuid": "472a9c8b-53af-45f7-ba8a-2c11ce0e8c87"}, "__new_primary_file_pasture.unique|pasture.0.21__": {"src": "hda", "id": "aaab9f9851c643e3", "uuid": "e191c392-7d2e-4f1a-8f57-711f284f3aa5"}, "__new_primary_file_pasture.unique|forest.0.55__": {"src": "hda", "id": "3d4d86d772d8bcc8", "uuid": "a2c1866e-e5c2-4dab-9ddf-92c4d2163bd7"}, "__new_primary_file_pasture.unique|forest.0.05__": {"src": "hda", "id": "35258aa38d29b680", "uuid": "db160353-234a-4143-b00a-0842b4a547b2"}, "__new_primary_file_pasture.unique|forest.0.04__": {"src": "hda", "id": "dac2f522b7d7dbc2", "uuid": "3184e1b8-668c-4380-8424-1a33e540c900"}, "__new_primary_file_pasture.unique|forest.0.17__": {"src": "hda", "id": "ee961a3b3e621e54", "uuid": "f6803c6e-5194-4ad3-867b-94dfbc78375e"}, "__new_primary_file_pasture.unique|forest.0.02__": {"src": "hda", "id": "0b5af00c55fb9391", "uuid": "a1fb18a5-e807-4931-bdc9-7c4f2d886eec"}, "__new_primary_file_pasture.unique|pasture.0.25__": {"src": "hda", "id": "1f201e1a0c8ed20e", "uuid": "623d8afd-dea3-4029-bf63-3af625fdca2f"}, "__new_primary_file_pasture.unique|forest.0.22__": {"src": "hda", "id": "68cc06e4b4c14eec", "uuid": "3a16f19c-15c3-4d8f-9a47-2757a6b8d5fd"}, "__new_primary_file_pasture.unique|forest.0.03__": {"src": "hda", "id": "7fd94492fe0f14a5", "uuid": "b15ee902-134b-4df6-84e5-9bed42656d61"}, "__new_primary_file_pasture.unique|pasture.0.22__": {"src": "hda", "id": "3caec6c923a7bc7f", "uuid": "304a6dd7-511c-4bdd-8378-7a7aeb3678c1"}, "__new_primary_file_pasture.unique|forest.0.21__": {"src": "hda", "id": "96f301a90192654c", "uuid": "a7ea7819-fef9-430e-a4ab-ee6c2cf161c5"}, "__new_primary_file_pasture.unique|forest.0.23__": {"src": "hda", "id": "22e02b24ceb465de", "uuid": "77420091-70a5-47c2-8b1c-87affc1f9534"}, "__new_primary_file_pasture.unique|pasture.0.19__": {"src": "hda", "id": "c227251eb4091fe4", "uuid": "ca1c49cd-5702-45da-8625-9a7f8c451c69"}, "__new_primary_file_pasture.unique|pasture.unique__": {"src": "hda", "id": "bfaedcb7f9e1d5fe", "uuid": "e8213123-fbb2-4239-b762-7e97dad8685b"}, "__new_primary_file_pasture.unique|pasture.0.11__": {"src": "hda", "id": "5e0f2988195ba1df", "uuid": "688ac9bd-7d04-4c41-b6a0-a426490dad6c"}, "__new_primary_file_pasture.unique|forest.0.01__": {"src": "hda", "id": "2452212693b4ff02", "uuid": "2f5b382b-aa87-4d5f-93c4-c283ca749a8a"}, "__new_primary_file_pasture.unique|pasture.0.02__": {"src": "hda", "id": "ef5a61289b9a7a99", "uuid": "bdc45870-a3d9-49b8-9bb5-7be6347f686c"}, "__new_primary_file_pasture.unique|pasture.0.18__": {"src": "hda", "id": "cd249d2b135824c6", "uuid": "8afab6d5-5b1d-4690-9f45-e7a188c8375f"}, "__new_primary_file_pasture.unique|forest.0.09__": {"src": "hda", "id": "fccb75a8ff561765", "uuid": "00e0725b-4549-438c-80f4-a35fd118a0de"}, "__new_primary_file_pasture.unique|forest.unique__": {"src": "hda", "id": "1319affc913ab7ac", "uuid": "1c0a8f04-563a-4755-964d-aa1b07e252b4"}, "__new_primary_file_pasture.unique|pasture.0.06__": {"src": "hda", "id": "079ccf1ecc32e532", "uuid": "2aee3a26-d05c-449a-871b-0ab4b484797a"}, "__new_primary_file_pasture.unique|pasture.0.29__": {"src": "hda", "id": "1dee884e0cada215", "uuid": "74188bec-0c72-4588-981e-8b8a18a905a1"}, "__new_primary_file_pasture.unique|forest.0.07__": {"src": "hda", "id": "b96825f143abeda8", "uuid": "49657c3b-9f0e-4f82-893a-b51d17219835"}, "__new_primary_file_pasture.unique|pasture.0.38__": {"src": "hda", "id": "cf05aa0825dc7606", "uuid": "ba2fbe82-77b6-48c9-b1a3-e412430cac03"}, "__new_primary_file_pasture.unique|pasture.0.33__": {"src": "hda", "id": "29367f384b46f3d9", "uuid": "45bf466d-fb33-4143-984e-f63513a22809"}, "__new_primary_file_pasture.unique|forest.0.45__": {"src": "hda", "id": "33a2a0322ae98d5d", "uuid": "19bfd989-981a-4c51-ae3e-9428fa3c16d4"}, "__new_primary_file_pasture.unique|pasture.0.07__": {"src": "hda", "id": "93bdbc1071618e0b", "uuid": "9834d67a-b5be-45c0-9b34-8091c30408c5"}, "__new_primary_file_pasture.unique|forest.0.08__": {"src": "hda", "id": "f8c2bf77272aec4f", "uuid": "f60aa659-2c12-4002-9c09-1acb31a6e26b"}, "logfile": {"src": "hda", "id": "f6c0a85b1400b91a", "uuid": "d74b309d-9331-4005-9dd6-13861473be60"}, "__new_primary_file_pasture.unique|pasture.0.32__": {"src": "hda", "id": "db5b1f85c2774217", "uuid": "bb649e55-a128-4470-bc5b-dc4f9df70d69"}, "__new_primary_file_pasture.unique|pasture.0.01__": {"src": "hda", "id": "33e5264d9f7d16d6", "uuid": "c603fa7b-40ec-4bea-8e2f-c4a3cd24bf9c"}, "__new_primary_file_pasture.unique|pasture.0.24__": {"src": "hda", "id": "cd631128465ff4a1", "uuid": "7280a961-219f-4cea-b63a-8d6211a03057"}, "__new_primary_file_pasture.unique|pasture.0.20__": {"src": "hda", "id": "2f072fbec8bc7130", "uuid": "569b46d2-bc2b-4104-8e0d-c882f21da04f"}, "__new_primary_file_pasture.unique|forest.0.33__": {"src": "hda", "id": "20b49bd981f2095e", "uuid": "8315406c-4903-4ed9-a8f0-7fe380a3dfd2"}, "__new_primary_file_pasture.unique|pasture.0.23__": {"src": "hda", "id": "cbb7b6a1e8755251", "uuid": "0cbcbdf9-354f-4e0c-9624-fe2f63ca66ff"}, "__new_primary_file_pasture.unique|pasture.0.16__": {"src": "hda", "id": "7e61743f3437c0d8", "uuid": "e0d0c387-d208-4fe8-b95d-6a7dadc3d531"}, "__new_primary_file_pasture.unique|forest.0.25__": {"src": "hda", "id": "3bcceae39f0ef64e", "uuid": "8d8dd179-1932-4f2d-988b-486213b693d3"}, "__new_primary_file_pasture.unique|forest.0.24__": {"src": "hda", "id": "d63675a9e2c78eb4", "uuid": "a025ada3-a393-4412-b74a-e3da77cf628a"}, "__new_primary_file_pasture.unique|pasture.0.05__": {"src": "hda", "id": "6117b310bb67d827", "uuid": "87b973a0-5dbe-49f1-bc4b-76ef30fc3d38"}, "__new_primary_file_pasture.unique|forest.0.41__": {"src": "hda", "id": "87fe745aa8638345", "uuid": "889a4ebb-cd00-4bf6-90ac-72df719045ff"}, "__new_primary_file_pasture.unique|pasture.0.14__": {"src": "hda", "id": "8d4b918240875450", "uuid": "2ba8e26b-f28f-4b22-8f45-9827a70c6de2"}, "__new_primary_file_pasture.unique|forest.0.16__": {"src": "hda", "id": "8d46bdc7d4985626", "uuid": "1154089e-5d40-494e-9769-46b621a25796"}, "__new_primary_file_pasture.unique|forest.0.29__": {"src": "hda", "id": "aa177941ba3052a1", "uuid": "bdb50f12-0d29-42fa-990a-ed0fa97833e6"}, "__new_primary_file_pasture.unique|pasture.0.45__": {"src": "hda", "id": "c002b8c47b3b5b1b", "uuid": "458710d5-73f8-4a4a-9cfd-48215d00e96d"}, "__new_primary_file_pasture.unique|pasture.0.04__": {"src": "hda", "id": "f2f484701223cdb8", "uuid": "9aaefa7b-9ec8-46ad-81a6-3a35cf798367"}, "__new_primary_file_pasture.unique|forest.0.11__": {"src": "hda", "id": "90eaaf8a9cc176b4", "uuid": "0ae46db1-3f10-46ad-8cfa-7f68431a347f"}, "__new_primary_file_pasture.unique|pasture.0.10__": {"src": "hda", "id": "14513134c3100dd0", "uuid": "594c10ac-f4e6-4288-8e5b-d304dafe40a9"}, "__new_primary_file_pasture.unique|forest.0.26__": {"src": "hda", "id": "933a7fb452df9b99", "uuid": "78e2f77f-ee69-4282-a4b5-8fe537d1368c"}, "__new_primary_file_pasture.unique|forest.0.10__": {"src": "hda", "id": "5dc15130e297db8a", "uuid": "2bd5e65a-06bc-4717-8395-d64e68da6678"}, "__new_primary_file_pasture.unique|pasture.0.55__": {"src": "hda", "id": "3fa484357ed2ce2e", "uuid": "080fee4b-bed0-4dea-a796-f980659cd268"}, "__new_primary_file_pasture.unique|forest.0.38__": {"src": "hda", "id": "9450964e3efae426", "uuid": "1d18c0d6-9a7c-4242-b23b-92af325f3e34"}, "__new_primary_file_pasture.unique|forest.0.36__": {"src": "hda", "id": "c1461a8af2f166ce", "uuid": "962eb98b-1008-4c98-b37b-1687ee2fba59"}, "__new_primary_file_pasture.unique|pasture.0.17__": {"src": "hda", "id": "d2f06b4394555fc1", "uuid": "e5956ee2-0387-4440-b5bf-d87e8d0a225a"}, "__new_primary_file_pasture.unique|forest.0.18__": {"src": "hda", "id": "95251c9a220a939a", "uuid": "661f855a-ee9c-431a-bd4b-66acfa8547d1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > parse.list(list=otu.dat,group=group.dat)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.forest.unique.list\notu.pasture.unique.list\notu.forest.0.01.list\notu.pasture.0.01.list\notu.forest.0.02.list\notu.pasture.0.02.list\notu.forest.0.03.list\notu.pasture.0.03.list\notu.forest.0.04.list\notu.pasture.0.04.list\notu.forest.0.05.list\notu.pasture.0.05.list\notu.forest.0.06.list\notu.pasture.0.06.list\notu.forest.0.07.list\notu.pasture.0.07.list\notu.forest.0.08.list\notu.pasture.0.08.list\notu.forest.0.09.list\notu.pasture.0.09.list\notu.forest.0.10.list\notu.pasture.0.10.list\notu.forest.0.11.list\notu.pasture.0.11.list\notu.forest.0.12.list\notu.pasture.0.12.list\notu.forest.0.13.list\notu.pasture.0.13.list\notu.forest.0.14.list\notu.pasture.0.14.list\notu.forest.0.15.list\notu.pasture.0.15.list\notu.forest.0.16.list\notu.pasture.0.16.list\notu.forest.0.17.list\notu.pasture.0.17.list\notu.forest.0.18.list\notu.pasture.0.18.list\notu.forest.0.19.list\notu.pasture.0.19.list\notu.forest.0.20.list\notu.pasture.0.20.list\notu.forest.0.21.list\notu.pasture.0.21.list\notu.forest.0.22.list\notu.pasture.0.22.list\notu.forest.0.23.list\notu.pasture.0.23.list\notu.forest.0.24.list\notu.pasture.0.24.list\notu.forest.0.25.list\notu.pasture.0.25.list\notu.forest.0.26.list\notu.pasture.0.26.list\notu.forest.0.27.list\notu.pasture.0.27.list\notu.forest.0.29.list\notu.pasture.0.29.list\notu.forest.0.32.list\notu.pasture.0.32.list\notu.forest.0.33.list\notu.pasture.0.33.list\notu.forest.0.36.list\notu.pasture.0.36.list\notu.forest.0.38.list\notu.pasture.0.38.list\notu.forest.0.41.list\notu.pasture.0.41.list\notu.forest.0.45.list\notu.pasture.0.45.list\notu.forest.0.55.list\notu.pasture.0.55.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2093.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2094.dat' group.dat && ln -s 'None' count.dat && echo 'parse.list( list=otu.dat, group=group.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:04:52.955670", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29272", "id": "d1010cb72bf991e5", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_parse_list.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "e26b78b0e6def9bf"}, "otu": {"src": "hda", "id": "c7007f9410f08c64"}, "label": ["0.03", "0.05"]}, "job": {"inputs": {"group": {"src": "hda", "id": "e26b78b0e6def9bf", "uuid": "353c7160-a417-41fe-9d37-24159b022544"}, "otu": {"src": "hda", "id": "c7007f9410f08c64", "uuid": "0232831f-981d-49df-a50a-dabcf1d42762"}}, "update_time": "2018-02-08T18:05:28.674033", "tool_id": "mothur_parse_list", "outputs": {"__new_primary_file_pasture.0.05|pasture.0.03__": {"src": "hda", "id": "a3a2a175eac37c19", "uuid": "8bf3d63a-41e5-4a62-94d6-9d03c0ce81da"}, "__new_primary_file_pasture.0.05|forest.0.05__": {"src": "hda", "id": "9d88bce42e8c40da", "uuid": "ac2a67fa-77a2-4541-b7f7-bcb08303b8db"}, "logfile": {"src": "hda", "id": "3253f225acee3abb", "uuid": "ab23c433-574e-4176-8076-26879bc1ec86"}, "__new_primary_file_pasture.0.05|forest.0.03__": {"src": "hda", "id": "41d22b61843cac3f", "uuid": "0ecb66d9-a4c4-49fd-aaaf-0acca12e6040"}, "__new_primary_file_pasture.0.05|pasture.0.05__": {"src": "hda", "id": "defef927024814c1", "uuid": "5264fd79-68a4-43fa-8ef4-a5b5173ca3ea"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > parse.list(list=otu.dat,label=0.03-0.05,group=group.dat)\n0.03\n0.05\n\nOutput File Names: \notu.forest.0.03.list\notu.pasture.0.03.list\notu.forest.0.05.list\notu.pasture.0.05.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2168.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2169.dat' group.dat && ln -s 'None' count.dat && echo 'parse.list( list=otu.dat, label=0.03-0.05, group=group.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:05:25.394023", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29383", "id": "731d7fc7f6176125", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_parse_list.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"iters": "1000", "group": {"src": "hda", "id": "8ad407aea9325e76"}, "tree": {"src": "hda", "id": "44f326e1f448e78e"}, "name": {"src": "hda", "id": "97c6d122e81a6846"}, "groups": ["green", "orange"]}, "job": {"inputs": {"group": {"src": "hda", "id": "8ad407aea9325e76", "uuid": "9afc0a9e-9933-453c-9ab5-2fe30abaa2a5"}, "tree": {"src": "hda", "id": "44f326e1f448e78e", "uuid": "cf76b161-6124-4cb0-9ca4-e8882434ae2f"}, "name": {"src": "hda", "id": "97c6d122e81a6846", "uuid": "fad7abb3-74cd-46a0-9322-375ac06a7c01"}}, "update_time": "2018-02-08T18:05:47.450319", "tool_id": "mothur_parsimony", "outputs": {"psummary": {"src": "hda", "id": "483b2e2bc94213c3", "uuid": "9d5ba257-ce53-4043-aa08-6f39cdf6e5c8"}, "logfile": {"src": "hda", "id": "9d39ac49f9104593", "uuid": "b181eea4-4af0-4ef3-a44d-4e7b460501ca"}, "parsimony": {"src": "hda", "id": "4af28ef0562c6c37", "uuid": "7812f1e8-93bf-4e9f-992b-ef1acae68b9d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > parsimony(tree=tree.dat,iters=1000,group=group.dat,name=name.dat,proces \rsors=1)\n\nUsing 1 processors.\n********************#****#****#****#****#****#****#****#****#****#****#\nComparing to random:||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nTree#\tGroups\tParsScore\tParsSig\n1\tgreen-orange\t1\t1\n\n\nOutput File Names: \ntree.dat.parsimony\ntree.dat.psummary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2175.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2176.dat' group.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2177.dat' name.dat && echo 'parsimony( tree=tree.dat, iters=1000, group=group.dat, name=name.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:05:44.236142", "params": {"count": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groups": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29525", "id": "2768baa09f52abc1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_parsimony.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "1dcb63b7594c0a53"}, "groups": ["forest", "pasture"], "label": ["0.22", "0.55"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "1dcb63b7594c0a53", "uuid": "a2a67477-8ad3-4223-ae96-7001aeb2c40c"}}, "update_time": "2018-02-08T18:06:09.968465", "tool_id": "mothur_pca", "outputs": {"logfile": {"src": "hda", "id": "56e06f89792449a5", "uuid": "5af0509a-8a5f-476a-813e-b59c99931dcc"}, "__new_primary_file_0.55|0.22__": {"src": "hda", "id": "29057053eabeecf0", "uuid": "a6491f79-3680-4a2d-b5d6-2f64c3ee6145"}, "__new_primary_file_0.55|0.55__": {"src": "hda", "id": "009d092a3f629c9d", "uuid": "6e201424-5c1f-460f-943f-1ae330180131"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pca(shared=otu.dat,label=0.22-0.55,groups=forest-pasture,metric=true)\n\nProcessing 0.22\nRsq 1 axis: 0\nRsq 2 axis: 0\nRsq 3 axis: 0\n\nProcessing 0.55\nRsq 1 axis: 0\nRsq 2 axis: 0\nRsq 3 axis: 0\n\nOutput File Names: \notu.0.22.pca.axes\notu.0.22.pca.loadings\notu.0.55.pca.axes\notu.0.55.pca.loadings\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2181.dat' otu.dat && echo 'pca( shared=otu.dat, label=0.22-0.55, groups=forest-pasture, metric=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:06:06.690813", "params": {"metric": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groups": "[\"forest\", \"pasture\"]", "label": "[\"0.22\", \"0.55\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29614", "id": "f4b2790380ce04e0", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pca.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"phylip": {"src": "hda", "id": "3b036687d3b15bc3"}}, "job": {"inputs": {"phylip": {"src": "hda", "id": "3b036687d3b15bc3", "uuid": "66da62a2-02ab-4a91-be6c-7c70de565a19"}}, "update_time": "2018-02-08T18:06:32.566231", "tool_id": "mothur_pcoa", "outputs": {"loadings": {"src": "hda", "id": "98b8d8437f7c5552", "uuid": "d5956ef8-bd0d-4945-b284-133ec75977e2"}, "logfile": {"src": "hda", "id": "8648246ff30fc2ff", "uuid": "ed6046d3-743c-47a4-beaa-bf7e553cd006"}, "pcoa": {"src": "hda", "id": "07469086593c8cef", "uuid": "5b7c51a9-9f60-474b-9a97-ad62f9075f8b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pcoa(phylip=phylip.dat,metric=true)\n\nProcessing...\nRsq 1 axis: 0.200353\nRsq 2 axis: 0.413022\nRsq 3 axis: 0.430959\n\nOutput File Names: \nphylip.pcoa.axes\nphylip.pcoa.loadings\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2187.dat' phylip.dat && echo 'pcoa( phylip=phylip.dat, metric=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:06:29.476405", "params": {"metric": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29703", "id": "1e4cd37e942f1647", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pcoa.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"trim|method": "position", "keepdots": true, "trim|start": "0", "pdiffs": "0", "fasta": {"src": "hda", "id": "ff8a6faa7e9cbc52"}, "trim|end": "0"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "ff8a6faa7e9cbc52", "uuid": "a94786f1-845b-43c2-9fa4-8e6317262ac5"}}, "update_time": "2018-02-08T18:06:45.075942", "tool_id": "mothur_pcr_seqs", "outputs": {"pcr_fasta": {"src": "hda", "id": "1d3a87989430d70d", "uuid": "28ee543c-eda1-4753-ab66-6276df887cd4"}, "logfile": {"src": "hda", "id": "ca4fcaac5d3c0250", "uuid": "2f22eeaf-a736-430c-b68e-749a87271586"}, "scrap_fasta": {"src": "hda", "id": "69896066c3f7be04", "uuid": "c91b7e23-f408-4f74-962c-60bbc1f4759e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pcr.seqs(fasta=fasta.dat,start=0,pdiffs=0,rdiffs=0,processors=1)\n\nUsing 1 processors.\nProcessing sequence: 3\n\nOutput File Names: \nfasta.pcr.dat\n\n\nIt took 0 secs to screen 3 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2191.dat' fasta.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' taxonomy_in.dat && echo 'pcr.seqs( fasta=fasta.dat, start=0, pdiffs=0, rdiffs=0, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:06:41.597226", "params": {"trim": "{\"start\": \"0\", \"end\": \"0\", \"method\": \"position\", \"__current_case__\": 2}", "keepdots": "\"true\"", "pdiffs": "\"0\"", "dbkey": "\"hg17\"", "rdiffs": "\"0\"", "group_in": "null", "taxonomy_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29791", "id": "9a68e8442a2ae0ec", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pcr_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"trim|method": "reference", "keepdots": false, "pdiffs": "2", "trim|ecoli": {"src": "hda", "id": "296c8570502f7d16"}, "fasta": {"src": "hda", "id": "296c8570502f7d16"}, "name_in": {"src": "hda", "id": "540d8ccadbb41cf8"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "296c8570502f7d16", "uuid": "9362aefb-8832-4e03-acd5-680564bde786"}, "ecoli": {"src": "hda", "id": "296c8570502f7d16", "uuid": "9362aefb-8832-4e03-acd5-680564bde786"}, "name_in": {"src": "hda", "id": "540d8ccadbb41cf8", "uuid": "e965dcc8-4320-413e-a48d-622e06334dae"}}, "update_time": "2018-02-08T18:07:16.938130", "tool_id": "mothur_pcr_seqs", "outputs": {"name_out": {"src": "hda", "id": "4e45b45a46840de7", "uuid": "ae7a5725-f8c7-4614-b22a-9b40d80745fc"}, "pcr_fasta": {"src": "hda", "id": "9b9da51b3cf3788c", "uuid": "5051221e-11db-45e7-b92a-9fe5b093f5e9"}, "logfile": {"src": "hda", "id": "b595ca7d5e4a4806", "uuid": "92c2c87b-8df3-4ce4-a91e-1ee540f139ba"}, "scrap_fasta": {"src": "hda", "id": "6566db4438049123", "uuid": "59a0a26d-b5b0-4a68-986d-821d65b390af"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pcr.seqs(fasta=fasta.dat,name=name_in.dat,ecoli=trim.ecoli.dat,pdiffs=2 \r,rdiffs=0,keepdots=false,processors=1)\n\nUsing 1 processors.\nProcessing sequence: 3\nRemoved 0 sequences from your name file.\n\nOutput File Names: \nfasta.pcr.dat\nname_in.pcr.dat\n\n\nIt took 0 secs to screen 3 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2196.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2197.dat' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' taxonomy_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2196.dat' trim.ecoli.dat && echo 'pcr.seqs( fasta=fasta.dat, name=name_in.dat, ecoli=trim.ecoli.dat, pdiffs=2, rdiffs=0, keepdots=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:07:13.398222", "params": {"trim": "{\"ecoli\": {\"values\": [{\"src\": \"hda\", \"id\": 2196}]}, \"method\": \"reference\", \"__current_case__\": 1}", "keepdots": "\"false\"", "pdiffs": "\"2\"", "dbkey": "\"hg17\"", "rdiffs": "\"0\"", "group_in": "null", "taxonomy_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "29923", "id": "7e283a4b4d60f5b4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pcr_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"trim|method": "oligos", "trim|oligos": {"src": "hda", "id": "a5b878b864addf4f"}, "group_in": {"src": "hda", "id": "a8982932cfaa9c91"}, "taxonomy_in": {"src": "hda", "id": "9c06f06735014421"}, "fasta": {"src": "hda", "id": "82820d47475784db"}, "name_in": {"src": "hda", "id": "9d35880b3bb3f3cb"}}, "job": {"inputs": {"group_in": {"src": "hda", "id": "a8982932cfaa9c91", "uuid": "66e3ae35-39b3-423e-b941-33461b54a7ad"}, "fasta": {"src": "hda", "id": "82820d47475784db", "uuid": "ceb90772-927b-440c-8052-73805f4ccb50"}, "taxonomy_in": {"src": "hda", "id": "9c06f06735014421", "uuid": "f15d0b71-c377-4c34-8371-bc21d18145a8"}, "name_in": {"src": "hda", "id": "9d35880b3bb3f3cb", "uuid": "564d66d5-2513-4e32-a3ba-dd22ef1f8415"}, "oligos": {"src": "hda", "id": "a5b878b864addf4f", "uuid": "0f5c7aab-d848-4e2a-992d-8983af54dd90"}}, "update_time": "2018-02-08T18:08:02.125280", "tool_id": "mothur_pcr_seqs", "outputs": {"accnos_out": {"src": "hda", "id": "c125545fbb84cf3f", "uuid": "afc10ef8-549d-46d6-9d0c-c126de31a2c5"}, "name_out": {"src": "hda", "id": "464ab120d73bbfdd", "uuid": "698fcaa6-b392-42c7-8fdf-381e07307454"}, "group_out": {"src": "hda", "id": "f8ee9f073d3c51fa", "uuid": "09c46081-7102-442e-8599-95f7369596f4"}, "taxonomy_out": {"src": "hda", "id": "d4da91f5a7beed4d", "uuid": "83fa36a7-fcb7-446d-8775-7224901b3c40"}, "scrap_fasta": {"src": "hda", "id": "daf83ea457bd17e1", "uuid": "209a1adf-26ab-4ca2-be19-af5749eb1cb9"}, "pcr_fasta": {"src": "hda", "id": "a103d4e65eccf231", "uuid": "75fffd97-8e82-4d4a-ae7f-f6e8e184586c"}, "logfile": {"src": "hda", "id": "5480ea63371d722e", "uuid": "62241193-8520-4216-9a1e-8f9969fa2327"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pcr.seqs(fasta=fasta.dat,name=name_in.dat,group=group_in.dat,taxonomy=t \raxonomy_in.dat,oligos=trim.oligos.dat,nomatch=reject,pdiffs=0,rdiffs=0,processor \rs=1)\n\nUsing 1 processors.\nProcessing sequence: 3\nRemoved 3 sequences from your name file.\nRemoved 3 sequences from your group file.\nRemoved 3 sequences from your taxonomy file.\n\nOutput File Names: \nfasta.pcr.dat\nfasta.bad.accnos\nfasta.scrap.pcr.dat\nname_in.pcr.dat\ngroup_in.pcr.dat\ntaxonomy_in.pcr.dat\n\n\nIt took 0 secs to screen 3 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2202.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2205.dat' name_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2206.dat' group_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2204.dat' taxonomy_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2203.dat' trim.oligos.dat && echo 'pcr.seqs( fasta=fasta.dat, name=name_in.dat, group=group_in.dat, taxonomy=taxonomy_in.dat, oligos=trim.oligos.dat, nomatch=reject, pdiffs=0, rdiffs=0, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:07:57.811767", "params": {"trim": "{\"oligos\": {\"values\": [{\"src\": \"hda\", \"id\": 2203}]}, \"keepprimer\": \"false\", \"method\": \"oligos\", \"__current_case__\": 0, \"nomatch\": \"reject\"}", "keepdots": "\"true\"", "dbkey": "\"hg17\"", "rdiffs": "\"0\"", "pdiffs": "\"0\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30108", "id": "b82be0a67dfc3ead", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pcr_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"grouping|use": "no", "tree": {"src": "hda", "id": "7b73c9ba1609e7c1"}}, "job": {"inputs": {"tree": {"src": "hda", "id": "7b73c9ba1609e7c1", "uuid": "6d09350d-19d7-4732-add6-9545698ec688"}}, "update_time": "2018-02-08T18:08:47.617108", "tool_id": "mothur_phylo_diversity", "outputs": {"logfile": {"src": "hda", "id": "a957edb6cc1a8c18", "uuid": "de495382-5ca6-4e53-836d-f49489766a65"}, "summary_out": {"src": "hda", "id": "19b2c8d8c6d10b1a", "uuid": "55aaf68f-798e-4b74-9e5b-1bc9f46456b4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > phylo.diversity(tree=tree.dat,iters=1000,freq=100.0,scale=false,collect \r=false,rarefy=false,summary=true,processors=1)\n\nUsing 1 processors.\nIt took 0 secs to run phylo.diversity.\n\nOutput File Names: \ntree.1.phylodiv.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2214.dat' tree.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'phylo.diversity( tree=tree.dat, iters=1000, freq=100.0, scale=false, collect=false, rarefy=false, summary=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:08:44.453569", "params": {"count": "null", "scale": "\"false\"", "name": "null", "iters": "\"1000\"", "rarefy": "\"false\"", "dbkey": "\"hg17\"", "summary": "\"true\"", "collect": "\"false\"", "freq": "\"100.0\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "grouping": "{\"use\": \"no\", \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30220", "id": "c097cce02f6efe06", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_phylo_diversity.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"grouping|group": {"src": "hda", "id": "a37203f14505a5c8"}, "tree": {"src": "hda", "id": "687d98d0d3ddbb66"}, "rarefy": true, "grouping|groups": ["orange", "green"], "collect": true, "grouping|use": "yes"}, "job": {"inputs": {"group": {"src": "hda", "id": "a37203f14505a5c8", "uuid": "2870715f-70ac-4788-a64c-0dfba78c0ed2"}, "tree": {"src": "hda", "id": "687d98d0d3ddbb66", "uuid": "13a48277-9c45-4c94-a7be-9689972e7ada"}}, "update_time": "2018-02-08T18:09:08.852562", "tool_id": "mothur_phylo_diversity", "outputs": {"rarefaction_out": {"src": "hda", "id": "d57c2a3df64722d8", "uuid": "b82bc970-f0bd-4e15-9227-204614fbc92f"}, "logfile": {"src": "hda", "id": "010d9b650278df16", "uuid": "dc09882d-c97c-4773-9ff0-78bd2e02bcde"}, "summary_out": {"src": "hda", "id": "7c14b8cbe6ecfd6a", "uuid": "0a80c49c-3f99-4742-addd-efafe3433cc5"}, "collectors_out": {"src": "hda", "id": "8609b632c86cf056", "uuid": "8019ed27-81e8-4730-bdf3-ef44cc51c37f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > phylo.diversity(tree=tree.dat,group=grouping.group.dat,iters=1000,freq= \r100.0,scale=false,collect=true,rarefy=true,summary=true,processors=1)\n\nUsing 1 processors.\nIt took 0 secs to run phylo.diversity.\n\nOutput File Names: \ntree.1.phylodiv.summary\ntree.1.phylodiv.rarefaction\ntree.1.phylodiv\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2217.dat' tree.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2218.dat' grouping.group.dat && echo 'phylo.diversity( tree=tree.dat, group=grouping.group.dat, iters=1000, freq=100.0, scale=false, collect=true, rarefy=true, summary=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:09:05.222478", "params": {"count": "null", "scale": "\"false\"", "name": "null", "iters": "\"1000\"", "rarefy": "\"true\"", "dbkey": "\"hg17\"", "summary": "\"true\"", "collect": "\"true\"", "freq": "\"100.0\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "grouping": "{\"use\": \"yes\", \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 2218}]}, \"groups\": null, \"__current_case__\": 0}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30335", "id": "dad37bad3e582a03", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_phylo_diversity.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"taxonomy": {"src": "hda", "id": "d277a827d7315f6a"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "d277a827d7315f6a", "uuid": "64965276-ce26-4135-afc9-702956d01e25"}}, "update_time": "2018-02-08T18:09:39.122665", "tool_id": "mothur_phylotype", "outputs": {"rabund": {"src": "hda", "id": "ae543f1a0583f8de", "uuid": "80a208ce-97f3-4e0f-8213-f2234b6e2b58"}, "logfile": {"src": "hda", "id": "982a3dd88517c4ae", "uuid": "0f6b7512-e7e5-4631-af21-5ca5ab0fa359"}, "otulist": {"src": "hda", "id": "905d0f9f657a61a3", "uuid": "b6e5a5dd-bd2e-4caf-a2e9-58dad1375c99"}, "sabund": {"src": "hda", "id": "a05060b14eba45e1", "uuid": "1ab81d82-d202-475e-bee9-ba9efb8b4683"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > phylotype(taxonomy=taxonomy.dat)\n1\n2\n3\n4\n5\n6\n\nOutput File Names: \ntaxonomy.tx.sabund\ntaxonomy.tx.rabund\ntaxonomy.tx.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2223.dat' taxonomy.dat && ln -s 'None' name.dat && echo 'phylotype( taxonomy=taxonomy.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:09:35.816289", "params": {"cutoff": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\"", "label": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30429", "id": "66041b9fc316678f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_phylotype.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"taxonomy": {"src": "hda", "id": "9b8e3eac2c41c663"}, "cutoff": "5", "label": ["1", "4", "5"]}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "9b8e3eac2c41c663", "uuid": "e85d537c-b3b3-41ee-892f-a5c4380c1157"}}, "update_time": "2018-02-08T18:10:06.761247", "tool_id": "mothur_phylotype", "outputs": {"rabund": {"src": "hda", "id": "9633d2046ccd09af", "uuid": "87a5b313-4033-449a-823e-760b4c678d47"}, "logfile": {"src": "hda", "id": "eea2aea36ad87984", "uuid": "b1729cf2-133b-4726-9a90-dec25423d7af"}, "otulist": {"src": "hda", "id": "d32d60f54a1f25d7", "uuid": "0ad1d6ff-cbf5-4aa5-bb8f-0ef07d6f4155"}, "sabund": {"src": "hda", "id": "da701c510c7a233c", "uuid": "5b1e28a8-09d8-4043-80cc-d7188e013864"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > phylotype(taxonomy=taxonomy.dat,cutoff=5,label=1-4-5)\n1\n4\n5\n\nOutput File Names: \ntaxonomy.tx.sabund\ntaxonomy.tx.rabund\ntaxonomy.tx.list\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2228.dat' taxonomy.dat && ln -s 'None' name.dat && echo 'phylotype( taxonomy=taxonomy.dat ,cutoff=5 ,label=1-4-5 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:10:03.466586", "params": {"cutoff": "\"5\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\"", "label": "[\"1\", \"4\", \"5\"]"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30522", "id": "f39983d675d72056", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_phylotype.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "12970ab350c1c4c1"}, "name": {"src": "hda", "id": "9954064f1597ebe8"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "12970ab350c1c4c1", "uuid": "eeea6a4b-d253-4b79-b884-25c80efe11d2"}, "name": {"src": "hda", "id": "9954064f1597ebe8", "uuid": "aa55e0a2-e8ce-422e-91ea-9bef6ab0bff7"}}, "update_time": "2018-02-08T18:10:38.444598", "tool_id": "mothur_pre_cluster", "outputs": {"__new_primary_file_fasta|fasta__": {"src": "hda", "id": "64228473c8483b3a", "uuid": "9e959b52-5138-4af8-aa5f-ce6b5c6fe494"}, "logfile": {"src": "hda", "id": "3eccd2a5f82af3af", "uuid": "820915eb-6709-42dc-a244-e086ff84c973"}, "names_out": {"src": "hda", "id": "dd319f1126fd20f4", "uuid": "336785bd-3ca5-4a7e-9f23-35ac0956eab3"}, "fasta_out": {"src": "hda", "id": "9d62bd31039db014", "uuid": "82dd042c-1999-40cf-86e6-d0e0e1d319a6"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pre.cluster(fasta=fasta.dat,name=name.dat,diffs=1,match=1,mismatch=-1,g \rapopen=-2,gapextend=-1,topdown=true,processors=1)\n\nUsing 1 processors.\n0\t5\t0\n5\t5\t0\nTotal number of sequences before precluster was 5.\npre.cluster removed 0 sequences.\n\nIt took 0 secs to cluster 5 sequences.\n\nOutput File Names: \nfasta.precluster.dat\nfasta.precluster.names\nfasta.precluster.map\n\n\nmothur > quit\n>U68589\nTAATACGTAGGGTGCAAGCGTTGCCCGGGTTTATTGGGCGTAAAGGGCGCGTAGGCGGCTCGACACGTCCGTTGTGAAATCGCCCGGCTCAACTGGCGGGGTCAGCGGATACGGTCGAGCTTGAGCAAGCTAGGGGGCAATGGAATTCCCGGTGTAGTGGTGGAATGCGTAGATATCGGGAGGAACACCAGTGGCGAAGGCGGTTGCCTGGGGCTTTGCTGACGCTGATGCGCGAAAGCGTGGGGAGCGATCCGGATTAGATACCCGGGTAGTCCACGCCGTAAACGATGTCGACTAAGCGTCGGGGGTATCGACCCCTCGGCCCGCAGCTAACGCATTAAGTCAACCGCCTGGGGACTACGGCCGCCAGGCTAAAACTCAAAGAATTGACGGGGGCCGCACAGCAGCGACGTGTGTTTAATTCGATGNACGCGCAGAACCNTACNTCNGCNTTGACATGCACGTNGTACTGACCNGAAANGGAAGGGACCCGCGAGGGAGCGTGCACAGATGNTGCATGGCTGTCGTCAGTTCGTGCCGTGAGGTGTTGGGTTAAGTCCCGCAACGAGGCGCAACCCTTGTCCCTTAGTTGCCTTTTCTAAGGAGACCGCCGGTCTAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCACGGCTCTTACGTCGAGGGCTACACACACGCTACAATGGCCGGTACAACGGGCTGCCAAGGGGTGACCTGGAGCTAACCCCACCAAAGCCGGTCTCAGTTCGGATTGCAGACTGCAACTCGCCTGCATGAAGTCGGAGTTGCTAGTAANTGCCAGTCAGCACATGGCAGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACGTCATGAAAGTTGGATACGCCTGAAGCCGGTGGCCTAACCCGCAAGGGAGGGAGCCGTCGAGGGCGGAGCCAGCGATTGGGACG\n>U68590\nTAATACGGGGGGAGCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTATGCGGCCAGCGCAAGTCAGTTGTGAAATCTCCGGGCTTAACTCGGAACGGTCAACTGATACTGCGCGGCTAGAGTGCGGAAGGGGCAACTGGAATTCTCGGTGTAGCGGTGAAATGCGTAGATATCGAGAGGAACACCTGCGGCGAAAGCGGGTTGCTGGGCCGACACTGACGCTGATGCGCGAAAGCCAGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCTGGCCTTAAACGATGGATGCTTGGTGTCTGGAGTTTTATAATCTCCGGGTGCCGCAGCTAACGCGTTAAGCATCCCCCCTGGGGAGTACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGAGCATGTGGTTCAATTCGACGCAACCCGAAAGAACTTACCTGGGCTAGAATGCCTCTGACACCCTAGAAATACGGTTTC\n>U68591\nCGTAGGGTCCAAGCGTTATCCGGAATTACTGGGCGTAAAGAGTTGCGTAGGTGGCATAGTAAGCAGATAGTGAAATGATACGGCTCAACCGTATGTCCATTATCTGAACTGCTAAGCTTGAGCATGGTAGAGGTAGCTGGAATTGCTAGTGTAGGAGTGGAATCCGTAGATATTAGCAGGAACACCGATGGCGTAGGCAGGCTACTGGGCTATTGCTGACACTAAGGCACGAAAGCGTGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCACGCCGTAAACTATGGATGCTAGCTGTAATCAGTATCGACCCTGGTTGTAGCGAAGCTAACGCGTTAAGCATCCCGCCTGTGGAGTACCGCCGCAAGGCTAAAACATAAAGGAATTGACGGGGTCTCGCACAAGCGGTGGAGCGTGTTGTTTAATTCGACGNTAAGCGCAGAACCTTACCAAGGTTTGACATCCTGATAAGGTCTCCGAAAGGAGACTGTACCTTCGGGCTCCAGTGACAGGTGATGCATGGCCGTCGTCAGCTCGTGTCGTGAGATGTTTGGTTAAGTCCATCAACGAGCGCAACCCTTATAGTTAGTTGAATTTCTCTAGCTAGACTGCCCCGGTAACGGGGAGGAAGGAGGGGATGATGTCAGGTCATTATTTCCCTTACACCTTGGGCGACAAACACGCTACAATGGCCGGTACAAAGGGCTGCCAAGCAGTAATGTGGAGCAAATCCCATCAAAGCCGGTCCCAGTTCGGATTGAGGGCTGAAACTCGCCCTCATGAAGCCGGAATCGCTAGTAATGGCAGGTCAGCACACTGCCGTGAATACGTTCCCGAGACTTGTACACACCGCCCGTCAAACCATGAAAGTCGCAAATACCCGAAGTCCAACCTCAGGTTGGCCTAAGGTAGGGGAGATGATTGGGGTT\n>U68592\nTAATACAGAGGTCCCGAGCGTTGTTCGGATTCACTGGGCGTAAAGGGTGCGTAGGTGGTGGGATAAGTCGGATGTGAAATCTCGGAGCTCAACTCCGAAAATGCATTGGAAACTGTCCTGCTAGAGGGTTGGAGGGGGGACTGGAATACTTGGTGTAGCAGTGAAATGCGTAGATATCAAGTGGAACACCGGTGGCGAAGGCGAGTCCCTGGACAACACCTGACACTGAGGCACGAAAGCTAGGGGAGCAAACAGGATTAGATACCCTGGTAGTCCTAGCCGTAAACGGTGCACGTTTGCTGTAAGAGGAATCGACCCCTTTTGTGGCGAAGCCAACGCGATAAACGTGCCGCCTGGGGAAGTACGGTCGCAAGATTAAAACTCAAAGAAATTGACGGGGGCCTGCACAAGCCGGTGGAGTATGTGGCTCAATTCGATGCCACGCCAAAGAACCTTACCTGGCCTTGACATGCACGTAGTTAGGAAGATGAAAATCCGACGAGGTAGCAATTCCAGCGTGCACAGGTGCT\n>U68593\nTAATACGTAAGGACCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTANGCGGCATGACAAGTCACTTGTGAAATCTCCGGGCTTAACTCGGAACGGCCAAGTGATACTGTCGCGCTAGAGTGCGGAAGGGGCAATCAGAATTCTTGGTGTAGCGGTGAAATGCGTAGATATCTGGAGGAACACCGGTGGCGAAGGCGGCATCCTGGACCAATTCTGACGCTGAGTGAGCGAAAGCCAGGGGAGCAAACGGGATTAGATACCCCGGTAGTCCTGGCCCTAGACGATGAATGCTTGGTGTGGCGGGTATCGATCCCTGCCGTGCCGAAGCTAACGCATTAAGCATTCCGCCTGGGGAGTACGGTCGCAAGGCTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGANCATGTGGTTCAATTCGACGCNACGCGAAGAACTTACCCAGGCTTGAACAGCGAGTGACTGCTTACGAAAGTAAGTTTCCGCAAGGACACTCGTAGAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTTTGCTGTTGNCCATCAGGTTATGCTGGGCACTCTGCAAAGACTGCCGGNTGATAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCATGGCNTTTATGTCTGGGGCTACACACGTGCTACAATGGCCGACACAAACCGTCGCGAGCCCGCGAGGGGGAGCTAATCGGAGAAAGTCGGTCTCAGTTCGGATAGCAGGCTGCAACTCGCCTGCTTGAAGTTGGAATCGCTAGTAATCGCGGATCAGCACGCCGCGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACATCACGAAAGCCGGTTGTACTAGAAGTCGTCATACCAACCCGCAAGGGAGGGAGGCGCCTAAGGTATGGTCGGTGATTGGGGTG\n>U68589\nTAATACGTAGGGTGCAAGCGTTGCCCGGGTTTATTGGGCGTAAAGGGCGCGTAGGCGGCTCGACACGTCCGTTGTGAAATCGCCCGGCTCAACTGGCGGGGTCAGCGGATACGGTCGAGCTTGAGCAAGCTAGGGGGCAATGGAATTCCCGGTGTAGTGGTGGAATGCGTAGATATCGGGAGGAACACCAGTGGCGAAGGCGGTTGCCTGGGGCTTTGCTGACGCTGATGCGCGAAAGCGTGGGGAGCGATCCGGATTAGATACCCGGGTAGTCCACGCCGTAAACGATGTCGACTAAGCGTCGGGGGTATCGACCCCTCGGCCCGCAGCTAACGCATTAAGTCAACCGCCTGGGGACTACGGCCGCCAGGCTAAAACTCAAAGAATTGACGGGGGCCGCACAGCAGCGACGTGTGTTTAATTCGATGNACGCGCAGAACCNTACNTCNGCNTTGACATGCACGTNGTACTGACCNGAAANGGAAGGGACCCGCGAGGGAGCGTGCACAGATGNTGCATGGCTGTCGTCAGTTCGTGCCGTGAGGTGTTGGGTTAAGTCCCGCAACGAGGCGCAACCCTTGTCCCTTAGTTGCCTTTTCTAAGGAGACCGCCGGTCTAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCACGGCTCTTACGTCGAGGGCTACACACACGCTACAATGGCCGGTACAACGGGCTGCCAAGGGGTGACCTGGAGCTAACCCCACCAAAGCCGGTCTCAGTTCGGATTGCAGACTGCAACTCGCCTGCATGAAGTCGGAGTTGCTAGTAANTGCCAGTCAGCACATGGCAGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACGTCATGAAAGTTGGATACGCCTGAAGCCGGTGGCCTAACCCGCAAGGGAGGGAGCCGTCGAGGGCGGAGCCAGCGATTGGGACG\n>U68590\nTAATACGGGGGGAGCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTATGCGGCCAGCGCAAGTCAGTTGTGAAATCTCCGGGCTTAACTCGGAACGGTCAACTGATACTGCGCGGCTAGAGTGCGGAAGGGGCAACTGGAATTCTCGGTGTAGCGGTGAAATGCGTAGATATCGAGAGGAACACCTGCGGCGAAAGCGGGTTGCTGGGCCGACACTGACGCTGATGCGCGAAAGCCAGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCTGGCCTTAAACGATGGATGCTTGGTGTCTGGAGTTTTATAATCTCCGGGTGCCGCAGCTAACGCGTTAAGCATCCCCCCTGGGGAGTACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGAGCATGTGGTTCAATTCGACGCAACCCGAAAGAACTTACCTGGGCTAGAATGCCTCTGACACCCTAGAAATACGGTTTC\n>U68591\nCGTAGGGTCCAAGCGTTATCCGGAATTACTGGGCGTAAAGAGTTGCGTAGGTGGCATAGTAAGCAGATAGTGAAATGATACGGCTCAACCGTATGTCCATTATCTGAACTGCTAAGCTTGAGCATGGTAGAGGTAGCTGGAATTGCTAGTGTAGGAGTGGAATCCGTAGATATTAGCAGGAACACCGATGGCGTAGGCAGGCTACTGGGCTATTGCTGACACTAAGGCACGAAAGCGTGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCACGCCGTAAACTATGGATGCTAGCTGTAATCAGTATCGACCCTGGTTGTAGCGAAGCTAACGCGTTAAGCATCCCGCCTGTGGAGTACCGCCGCAAGGCTAAAACATAAAGGAATTGACGGGGTCTCGCACAAGCGGTGGAGCGTGTTGTTTAATTCGACGNTAAGCGCAGAACCTTACCAAGGTTTGACATCCTGATAAGGTCTCCGAAAGGAGACTGTACCTTCGGGCTCCAGTGACAGGTGATGCATGGCCGTCGTCAGCTCGTGTCGTGAGATGTTTGGTTAAGTCCATCAACGAGCGCAACCCTTATAGTTAGTTGAATTTCTCTAGCTAGACTGCCCCGGTAACGGGGAGGAAGGAGGGGATGATGTCAGGTCATTATTTCCCTTACACCTTGGGCGACAAACACGCTACAATGGCCGGTACAAAGGGCTGCCAAGCAGTAATGTGGAGCAAATCCCATCAAAGCCGGTCCCAGTTCGGATTGAGGGCTGAAACTCGCCCTCATGAAGCCGGAATCGCTAGTAATGGCAGGTCAGCACACTGCCGTGAATACGTTCCCGAGACTTGTACACACCGCCCGTCAAACCATGAAAGTCGCAAATACCCGAAGTCCAACCTCAGGTTGGCCTAAGGTAGGGGAGATGATTGGGGTT\n>U68592\nTAATACAGAGGTCCCGAGCGTTGTTCGGATTCACTGGGCGTAAAGGGTGCGTAGGTGGTGGGATAAGTCGGATGTGAAATCTCGGAGCTCAACTCCGAAAATGCATTGGAAACTGTCCTGCTAGAGGGTTGGAGGGGGGACTGGAATACTTGGTGTAGCAGTGAAATGCGTAGATATCAAGTGGAACACCGGTGGCGAAGGCGAGTCCCTGGACAACACCTGACACTGAGGCACGAAAGCTAGGGGAGCAAACAGGATTAGATACCCTGGTAGTCCTAGCCGTAAACGGTGCACGTTTGCTGTAAGAGGAATCGACCCCTTTTGTGGCGAAGCCAACGCGATAAACGTGCCGCCTGGGGAAGTACGGTCGCAAGATTAAAACTCAAAGAAATTGACGGGGGCCTGCACAAGCCGGTGGAGTATGTGGCTCAATTCGATGCCACGCCAAAGAACCTTACCTGGCCTTGACATGCACGTAGTTAGGAAGATGAAAATCCGACGAGGTAGCAATTCCAGCGTGCACAGGTGCT\n>U68593\nTAATACGTAAGGACCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTANGCGGCATGACAAGTCACTTGTGAAATCTCCGGGCTTAACTCGGAACGGCCAAGTGATACTGTCGCGCTAGAGTGCGGAAGGGGCAATCAGAATTCTTGGTGTAGCGGTGAAATGCGTAGATATCTGGAGGAACACCGGTGGCGAAGGCGGCATCCTGGACCAATTCTGACGCTGAGTGAGCGAAAGCCAGGGGAGCAAACGGGATTAGATACCCCGGTAGTCCTGGCCCTAGACGATGAATGCTTGGTGTGGCGGGTATCGATCCCTGCCGTGCCGAAGCTAACGCATTAAGCATTCCGCCTGGGGAGTACGGTCGCAAGGCTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGANCATGTGGTTCAATTCGACGCNACGCGAAGAACTTACCCAGGCTTGAACAGCGAGTGACTGCTTACGAAAGTAAGTTTCCGCAAGGACACTCGTAGAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTTTGCTGTTGNCCATCAGGTTATGCTGGGCACTCTGCAAAGACTGCCGGNTGATAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCATGGCNTTTATGTCTGGGGCTACACACGTGCTACAATGGCCGACACAAACCGTCGCGAGCCCGCGAGGGGGAGCTAATCGGAGAAAGTCGGTCTCAGTTCGGATAGCAGGCTGCAACTCGCCTGCTTGAAGTTGGAATCGCTAGTAATCGCGGATCAGCACGCCGCGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACATCACGAAAGCCGGTTGTACTAGAAGTCGTCATACCAACCCGCAAGGGAGGGAGGCGCCTAAGGTATGGTCGGTGATTGGGGTG\nideal_seq_1\t1\nU68589\t1\t0\tTAATACGTAGGGTGCAAGCGTTGCCCGGGTTTATTGGGCGTAAAGGGCGCGTAGGCGGCTCGACACGTCCGTTGTGAAATCGCCCGGCTCAACTGGCGGGGTCAGCGGATACGGTCGAGCTTGAGCAAGCTAGGGGGCAATGGAATTCCCGGTGTAGTGGTGGAATGCGTAGATATCGGGAGGAACACCAGTGGCGAAGGCGGTTGCCTGGGGCTTTGCTGACGCTGATGCGCGAAAGCGTGGGGAGCGATCCGGATTAGATACCCGGGTAGTCCACGCCGTAAACGATGTCGACTAAGCGTCGGGGGTATCGACCCCTCGGCCCGCAGCTAACGCATTAAGTCAACCGCCTGGGGACTACGGCCGCCAGGCTAAAACTCAAAGAATTGACGGGGGCCGCACAGCAGCGACGTGTGTTTAATTCGATGNACGCGCAGAACCNTACNTCNGCNTTGACATGCACGTNGTACTGACCNGAAANGGAAGGGACCCGCGAGGGAGCGTGCACAGATGNTGCATGGCTGTCGTCAGTTCGTGCCGTGAGGTGTTGGGTTAAGTCCCGCAACGAGGCGCAACCCTTGTCCCTTAGTTGCCTTTTCTAAGGAGACCGCCGGTCTAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCACGGCTCTTACGTCGAGGGCTACACACACGCTACAATGGCCGGTACAACGGGCTGCCAAGGGGTGACCTGGAGCTAACCCCACCAAAGCCGGTCTCAGTTCGGATTGCAGACTGCAACTCGCCTGCATGAAGTCGGAGTTGCTAGTAANTGCCAGTCAGCACATGGCAGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACGTCATGAAAGTTGGATACGCCTGAAGCCGGTGGCCTAACCCGCAAGGGAGGGAGCCGTCGAGGGCGGAGCCAGCGATTGGGACG\n\nideal_seq_2\t1\nU68590\t1\t0\tTAATACGGGGGGAGCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTATGCGGCCAGCGCAAGTCAGTTGTGAAATCTCCGGGCTTAACTCGGAACGGTCAACTGATACTGCGCGGCTAGAGTGCGGAAGGGGCAACTGGAATTCTCGGTGTAGCGGTGAAATGCGTAGATATCGAGAGGAACACCTGCGGCGAAAGCGGGTTGCTGGGCCGACACTGACGCTGATGCGCGAAAGCCAGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCTGGCCTTAAACGATGGATGCTTGGTGTCTGGAGTTTTATAATCTCCGGGTGCCGCAGCTAACGCGTTAAGCATCCCCCCTGGGGAGTACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGAGCATGTGGTTCAATTCGACGCAACCCGAAAGAACTTACCTGGGCTAGAATGCCTCTGACACCCTAGAAATACGGTTTC\n\nideal_seq_3\t1\nU68591\t1\t0\tCGTAGGGTCCAAGCGTTATCCGGAATTACTGGGCGTAAAGAGTTGCGTAGGTGGCATAGTAAGCAGATAGTGAAATGATACGGCTCAACCGTATGTCCATTATCTGAACTGCTAAGCTTGAGCATGGTAGAGGTAGCTGGAATTGCTAGTGTAGGAGTGGAATCCGTAGATATTAGCAGGAACACCGATGGCGTAGGCAGGCTACTGGGCTATTGCTGACACTAAGGCACGAAAGCGTGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCACGCCGTAAACTATGGATGCTAGCTGTAATCAGTATCGACCCTGGTTGTAGCGAAGCTAACGCGTTAAGCATCCCGCCTGTGGAGTACCGCCGCAAGGCTAAAACATAAAGGAATTGACGGGGTCTCGCACAAGCGGTGGAGCGTGTTGTTTAATTCGACGNTAAGCGCAGAACCTTACCAAGGTTTGACATCCTGATAAGGTCTCCGAAAGGAGACTGTACCTTCGGGCTCCAGTGACAGGTGATGCATGGCCGTCGTCAGCTCGTGTCGTGAGATGTTTGGTTAAGTCCATCAACGAGCGCAACCCTTATAGTTAGTTGAATTTCTCTAGCTAGACTGCCCCGGTAACGGGGAGGAAGGAGGGGATGATGTCAGGTCATTATTTCCCTTACACCTTGGGCGACAAACACGCTACAATGGCCGGTACAAAGGGCTGCCAAGCAGTAATGTGGAGCAAATCCCATCAAAGCCGGTCCCAGTTCGGATTGAGGGCTGAAACTCGCCCTCATGAAGCCGGAATCGCTAGTAATGGCAGGTCAGCACACTGCCGTGAATACGTTCCCGAGACTTGTACACACCGCCCGTCAAACCATGAAAGTCGCAAATACCCGAAGTCCAACCTCAGGTTGGCCTAAGGTAGGGGAGATGATTGGGGTT\n\nideal_seq_4\t1\nU68592\t1\t0\tTAATACAGAGGTCCCGAGCGTTGTTCGGATTCACTGGGCGTAAAGGGTGCGTAGGTGGTGGGATAAGTCGGATGTGAAATCTCGGAGCTCAACTCCGAAAATGCATTGGAAACTGTCCTGCTAGAGGGTTGGAGGGGGGACTGGAATACTTGGTGTAGCAGTGAAATGCGTAGATATCAAGTGGAACACCGGTGGCGAAGGCGAGTCCCTGGACAACACCTGACACTGAGGCACGAAAGCTAGGGGAGCAAACAGGATTAGATACCCTGGTAGTCCTAGCCGTAAACGGTGCACGTTTGCTGTAAGAGGAATCGACCCCTTTTGTGGCGAAGCCAACGCGATAAACGTGCCGCCTGGGGAAGTACGGTCGCAAGATTAAAACTCAAAGAAATTGACGGGGGCCTGCACAAGCCGGTGGAGTATGTGGCTCAATTCGATGCCACGCCAAAGAACCTTACCTGGCCTTGACATGCACGTAGTTAGGAAGATGAAAATCCGACGAGGTAGCAATTCCAGCGTGCACAGGTGCT\n\nideal_seq_5\t1\nU68593\t1\t0\tTAATACGTAAGGACCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTANGCGGCATGACAAGTCACTTGTGAAATCTCCGGGCTTAACTCGGAACGGCCAAGTGATACTGTCGCGCTAGAGTGCGGAAGGGGCAATCAGAATTCTTGGTGTAGCGGTGAAATGCGTAGATATCTGGAGGAACACCGGTGGCGAAGGCGGCATCCTGGACCAATTCTGACGCTGAGTGAGCGAAAGCCAGGGGAGCAAACGGGATTAGATACCCCGGTAGTCCTGGCCCTAGACGATGAATGCTTGGTGTGGCGGGTATCGATCCCTGCCGTGCCGAAGCTAACGCATTAAGCATTCCGCCTGGGGAGTACGGTCGCAAGGCTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGANCATGTGGTTCAATTCGACGCNACGCGAAGAACTTACCCAGGCTTGAACAGCGAGTGACTGCTTACGAAAGTAAGTTTCCGCAAGGACACTCGTAGAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTTTGCTGTTGNCCATCAGGTTATGCTGGGCACTCTGCAAAGACTGCCGGNTGATAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCATGGCNTTTATGTCTGGGGCTACACACGTGCTACAATGGCCGACACAAACCGTCGCGAGCCCGCGAGGGGGAGCTAATCGGAGAAAGTCGGTCTCAGTTCGGATAGCAGGCTGCAACTCGCCTGCTTGAAGTTGGAATCGCTAGTAATCGCGGATCAGCACGCCGCGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACATCACGAAAGCCGGTTGTACTAGAAGTCGTCATACCAACCCGCAAGGGAGGGAGGCGCCTAAGGTATGGTCGGTGATTGGGGTG\n\nU68589\tU68589\nU68590\tU68590\nU68591\tU68591\nU68592\tU68592\nU68593\tU68593\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2233.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2234.dat' name.dat && ln -s 'None' group.dat && echo 'pre.cluster( fasta=fasta.dat, name=name.dat, diffs=1, match=1, mismatch=-1, gapopen=-2, gapextend=-1, topdown=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && cat fasta* && if [ -f fasta.precluster.map ]; then mv fasta.precluster.map fasta.precluster.fasta.map; fi", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:10:34.343955", "params": {"diffs": "\"1\"", "group": "null", "topdown": "\"true\"", "gapopen": "\"-2\"", "mismatch": "\"-1\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "gapextend": "\"-1\"", "match": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30644", "id": "acb17c34a39829bc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pre_cluster.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "50a92933398c2e4e"}, "name": {"src": "hda", "id": "4e38a27672f3cb4b"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "50a92933398c2e4e", "uuid": "883de2f2-5301-413e-a278-8d845b20062d"}, "name": {"src": "hda", "id": "4e38a27672f3cb4b", "uuid": "e07df41b-7fa8-46f1-a60e-ce78d88c9225"}}, "update_time": "2018-02-08T18:11:11.834281", "tool_id": "mothur_pre_cluster", "outputs": {"__new_primary_file_fasta|fasta__": {"src": "hda", "id": "a0dcd297bbc9a51b", "uuid": "482c1fa4-2755-4dab-8e1c-af59d8ea02c1"}, "logfile": {"src": "hda", "id": "3fffea1ce04dc068", "uuid": "b41f03ac-b8c9-49a3-90fc-541837d2c668"}, "count_out": {"src": "hda", "id": "ef0fbc54739e8d83", "uuid": "736eccac-1a6d-4663-8f24-6ec335df2110"}, "fasta_out": {"src": "hda", "id": "99645864eaeb63bc", "uuid": "574e34be-d03e-4896-99a9-10bb098d47c8"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > pre.cluster(fasta=fasta.dat,count=name.dat,diffs=1,match=1,mismatch=-1, \rgapopen=-2,gapextend=-1,topdown=true,processors=1)\n\nUsing 1 processors.\n0\t5\t0\n5\t5\t0\nTotal number of sequences before precluster was 5.\npre.cluster removed 0 sequences.\n\nIt took 0 secs to cluster 5 sequences.\n\nOutput File Names: \nfasta.precluster.dat\nfasta.precluster.count_table\nfasta.precluster.map\n\n\nmothur > quit\n>U68589\nTAATACGTAGGGTGCAAGCGTTGCCCGGGTTTATTGGGCGTAAAGGGCGCGTAGGCGGCTCGACACGTCCGTTGTGAAATCGCCCGGCTCAACTGGCGGGGTCAGCGGATACGGTCGAGCTTGAGCAAGCTAGGGGGCAATGGAATTCCCGGTGTAGTGGTGGAATGCGTAGATATCGGGAGGAACACCAGTGGCGAAGGCGGTTGCCTGGGGCTTTGCTGACGCTGATGCGCGAAAGCGTGGGGAGCGATCCGGATTAGATACCCGGGTAGTCCACGCCGTAAACGATGTCGACTAAGCGTCGGGGGTATCGACCCCTCGGCCCGCAGCTAACGCATTAAGTCAACCGCCTGGGGACTACGGCCGCCAGGCTAAAACTCAAAGAATTGACGGGGGCCGCACAGCAGCGACGTGTGTTTAATTCGATGNACGCGCAGAACCNTACNTCNGCNTTGACATGCACGTNGTACTGACCNGAAANGGAAGGGACCCGCGAGGGAGCGTGCACAGATGNTGCATGGCTGTCGTCAGTTCGTGCCGTGAGGTGTTGGGTTAAGTCCCGCAACGAGGCGCAACCCTTGTCCCTTAGTTGCCTTTTCTAAGGAGACCGCCGGTCTAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCACGGCTCTTACGTCGAGGGCTACACACACGCTACAATGGCCGGTACAACGGGCTGCCAAGGGGTGACCTGGAGCTAACCCCACCAAAGCCGGTCTCAGTTCGGATTGCAGACTGCAACTCGCCTGCATGAAGTCGGAGTTGCTAGTAANTGCCAGTCAGCACATGGCAGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACGTCATGAAAGTTGGATACGCCTGAAGCCGGTGGCCTAACCCGCAAGGGAGGGAGCCGTCGAGGGCGGAGCCAGCGATTGGGACG\n>U68590\nTAATACGGGGGGAGCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTATGCGGCCAGCGCAAGTCAGTTGTGAAATCTCCGGGCTTAACTCGGAACGGTCAACTGATACTGCGCGGCTAGAGTGCGGAAGGGGCAACTGGAATTCTCGGTGTAGCGGTGAAATGCGTAGATATCGAGAGGAACACCTGCGGCGAAAGCGGGTTGCTGGGCCGACACTGACGCTGATGCGCGAAAGCCAGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCTGGCCTTAAACGATGGATGCTTGGTGTCTGGAGTTTTATAATCTCCGGGTGCCGCAGCTAACGCGTTAAGCATCCCCCCTGGGGAGTACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGAGCATGTGGTTCAATTCGACGCAACCCGAAAGAACTTACCTGGGCTAGAATGCCTCTGACACCCTAGAAATACGGTTTC\n>U68591\nCGTAGGGTCCAAGCGTTATCCGGAATTACTGGGCGTAAAGAGTTGCGTAGGTGGCATAGTAAGCAGATAGTGAAATGATACGGCTCAACCGTATGTCCATTATCTGAACTGCTAAGCTTGAGCATGGTAGAGGTAGCTGGAATTGCTAGTGTAGGAGTGGAATCCGTAGATATTAGCAGGAACACCGATGGCGTAGGCAGGCTACTGGGCTATTGCTGACACTAAGGCACGAAAGCGTGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCACGCCGTAAACTATGGATGCTAGCTGTAATCAGTATCGACCCTGGTTGTAGCGAAGCTAACGCGTTAAGCATCCCGCCTGTGGAGTACCGCCGCAAGGCTAAAACATAAAGGAATTGACGGGGTCTCGCACAAGCGGTGGAGCGTGTTGTTTAATTCGACGNTAAGCGCAGAACCTTACCAAGGTTTGACATCCTGATAAGGTCTCCGAAAGGAGACTGTACCTTCGGGCTCCAGTGACAGGTGATGCATGGCCGTCGTCAGCTCGTGTCGTGAGATGTTTGGTTAAGTCCATCAACGAGCGCAACCCTTATAGTTAGTTGAATTTCTCTAGCTAGACTGCCCCGGTAACGGGGAGGAAGGAGGGGATGATGTCAGGTCATTATTTCCCTTACACCTTGGGCGACAAACACGCTACAATGGCCGGTACAAAGGGCTGCCAAGCAGTAATGTGGAGCAAATCCCATCAAAGCCGGTCCCAGTTCGGATTGAGGGCTGAAACTCGCCCTCATGAAGCCGGAATCGCTAGTAATGGCAGGTCAGCACACTGCCGTGAATACGTTCCCGAGACTTGTACACACCGCCCGTCAAACCATGAAAGTCGCAAATACCCGAAGTCCAACCTCAGGTTGGCCTAAGGTAGGGGAGATGATTGGGGTT\n>U68592\nTAATACAGAGGTCCCGAGCGTTGTTCGGATTCACTGGGCGTAAAGGGTGCGTAGGTGGTGGGATAAGTCGGATGTGAAATCTCGGAGCTCAACTCCGAAAATGCATTGGAAACTGTCCTGCTAGAGGGTTGGAGGGGGGACTGGAATACTTGGTGTAGCAGTGAAATGCGTAGATATCAAGTGGAACACCGGTGGCGAAGGCGAGTCCCTGGACAACACCTGACACTGAGGCACGAAAGCTAGGGGAGCAAACAGGATTAGATACCCTGGTAGTCCTAGCCGTAAACGGTGCACGTTTGCTGTAAGAGGAATCGACCCCTTTTGTGGCGAAGCCAACGCGATAAACGTGCCGCCTGGGGAAGTACGGTCGCAAGATTAAAACTCAAAGAAATTGACGGGGGCCTGCACAAGCCGGTGGAGTATGTGGCTCAATTCGATGCCACGCCAAAGAACCTTACCTGGCCTTGACATGCACGTAGTTAGGAAGATGAAAATCCGACGAGGTAGCAATTCCAGCGTGCACAGGTGCT\n>U68593\nTAATACGTAAGGACCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTANGCGGCATGACAAGTCACTTGTGAAATCTCCGGGCTTAACTCGGAACGGCCAAGTGATACTGTCGCGCTAGAGTGCGGAAGGGGCAATCAGAATTCTTGGTGTAGCGGTGAAATGCGTAGATATCTGGAGGAACACCGGTGGCGAAGGCGGCATCCTGGACCAATTCTGACGCTGAGTGAGCGAAAGCCAGGGGAGCAAACGGGATTAGATACCCCGGTAGTCCTGGCCCTAGACGATGAATGCTTGGTGTGGCGGGTATCGATCCCTGCCGTGCCGAAGCTAACGCATTAAGCATTCCGCCTGGGGAGTACGGTCGCAAGGCTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGANCATGTGGTTCAATTCGACGCNACGCGAAGAACTTACCCAGGCTTGAACAGCGAGTGACTGCTTACGAAAGTAAGTTTCCGCAAGGACACTCGTAGAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTTTGCTGTTGNCCATCAGGTTATGCTGGGCACTCTGCAAAGACTGCCGGNTGATAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCATGGCNTTTATGTCTGGGGCTACACACGTGCTACAATGGCCGACACAAACCGTCGCGAGCCCGCGAGGGGGAGCTAATCGGAGAAAGTCGGTCTCAGTTCGGATAGCAGGCTGCAACTCGCCTGCTTGAAGTTGGAATCGCTAGTAATCGCGGATCAGCACGCCGCGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACATCACGAAAGCCGGTTGTACTAGAAGTCGTCATACCAACCCGCAAGGGAGGGAGGCGCCTAAGGTATGGTCGGTGATTGGGGTG\nRepresentative_Sequence\ttotal\nU68589\t1\nU68590\t1\nU68591\t1\nU68592\t1\nU68593\t1\n>U68589\nTAATACGTAGGGTGCAAGCGTTGCCCGGGTTTATTGGGCGTAAAGGGCGCGTAGGCGGCTCGACACGTCCGTTGTGAAATCGCCCGGCTCAACTGGCGGGGTCAGCGGATACGGTCGAGCTTGAGCAAGCTAGGGGGCAATGGAATTCCCGGTGTAGTGGTGGAATGCGTAGATATCGGGAGGAACACCAGTGGCGAAGGCGGTTGCCTGGGGCTTTGCTGACGCTGATGCGCGAAAGCGTGGGGAGCGATCCGGATTAGATACCCGGGTAGTCCACGCCGTAAACGATGTCGACTAAGCGTCGGGGGTATCGACCCCTCGGCCCGCAGCTAACGCATTAAGTCAACCGCCTGGGGACTACGGCCGCCAGGCTAAAACTCAAAGAATTGACGGGGGCCGCACAGCAGCGACGTGTGTTTAATTCGATGNACGCGCAGAACCNTACNTCNGCNTTGACATGCACGTNGTACTGACCNGAAANGGAAGGGACCCGCGAGGGAGCGTGCACAGATGNTGCATGGCTGTCGTCAGTTCGTGCCGTGAGGTGTTGGGTTAAGTCCCGCAACGAGGCGCAACCCTTGTCCCTTAGTTGCCTTTTCTAAGGAGACCGCCGGTCTAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCACGGCTCTTACGTCGAGGGCTACACACACGCTACAATGGCCGGTACAACGGGCTGCCAAGGGGTGACCTGGAGCTAACCCCACCAAAGCCGGTCTCAGTTCGGATTGCAGACTGCAACTCGCCTGCATGAAGTCGGAGTTGCTAGTAANTGCCAGTCAGCACATGGCAGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACGTCATGAAAGTTGGATACGCCTGAAGCCGGTGGCCTAACCCGCAAGGGAGGGAGCCGTCGAGGGCGGAGCCAGCGATTGGGACG\n>U68590\nTAATACGGGGGGAGCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTATGCGGCCAGCGCAAGTCAGTTGTGAAATCTCCGGGCTTAACTCGGAACGGTCAACTGATACTGCGCGGCTAGAGTGCGGAAGGGGCAACTGGAATTCTCGGTGTAGCGGTGAAATGCGTAGATATCGAGAGGAACACCTGCGGCGAAAGCGGGTTGCTGGGCCGACACTGACGCTGATGCGCGAAAGCCAGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCTGGCCTTAAACGATGGATGCTTGGTGTCTGGAGTTTTATAATCTCCGGGTGCCGCAGCTAACGCGTTAAGCATCCCCCCTGGGGAGTACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGAGCATGTGGTTCAATTCGACGCAACCCGAAAGAACTTACCTGGGCTAGAATGCCTCTGACACCCTAGAAATACGGTTTC\n>U68591\nCGTAGGGTCCAAGCGTTATCCGGAATTACTGGGCGTAAAGAGTTGCGTAGGTGGCATAGTAAGCAGATAGTGAAATGATACGGCTCAACCGTATGTCCATTATCTGAACTGCTAAGCTTGAGCATGGTAGAGGTAGCTGGAATTGCTAGTGTAGGAGTGGAATCCGTAGATATTAGCAGGAACACCGATGGCGTAGGCAGGCTACTGGGCTATTGCTGACACTAAGGCACGAAAGCGTGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCACGCCGTAAACTATGGATGCTAGCTGTAATCAGTATCGACCCTGGTTGTAGCGAAGCTAACGCGTTAAGCATCCCGCCTGTGGAGTACCGCCGCAAGGCTAAAACATAAAGGAATTGACGGGGTCTCGCACAAGCGGTGGAGCGTGTTGTTTAATTCGACGNTAAGCGCAGAACCTTACCAAGGTTTGACATCCTGATAAGGTCTCCGAAAGGAGACTGTACCTTCGGGCTCCAGTGACAGGTGATGCATGGCCGTCGTCAGCTCGTGTCGTGAGATGTTTGGTTAAGTCCATCAACGAGCGCAACCCTTATAGTTAGTTGAATTTCTCTAGCTAGACTGCCCCGGTAACGGGGAGGAAGGAGGGGATGATGTCAGGTCATTATTTCCCTTACACCTTGGGCGACAAACACGCTACAATGGCCGGTACAAAGGGCTGCCAAGCAGTAATGTGGAGCAAATCCCATCAAAGCCGGTCCCAGTTCGGATTGAGGGCTGAAACTCGCCCTCATGAAGCCGGAATCGCTAGTAATGGCAGGTCAGCACACTGCCGTGAATACGTTCCCGAGACTTGTACACACCGCCCGTCAAACCATGAAAGTCGCAAATACCCGAAGTCCAACCTCAGGTTGGCCTAAGGTAGGGGAGATGATTGGGGTT\n>U68592\nTAATACAGAGGTCCCGAGCGTTGTTCGGATTCACTGGGCGTAAAGGGTGCGTAGGTGGTGGGATAAGTCGGATGTGAAATCTCGGAGCTCAACTCCGAAAATGCATTGGAAACTGTCCTGCTAGAGGGTTGGAGGGGGGACTGGAATACTTGGTGTAGCAGTGAAATGCGTAGATATCAAGTGGAACACCGGTGGCGAAGGCGAGTCCCTGGACAACACCTGACACTGAGGCACGAAAGCTAGGGGAGCAAACAGGATTAGATACCCTGGTAGTCCTAGCCGTAAACGGTGCACGTTTGCTGTAAGAGGAATCGACCCCTTTTGTGGCGAAGCCAACGCGATAAACGTGCCGCCTGGGGAAGTACGGTCGCAAGATTAAAACTCAAAGAAATTGACGGGGGCCTGCACAAGCCGGTGGAGTATGTGGCTCAATTCGATGCCACGCCAAAGAACCTTACCTGGCCTTGACATGCACGTAGTTAGGAAGATGAAAATCCGACGAGGTAGCAATTCCAGCGTGCACAGGTGCT\n>U68593\nTAATACGTAAGGACCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTANGCGGCATGACAAGTCACTTGTGAAATCTCCGGGCTTAACTCGGAACGGCCAAGTGATACTGTCGCGCTAGAGTGCGGAAGGGGCAATCAGAATTCTTGGTGTAGCGGTGAAATGCGTAGATATCTGGAGGAACACCGGTGGCGAAGGCGGCATCCTGGACCAATTCTGACGCTGAGTGAGCGAAAGCCAGGGGAGCAAACGGGATTAGATACCCCGGTAGTCCTGGCCCTAGACGATGAATGCTTGGTGTGGCGGGTATCGATCCCTGCCGTGCCGAAGCTAACGCATTAAGCATTCCGCCTGGGGAGTACGGTCGCAAGGCTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGANCATGTGGTTCAATTCGACGCNACGCGAAGAACTTACCCAGGCTTGAACAGCGAGTGACTGCTTACGAAAGTAAGTTTCCGCAAGGACACTCGTAGAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTTTGCTGTTGNCCATCAGGTTATGCTGGGCACTCTGCAAAGACTGCCGGNTGATAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCATGGCNTTTATGTCTGGGGCTACACACGTGCTACAATGGCCGACACAAACCGTCGCGAGCCCGCGAGGGGGAGCTAATCGGAGAAAGTCGGTCTCAGTTCGGATAGCAGGCTGCAACTCGCCTGCTTGAAGTTGGAATCGCTAGTAATCGCGGATCAGCACGCCGCGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACATCACGAAAGCCGGTTGTACTAGAAGTCGTCATACCAACCCGCAAGGGAGGGAGGCGCCTAAGGTATGGTCGGTGATTGGGGTG\nideal_seq_1\t1\nU68589\t1\t0\tTAATACGTAGGGTGCAAGCGTTGCCCGGGTTTATTGGGCGTAAAGGGCGCGTAGGCGGCTCGACACGTCCGTTGTGAAATCGCCCGGCTCAACTGGCGGGGTCAGCGGATACGGTCGAGCTTGAGCAAGCTAGGGGGCAATGGAATTCCCGGTGTAGTGGTGGAATGCGTAGATATCGGGAGGAACACCAGTGGCGAAGGCGGTTGCCTGGGGCTTTGCTGACGCTGATGCGCGAAAGCGTGGGGAGCGATCCGGATTAGATACCCGGGTAGTCCACGCCGTAAACGATGTCGACTAAGCGTCGGGGGTATCGACCCCTCGGCCCGCAGCTAACGCATTAAGTCAACCGCCTGGGGACTACGGCCGCCAGGCTAAAACTCAAAGAATTGACGGGGGCCGCACAGCAGCGACGTGTGTTTAATTCGATGNACGCGCAGAACCNTACNTCNGCNTTGACATGCACGTNGTACTGACCNGAAANGGAAGGGACCCGCGAGGGAGCGTGCACAGATGNTGCATGGCTGTCGTCAGTTCGTGCCGTGAGGTGTTGGGTTAAGTCCCGCAACGAGGCGCAACCCTTGTCCCTTAGTTGCCTTTTCTAAGGAGACCGCCGGTCTAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCACGGCTCTTACGTCGAGGGCTACACACACGCTACAATGGCCGGTACAACGGGCTGCCAAGGGGTGACCTGGAGCTAACCCCACCAAAGCCGGTCTCAGTTCGGATTGCAGACTGCAACTCGCCTGCATGAAGTCGGAGTTGCTAGTAANTGCCAGTCAGCACATGGCAGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACGTCATGAAAGTTGGATACGCCTGAAGCCGGTGGCCTAACCCGCAAGGGAGGGAGCCGTCGAGGGCGGAGCCAGCGATTGGGACG\n\nideal_seq_2\t1\nU68590\t1\t0\tTAATACGGGGGGAGCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTATGCGGCCAGCGCAAGTCAGTTGTGAAATCTCCGGGCTTAACTCGGAACGGTCAACTGATACTGCGCGGCTAGAGTGCGGAAGGGGCAACTGGAATTCTCGGTGTAGCGGTGAAATGCGTAGATATCGAGAGGAACACCTGCGGCGAAAGCGGGTTGCTGGGCCGACACTGACGCTGATGCGCGAAAGCCAGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCTGGCCTTAAACGATGGATGCTTGGTGTCTGGAGTTTTATAATCTCCGGGTGCCGCAGCTAACGCGTTAAGCATCCCCCCTGGGGAGTACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGAGCATGTGGTTCAATTCGACGCAACCCGAAAGAACTTACCTGGGCTAGAATGCCTCTGACACCCTAGAAATACGGTTTC\n\nideal_seq_3\t1\nU68591\t1\t0\tCGTAGGGTCCAAGCGTTATCCGGAATTACTGGGCGTAAAGAGTTGCGTAGGTGGCATAGTAAGCAGATAGTGAAATGATACGGCTCAACCGTATGTCCATTATCTGAACTGCTAAGCTTGAGCATGGTAGAGGTAGCTGGAATTGCTAGTGTAGGAGTGGAATCCGTAGATATTAGCAGGAACACCGATGGCGTAGGCAGGCTACTGGGCTATTGCTGACACTAAGGCACGAAAGCGTGGGGAGCGAACGGGATTAGATACCCCGGTAGTCCACGCCGTAAACTATGGATGCTAGCTGTAATCAGTATCGACCCTGGTTGTAGCGAAGCTAACGCGTTAAGCATCCCGCCTGTGGAGTACCGCCGCAAGGCTAAAACATAAAGGAATTGACGGGGTCTCGCACAAGCGGTGGAGCGTGTTGTTTAATTCGACGNTAAGCGCAGAACCTTACCAAGGTTTGACATCCTGATAAGGTCTCCGAAAGGAGACTGTACCTTCGGGCTCCAGTGACAGGTGATGCATGGCCGTCGTCAGCTCGTGTCGTGAGATGTTTGGTTAAGTCCATCAACGAGCGCAACCCTTATAGTTAGTTGAATTTCTCTAGCTAGACTGCCCCGGTAACGGGGAGGAAGGAGGGGATGATGTCAGGTCATTATTTCCCTTACACCTTGGGCGACAAACACGCTACAATGGCCGGTACAAAGGGCTGCCAAGCAGTAATGTGGAGCAAATCCCATCAAAGCCGGTCCCAGTTCGGATTGAGGGCTGAAACTCGCCCTCATGAAGCCGGAATCGCTAGTAATGGCAGGTCAGCACACTGCCGTGAATACGTTCCCGAGACTTGTACACACCGCCCGTCAAACCATGAAAGTCGCAAATACCCGAAGTCCAACCTCAGGTTGGCCTAAGGTAGGGGAGATGATTGGGGTT\n\nideal_seq_4\t1\nU68592\t1\t0\tTAATACAGAGGTCCCGAGCGTTGTTCGGATTCACTGGGCGTAAAGGGTGCGTAGGTGGTGGGATAAGTCGGATGTGAAATCTCGGAGCTCAACTCCGAAAATGCATTGGAAACTGTCCTGCTAGAGGGTTGGAGGGGGGACTGGAATACTTGGTGTAGCAGTGAAATGCGTAGATATCAAGTGGAACACCGGTGGCGAAGGCGAGTCCCTGGACAACACCTGACACTGAGGCACGAAAGCTAGGGGAGCAAACAGGATTAGATACCCTGGTAGTCCTAGCCGTAAACGGTGCACGTTTGCTGTAAGAGGAATCGACCCCTTTTGTGGCGAAGCCAACGCGATAAACGTGCCGCCTGGGGAAGTACGGTCGCAAGATTAAAACTCAAAGAAATTGACGGGGGCCTGCACAAGCCGGTGGAGTATGTGGCTCAATTCGATGCCACGCCAAAGAACCTTACCTGGCCTTGACATGCACGTAGTTAGGAAGATGAAAATCCGACGAGGTAGCAATTCCAGCGTGCACAGGTGCT\n\nideal_seq_5\t1\nU68593\t1\t0\tTAATACGTAAGGACCAAGCGTTGTTCGGATTTACTGGGCGTAAAGGGCGCGTANGCGGCATGACAAGTCACTTGTGAAATCTCCGGGCTTAACTCGGAACGGCCAAGTGATACTGTCGCGCTAGAGTGCGGAAGGGGCAATCAGAATTCTTGGTGTAGCGGTGAAATGCGTAGATATCTGGAGGAACACCGGTGGCGAAGGCGGCATCCTGGACCAATTCTGACGCTGAGTGAGCGAAAGCCAGGGGAGCAAACGGGATTAGATACCCCGGTAGTCCTGGCCCTAGACGATGAATGCTTGGTGTGGCGGGTATCGATCCCTGCCGTGCCGAAGCTAACGCATTAAGCATTCCGCCTGGGGAGTACGGTCGCAAGGCTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGANCATGTGGTTCAATTCGACGCNACGCGAAGAACTTACCCAGGCTTGAACAGCGAGTGACTGCTTACGAAAGTAAGTTTCCGCAAGGACACTCGTAGAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTTTGCTGTTGNCCATCAGGTTATGCTGGGCACTCTGCAAAGACTGCCGGNTGATAAACCGGAGGAAGGTGGGGATGACGTCAAGTCAGCATGGCNTTTATGTCTGGGGCTACACACGTGCTACAATGGCCGACACAAACCGTCGCGAGCCCGCGAGGGGGAGCTAATCGGAGAAAGTCGGTCTCAGTTCGGATAGCAGGCTGCAACTCGCCTGCTTGAAGTTGGAATCGCTAGTAATCGCGGATCAGCACGCCGCGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACATCACGAAAGCCGGTTGTACTAGAAGTCGTCATACCAACCCGCAAGGGAGGGAGGCGCCTAAGGTATGGTCGGTGATTGGGGTG\n\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2239.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2240.dat' name.dat && ln -s 'None' group.dat && echo 'pre.cluster( fasta=fasta.dat, count=name.dat, diffs=1, match=1, mismatch=-1, gapopen=-2, gapextend=-1, topdown=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && cat fasta* && if [ -f fasta.precluster.map ]; then mv fasta.precluster.map fasta.precluster.fasta.map; fi", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:11:08.174971", "params": {"diffs": "\"1\"", "group": "null", "topdown": "\"true\"", "gapopen": "\"-2\"", "mismatch": "\"-1\"", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "gapextend": "\"-1\"", "match": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30761", "id": "bd5643b7bad6c5ee", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_pre_cluster.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otulabel": "Otu1", "fasta": {"src": "hda", "id": "f5f5b5fcc20d3bfb"}, "otu": {"src": "hda", "id": "605677fb26a1d5d5"}, "label": "0.30"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "f5f5b5fcc20d3bfb", "uuid": "0249750c-f281-46b5-843e-160d09ed0d5a"}, "otu": {"src": "hda", "id": "605677fb26a1d5d5", "uuid": "be246a42-2fea-4653-b9cf-d3fb15ca4900"}}, "update_time": "2018-02-08T18:11:45.843827", "tool_id": "mothur_primer_design", "outputs": {"logfile": {"src": "hda", "id": "7e1d0ae02135b35e", "uuid": "838f32be-609c-44d2-afae-f925ffd59147"}, "list_out": {"src": "hda", "id": "01b4d9af49cf5af2", "uuid": "74f50cd4-de52-4c80-bbab-12493bb9139f"}, "summary_out": {"src": "hda", "id": "61fd885aefd5193f", "uuid": "55010ccf-de2c-407a-b483-f17be1f1b8ef"}, "fasta_out": {"src": "hda", "id": "6df628d23dd00405", "uuid": "89ece71b-206a-48ac-81aa-55dfbf5e2f31"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > primer.design(fasta=fasta.dat,list=otu.dat,label=0.30,otulabel=Otu1,pdi \rffs=0,length=18,processors=1)\n\nUsing 1 processors.\n\nFinding consensus sequences for each otu...Done.\n\nIt took 1 secs to process 2 OTUs.\n\nOutput File Names: \notu.0.30.otu.cons.fasta\notu.0.30.primer.summary\notu.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2245.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2246.dat' otu.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'primer.design( fasta=fasta.dat, list=otu.dat, label=0.30, otulabel=Otu1, pdiffs=0, length=18, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:11:42.160085", "params": {"count": "null", "cutoff": "\"\"", "name": "null", "otulabel": "\"Otu1\"", "mintm": "\"\"", "length": "\"18\"", "dbkey": "\"hg17\"", "label": "\"0.30\"", "pdiffs": "\"0\"", "maxtm": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "30895", "id": "2e05a675c8e4effa", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_primer_design.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "970eee70888a4aa6"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "970eee70888a4aa6", "uuid": "ae7991ee-0c1b-4f75-b3d9-b55a0be692f8"}}, "update_time": "2018-02-08T18:12:16.539106", "tool_id": "mothur_rarefaction_shared", "outputs": {"logfile": {"src": "hda", "id": "49a829891848cb74", "uuid": "9c41a416-c997-4435-806e-17a51309f45e"}, "rarefaction": {"src": "hda", "id": "b5c3e3c24268afba", "uuid": "8d1c764c-846a-4fab-90c5-2e031d0581f9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > rarefaction.shared(shared=otu.dat,calc=sharedobserved,iters=1000)\nunique\t\n0.01\t\n0.02\t\n0.03\t\n0.04\t\n0.05\t\n0.06\t\n0.07\t\n0.08\t\n0.09\t\n0.10\t\n0.11\t\n0.12\t\n0.13\t\n0.14\t\n0.15\t\n0.16\t\n0.17\t\n0.18\t\n0.19\t\n0.20\t\n0.21\t\n0.22\t\n0.23\t\n0.24\t\n0.25\t\n0.26\t\n0.27\t\n0.29\t\n0.32\t\n0.33\t\n0.36\t\n0.38\t\n0.41\t\n0.45\t\n0.55\t\n\nOutput File Names: \notu.shared.rarefaction\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2251.dat' otu.dat && echo 'rarefaction.shared( shared=otu.dat, calc=sharedobserved, iters=1000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:12:13.076005", "params": {"iters": "\"1000\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"__current_case__\": 1, \"usess\": \"no\"}", "designc": "{\"usedesign\": \"no\", \"__current_case__\": 1}", "groups": "null", "jumble": "\"false\"", "calc": "\"sharedobserved\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31000", "id": "89c39e6bc9d1ed43", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_rarefaction_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"calc": ["sharedobserved", "sharednseqs"], "otu": {"src": "hda", "id": "3895de01123aa786"}, "groups": ["forest", "pasture"], "label": ["0.22", "0.55"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "3895de01123aa786", "uuid": "88a38bca-3103-4bda-81ea-699d70bd90d0"}}, "update_time": "2018-02-08T18:12:32.107121", "tool_id": "mothur_rarefaction_shared", "outputs": {"logfile": {"src": "hda", "id": "8261f0fefe52b3d8", "uuid": "5354b0af-28d8-460c-9093-62d09996e000"}, "rarefaction": {"src": "hda", "id": "2778f88774dcfec9", "uuid": "410e0a28-c294-4bdd-b96c-b61a50529113"}, "rarefaction2": {"src": "hda", "id": "1eaf0a2d8c29e47a", "uuid": "de7d8886-eeff-4af4-a8ed-5b282a2a569e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > rarefaction.shared(shared=otu.dat,label=0.22-0.55,groups=forest-pasture \r,calc=sharedobserved-sharednseqs,iters=1000)\n0.22\t\n0.55\t\n\nOutput File Names: \notu.shared.rarefaction\notu.shared.r_nseqs\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2254.dat' otu.dat && echo 'rarefaction.shared( shared=otu.dat, label=0.22-0.55, groups=forest-pasture, calc=sharedobserved-sharednseqs, iters=1000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:12:28.634254", "params": {"iters": "\"1000\"", "dbkey": "\"hg17\"", "label": "[\"0.22\", \"0.55\"]", "subsample": "{\"__current_case__\": 1, \"usess\": \"no\"}", "designc": "{\"usedesign\": \"no\", \"__current_case__\": 1}", "groups": "[\"forest\", \"pasture\"]", "jumble": "\"false\"", "calc": "[\"sharedobserved\", \"sharednseqs\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31087", "id": "5f0fd33b40be7b90", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_rarefaction_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"designc|sets": ["tardis", "dalek"], "designc|usedesign": "yes", "otu": {"src": "hda", "id": "8d08869cf0678e94"}, "designc|design": {"src": "hda", "id": "8e702b0abbcab5be"}}, "job": {"inputs": {"design": {"src": "hda", "id": "8e702b0abbcab5be", "uuid": "9cc7a81b-4869-448e-9751-e599dff8e2ac"}, "otu": {"src": "hda", "id": "8d08869cf0678e94", "uuid": "4254f44a-9b85-4acd-9b43-834923a84ca8"}}, "update_time": "2018-02-08T18:12:48.699173", "tool_id": "mothur_rarefaction_shared", "outputs": {"logfile": {"src": "hda", "id": "c2f3aa02e3d98e9a", "uuid": "4484d484-ce5c-4a20-a616-fb7694fbf3ae"}, "group_rarefaction": {"src": "hda", "id": "3c471526d7d3b609", "uuid": "df5365f0-a83d-4c34-898c-86bd2237bfd7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > rarefaction.shared(shared=otu.dat,design=designc.design.dat,sets=tardis \r-dalek,calc=sharedobserved,iters=1000)\nunique\tdalek\n0.01\tdalek\n0.02\tdalek\n0.03\tdalek\n0.04\tdalek\n0.05\tdalek\n0.06\tdalek\n0.07\tdalek\n0.08\tdalek\n0.09\tdalek\n0.10\tdalek\n0.11\tdalek\n0.12\tdalek\n0.13\tdalek\n0.14\tdalek\n0.15\tdalek\n0.16\tdalek\n0.17\tdalek\n0.18\tdalek\n0.19\tdalek\n0.20\tdalek\n0.21\tdalek\n0.22\tdalek\n0.23\tdalek\n0.24\tdalek\n0.25\tdalek\n0.26\tdalek\n0.27\tdalek\n0.29\tdalek\n0.32\tdalek\n0.33\tdalek\n0.36\tdalek\n0.38\tdalek\n0.41\tdalek\n0.45\tdalek\n0.55\tdalek\nunique\ttardis\n0.01\ttardis\n0.02\ttardis\n0.03\ttardis\n0.04\ttardis\n0.05\ttardis\n0.06\ttardis\n0.07\ttardis\n0.08\ttardis\n0.09\ttardis\n0.10\ttardis\n0.11\ttardis\n0.12\ttardis\n0.13\ttardis\n0.14\ttardis\n0.15\ttardis\n0.16\ttardis\n0.17\ttardis\n0.18\ttardis\n0.19\ttardis\n0.20\ttardis\n0.21\ttardis\n0.22\ttardis\n0.23\ttardis\n0.24\ttardis\n0.25\ttardis\n0.26\ttardis\n0.27\ttardis\n0.29\ttardis\n0.32\ttardis\n0.33\ttardis\n0.36\ttardis\n0.38\ttardis\n0.41\ttardis\n0.45\ttardis\n0.55\ttardis\n\nOutput File Names: \notu.groups.rarefaction\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2258.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2259.dat' designc.design.dat && echo 'rarefaction.shared( shared=otu.dat, design=designc.design.dat, sets=tardis-dalek, calc=sharedobserved, iters=1000 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:12:45.102451", "params": {"iters": "\"1000\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"__current_case__\": 1, \"usess\": \"no\"}", "designc": "{\"usedesign\": \"yes\", \"design\": {\"values\": [{\"src\": \"hda\", \"id\": 2259}]}, \"__current_case__\": 0, \"sets\": [\"tardis\", \"dalek\"]}", "groups": "null", "jumble": "\"false\"", "calc": "\"sharedobserved\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31201", "id": "8cf2c4d96fac8f30", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_rarefaction_shared.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "8a6106ba2478bdbd"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "8a6106ba2478bdbd", "uuid": "0f90ab92-22ce-4056-8a79-dcd71b3eeb92"}}, "update_time": "2018-02-08T18:13:04.886441", "tool_id": "mothur_rarefaction_single", "outputs": {"logfile": {"src": "hda", "id": "b15916a29e3c3d1e", "uuid": "52b8eb55-fb32-4e5d-8207-a3baa4c9d25e"}, "__new_primary_file_sobs|sobs__": {"src": "hda", "id": "5d9e2e480e0229ed", "uuid": "fd7ca367-f723-483b-a814-f0c35e2270b3"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > rarefaction.single(shared=otu.dat,calc=sobs,abund=10,iters=1000,freq=10 \r0.0,processors=1)\n\nUsing 1 processors.\n\nProcessing group forest\n\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nProcessing group pasture\n\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.groups.rarefaction\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2262.dat' otu.dat && echo 'rarefaction.single( shared=otu.dat, calc=sobs, abund=10, iters=1000, freq=100.0, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv otu\\.*rarefaction otu.r_sobs", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:13:00.863804", "params": {"abund": "\"10\"", "iters": "\"1000\"", "dbkey": "\"hg17\"", "label": "null", "freq": "\"100.0\"", "calc": "\"sobs\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31288", "id": "aaec100bcea4a774", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_rarefaction_single.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"calc": ["ace", "bootstrap", "chao", "jack", "sobs", "simpsoneven", "shannoneven", "heip", "smithwilson", "coverage", "simpson", "invsimpson", "shannon", "npshannon", "nseqs"], "otu": {"src": "hda", "id": "d8c76c99cfcf0ce5"}, "label": ["0.03", "0.05", "0.36", "0.55"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "d8c76c99cfcf0ce5", "uuid": "f8adb6cf-945c-4639-90f4-153241a99cb3"}}, "update_time": "2018-02-08T18:13:25.506137", "tool_id": "mothur_rarefaction_single", "outputs": {"__new_primary_file_sobs|coverage__": {"src": "hda", "id": "3b7ff9e5c7d690b4", "uuid": "8a034c17-5081-444f-9a9e-174ebd07999d"}, "__new_primary_file_sobs|shannon__": {"src": "hda", "id": "e3b08db904631c4c", "uuid": "6f3a3840-7c8b-49ae-a8dc-b24a34691cdb"}, "__new_primary_file_sobs|ace__": {"src": "hda", "id": "f45423591c0f7733", "uuid": "85350342-20d0-4e47-94ce-561b936f8e75"}, "__new_primary_file_sobs|nseqs__": {"src": "hda", "id": "bc738157a4fad361", "uuid": "2c68d624-9dba-4141-8051-641f9405fb5a"}, "__new_primary_file_sobs|invsimpson__": {"src": "hda", "id": "b0defc02722ab4d6", "uuid": "b39df22c-4d22-4ecc-a4d4-fea145725628"}, "__new_primary_file_sobs|bootstrap__": {"src": "hda", "id": "8b044c65de596171", "uuid": "f5a42c19-8c80-4ebf-8bc3-a5e7a778393d"}, "__new_primary_file_sobs|smithwilson__": {"src": "hda", "id": "cbfc85f745f39a3e", "uuid": "33ce0af3-307b-4fa7-8df6-75627e428aa1"}, "__new_primary_file_sobs|heip__": {"src": "hda", "id": "16ff13d461ecce2e", "uuid": "2732840c-8e2c-4b39-8acb-20145fb3a2a1"}, "__new_primary_file_sobs|sobs__": {"src": "hda", "id": "901603caef1d8ee8", "uuid": "28bfa969-271e-43ed-b4f9-ec078107ea7d"}, "__new_primary_file_sobs|shannoneven__": {"src": "hda", "id": "c556bb1d585cd085", "uuid": "bcdf20c5-5987-4889-b27c-d9edd5204e1a"}, "__new_primary_file_sobs|simpsoneven__": {"src": "hda", "id": "0de71dd17c089dd9", "uuid": "5d8b588c-00e4-4d82-a6fb-83eb5cd9d27b"}, "__new_primary_file_sobs|chao__": {"src": "hda", "id": "d4a5fd64bf471cbc", "uuid": "bfb3c23f-8324-40a5-8fcc-c6f06ca92700"}, "__new_primary_file_sobs|jack__": {"src": "hda", "id": "adb88159fa7b3775", "uuid": "cc7c2da1-c45e-4fc5-91ea-9c66cbe6b06e"}, "__new_primary_file_sobs|npshannon__": {"src": "hda", "id": "47f7483d27dc8522", "uuid": "101cf724-e313-4e6c-bd51-b830e86b8dde"}, "logfile": {"src": "hda", "id": "70d430aeade00c09", "uuid": "cae16ed2-c51a-4ba7-a8b7-822fd4f265c1"}, "__new_primary_file_sobs|simpson__": {"src": "hda", "id": "2091b9e5d015e899", "uuid": "ff84dee4-e777-4d24-a760-e151adf22e3d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > rarefaction.single(shared=otu.dat,label=0.03-0.05-0.36-0.55,calc=ace-bo \rotstrap-chao-jack-sobs-simpsoneven-shannoneven-heip-smithwilson-coverage-simpson \r-invsimpson-shannon-npshannon-nseqs,abund=10,iters=1000,freq=100.0,processors=1) \r\u001b[A\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[K)\n\nUsing 1 processors.\n\nProcessing group forest\n\n0.03\n0.05\n0.36\n0.55\n\nProcessing group pasture\n\n0.03\n0.05\n0.36\n0.55\n\nOutput File Names: \notu.groups.r_ace\notu.groups.r_bootstrap\notu.groups.r_chao\notu.groups.r_coverage\notu.groups.r_heip\notu.groups.r_invsimpson\notu.groups.r_jack\notu.groups.r_npshannon\notu.groups.r_nseqs\notu.groups.r_shannon\notu.groups.r_shannoneven\notu.groups.r_simpson\notu.groups.r_simpsoneven\notu.groups.r_smithwilson\notu.groups.rarefaction\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2265.dat' otu.dat && echo 'rarefaction.single( shared=otu.dat, label=0.03-0.05-0.36-0.55, calc=ace-bootstrap-chao-jack-sobs-simpsoneven-shannoneven-heip-smithwilson-coverage-simpson-invsimpson-shannon-npshannon-nseqs, abund=10, iters=1000, freq=100.0, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv otu\\.*rarefaction otu.r_sobs", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:13:21.254753", "params": {"abund": "\"10\"", "iters": "\"1000\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\", \"0.36\", \"0.55\"]", "freq": "\"100.0\"", "calc": "[\"ace\", \"bootstrap\", \"chao\", \"jack\", \"sobs\", \"simpsoneven\", \"shannoneven\", \"heip\", \"smithwilson\", \"coverage\", \"simpson\", \"invsimpson\", \"shannon\", \"npshannon\", \"nseqs\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31377", "id": "ed97b3e2ab207f95", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_rarefaction_single.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|dist": {"src": "hda", "id": "9377ba4c4b447a14"}, "input|source": "phylip", "accnos": {"src": "hda", "id": "9963fdf634013460"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "9963fdf634013460", "uuid": "b928989e-2b62-415c-bff5-74f13a5d7c34"}, "dist": {"src": "hda", "id": "9377ba4c4b447a14", "uuid": "6ecd1791-70d0-43da-8f83-310f7c259672"}}, "update_time": "2018-02-08T18:13:48.134708", "tool_id": "mothur_remove_dists", "outputs": {"logfile": {"src": "hda", "id": "0e8331efcfcf7646", "uuid": "ef7d16e8-1735-4873-871a-3b2fe6866839"}, "pick_dist": {"src": "hda", "id": "8221ac349ab6487f", "uuid": "102ef663-b92e-438f-a2ee-b654258fb954"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.dists(accnos=accnos.dat,phylip=input_dist.dat)\nRemoved 8 groups or sequences from your phylip file.\n\nOutput File names: \ninput_dist.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2283.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2282.dat' input_dist.dat && echo 'remove.dists( accnos=accnos.dat, phylip=input_dist.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:13:45.005251", "params": {"input": "{\"source\": \"phylip\", \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 2282}]}, \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31491", "id": "9fbd2c401152ab55", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_dists.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"groupnames|groups": "pasture", "groupnames|shared_in": {"src": "hda", "id": "7cd2d53bde5c0add"}, "groupnames|source": "shared"}, "job": {"inputs": {"shared_in": {"src": "hda", "id": "7cd2d53bde5c0add", "uuid": "9fc9bf7a-54c3-46a7-98c1-6c34d55e6493"}}, "update_time": "2018-02-08T18:14:07.678472", "tool_id": "mothur_remove_groups", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "6b7768dc0d7faad7", "uuid": "52eaf5c0-1c63-4c6c-810a-cb578e07f35c"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "f0a5105eaf2bfd75", "uuid": "6326cda0-94d7-4c15-9dfd-4564c1d99e95"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "9189bcfe7a4f9acb", "uuid": "850ecac9-5693-424b-b406-cc0f7ec2dbd1"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "95a9440ff1992c74", "uuid": "c6690a15-1f6d-4594-9281-42266a8f206b"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "bc85128d647d7567", "uuid": "290c9a03-ddb4-436d-b2b5-007a67af45da"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "945066983ff522f4", "uuid": "d13a6213-50bb-4fb7-a41e-1adfe97db47f"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "76b454b70e887011", "uuid": "04ea0f09-ff28-48db-80d1-c2ecbe35cd9d"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "1eb9c4a1b6283f8b", "uuid": "7a142fbc-2114-4cb3-8d6b-8b1662076b6f"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "119e335ad3ed5286", "uuid": "9d58df98-0918-427b-a6ed-16ff74b4c563"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "098d7fe116d7a465", "uuid": "c6aea6dc-234c-4eb4-b5a5-00d80e49e5ea"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "9dc99095cef129ee", "uuid": "4a584369-937c-4a50-bac2-715c486f0cbd"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "222b3bca2d12ce45", "uuid": "e1d76e2c-74b5-46fa-b24d-8ce47e3fed27"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "f35d48acb5b4927b", "uuid": "b459fadf-aec6-426d-9592-e6469bdac959"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "4db0932fb7553ad2", "uuid": "508d6ab7-f650-4b40-865b-7f944c0d7708"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "ad125357e7c3e87b", "uuid": "ce80010f-02b5-4a66-b4c3-5d503159c131"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "cb25081baf7393e6", "uuid": "1b5c8138-1926-4860-a8dc-3faf16fc08c9"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "6f03d3200088c6d4", "uuid": "688d58fe-be06-4732-a939-5c6383d2ff38"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "50d24fe68016bea8", "uuid": "1b876dae-ba70-4e10-99f2-cb0bd6bda909"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "17e5da6fef26fa49", "uuid": "fb0545f6-73e3-4eaa-8f8f-eac7226ac969"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "7e316548162b36ff", "uuid": "8c561f2b-f96b-44cd-81c4-2e5ba77246ff"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "6a9f3b4b5ee84850", "uuid": "9f5a2c4c-b778-474a-b1aa-3a8f5c82de76"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "da24b85de09d096b", "uuid": "13bf9e55-cb11-49e9-8bef-b0ac93f6a05e"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "592e977e25982094", "uuid": "95e8440a-a46e-4c30-b120-6dddf2132d0a"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "c3a2d976a363681a", "uuid": "c1037b1f-37f6-4cd7-853f-495eecdfbfca"}, "logfile": {"src": "hda", "id": "f484cc634deaf2d7", "uuid": "af4651b4-a073-4a02-a828-c9e80e42f9c4"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "fae2800d127612ca", "uuid": "4e3bf2cb-1e57-4555-8a88-a70f3d3fff6c"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "f216775375f843a9", "uuid": "303ab49e-cd2e-4a82-8f79-380437279aed"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "809583a7f7d24a94", "uuid": "d500d714-fbe9-4eb4-8530-d30a30c828e2"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "953bda5fbdb92d27", "uuid": "cc738eb5-12eb-4492-bda6-95eae883806e"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "52627054db660e78", "uuid": "72f56beb-88be-42ae-a8aa-a637feee5026"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "e25f46671ff63694", "uuid": "6338dc42-8971-412c-8476-0a4e1319c4cb"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "d92cab7da43877a2", "uuid": "e5d9fc6a-5d11-471d-99cf-8526c01ae1b0"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "a8c47f290140529a", "uuid": "31b6efd0-20f9-4205-9da4-896acd31f0a3"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "12ab43a2c559fd70", "uuid": "2429c020-1da4-4394-984a-1e7fc01753ab"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "cc13e7b5b3a20008", "uuid": "f0e71ae2-2903-4585-a382-41a731ff0ed7"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "39ce81f662090b83", "uuid": "00450dbd-ee23-4fc9-b219-2e25eebb3ea9"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "64ce508563105809", "uuid": "ad7ab1f7-8c29-4ff8-bd3c-d4943f4549e4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.groups(shared=groupnames_shared_in.dat,groups=pasture)\nRemoved groups: pasture from your shared file.\n\nOutput File names: \ngroupnames_shared_in.unique.pick.dat\ngroupnames_shared_in.0.01.pick.dat\ngroupnames_shared_in.0.02.pick.dat\ngroupnames_shared_in.0.03.pick.dat\ngroupnames_shared_in.0.04.pick.dat\ngroupnames_shared_in.0.05.pick.dat\ngroupnames_shared_in.0.06.pick.dat\ngroupnames_shared_in.0.07.pick.dat\ngroupnames_shared_in.0.08.pick.dat\ngroupnames_shared_in.0.09.pick.dat\ngroupnames_shared_in.0.10.pick.dat\ngroupnames_shared_in.0.11.pick.dat\ngroupnames_shared_in.0.12.pick.dat\ngroupnames_shared_in.0.13.pick.dat\ngroupnames_shared_in.0.14.pick.dat\ngroupnames_shared_in.0.15.pick.dat\ngroupnames_shared_in.0.16.pick.dat\ngroupnames_shared_in.0.17.pick.dat\ngroupnames_shared_in.0.18.pick.dat\ngroupnames_shared_in.0.19.pick.dat\ngroupnames_shared_in.0.20.pick.dat\ngroupnames_shared_in.0.21.pick.dat\ngroupnames_shared_in.0.22.pick.dat\ngroupnames_shared_in.0.23.pick.dat\ngroupnames_shared_in.0.24.pick.dat\ngroupnames_shared_in.0.25.pick.dat\ngroupnames_shared_in.0.26.pick.dat\ngroupnames_shared_in.0.27.pick.dat\ngroupnames_shared_in.0.29.pick.dat\ngroupnames_shared_in.0.32.pick.dat\ngroupnames_shared_in.0.33.pick.dat\ngroupnames_shared_in.0.36.pick.dat\ngroupnames_shared_in.0.38.pick.dat\ngroupnames_shared_in.0.41.pick.dat\ngroupnames_shared_in.0.45.pick.dat\ngroupnames_shared_in.0.55.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2286.dat' groupnames_shared_in.dat && echo 'remove.groups( shared=groupnames_shared_in.dat ,groups=pasture )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:14:02.554551", "params": {"groupnames": "{\"source\": \"shared\", \"shared_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2286}]}, \"groups\": \"pasture\", \"__current_case__\": 1}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31584", "id": "11f90d7d2e7018d3", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_groups.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"groupnames|fasta_in": {"src": "hda", "id": "834c7bc81907531a"}, "groupnames|group_in": {"src": "hda", "id": "1ae0e921e8a5c2cf"}, "groupnames|list_in": {"src": "hda", "id": "2dddc34ce42fd89f"}, "groupnames|name_in": {"src": "hda", "id": "511d67f899681d88"}, "groupnames|source": "other", "groupnames|taxonomy_in": {"src": "hda", "id": "a0efceb0cae627df"}, "groupnames|groups": "pasture"}, "job": {"inputs": {"group_in": {"src": "hda", "id": "1ae0e921e8a5c2cf", "uuid": "5f2e2590-4c79-43f0-af0d-25436dd84f90"}, "taxonomy_in": {"src": "hda", "id": "a0efceb0cae627df", "uuid": "f179b10b-16a7-477b-9295-fedc1fc19a3f"}, "fasta_in": {"src": "hda", "id": "834c7bc81907531a", "uuid": "f554b893-67c6-4207-93ab-bf2fac70ed15"}, "list_in": {"src": "hda", "id": "2dddc34ce42fd89f", "uuid": "4f3dd394-cf1f-438a-b333-4d7e02f5ba59"}, "name_in": {"src": "hda", "id": "511d67f899681d88", "uuid": "3b977018-74eb-4b17-aa0e-3b8200e38105"}}, "update_time": "2018-02-08T18:14:44.254800", "tool_id": "mothur_remove_groups", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "538d841fdb1747d9", "uuid": "7f614d2c-59f1-4934-951a-e7b3ac38e607"}, "fasta_out": {"src": "hda", "id": "379ef8aadc41efc2", "uuid": "bc8b8938-fbd1-45c2-8106-20e561e90f55"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "fd811d57601c2a53", "uuid": "94cc848c-3ced-47cd-b630-9d388be1b6d3"}, "name_out": {"src": "hda", "id": "a57ffcdbbf6f1e3c", "uuid": "751e63d8-425f-457a-96c7-8d7e2cc79bea"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "7b968d941cfc816e", "uuid": "abaccccb-c543-4076-bbb1-4d9b11dad510"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "a279471fedaa0571", "uuid": "5f667714-7be9-49db-bc3c-ab67b2d8f34b"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "6f48ba503e841429", "uuid": "a1199478-3710-4fca-a69d-8bb672b49a3c"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "017619ce8af22a72", "uuid": "d2f879bd-0e5f-411c-9b15-e053903ef6ba"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "82ef8e67e7fbf772", "uuid": "e5bd2cfe-e419-4a76-9d98-e6d2dec5ceeb"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "b07a8d87cf378c5c", "uuid": "3b3f28f8-7b16-4752-ab56-5fb231bc75bc"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "ed7a9161dcea674f", "uuid": "04e9cb1e-1d2e-4e4e-99b1-f33d69abb52c"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "77dc19e4d38b61eb", "uuid": "d32b36ea-3488-4378-86ca-903a97d8c342"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "329c49f5b129c529", "uuid": "18877da9-fb37-4d29-8327-783e65d4d3de"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "e152883985a9587a", "uuid": "ca435832-ec37-45bb-b334-12c1a60e9d56"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "d953aaed8dbb68b6", "uuid": "4b9236a6-d383-46ff-93d2-a13205f630c6"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "2901353778bc9bab", "uuid": "1929f6b3-459f-4ff3-aeba-09eac2503eb0"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "c2b20c6dcfa71d17", "uuid": "da641b6f-a6a5-4b4a-9df9-efe6bd1eeb43"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "22914d39b2b730a1", "uuid": "70abbaed-7677-4355-9afa-233bc72baff7"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "fe166579c3479639", "uuid": "73748fc9-5352-4ec9-8bce-2a4e9cbf49d7"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "919fc57758c35349", "uuid": "524cfd5b-5f80-44d2-8be5-5a1b2c1880db"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "47d62a7ea7c59a47", "uuid": "7929d82e-e335-4c1a-8f1c-bdc0a0a23663"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "d17e43f40c7b280e", "uuid": "f39b4998-1885-4a4c-afb2-ad9298c89c28"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "5ab0e040a82c9257", "uuid": "27a0e294-4ef3-45fe-addd-d866f364c10a"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "e7a119cd3c5740ed", "uuid": "886c83f7-6f69-4f10-bbce-8fa934177fb4"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "587a4a63fe83b80d", "uuid": "aec15976-5eec-40b3-b4fd-e8edb832801c"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "9e190863641df143", "uuid": "e7d3492c-0143-46ae-a44b-7c0e49ab3524"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "ff3f7fa6cf2588ee", "uuid": "b5f79860-46c3-4b66-a3cf-6e6c8398339f"}, "logfile": {"src": "hda", "id": "295945eae8ee0845", "uuid": "2e1d3528-177d-4161-940d-bbf57f0ffc3c"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "91547bc6b52d15e0", "uuid": "81da8bf2-74a2-4d6f-92d5-5bb64e320e9e"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "2b2e28ff432ff04c", "uuid": "53bea491-e5a0-4808-895f-74df32c455f1"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "2783f52461a8e0f8", "uuid": "4f01b970-6761-478c-8f83-76482de991d0"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "25a6596e48ff11f8", "uuid": "9ca8c213-cedc-4d59-91a9-e8135c64adad"}, "group_out": {"src": "hda", "id": "44f8738bed3b883e", "uuid": "f7ebf868-97b1-475a-a1f7-14cc02aa2f0b"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "c2205b1bae1af899", "uuid": "4292a3b8-6edc-47b6-92d9-97eb03bd0c44"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "704100c2f064b409", "uuid": "1df841f9-0466-435b-96b0-9e7122a8c05f"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "052e581adee82db7", "uuid": "e6f5cd12-1eb1-44fb-b452-76fe29d57671"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "be2f9646583e3df7", "uuid": "e4692991-1e4f-4595-a46e-14c689b6ff47"}, "taxonomy_out": {"src": "hda", "id": "9baff05b3688be9e", "uuid": "ecc211a5-1969-4669-a4d2-6534670051c1"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "890f24b7838786dd", "uuid": "c84f631a-8807-474b-8723-5609c8d5b552"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "decd1f544b8f4602", "uuid": "6d116afa-e9ac-48f9-9835-4ee3691cf677"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "99bfead4bdf5ed3d", "uuid": "a00cdfde-cec4-45b5-9e69-c9ee754ff2a5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.groups(group=groupnames_group_in.dat,fasta=groupnames_fasta_in.d \rat,name=groupnames_name_in.dat,list=groupnames_list_in.dat,taxonomy=groupnames_t \raxonomy_in.dat,groups=pasture)\nRemoved 49 sequences from your name file.\nRemoved 49 sequences from your fasta file.\nRemoved 49 sequences from your group file.\nRemoved 49 sequences from your list file.\nRemoved 49 sequences from your taxonomy file.\n\nOutput File names: \ngroupnames_name_in.pick.dat\ngroupnames_fasta_in.pick.dat\ngroupnames_group_in.pick.dat\ngroupnames_list_in.unique.pick.dat\ngroupnames_list_in.0.01.pick.dat\ngroupnames_list_in.0.02.pick.dat\ngroupnames_list_in.0.03.pick.dat\ngroupnames_list_in.0.04.pick.dat\ngroupnames_list_in.0.05.pick.dat\ngroupnames_list_in.0.06.pick.dat\ngroupnames_list_in.0.07.pick.dat\ngroupnames_list_in.0.08.pick.dat\ngroupnames_list_in.0.09.pick.dat\ngroupnames_list_in.0.10.pick.dat\ngroupnames_list_in.0.11.pick.dat\ngroupnames_list_in.0.12.pick.dat\ngroupnames_list_in.0.13.pick.dat\ngroupnames_list_in.0.14.pick.dat\ngroupnames_list_in.0.15.pick.dat\ngroupnames_list_in.0.16.pick.dat\ngroupnames_list_in.0.17.pick.dat\ngroupnames_list_in.0.18.pick.dat\ngroupnames_list_in.0.19.pick.dat\ngroupnames_list_in.0.20.pick.dat\ngroupnames_list_in.0.21.pick.dat\ngroupnames_list_in.0.22.pick.dat\ngroupnames_list_in.0.23.pick.dat\ngroupnames_list_in.0.24.pick.dat\ngroupnames_list_in.0.25.pick.dat\ngroupnames_list_in.0.26.pick.dat\ngroupnames_list_in.0.27.pick.dat\ngroupnames_list_in.0.29.pick.dat\ngroupnames_list_in.0.32.pick.dat\ngroupnames_list_in.0.33.pick.dat\ngroupnames_list_in.0.36.pick.dat\ngroupnames_list_in.0.38.pick.dat\ngroupnames_list_in.0.41.pick.dat\ngroupnames_list_in.0.45.pick.dat\ngroupnames_list_in.0.55.pick.dat\ngroupnames_taxonomy_in.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2324.dat' groupnames_group_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2325.dat' groupnames_fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2326.dat' groupnames_name_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2327.dat' groupnames_list_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2328.dat' groupnames_taxonomy_in.dat && echo 'remove.groups( group=groupnames_group_in.dat ,fasta=groupnames_fasta_in.dat ,name=groupnames_name_in.dat ,list=groupnames_list_in.dat ,taxonomy=groupnames_taxonomy_in.dat ,groups=pasture )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:14:37.618375", "params": {"groupnames": "{\"__current_case__\": 0, \"group_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2324}]}, \"fasta_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2325}]}, \"source\": \"other\", \"taxonomy_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2328}]}, \"groups\": \"pasture\", \"list_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2327}]}, \"name_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2326}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31756", "id": "6dd0e474af427e2d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_groups.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"count": {"src": "hda", "id": "b4b60426d425f16d"}, "file|taxonomy": {"src": "hda", "id": "37986503f50eefa5"}, "file|filetype": "usetaxonomy", "taxon": "Bacteria;Firmicutes;"}, "job": {"inputs": {"count": {"src": "hda", "id": "b4b60426d425f16d", "uuid": "d3102d63-f063-4f49-9358-a9204932afa5"}, "taxonomy": {"src": "hda", "id": "37986503f50eefa5", "uuid": "d3943489-f9bc-4e8f-b7fa-47058d56089a"}}, "update_time": "2018-02-08T18:15:26.271587", "tool_id": "mothur_remove_lineage", "outputs": {"logfile": {"src": "hda", "id": "f1a6b922e4c3946b", "uuid": "614bb54e-30c0-4890-aec7-0081dbee7bdf"}, "taxonomy_out": {"src": "hda", "id": "4b38cb8245b4e765", "uuid": "a9ddb677-1dab-4ebf-9e68-e8ea6af15451"}, "count_out": {"src": "hda", "id": "0160af6439ac70dc", "uuid": "14df1388-869a-42d5-a461-262f0dca79ac"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.lineage(taxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicutes;', \rcount=count.dat)\n\n[NOTE]: The count file should contain only unique names, so mothur assumes your fasta, list and taxonomy files also contain only uniques.\n\n\nOutput File Names: \nfile.taxonomy.pick.dat\ncount.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2370.dat' file.taxonomy.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2371.dat' count.dat && echo 'remove.lineage( taxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;'\"' ,count=count.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:15:23.028671", "params": {"dups": "\"true\"", "fasta_in": "null", "taxon": "\"Bacteria;Firmicutes;\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 2370}]}, \"filetype\": \"usetaxonomy\", \"taxons\": null, \"__current_case__\": 0}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "31874", "id": "0988466323c56cdf", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_lineage.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta_in": {"src": "hda", "id": "94ffe1907bbe589a"}, "taxon": "Bacteria;Firmicutes;,Bacteria;Actinobacteria;", "list_in": {"src": "hda", "id": "a9cef69b5a19731f"}, "group_in": {"src": "hda", "id": "ca154bf63cdc8557"}, "file|taxonomy": {"src": "hda", "id": "7b13643ca1c390d8"}, "alignreport_in": {"src": "hda", "id": "e3e164d6ab182280"}, "file|filetype": "usetaxonomy", "name_in": {"src": "hda", "id": "4cc77546f573b2d0"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "7b13643ca1c390d8", "uuid": "a450e3b8-6804-43fe-823a-9cb57a712356"}, "fasta_in": {"src": "hda", "id": "94ffe1907bbe589a", "uuid": "fe69accc-1298-42f3-bfe2-28a855239d6f"}, "group_in": {"src": "hda", "id": "ca154bf63cdc8557", "uuid": "dbc42af8-2faa-4e02-bb57-5a7217ecb809"}, "alignreport_in": {"src": "hda", "id": "e3e164d6ab182280", "uuid": "d78e1f6e-58b5-425c-9670-14708fcb21e3"}, "list_in": {"src": "hda", "id": "a9cef69b5a19731f", "uuid": "92e9416c-6784-438f-b095-94328935f7ea"}, "name_in": {"src": "hda", "id": "4cc77546f573b2d0", "uuid": "96af4f9b-9c52-4b47-a5e3-3cde1fbb8fd7"}}, "update_time": "2018-02-08T18:15:53.229707", "tool_id": "mothur_remove_lineage", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "35df3e45f29e684d", "uuid": "b57fd9af-0c5a-49d5-81a2-d949025c7d33"}, "fasta_out": {"src": "hda", "id": "154b33b739461382", "uuid": "f99759ef-0ea0-4bc2-b49b-6b3d962f7ad7"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "39ac9d7d68a18ba7", "uuid": "060bf7ce-0b28-42c1-9f72-d46a07a677a3"}, "name_out": {"src": "hda", "id": "966910197fb6271c", "uuid": "3a77e387-fe91-4e61-a86b-067989473500"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "1fe329e39785826e", "uuid": "34ed1f23-984d-4ebe-b793-8ff8f4b4078b"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "7ba9e4d18c68940c", "uuid": "dfb2a6e1-e8a9-40b2-b831-1de06f934a1a"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "7b6cf8e7ca9d489b", "uuid": "aeb38b27-2272-4bd6-bc16-88f8b16e8a70"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "ebb161f2aaac9134", "uuid": "e38efc93-7800-498b-b7e3-daff6a00ad43"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "892ed2ca0d452bf1", "uuid": "76067942-5b7d-4cdf-b3f3-cc476a170d56"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "32d3c44266e502db", "uuid": "1d7490a3-4f7c-425c-b1dc-598b22db89d0"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "e7f38b62472c64c3", "uuid": "4e8c6090-0995-43f9-abe3-5533dd48c1c6"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "54362bd1402420de", "uuid": "18d2356b-d07a-4cae-ba0d-4a99c5999d54"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "dd9637d99eee3c9a", "uuid": "bf35fdfc-f9c8-4abe-b5d1-a5404ba227cc"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "2b2a8e7a960a22fa", "uuid": "381b3d66-aad2-4fe1-aba6-848f29164cbd"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "9a4998a57b4c0d76", "uuid": "83125373-a266-410f-9eb1-aed2d893afcc"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "805aa78c406b7f16", "uuid": "63e6ba39-b3bb-42d5-a22c-7441eae9c452"}, "alignreport_out": {"src": "hda", "id": "8b80c2f064b944ad", "uuid": "f543a295-d0c4-4100-8a54-5167862c3d7f"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "681ee48f048bfa32", "uuid": "64896760-acab-4742-ae43-ae02551402b0"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "5f7b03e27cadea29", "uuid": "9cc904d5-e08c-42d4-81bd-af5283278209"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "67254bb77b4cd837", "uuid": "47a70053-ca58-4d60-a0d1-7ce682cb2e03"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "c00f338d3be3421b", "uuid": "62c8c379-dcde-493c-bc3c-627e6469a663"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "4e2a688e84ed09ba", "uuid": "aa045ae7-fa22-4063-9da8-3e0b2b849fe8"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "e8e6125857b80021", "uuid": "4dc4da63-a755-4292-85bc-d9c7d538a032"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "edc838c8e1dee637", "uuid": "6d3bc26f-2de4-479d-b5db-5523f5ed1937"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "077990f262b60a5e", "uuid": "92ea14ba-6c77-4a9c-90d9-0cde541beeef"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "3151b1fe3738d9ad", "uuid": "e34e5a1a-5a77-48f2-9607-38ceaed666f3"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "cd0552060d28d57c", "uuid": "3cb838e3-dff0-44c6-842d-2859ecfb8326"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "9199779695f12b0d", "uuid": "bbd54f24-af02-462a-89a9-380299425388"}, "logfile": {"src": "hda", "id": "044d4dd6116ec211", "uuid": "ca36d78c-50a7-4745-b419-dac4ee3cb648"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "8a3d90f0472ffba1", "uuid": "90a0f0da-db5e-4d53-a9f0-5f1ee8b7111a"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "328d2c0dfb26d583", "uuid": "a16b25ca-5454-4a53-bfdd-12d4fe134a16"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "ea46dea1984f7f15", "uuid": "dd3b45ae-817f-4044-8d1d-aa76c21c24bd"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "85823b54d11c9421", "uuid": "832e1bc0-6570-4cde-a8ad-113d43ccccd1"}, "group_out": {"src": "hda", "id": "68a1cd10847ef2c7", "uuid": "dde1184e-4e0d-4082-879d-a1052559ad20"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "e2c9e714bcfe5f0a", "uuid": "4bd958da-db4b-4ada-9df6-819d8789a400"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "0f9e12470eed7630", "uuid": "13073578-c0ce-489f-9b51-d681adf6ebfb"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "3070aa5bf5842a22", "uuid": "7843242e-b223-419f-88a1-78a98232840e"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "1f2d20dc0bea074f", "uuid": "d330650b-bd3e-42d0-ab00-744aa59e3ea3"}, "taxonomy_out": {"src": "hda", "id": "f515de207b3cbff0", "uuid": "3ed1f17c-9b2e-466d-8d52-761b4c550138"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "77b0f6eda081c1d2", "uuid": "35f92abe-1f92-4ded-a945-494da0e27cab"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "ef503f389d24c62c", "uuid": "385b5438-9c5f-4d4e-bfb3-7c89bc0da895"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "4a0f32fd437d1f2f", "uuid": "597c450c-319f-4fb0-a221-f8bc15ed16b1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.lineage(taxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicutes;-B \racteria;Actinobacteria;',fasta=fasta_in.dat,group=group_in.dat,alignreport=align \rreport_in.dat,list=list_in.dat,name=name_in.dat,dups=true)\nYou did not provide a label, I will use the first label in your inputfile.\n\nOutput File Names: \nfile.taxonomy.pick.dat\nname_in.pick.dat\nfasta_in.pick.dat\ngroup_in.pick.dat\nalignreport_in.pick.align.report\nlist_in.unique.pick.dat\nlist_in.0.01.pick.dat\nlist_in.0.02.pick.dat\nlist_in.0.03.pick.dat\nlist_in.0.04.pick.dat\nlist_in.0.05.pick.dat\nlist_in.0.06.pick.dat\nlist_in.0.07.pick.dat\nlist_in.0.08.pick.dat\nlist_in.0.09.pick.dat\nlist_in.0.10.pick.dat\nlist_in.0.11.pick.dat\nlist_in.0.12.pick.dat\nlist_in.0.13.pick.dat\nlist_in.0.14.pick.dat\nlist_in.0.15.pick.dat\nlist_in.0.16.pick.dat\nlist_in.0.17.pick.dat\nlist_in.0.18.pick.dat\nlist_in.0.19.pick.dat\nlist_in.0.20.pick.dat\nlist_in.0.21.pick.dat\nlist_in.0.22.pick.dat\nlist_in.0.23.pick.dat\nlist_in.0.24.pick.dat\nlist_in.0.25.pick.dat\nlist_in.0.26.pick.dat\nlist_in.0.27.pick.dat\nlist_in.0.29.pick.dat\nlist_in.0.32.pick.dat\nlist_in.0.33.pick.dat\nlist_in.0.36.pick.dat\nlist_in.0.38.pick.dat\nlist_in.0.41.pick.dat\nlist_in.0.45.pick.dat\nlist_in.0.55.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2375.dat' file.taxonomy.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2376.dat' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2377.dat' group_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2378.dat' alignreport_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2379.dat' list_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2380.dat' name_in.dat && ln -s 'None' count.dat && echo 'remove.lineage( taxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;-Bacteria;Actinobacteria;'\"' ,fasta=fasta_in.dat ,group=group_in.dat ,alignreport=alignreport_in.dat ,list=list_in.dat ,name=name_in.dat ,dups=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:15:46.002408", "params": {"count": "null", "dups": "\"true\"", "taxon": "\"Bacteria;Firmicutes;,Bacteria;Actinobacteria;\"", "dbkey": "\"hg17\"", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 2375}]}, \"filetype\": \"usetaxonomy\", \"taxons\": null, \"__current_case__\": 0}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "32079", "id": "028963dd9277afc4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_lineage.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"file|taxonomy": {"src": "hda", "id": "ed2d3bd032d02491"}, "file|taxons": ["Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Dorea(99);", "Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Roseburia(47);"], "file|filetype": "usetaxonomy"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "ed2d3bd032d02491", "uuid": "d644aec4-7267-44fd-b5df-fb5e984e6a7b"}}, "update_time": "2018-02-08T18:16:32.338513", "tool_id": "mothur_remove_lineage", "outputs": {"logfile": {"src": "hda", "id": "9e8cf296dbef59b9", "uuid": "0de51807-6b53-4167-bffb-0e6be06a2fbe"}, "taxonomy_out": {"src": "hda", "id": "747c6fc35e775aa4", "uuid": "479efb57-7437-4758-995d-c2fce07b43e5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.lineage(taxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicutes;Cl \rostridia;Clostridiales;Lachnospiraceae;Dorea;-Bacteria;Firmicutes;Clostridia;Clo \rstridiales;Lachnospiraceae;Roseburia;')\n\nOutput File Names: \nfile.taxonomy.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2423.dat' file.taxonomy.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && echo 'remove.lineage( taxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Dorea;-Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Roseburia;'\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:16:29.164896", "params": {"count": "null", "dups": "\"true\"", "fasta_in": "null", "taxon": "\"\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 2423}]}, \"filetype\": \"usetaxonomy\", \"taxons\": [\"Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Dorea(99);\", \"Bacteria(100);Firmicutes(100);Clostridia(100);Clostridiales(100);Lachnospiraceae(100);Roseburia(47);\"], \"__current_case__\": 0}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "32183", "id": "f941dab79996470b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_lineage.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"file|taxonomy": {"src": "hda", "id": "b1deaf4adb6e2b62"}, "file|filetype": "useconstaxonomy", "taxon": "Bacteria;Bacteroidetes;"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "b1deaf4adb6e2b62", "uuid": "cad89d39-f18f-47c7-ae46-976e6995b23b"}}, "update_time": "2018-02-08T18:16:39.822280", "tool_id": "mothur_remove_lineage", "outputs": {"logfile": {"src": "hda", "id": "990b9da175c7f56f", "uuid": "13e9c57b-ff63-4da7-8cdb-a84d5c2374f1"}, "taxonomy_out": {"src": "hda", "id": "b879287775e7651a", "uuid": "510e5454-dc71-430a-a471-c8d98b2623ee"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.lineage(constaxonomy=file.taxonomy.dat,taxon='Bacteria;Bacteroid \retes;')\n\nOutput File Names: \nfile.taxonomy.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2426.dat' file.taxonomy.dat && ln -s 'None' file.shared.dat && ln -s 'None' file.list.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && echo 'remove.lineage( constaxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Bacteroidetes;'\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:16:36.478165", "params": {"count": "null", "dups": "\"true\"", "fasta_in": "null", "taxon": "\"Bacteria;Bacteroidetes;\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 2426}]}, \"filetype\": \"useconstaxonomy\", \"list\": null, \"taxons\": null, \"__current_case__\": 1, \"shared\": null}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "32280", "id": "3b489b444bd4d351", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_lineage.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"file|taxonomy": {"src": "hda", "id": "f493e0cacca6ba40"}, "file|taxons": ["Bacteria(100);Firmicutes(100);Clostridia(70);Clostridiales(70);Lachnospiraceae(51);unclassified;", "Bacteria(100);Proteobacteria(100);Gammaproteobacteria(100);unclassified;unclassified;unclassified;"], "file|filetype": "useconstaxonomy"}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "f493e0cacca6ba40", "uuid": "0c8ec11a-5b60-494d-a66c-7e9e51c46569"}}, "update_time": "2018-02-08T18:16:46.831147", "tool_id": "mothur_remove_lineage", "outputs": {"logfile": {"src": "hda", "id": "6b6553db05727bc4", "uuid": "0cbf6caf-ee62-40c3-bc5c-89bb32db7ab4"}, "taxonomy_out": {"src": "hda", "id": "42de286dcd9bca3b", "uuid": "560bd4aa-7924-4454-acf6-5f4f0b173c55"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.lineage(constaxonomy=file.taxonomy.dat,taxon='Bacteria;Firmicute \rs;Clostridia;Clostridiales;Lachnospiraceae;unclassified;-Bacteria;Proteobacteria \r;Gammaproteobacteria;unclassified;unclassified;unclassified;')\n\nOutput File Names: \nfile.taxonomy.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2429.dat' file.taxonomy.dat && ln -s 'None' file.shared.dat && ln -s 'None' file.list.dat && ln -s 'None' fasta_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && echo 'remove.lineage( constaxonomy=file.taxonomy.dat ,taxon='\"'Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;unclassified;-Bacteria;Proteobacteria;Gammaproteobacteria;unclassified;unclassified;unclassified;'\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:16:43.668260", "params": {"count": "null", "dups": "\"true\"", "fasta_in": "null", "taxon": "\"\"", "dbkey": "\"hg17\"", "group_in": "null", "file": "{\"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 2429}]}, \"filetype\": \"useconstaxonomy\", \"list\": null, \"taxons\": [\"Bacteria(100);Firmicutes(100);Clostridia(70);Clostridiales(70);Lachnospiraceae(51);unclassified;\", \"Bacteria(100);Proteobacteria(100);Gammaproteobacteria(100);unclassified;unclassified;unclassified;\"], \"__current_case__\": 1, \"shared\": null}", "alignreport_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "32375", "id": "ee234bf95ca1c311", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_lineage.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|label": "0.22", "accnos": {"src": "hda", "id": "ad5a23682f5a9de8"}, "infile|otu": {"src": "hda", "id": "60c41917f147cedf"}, "infile|intype": "in_shared"}, "job": {"inputs": {"accnos": {"src": "hda", "id": "ad5a23682f5a9de8", "uuid": "dfb149e3-265e-4981-a24f-f7c07789024f"}, "otu": {"src": "hda", "id": "60c41917f147cedf", "uuid": "246499f3-daf4-40f1-87b5-e811cadaafb8"}}, "update_time": "2018-02-08T18:16:58.146683", "tool_id": "mothur_remove_otulabels", "outputs": {"pick_out": {"src": "hda", "id": "e1054de073a99e69", "uuid": "b49a638e-3568-4829-9fd0-3ff32e10f5a9"}, "logfile": {"src": "hda", "id": "47efcc304726fc94", "uuid": "fd34616d-4328-4264-a888-df65224a1559"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.otulabels(list=infile.otu.dat,label=0.22,accnos=accnos.dat)\nRemoved 0 OTUs from your list file.\n\nOutput File Names: \ninfile.otu.0.22.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2433.dat' infile.otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2432.dat' accnos.dat && echo 'remove.otulabels( list=infile.otu.dat, label=0.22, accnos=accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:16:54.307572", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_shared\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2433}]}, \"__current_case__\": 0, \"label\": \"0.22\"}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "32499", "id": "211650f16125cac7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_otulabels.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|intype": "in_other", "accnos": {"src": "hda", "id": "b96a437033ff865d"}, "infile|otu": {"src": "hda", "id": "ad0fe0deb4088e0a"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "b96a437033ff865d", "uuid": "293f7fdd-29e5-4ec3-a842-6d2ac7e20f8a"}, "otu": {"src": "hda", "id": "ad0fe0deb4088e0a", "uuid": "e25e2bb1-a988-4495-aa5b-ae2109332f27"}}, "update_time": "2018-02-08T18:17:20.896014", "tool_id": "mothur_remove_otulabels", "outputs": {"pick_out": {"src": "hda", "id": "a18ae6974f6e6e5c", "uuid": "37fe3947-e0a5-4943-95f3-ced1916d0ef5"}, "logfile": {"src": "hda", "id": "dd40e5394130ccc4", "uuid": "3f7cb677-9d83-41cb-95fd-dd0ab28b6842"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.otulabels(corraxes=infile.otu.dat,accnos=accnos.dat)\nRemoved 3 lines from your corr.axes file.\n\nOutput File Names: \ninfile.otu.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2437.dat' infile.otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2436.dat' accnos.dat && echo 'remove.otulabels( corraxes=infile.otu.dat, accnos=accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:17:17.819966", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_other\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2437}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "32611", "id": "a9fd5735f9e9e011", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_otulabels.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|label": "0.22", "accnos": {"src": "hda", "id": "dee9a2b956d615f3"}, "infile|otu": {"src": "hda", "id": "95a921a378370eb3"}, "infile|intype": "in_shared"}, "job": {"inputs": {"accnos": {"src": "hda", "id": "dee9a2b956d615f3", "uuid": "f312c82b-dd3e-4742-83b1-faa00ea52c47"}, "otu": {"src": "hda", "id": "95a921a378370eb3", "uuid": "d50ce77c-745b-4796-ad7c-97e06777ede2"}}, "update_time": "2018-02-08T18:17:42.585808", "tool_id": "mothur_remove_otus", "outputs": {"pick_out": {"src": "hda", "id": "a4a23a6f4654f48d", "uuid": "b69b56ee-6910-484f-8878-451c53a57842"}, "logfile": {"src": "hda", "id": "4dc446e75a5ecd3d", "uuid": "0b525a00-65a9-4875-8492-68c94c2daca8"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.otus(list=infile.otu.dat,label=0.22,accnos=accnos.dat)\nRemoved 0 OTUs from your list file.\n\nOutput File Names: \ninfile.otu.0.22.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2441.dat' infile.otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2440.dat' accnos.dat && echo 'remove.otus( list=infile.otu.dat, label=0.22, accnos=accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:17:39.474122", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_shared\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2441}]}, \"__current_case__\": 0, \"label\": \"0.22\"}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "32731", "id": "e70b3a347edd9ca6", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_otus.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"infile|intype": "in_other", "accnos": {"src": "hda", "id": "cbb415d7495a9afc"}, "infile|otu": {"src": "hda", "id": "0f3352b51fa58ea1"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "cbb415d7495a9afc", "uuid": "22ef75e5-ca16-490c-86c4-86c8bdbced41"}, "otu": {"src": "hda", "id": "0f3352b51fa58ea1", "uuid": "5c49889c-5afb-4d18-92ef-1687076479eb"}}, "update_time": "2018-02-08T18:18:04.247034", "tool_id": "mothur_remove_otus", "outputs": {"pick_out": {"src": "hda", "id": "d3b44446654bd5f7", "uuid": "0e55b880-120c-401d-9d78-43466eef7469"}, "logfile": {"src": "hda", "id": "d02a20be41406d2e", "uuid": "92f22a11-d731-4b0c-8019-a7d9c3c48f30"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.otus(corraxes=infile.otu.dat,accnos=accnos.dat)\nRemoved 3 lines from your corr.axes file.\n\nOutput File Names: \ninfile.otu.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2445.dat' infile.otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2444.dat' accnos.dat && echo 'remove.otus( corraxes=infile.otu.dat, accnos=accnos.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:18:01.130590", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "infile": "{\"intype\": \"in_other\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2445}]}, \"__current_case__\": 1}", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "388", "id": "8325c15a45021320", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_otus.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|source": "list", "input|otu": {"src": "hda", "id": "34aad423ffafab1b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "34aad423ffafab1b", "uuid": "a955bc96-7ca4-432c-8d66-f8e2731f1fa0"}}, "update_time": "2018-02-08T18:18:22.801087", "tool_id": "mothur_remove_rare", "outputs": {"logfile": {"src": "hda", "id": "ee9b6579bd835e40", "uuid": "a8cfb161-0cb1-4361-9c10-788601368a8b"}, "pick_otu": {"src": "hda", "id": "3308e08d6eccd8a7", "uuid": "ba89e863-a3c4-4703-ab0b-6618e9e81f78"}, "pick_group": {"src": "hda", "id": "a29b3ee6f6fed501", "uuid": "0b84979c-17af-4795-a581-e282687e4a64"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.rare(list=input_otu.dat,nseqs=1)\nFor the listfile you must select one label, using first label in your listfile.\n\nOutput File Names: \ninput_otu.unique.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2448.dat' input_otu.dat && ln -s 'None' input.group.dat && ln -s 'None' input.count.dat && echo 'remove.rare( list=input_otu.dat, nseqs=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:18:18.940186", "params": {"input": "{\"count\": null, \"group\": null, \"__current_case__\": 1, \"label\": null, \"source\": \"list\", \"groups\": null, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2448}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "nseqs": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "477", "id": "0679f69ae9556809", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_rare.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|group": {"src": "hda", "id": "c7eb5c5f4746140d"}, "input|source": "list", "input|groups": ["forest", "pasture"], "input|otu": {"src": "hda", "id": "d7b7068fa7538c88"}}, "job": {"inputs": {"group": {"src": "hda", "id": "c7eb5c5f4746140d", "uuid": "7388ff4a-b437-4cfa-ae76-3ab6cd2a951e"}, "otu": {"src": "hda", "id": "d7b7068fa7538c88", "uuid": "8e56acb5-b99b-4966-b64b-674a19c8b445"}}, "update_time": "2018-02-08T18:18:45.594415", "tool_id": "mothur_remove_rare", "outputs": {"logfile": {"src": "hda", "id": "157ddde73282f3fb", "uuid": "bf5722f6-f5ef-414a-a842-1a8a893ecacd"}, "pick_otu": {"src": "hda", "id": "1b495114166d9bc3", "uuid": "d31b64a5-9178-4114-abd7-8c2681c0b2fb"}, "pick_group": {"src": "hda", "id": "97bd1ba524aaaf3a", "uuid": "844bd5b6-89bf-48aa-8a92-14e9032a1358"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.rare(list=input_otu.dat,group=input.group.dat,groups=forest-past \rure,nseqs=1)\nFor the listfile you must select one label, using first label in your listfile.\n\nOutput File Names: \ninput.group.pick.dat\ninput_otu.unique.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2452.dat' input_otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2453.dat' input.group.dat && ln -s 'None' input.count.dat && echo 'remove.rare( list=input_otu.dat, group=input.group.dat, groups=forest-pasture, nseqs=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:18:42.385738", "params": {"input": "{\"count\": null, \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 2453}]}, \"__current_case__\": 1, \"label\": null, \"source\": \"list\", \"groups\": [\"forest\", \"pasture\"], \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2452}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "nseqs": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "599", "id": "2d4e92ce3c742824", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_rare.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|source": "shared", "input|otu": {"src": "hda", "id": "3198a9da3f439604"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "3198a9da3f439604", "uuid": "9e9bb25b-8f5a-4777-a20a-e17460017e6f"}}, "update_time": "2018-02-08T18:19:10.034043", "tool_id": "mothur_remove_rare", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "610cd1f4e5b83a0c", "uuid": "6828233f-3774-4b20-8a93-6ab47ed28c1d"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "513d86575c74f7d0", "uuid": "f9b7f75c-4688-4b59-b99f-bf047b2ec04f"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "9baafa71c45079b3", "uuid": "bd5079b6-279a-4232-8469-33fafe2a5e66"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "e6f56cb50e173a01", "uuid": "f79063d9-0f95-450c-9704-955f89a2f8c5"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "700a0908817c405f", "uuid": "0f73604c-9a14-4e60-8896-aa61accb2fa7"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "322c8a381eeeb501", "uuid": "eff8980f-266e-4894-9e3c-648428eb6315"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "119999e59bd419d5", "uuid": "1cb26251-b37c-4d10-bc69-be079c4bf5df"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "e26c7b8f9677aad0", "uuid": "0cc9c609-507b-4f2b-ba4b-a831a6c92145"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "5d5adfb1fb49ce2c", "uuid": "cfbe6c7d-4028-48ba-b8c3-3ad5a5fc556f"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "ab8e8b2bc0c15acd", "uuid": "ba4ed452-675e-40bc-987e-caa800a389f4"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "8870c5f928bb333a", "uuid": "08d0a12a-e1ce-43be-9e09-6afd547c569e"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "d07a38806b24d453", "uuid": "aff7864c-9ab8-4d0e-bf7b-b8bd02af4b92"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "2297b690ab68e422", "uuid": "46827413-8dd3-43d1-a307-478eeb63c53e"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "31fece26dc8ce520", "uuid": "382f6308-a9b5-491b-98ee-3553f7ad604f"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "74e41b93abfa8004", "uuid": "68372d6c-15a2-43d8-9aa6-dae86d615854"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "10f3b133fbdfbf9f", "uuid": "4ef4f2fd-d729-4e2f-ba5e-d877b3f97900"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "636206ab34003c74", "uuid": "a450aefe-767d-44ee-b214-f8e1f6ffb340"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "0c81280a55e0de4e", "uuid": "2fefeb64-8dfb-4dab-940c-936c66ead31e"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "d0db099eee1d29bc", "uuid": "d59104f8-497e-46df-ab6f-c4e1b6008c2c"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "ab61d935d8b06603", "uuid": "93f026c8-2811-4d2c-90fd-39a3a90dd51a"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "e9fd1bfe3c966ddd", "uuid": "1b03c3da-4e99-4f22-8ac8-dc7c37d60392"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "9fe5ee644c2e6c63", "uuid": "60848a9f-fb38-47c8-ba99-62021b1b7e5f"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "c1bb74450083f46e", "uuid": "966d2046-3229-46cc-bc92-71626bf97c3d"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "fea0057dfc409953", "uuid": "759d9426-cbca-45b2-8ddb-43e8f7b013af"}, "logfile": {"src": "hda", "id": "4f898abf2bba8db9", "uuid": "b89ade31-ba94-42d9-b11d-31bbaecbeed0"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "f8361ca1fe7540ad", "uuid": "fdb8b86e-5762-4aad-8c1e-b538c0d9b67a"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "51c08c22772eba1c", "uuid": "a71e3585-6b7a-4088-83e3-5498dc932ea6"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "056c262b45795646", "uuid": "7a782f58-afde-4af4-b59b-ab246348e1d9"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "f0439ffc253b657d", "uuid": "0624d10f-a3c2-4a2e-ab25-66276206798e"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "98e41e589857cd09", "uuid": "ae4ba94b-efb1-468a-86c2-bc6728c6c22f"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "b96623e367bd8bc3", "uuid": "8ab8869f-0b1d-43de-872c-9bf4f3adaeb1"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "c6b3e47f9c11596c", "uuid": "f40112b7-48c5-4f23-9f21-63d8e091f6d0"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "7a0f2dde2b5d6619", "uuid": "2dba0c16-785b-4d60-b078-f08b165dbe1d"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "067ce3c7e559f632", "uuid": "19c6616d-8ef1-40b5-970c-d854e8fb9dbe"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "8363c828b832effc", "uuid": "7f70cb84-5b0e-48dc-aa87-e52282e370d6"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "23fa57f602461511", "uuid": "a20f6f57-2422-4dc6-a170-003a926b0a67"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "764ef33b86dc4158", "uuid": "e5f1280d-9dd8-48f4-bc74-cf5585849fc4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.rare(shared=input_otu.dat,bygroup=false,nseqs=1)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.unique.pick.dat\ninput_otu.0.01.pick.dat\ninput_otu.0.02.pick.dat\ninput_otu.0.03.pick.dat\ninput_otu.0.04.pick.dat\ninput_otu.0.05.pick.dat\ninput_otu.0.06.pick.dat\ninput_otu.0.07.pick.dat\ninput_otu.0.08.pick.dat\ninput_otu.0.09.pick.dat\ninput_otu.0.10.pick.dat\ninput_otu.0.11.pick.dat\ninput_otu.0.12.pick.dat\ninput_otu.0.13.pick.dat\ninput_otu.0.14.pick.dat\ninput_otu.0.15.pick.dat\ninput_otu.0.16.pick.dat\ninput_otu.0.17.pick.dat\ninput_otu.0.18.pick.dat\ninput_otu.0.19.pick.dat\ninput_otu.0.20.pick.dat\ninput_otu.0.21.pick.dat\ninput_otu.0.22.pick.dat\ninput_otu.0.23.pick.dat\ninput_otu.0.24.pick.dat\ninput_otu.0.25.pick.dat\ninput_otu.0.26.pick.dat\ninput_otu.0.27.pick.dat\ninput_otu.0.29.pick.dat\ninput_otu.0.32.pick.dat\ninput_otu.0.33.pick.dat\ninput_otu.0.36.pick.dat\ninput_otu.0.38.pick.dat\ninput_otu.0.41.pick.dat\ninput_otu.0.45.pick.dat\ninput_otu.0.55.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2457.dat' input_otu.dat && echo 'remove.rare( shared=input_otu.dat, bygroup=false, nseqs=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:19:05.076315", "params": {"input": "{\"__current_case__\": 0, \"label\": null, \"source\": \"shared\", \"groups\": null, \"bygroup\": \"false\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2457}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "nseqs": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "705", "id": "ce49eab21f44c35b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_rare.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"input|bygroup": true, "input|source": "shared", "input|groups": ["forest", "pasture"], "input|label": ["0.05", "0.22", "0.41"], "input|otu": {"src": "hda", "id": "4eb6ee5cb7ab7d0b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "4eb6ee5cb7ab7d0b", "uuid": "558df565-4a9f-4e34-b432-7fd50da71a74"}}, "update_time": "2018-02-08T18:19:29.011991", "tool_id": "mothur_remove_rare", "outputs": {"__new_primary_file_0.41|0.05__": {"src": "hda", "id": "91b58ed15e4e89f3", "uuid": "7d23c7ed-f52c-43f9-a44e-5629055963a1"}, "logfile": {"src": "hda", "id": "7fb409cd94387402", "uuid": "63b2a24b-bc3a-4645-ac16-d548c4dc3540"}, "__new_primary_file_0.41|0.22__": {"src": "hda", "id": "40de2667ff1e222c", "uuid": "e99fecc8-1e4a-4744-bf80-74d4b84e13db"}, "__new_primary_file_0.41|0.41__": {"src": "hda", "id": "bed855b2598b1c7b", "uuid": "0876d651-f17d-43d0-8aa9-a02a1ea5f3af"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.rare(shared=input_otu.dat,bygroup=true,groups=forest-pasture,lab \rel=0.05-0.22-0.41,nseqs=1)\n0.05\n0.22\n0.41\n\nOutput File Names: \ninput_otu.0.05.pick.dat\ninput_otu.0.22.pick.dat\ninput_otu.0.41.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2495.dat' input_otu.dat && echo 'remove.rare( shared=input_otu.dat, bygroup=true, groups=forest-pasture, label=0.05-0.22-0.41, nseqs=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:19:25.682198", "params": {"input": "{\"__current_case__\": 0, \"label\": [\"0.05\", \"0.22\", \"0.41\"], \"source\": \"shared\", \"groups\": [\"forest\", \"pasture\"], \"bygroup\": \"true\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2495}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "nseqs": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "818", "id": "5e64ba0eb7841b04", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_rare.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"input|source": "default", "input|otu": {"src": "hda", "id": "9a17ce6ea75b5c66"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "9a17ce6ea75b5c66", "uuid": "0bb489e2-6155-45bb-9c55-abcd6005d8f4"}}, "update_time": "2018-02-08T18:19:46.539468", "tool_id": "mothur_remove_rare", "outputs": {"logfile": {"src": "hda", "id": "e8e1ca0a2741d94b", "uuid": "1a71a491-0df2-4abb-8718-ae0417e59030"}, "pick_otu": {"src": "hda", "id": "773fd339f6505ca6", "uuid": "816dc85c-14d5-497e-8788-851d0d454a0d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.rare(sabund=input_otu.dat,nseqs=1)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2500.dat' input_otu.dat && echo 'remove.rare( sabund=input_otu.dat, nseqs=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:19:43.384733", "params": {"input": "{\"source\": \"default\", \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 2500}]}, \"__current_case__\": 2, \"label\": null}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "nseqs": "\"1\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "906", "id": "e561f0821a7a597e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_rare.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"accnos": {"src": "hda", "id": "071087e21ad6aa1c"}, "fasta_in": {"src": "hda", "id": "2543f1cad8cfe6a0"}, "dups": true}, "job": {"inputs": {"accnos": {"src": "hda", "id": "071087e21ad6aa1c", "uuid": "0a303147-c516-47a4-87d1-76275b3a1d87"}, "fasta_in": {"src": "hda", "id": "2543f1cad8cfe6a0", "uuid": "a84dc52b-f9a0-4db3-af0c-2a37f314d0a0"}}, "update_time": "2018-02-08T18:20:07.186595", "tool_id": "mothur_remove_seqs", "outputs": {"logfile": {"src": "hda", "id": "09b448289a70fe55", "uuid": "bd0555db-8faa-46df-9ed1-ffe62e57a2c6"}, "fasta_out": {"src": "hda", "id": "8534402e7f1fc070", "uuid": "d7e93696-6805-44b3-905f-0a4646138234"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.seqs(accnos=accnos.dat,fasta=fasta_in.dat)\nRemoved 3 sequences from your fasta file.\n\nOutput File Names: \nfasta_in.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2503.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2504.dat' fasta_in.dat && ln -s 'None' fastq_in.dat && ln -s 'None' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'remove.seqs( accnos=accnos.dat ,fasta=fasta_in.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:20:04.111975", "params": {"fastq_in": "null", "dups": "\"true\"", "count_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1022", "id": "06788ac74a6156ce", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fastq_in": {"src": "hda", "id": "803a22dd93d75310"}, "accnos": {"src": "hda", "id": "7fcab135a6b69469"}}, "job": {"inputs": {"fastq_in": {"src": "hda", "id": "803a22dd93d75310", "uuid": "dbe6ac03-bfc0-4610-b76e-082ccfe2edb2"}, "accnos": {"src": "hda", "id": "7fcab135a6b69469", "uuid": "2666d05d-a61a-4485-a3ac-4fc14afbe333"}}, "update_time": "2018-02-08T18:20:22.881902", "tool_id": "mothur_remove_seqs", "outputs": {"logfile": {"src": "hda", "id": "9e8f20a034dacfe8", "uuid": "b7cb20a4-e2a9-43dd-b725-81d45c93b21d"}, "fastq_out": {"src": "hda", "id": "70e57fb8c96afc80", "uuid": "720c99b1-f772-434f-99fe-ac46d2f9c524"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.seqs(accnos=accnos.dat,fastq=fastq_in.dat)\nRemoved 3 sequences from your fastq file.\n\nOutput File Names: \nfastq_in.pick.dat\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2507.dat' accnos.dat && ln -s 'None' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2508.dat' fastq_in.dat && ln -s 'None' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'remove.seqs( accnos=accnos.dat ,fastq=fastq_in.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:20:19.812919", "params": {"dups": "\"true\"", "fasta_in": "null", "count_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1152", "id": "202ba766860ff920", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fastq_in": {"src": "hda", "id": "c6cb321db749c627"}, "accnos": {"src": "hda", "id": "414d94e35f77b812"}, "fasta_in": {"src": "hda", "id": "9277a644c0099152"}, "dups": true}, "job": {"inputs": {"fastq_in": {"src": "hda", "id": "c6cb321db749c627", "uuid": "b01b576b-5d5a-45c8-bd25-7f45aeca49ce"}, "fasta_in": {"src": "hda", "id": "9277a644c0099152", "uuid": "c7b740b4-e49b-4bfe-837e-bc7f23c821ce"}, "accnos": {"src": "hda", "id": "414d94e35f77b812", "uuid": "ab991a10-c2b0-4de4-95f7-85fc1c564ac2"}}, "update_time": "2018-02-08T18:20:42.483186", "tool_id": "mothur_remove_seqs", "outputs": {"fasta_out": {"src": "hda", "id": "c127cc24451df342", "uuid": "4ce1cdd4-5b9f-44fa-9c5e-4319b1e4447e"}, "logfile": {"src": "hda", "id": "0601f5ddca2878d9", "uuid": "ce56505f-8263-4a3d-91e5-59f0bfaf5823"}, "fastq_out": {"src": "hda", "id": "d14c18ee2831b4fc", "uuid": "40716292-1893-46d8-978c-cbb3c47f4138"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.seqs(accnos=accnos.dat,fasta=fasta_in.dat,fastq=fastq_in.dat)\nRemoved 3 sequences from your fasta file.\nRemoved 3 sequences from your fastq file.\n\nOutput File Names: \nfasta_in.pick.dat\nfastq_in.pick.dat\n\n[WARNING]: your sequence names contained ':'. I changed them to '_' to avoid problems in your downstream analysis.\n\nmothur > quit\n\n\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\nDetected 1 [WARNING] messages, please review.\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<^>>>>>>>>>>>>>>>>>>>>>>>>>>>>>\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2511.dat' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2512.dat' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2513.dat' fastq_in.dat && ln -s 'None' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'remove.seqs( accnos=accnos.dat ,fasta=fasta_in.dat ,fastq=fastq_in.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:20:38.627569", "params": {"dups": "\"true\"", "count_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1349", "id": "e9e479aeb9b0a25e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"accnos": {"src": "hda", "id": "99d15eac4014af78"}, "count_in": {"src": "hda", "id": "b52f2aa5944e8b7f"}}, "job": {"inputs": {"accnos": {"src": "hda", "id": "99d15eac4014af78", "uuid": "d794f030-ebfd-4785-a36d-69378c3012ba"}, "count_in": {"src": "hda", "id": "b52f2aa5944e8b7f", "uuid": "70c52661-c5f1-4ff3-a00d-c53810b2ea9e"}}, "update_time": "2018-02-08T18:21:01.217167", "tool_id": "mothur_remove_seqs", "outputs": {"logfile": {"src": "hda", "id": "8711290f7ce753d2", "uuid": "b9fe3c0f-3a24-483f-b49c-89942a95af63"}, "count_out": {"src": "hda", "id": "bd3c4aa291ca99da", "uuid": "c7d68414-b083-4bfb-944d-d3f34d581333"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > remove.seqs(accnos=accnos.dat,count=count_in.dat)\nRemoved 8 sequences from your count file.\n\nOutput File Names: \ncount_in.pick.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2517.dat' accnos.dat && ln -s 'None' fasta_in.dat && ln -s 'None' fastq_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2518.dat' count_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' alignreport_in.dat && ln -s 'None' list_in.dat && ln -s 'None' taxonomy_in.dat && echo 'remove.seqs( accnos=accnos.dat ,count=count_in.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:20:58.127372", "params": {"fastq_in": "null", "dups": "\"true\"", "fasta_in": "null", "dbkey": "\"hg17\"", "group_in": "null", "taxonomy_in": "null", "alignreport_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "list_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1467", "id": "3fcf4993e0bb2ff7", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_remove_seqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "5eb53f4a9442659b"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "5eb53f4a9442659b", "uuid": "e3ddb07c-8bbc-41b4-93c4-ddff71162442"}}, "update_time": "2018-02-08T18:21:13.686851", "tool_id": "mothur_reverse_seqs", "outputs": {"logfile": {"src": "hda", "id": "65b29d046b1f849c", "uuid": "678bc632-03d6-4bfe-89b5-24cc0d8b74a6"}, "out_fasta": {"src": "hda", "id": "0b9cedc8ae8a94c2", "uuid": "56cac2ed-4bd3-4529-9b9f-ab9634842cf5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > reverse.seqs(fasta=fasta.dat)\n\nOutput File Names: \nfasta.rc.dat\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2521.dat' fasta.dat && echo 'reverse.seqs( fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:21:10.537342", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1561", "id": "be25131031e1ad95", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_reverse_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "32ef23706aa388fb"}, "maxambig": "0", "maxlength": "275"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "32ef23706aa388fb", "uuid": "67e84174-fade-41d6-9981-d71cd3961247"}}, "update_time": "2018-02-08T18:21:26.199184", "tool_id": "mothur_screen_seqs", "outputs": {"contigsreport_out": {"src": "hda", "id": "56599abe680f3751", "uuid": "60282443-d360-48bc-96f4-6027bb560515"}, "logfile": {"src": "hda", "id": "685f126dc635c97c", "uuid": "b6de5901-d7e0-47f8-a4af-fe9c8ec96549"}, "bad_accnos": {"src": "hda", "id": "66f064aa8763a5a7", "uuid": "65936755-bd92-4c42-ac7e-45bb284a00dd"}, "alignreport_out": {"src": "hda", "id": "c93f720e91f61f32", "uuid": "6c7dfd89-f8b2-4678-8433-59016e725bb0"}, "fasta_out": {"src": "hda", "id": "05a76bb0530e159c", "uuid": "508e7c6a-89d5-4e3a-955e-c8a4e7995ad2"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > screen.seqs(fasta=fasta.dat,minlength=10,maxlength=275,maxambig=0,proce \rssors=1)\n\nUsing 1 processors.\nProcessing sequence: 25\n\nOutput File Names: \nfasta.good.dat\nfasta.bad.accnos\n\n\nIt took 0 secs to screen 25 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2524.dat' fasta.dat && ln -s 'None' names.dat && ln -s 'None' groups.dat && ln -s 'None' qfile.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && ln -s 'None' summary.dat && echo 'screen.seqs( fasta=fasta.dat ,minlength=10 ,maxlength=275 ,maxambig=0 ,processors='\"${GALAXY_SLOTS:-8}\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:21:22.835146", "params": {"count": "null", "criteria": "\"-1\"", "optimize": "null", "end": "\"-1\"", "taxonomy": "null", "contigsrep": "{\"__current_case__\": 1, \"usecontigs\": \"no\"}", "maxhomop": "\"-1\"", "dbkey": "\"hg17\"", "summary": "null", "alignrep": "{\"usealign\": \"no\", \"__current_case__\": 1}", "start": "\"-1\"", "maxambig": "\"0\"", "names": "null", "groups": "null", "minlength": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "qfile": "null", "maxlength": "\"275\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1650", "id": "b07688f4168e93bf", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_screen_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"count": {"src": "hda", "id": "f0fe15730b8db9c4"}, "fasta": {"src": "hda", "id": "42af088b2abee145"}, "maxambig": "0", "maxlength": "500"}, "job": {"inputs": {"count": {"src": "hda", "id": "f0fe15730b8db9c4", "uuid": "7662f8fc-415b-4f23-9951-6eaea441232d"}, "fasta": {"src": "hda", "id": "42af088b2abee145", "uuid": "deb69949-3962-464d-b253-b02a76ae90b4"}}, "update_time": "2018-02-08T18:21:52.517139", "tool_id": "mothur_screen_seqs", "outputs": {"bad_accnos": {"src": "hda", "id": "37b038abf8b718f0", "uuid": "1127a6ef-c175-43ce-9605-0c783d3765d3"}, "count_out": {"src": "hda", "id": "00363558c5729a44", "uuid": "e46f23c4-7a89-4b61-8967-98adf21d4e77"}, "alignreport_out": {"src": "hda", "id": "4c2735cf7f715dcf", "uuid": "827bf85e-98b9-42a9-86bc-eccf04eb720f"}, "contigsreport_out": {"src": "hda", "id": "ba8cf376bccbc9b2", "uuid": "e128ed5f-7c04-41e8-bd39-cdcaf5965189"}, "fasta_out": {"src": "hda", "id": "c5b03287369c63ab", "uuid": "046994b4-43d1-4a23-9ecb-85c6db0420bb"}, "logfile": {"src": "hda", "id": "652751201af8821c", "uuid": "f869d649-38ad-4f61-a247-f3f3dcf2ba24"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > screen.seqs(fasta=fasta.dat,minlength=10,maxlength=500,maxambig=0,count \r=count.dat,processors=1)\n\nUsing 1 processors.\nProcessing sequence: 98\n\nOutput File Names: \nfasta.good.dat\nfasta.bad.accnos\ncount.good.dat\n\n\nIt took 0 secs to screen 98 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2530.dat' fasta.dat && ln -s 'None' names.dat && ln -s 'None' groups.dat && ln -s 'None' qfile.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2531.dat' count.dat && ln -s 'None' taxonomy.dat && ln -s 'None' summary.dat && echo 'screen.seqs( fasta=fasta.dat ,minlength=10 ,maxlength=500 ,maxambig=0 ,count=count.dat ,processors='\"${GALAXY_SLOTS:-8}\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:21:48.991211", "params": {"criteria": "\"-1\"", "optimize": "null", "end": "\"-1\"", "taxonomy": "null", "qfile": "null", "maxhomop": "\"-1\"", "dbkey": "\"hg17\"", "summary": "null", "alignrep": "{\"usealign\": \"no\", \"__current_case__\": 1}", "start": "\"-1\"", "maxambig": "\"0\"", "names": "null", "groups": "null", "minlength": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "contigsrep": "{\"__current_case__\": 1, \"usecontigs\": \"no\"}", "maxlength": "\"500\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1773", "id": "978914f1b3729f41", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_screen_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"contigsrep|mismatches": "18", "maxambig": "0", "contigsrep|usecontigs": "yes", "maxlength": "275", "fasta": {"src": "hda", "id": "114c38d4ffc72675"}, "contigsrep|contigsreport": {"src": "hda", "id": "b0a3d3266cc35e70"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "114c38d4ffc72675", "uuid": "997523f7-3cce-4812-b622-533a7a716ac1"}, "contigsreport": {"src": "hda", "id": "b0a3d3266cc35e70", "uuid": "e0c873e8-a140-432a-8092-89ac2f8e8028"}}, "update_time": "2018-02-08T18:22:24.263577", "tool_id": "mothur_screen_seqs", "outputs": {"contigsreport_out": {"src": "hda", "id": "5872d7bb294e738e", "uuid": "18b00001-2f90-4f54-9212-e728eb0e9a4b"}, "logfile": {"src": "hda", "id": "cf5adbe5b084422c", "uuid": "29bae6ca-b02b-41b8-bdc2-c0ecb10264d4"}, "bad_accnos": {"src": "hda", "id": "e561361d04e2dadf", "uuid": "3f576845-eeea-41aa-bc25-ab12359708e1"}, "alignreport_out": {"src": "hda", "id": "17a1b993567aec5b", "uuid": "5d18a664-e9d3-4ec3-9dc2-a332b94e914e"}, "fasta_out": {"src": "hda", "id": "e1b9ee8eba60a340", "uuid": "f416f012-b80d-4d91-a13d-2582f23c8991"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > screen.seqs(fasta=fasta.dat,minlength=10,maxlength=275,maxambig=0,conti \rgsreport=contigsreport.dat,minoverlap=-1,ostart=-1,oend=-1,mismatches=18,process \rors=1)\n\nUsing 1 processors.\nProcessing sequence: 25\n\nOutput File Names: \ncontigsreport.good.contigs.report\nfasta.good.dat\nfasta.bad.accnos\n\n\nIt took 0 secs to screen 25 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2538.dat' fasta.dat && ln -s 'None' names.dat && ln -s 'None' groups.dat && ln -s 'None' qfile.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && ln -s 'None' summary.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2539.dat' contigsreport.dat && echo 'screen.seqs( fasta=fasta.dat ,minlength=10 ,maxlength=275 ,maxambig=0 ,contigsreport=contigsreport.dat ,minoverlap=-1 ,ostart=-1 ,oend=-1 ,mismatches=18 ,processors='\"${GALAXY_SLOTS:-8}\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:22:20.100609", "params": {"count": "null", "criteria": "\"-1\"", "optimize": "null", "end": "\"-1\"", "taxonomy": "null", "contigsrep": "{\"oend\": \"-1\", \"contigsreport\": {\"values\": [{\"src\": \"hda\", \"id\": 2539}]}, \"ostart\": \"-1\", \"mismatches\": \"18\", \"usecontigs\": \"yes\", \"minoverlap\": \"-1\", \"__current_case__\": 0}", "maxhomop": "\"-1\"", "dbkey": "\"hg17\"", "summary": "null", "alignrep": "{\"usealign\": \"no\", \"__current_case__\": 1}", "start": "\"-1\"", "maxambig": "\"0\"", "names": "null", "groups": "null", "minlength": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "qfile": "null", "maxlength": "\"275\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "1890", "id": "071599f87a4de604", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_screen_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"alignrep|minscore": "100", "maxambig": "0", "alignrep|usealign": "yes", "maxlength": "275", "alignrep|alignreport": {"src": "hda", "id": "284b37b92e77841f"}, "fasta": {"src": "hda", "id": "5d1c7a267ee4549c"}}, "job": {"inputs": {"alignreport": {"src": "hda", "id": "284b37b92e77841f", "uuid": "faa386f7-f6d9-4b4e-8eca-e58fa2a6b0e8"}, "fasta": {"src": "hda", "id": "5d1c7a267ee4549c", "uuid": "350eb235-3d69-4cd0-8777-b0c22175248e"}}, "update_time": "2018-02-08T18:22:58.316487", "tool_id": "mothur_screen_seqs", "outputs": {"contigsreport_out": {"src": "hda", "id": "0f56156b04eb5a7c", "uuid": "33739706-afc6-45f6-939c-d47391d38deb"}, "logfile": {"src": "hda", "id": "8efa80d3971b8580", "uuid": "73a8ee94-8fd3-4da6-8134-ab8e859ade40"}, "bad_accnos": {"src": "hda", "id": "fe2332f09b9a6caf", "uuid": "e7738364-47d8-4f27-90f7-b964dcbafbcd"}, "alignreport_out": {"src": "hda", "id": "82c7032da1686dba", "uuid": "146b2158-8170-4ae8-894a-1100daa724f6"}, "fasta_out": {"src": "hda", "id": "e5f17aed15456c1d", "uuid": "8973d539-161c-48e0-947d-0825d21e6336"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > screen.seqs(fasta=fasta.dat,minlength=10,maxlength=275,maxambig=0,align \rreport=alignreport.dat,minsim=-1,minscore=100,maxinsert=-1,processors=1)\n\nUsing 1 processors.\nProcessing sequence: 22\n\nOutput File Names: \nalignreport.good.align.report\nfasta.good.dat\nfasta.bad.accnos\n\n\nIt took 0 secs to screen 22 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2545.dat' fasta.dat && ln -s 'None' names.dat && ln -s 'None' groups.dat && ln -s 'None' qfile.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && ln -s 'None' summary.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2546.dat' alignreport.dat && echo 'screen.seqs( fasta=fasta.dat ,minlength=10 ,maxlength=275 ,maxambig=0 ,alignreport=alignreport.dat ,minsim=-1 ,minscore=100 ,maxinsert=-1 ,processors='\"${GALAXY_SLOTS:-8}\"' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:22:54.951671", "params": {"count": "null", "criteria": "\"-1\"", "optimize": "null", "end": "\"-1\"", "taxonomy": "null", "contigsrep": "{\"__current_case__\": 1, \"usecontigs\": \"no\"}", "maxhomop": "\"-1\"", "dbkey": "\"hg17\"", "summary": "null", "alignrep": "{\"usealign\": \"yes\", \"alignreport\": {\"values\": [{\"src\": \"hda\", \"id\": 2546}]}, \"__current_case__\": 0, \"minsim\": \"-1\", \"maxinsert\": \"-1\", \"minscore\": \"100\"}", "start": "\"-1\"", "maxambig": "\"0\"", "names": "null", "groups": "null", "minlength": "\"10\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "qfile": "null", "maxlength": "\"275\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2022", "id": "8cfece4559d4fc3b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_screen_seqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"matrix|method_name|count": {"src": "hda", "id": "ca5000435bda311d"}, "otu": {"src": "hda", "id": "bb539f073f00812b"}, "matrix|dist": {"src": "hda", "id": "220cf7d719dd1e3f"}}, "job": {"inputs": {"dist": {"src": "hda", "id": "ca5000435bda311d", "uuid": "e9a28efa-a393-44fa-967f-a0b7bd9ebf71"}, "otu": {"src": "hda", "id": "bb539f073f00812b", "uuid": "ba882201-0e75-49ee-9788-1e4c9eb91022"}, "matrix|count": {"src": "hda", "id": "ca5000435bda311d", "uuid": "e9a28efa-a393-44fa-967f-a0b7bd9ebf71"}}, "update_time": "2018-02-08T18:23:33.150499", "tool_id": "mothur_sens_spec", "outputs": {"sensspec": {"src": "hda", "id": "cd2710fe9c8e2a0a", "uuid": "f89fcbc4-fb42-49c8-a692-454e7f940363"}, "logfile": {"src": "hda", "id": "a6abaddda864dc74", "uuid": "a7d81a4b-2f77-4699-8769-23850fa276bb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sens.spec(list=otu.dat,column=matrix.dist.dat,count=matrix.method_name. \rcount.dat,precision=100,cutoff=-1.0)\n\nNOTE: sens.spec assumes that only unique sequences were used to generate the distance matrix.\n\nIt took 0 to run sens.spec.\n\nOutput File Names: \notu.sensspec\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2554.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2552.dat' matrix.dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2553.dat' matrix.method_name.count.dat && echo 'sens.spec( list=otu.dat, column=matrix.dist.dat, count=matrix.method_name.count.dat, precision=100, cutoff=-1.0 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:23:29.979676", "params": {"cutoff": "\"-1.0\"", "matrix": "{\"method_name\": {\"count\": {\"values\": [{\"src\": \"hda\", \"id\": 2553}]}, \"method\": \"count\", \"__current_case__\": 0}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 2552}]}, \"__current_case__\": 0, \"format\": \"column\"}", "precision": "\"100\"", "dbkey": "\"hg17\"", "label": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2173", "id": "29caadb190f2e006", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sens_spec.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"matrix|method_name|count": {"src": "hda", "id": "0b8bf891c9e392c5"}, "cutoff": "0.10", "otu": {"src": "hda", "id": "a770ee5c0aa4752d"}, "matrix|dist": {"src": "hda", "id": "276a286d69827381"}, "label": ["0.03", "0.05", "0.22"]}, "job": {"inputs": {"dist": {"src": "hda", "id": "0b8bf891c9e392c5", "uuid": "8c1fb6ef-8fb2-4f3b-9e5a-71f302eadb4e"}, "otu": {"src": "hda", "id": "a770ee5c0aa4752d", "uuid": "862748b0-5a4c-4a8e-9ce1-d484f0cea78f"}, "matrix|count": {"src": "hda", "id": "0b8bf891c9e392c5", "uuid": "8c1fb6ef-8fb2-4f3b-9e5a-71f302eadb4e"}}, "update_time": "2018-02-08T18:23:58.017498", "tool_id": "mothur_sens_spec", "outputs": {"sensspec": {"src": "hda", "id": "13e8a4ab78efa0c3", "uuid": "830b10f1-e3e1-4daf-9543-3a3c84272526"}, "logfile": {"src": "hda", "id": "0e1aeed8734b5624", "uuid": "f309d90b-da0b-488c-8acd-d7c88e5cfcf6"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sens.spec(list=otu.dat,column=matrix.dist.dat,count=matrix.method_name. \rcount.dat,label=0.03-0.05-0.22,label=0.03-0.05-0.22,precision=100,cutoff=0.1)\n\nNOTE: sens.spec assumes that only unique sequences were used to generate the distance matrix.\n\nIt took 0 to run sens.spec.\n\nOutput File Names: \notu.sensspec\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2559.dat' otu.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2557.dat' matrix.dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2558.dat' matrix.method_name.count.dat && echo 'sens.spec( list=otu.dat, column=matrix.dist.dat, count=matrix.method_name.count.dat, label=0.03-0.05-0.22, label=0.03-0.05-0.22, precision=100, cutoff=0.1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:23:54.921822", "params": {"cutoff": "\"0.1\"", "matrix": "{\"method_name\": {\"count\": {\"values\": [{\"src\": \"hda\", \"id\": 2558}]}, \"method\": \"count\", \"__current_case__\": 0}, \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 2557}]}, \"__current_case__\": 0, \"format\": \"column\"}", "precision": "\"100\"", "dbkey": "\"hg17\"", "label": "[\"0.03\", \"0.05\", \"0.22\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2317", "id": "41cb101ab8c7143d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sens_spec.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"alignment|template": {"src": "hda", "id": "3d56df3f9910bb65"}, "alignment|source": "history", "fasta_in": {"src": "hda", "id": "5244dd9a7b7ad1ff"}}, "job": {"inputs": {"fasta_in": {"src": "hda", "id": "5244dd9a7b7ad1ff", "uuid": "3cc67e25-f341-4480-b12f-daccd035f7c0"}, "template": {"src": "hda", "id": "3d56df3f9910bb65", "uuid": "0b126cee-0e8c-4f41-a425-0693293ee426"}}, "update_time": "2018-02-08T18:24:19.878364", "tool_id": "mothur_seq_error", "outputs": {"seq_reverse_out": {"src": "hda", "id": "8b42193f5326fbe1", "uuid": "4e9fe539-3b01-47d8-a593-57f6c554dbd9"}, "seq_forward_out": {"src": "hda", "id": "e18f72b039a3216a", "uuid": "e8c55d65-3633-425b-bbb2-5212ba243e6f"}, "count_out": {"src": "hda", "id": "42d2637b0f6e48e5", "uuid": "feb6bfc7-287a-432e-983b-a699b04999e1"}, "ref_query_out": {"src": "hda", "id": "f4fa5631199a49ea", "uuid": "231a8554-5816-4549-b52c-f67243a6f128"}, "matrix_out": {"src": "hda", "id": "244af713c6fa3d39", "uuid": "74ae8954-8372-4c96-8bd7-b2cdf5ea50da"}, "seq_out": {"src": "hda", "id": "a1cf0baa8d621c92", "uuid": "453d4d7f-fcd1-414d-94b7-dddcefe48909"}, "summary_out": {"src": "hda", "id": "26853ddf806efff5", "uuid": "fbca03a6-37ed-4926-a21a-e907093a45c7"}, "chimera_out": {"src": "hda", "id": "aefbd28d5fee1c64", "uuid": "7197202a-ba63-4414-94d7-83b30b16ff49"}, "logfile": {"src": "hda", "id": "ba0aff7639a35591", "uuid": "3aa03c30-d34e-4efb-9945-d30e19ca5f2f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > seq.error(fasta=fasta_in.dat,reference=alignment.template.dat,ignorechi \rmeras=true,aligned=T,processors=1)\n\nUsing 1 processors.\nIt took 0 to read 32 sequences.\n3\n\nMultiply error rate by 100 to obtain the percent sequencing errors.\nOverall error rate:\t-nan\nErrors\tSequences\n0\t0\n1\t0\n2\t0\n3\t0\n4\t0\n5\t0\n6\t0\n7\t0\n8\t0\n9\t0\n10\t0\nIt took 0 secs to check 3 sequences.\n\nOutput File Names: \nfasta_in.error.summary\nfasta_in.error.seq\nfasta_in.error.chimera\nfasta_in.error.seq.forward\nfasta_in.error.seq.reverse\nfasta_in.error.count\nfasta_in.error.matrix\nfasta_in.error.ref\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2562.dat' fasta_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2563.dat' alignment.template.dat && echo 'seq.error( fasta=fasta_in.dat, reference=alignment.template.dat, ignorechimeras=true, aligned=T, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:24:15.531119", "params": {"count": "null", "ignorechimeras": "\"true\"", "dbkey": "\"hg17\"", "qual": "{\"use\": \"no\", \"__current_case__\": 1}", "alignment": "{\"source\": \"history\", \"template\": {\"values\": [{\"src\": \"hda\", \"id\": 2563}]}, \"__current_case__\": 1}", "threshold": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2427", "id": "e0b8f8f721986493", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_seq_error.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"alignment|source": "history", "fasta_in": {"src": "hda", "id": "1b8205f65139cc31"}, "alignment|template": {"src": "hda", "id": "c7d1feb17824923b"}, "qual|use": "yes", "qual|alignreport_in": {"src": "hda", "id": "d8dc82f61882a266"}, "qual|qfile_in": {"src": "hda", "id": "70da4f87b75aff13"}}, "job": {"inputs": {"fasta_in": {"src": "hda", "id": "1b8205f65139cc31", "uuid": "478ca9d3-322b-4068-b94f-0111b59efb11"}, "qfile_in": {"src": "hda", "id": "70da4f87b75aff13", "uuid": "19cdfb37-ff45-4d94-b11f-71656e9bd677"}, "template": {"src": "hda", "id": "c7d1feb17824923b", "uuid": "8b385164-a043-4860-957f-0c59305bea7d"}, "alignreport_in": {"src": "hda", "id": "d8dc82f61882a266", "uuid": "4248447c-9976-4a7d-9406-4ae5c33c2f2a"}}, "update_time": "2018-02-08T18:24:48.000084", "tool_id": "mothur_seq_error", "outputs": {"seq_reverse_out": {"src": "hda", "id": "3912249166cad271", "uuid": "bfc03af8-1d7c-40bb-97bc-982771be91dd"}, "seq_forward_out": {"src": "hda", "id": "f65e64aaf8a7f10a", "uuid": "2d8976df-abbb-41d7-963b-2cb994e4c835"}, "count_out": {"src": "hda", "id": "be576b0744534969", "uuid": "8826c8d6-32bc-4f2b-9ee6-7726fd2b62c0"}, "ref_query_out": {"src": "hda", "id": "903a94902fe885ed", "uuid": "cb6b9beb-3cd2-42ba-a8b8-ff547586997a"}, "matrix_out": {"src": "hda", "id": "0627c045bdb77024", "uuid": "48e3d2f5-2a04-451e-b40e-a3bed16a281a"}, "seq_out": {"src": "hda", "id": "04dcc2b07f73afca", "uuid": "96970c38-c54c-40e2-8ea7-a6af943ede96"}, "qual_forward_out": {"src": "hda", "id": "9a8ce407cbfa5454", "uuid": "b00274e3-fe1f-4fa9-bb5f-5a113e6d9f0a"}, "qual_reverse_out": {"src": "hda", "id": "73cb3a10e2a8b26b", "uuid": "26cba71c-8da2-4e9c-9584-d55a4b7809f4"}, "quality_out": {"src": "hda", "id": "d1fd239c001b68d8", "uuid": "a06f233b-442f-48a8-99f6-ae776f11dd42"}, "summary_out": {"src": "hda", "id": "87efef17dc7885df", "uuid": "8430a187-be22-468b-87ef-40a39cdcf0b1"}, "chimera_out": {"src": "hda", "id": "48b20c4302f2bed8", "uuid": "0515294f-48ed-461b-a2bc-a9a62c7a63c1"}, "logfile": {"src": "hda", "id": "876ad4f8f38f071f", "uuid": "6f101a55-e289-4b9f-a7f1-fda7481c8de4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > seq.error(fasta=fasta_in.dat,reference=alignment.template.dat,qfile=qfi \rle_in.dat,report=alignreport_in.dat,ignorechimeras=true,aligned=T,processors=1)\n\nUsing 1 processors.\nIt took 0 to read 32 sequences.\n10\n\nMultiply error rate by 100 to obtain the percent sequencing errors.\nOverall error rate:\t0.000790514\nErrors\tSequences\n0\t8\n1\t2\nIt took 0 secs to check 10 sequences.\n\nOutput File Names: \nfasta_in.error.summary\nfasta_in.error.seq\nfasta_in.error.chimera\nfasta_in.error.quality\nfasta_in.error.qual.forward\nfasta_in.error.qual.reverse\nfasta_in.error.seq.forward\nfasta_in.error.seq.reverse\nfasta_in.error.count\nfasta_in.error.matrix\nfasta_in.error.ref\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2573.dat' fasta_in.dat && ln -s 'None' name_in.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2574.dat' alignment.template.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2575.dat' qfile_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2576.dat' alignreport_in.dat && echo 'seq.error( fasta=fasta_in.dat, reference=alignment.template.dat, qfile=qfile_in.dat, report=alignreport_in.dat, ignorechimeras=true, aligned=T, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:24:42.401874", "params": {"count": "null", "ignorechimeras": "\"true\"", "dbkey": "\"hg17\"", "qual": "{\"use\": \"yes\", \"qfile_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2575}]}, \"__current_case__\": 0, \"alignreport_in\": {\"values\": [{\"src\": \"hda\", \"id\": 2576}]}}", "alignment": "{\"source\": \"history\", \"template\": {\"values\": [{\"src\": \"hda\", \"id\": 2574}]}, \"__current_case__\": 1}", "threshold": "\"\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2599", "id": "a4a6e47454aeba8e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_seq_error.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"sff": {"src": "hda", "id": "47a2e2cdac6d4f80"}, "sfftxt": true}, "job": {"inputs": {"sff": {"src": "hda", "id": "47a2e2cdac6d4f80", "uuid": "393c86c5-5fd7-4df8-a7e6-9f9789495e64"}}, "update_time": "2018-02-08T18:25:02.507559", "tool_id": "mothur_sffinfo", "outputs": {"out_sfftxt": {"src": "hda", "id": "f9c99ed753d12938", "uuid": "68756bfd-384a-4a42-a0c3-9859a7304837"}, "logfile": {"src": "hda", "id": "fd0620ae7484e07b", "uuid": "a5960cd3-cbb6-42ab-9c71-c454b280004e"}, "out_flow": {"src": "hda", "id": "c13713d4e8eb4016", "uuid": "2fb32b74-a179-4597-a87e-53ea9941bf22"}, "out_qfile": {"src": "hda", "id": "503dd82632d4ca26", "uuid": "50ee6fa5-42b8-47e5-ba7a-24dbd3831d13"}, "out_fasta": {"src": "hda", "id": "26a0fe97059939a7", "uuid": "211f0070-6853-4960-bfb8-c26a1873def5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sffinfo(sff=sff.dat,fasta=true,qfile=true,sfftxt=true,flow=true,trim=tr \rue)\nExtracting info from sff.dat ...\n10\nIt took 0 secs to extract 10.\n\nOutput File Names: \nsff.sff.txt\nsff.fasta\nsff.qual\nsff.flow\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2589.dat' sff.dat && ln -s 'None' accnos.dat && echo 'sffinfo( sff=sff.dat, fasta=true, qfile=true, sfftxt=true, flow=true, trim=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:24:58.805899", "params": {"trim": "\"true\"", "oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "qfile": "\"true\"", "flow": "\"true\"", "dbkey": "\"hg17\"", "sfftxt": "\"true\"", "fasta": "\"true\"", "accnos": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2700", "id": "e1d20895c4a97cda", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sffinfo.test_tool_000000", "has_data": true}, {"data": {"status": "failure", "inputs": {"sff": {"src": "hda", "id": "bb0ef3014c567e06"}, "oligo|add": "yes", "oligo|oligos": {"src": "hda", "id": "738c1dc0cd2bff09"}}, "output_problems": ["History item different than expected\nOutput checksum [cfb0d0595dde77d45b4127bd3517bb78] does not match expected [f03c422fe364815e7214ad31ad135aca] (using hash algorithm md5)."], "job": {"inputs": {"sff": {"src": "hda", "id": "bb0ef3014c567e06", "uuid": "8d6a579c-7351-47ed-946f-102d71d327a5"}, "oligos": {"src": "hda", "id": "738c1dc0cd2bff09", "uuid": "11525dfc-de8b-495e-be2c-cb171928aa12"}}, "update_time": "2018-02-08T18:25:42.054096", "tool_id": "mothur_sffinfo", "outputs": {"logfile": {"src": "hda", "id": "3623f8401cdd50f2", "uuid": "e895e777-80e3-4570-acac-dc3653a75acf"}, "out_flow": {"src": "hda", "id": "2c561ba9c8e1003b", "uuid": "0d5af101-9f8c-431d-881a-5e3b1f0204c8"}, "out_qfile": {"src": "hda", "id": "1e46021b14d0447d", "uuid": "fad20474-627d-4fd3-bf9c-ea781849e5bc"}, "out_scrap": {"src": "hda", "id": "a3acd9d044b84d2e", "uuid": "13c1edf7-7864-452b-bebf-f91ff2a280f0"}, "out_fasta": {"src": "hda", "id": "9f2c5693ba5a738c", "uuid": "91304043-a44f-4fd7-be45-5a6c526ba7c1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sffinfo(sff=sff.dat,fasta=true,qfile=true,flow=true,trim=true,oligos=ol \rigo.oligos.dat,bdiffs=0,pdiffs=0,tdiffs=0,ldiffs=0,sdiffs=0)\nExtracting info from sff.dat ...\n10\nIt took 0 secs to extract 10.\n\nOutput File Names: \nsff.fasta\nsff.qual\nsff.flow\nsff.scrap.sff\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2595.dat' sff.dat && ln -s 'None' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2596.dat' oligo.oligos.dat && echo 'sffinfo( sff=sff.dat, fasta=true, qfile=true, flow=true, trim=true ,oligos=oligo.oligos.dat ,bdiffs=0 ,pdiffs=0 ,tdiffs=0 ,ldiffs=0 ,sdiffs=0 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:25:38.219069", "params": {"trim": "\"true\"", "oligo": "{\"bdiffs\": \"0\", \"sdiffs\": \"0\", \"ldiffs\": \"0\", \"pdiffs\": \"0\", \"tdiffs\": \"0\", \"add\": \"yes\", \"__current_case__\": 1, \"oligos\": {\"values\": [{\"src\": \"hda\", \"id\": 2596}]}}", "qfile": "\"true\"", "flow": "\"true\"", "dbkey": "\"hg17\"", "sfftxt": "\"false\"", "fasta": "\"true\"", "accnos": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2822", "id": "227f734e4aa4c9b2", "user_email": "test@bx.psu.edu"}, "problem_log": "Traceback (most recent call last):\n File \"/usr/lib/python2.7/unittest/case.py\", line 329, in run\n testMethod()\n File \"/tmp/saskia/tmpKSDp0p/galaxy-dev/test/functional/test_toolbox.py\", line 317, in test_tool\n self.do_it(td)\n File \"/tmp/saskia/tmpKSDp0p/galaxy-dev/test/functional/test_toolbox.py\", line 83, in do_it\n raise e\nJobOutputsError: History item different than expected\nOutput checksum [cfb0d0595dde77d45b4127bd3517bb78] does not match expected [f03c422fe364815e7214ad31ad135aca] (using hash algorithm md5).\n", "problem_type": "functional.test_toolbox.JobOutputsError"}, "id": "functional.test_toolbox.TestForTool_mothur_sffinfo.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"prob|lookup": {"src": "hda", "id": "77320b12e7ef91b5"}, "prob|source": "hist", "flow": {"src": "hda", "id": "60c9b24d33e5937f"}}, "job": {"inputs": {"flow": {"src": "hda", "id": "60c9b24d33e5937f", "uuid": "8d46123d-b3f3-457f-ad4d-024a7458fd04"}, "lookup": {"src": "hda", "id": "77320b12e7ef91b5", "uuid": "c1a56757-fa60-4089-b4db-9369e2c4a563"}}, "update_time": "2018-02-08T18:26:26.039346", "tool_id": "mothur_shhh_flows", "outputs": {"shhh_qual": {"src": "hda", "id": "8e6e70ad3cbf6f5b", "uuid": "69442f06-4b7a-4d79-9770-a016c935e627"}, "shhh_fasta": {"src": "hda", "id": "d72069b333912103", "uuid": "bf6ce55b-137f-495e-b1c6-ee26b34f831b"}, "logfile": {"src": "hda", "id": "2a9e71b0254082e4", "uuid": "f11c3307-a478-43e9-9cb6-d86d89a9d4a0"}, "shhh_names": {"src": "hda", "id": "fdd8c264ffdf0e15", "uuid": "630abd25-463a-4776-8f78-158cdb5f1f01"}, "shhh_groups": {"src": "hda", "id": "146f0f4a4c131555", "uuid": "047263be-7f66-4515-85df-25d06897dbc5"}, "shhh_counts": {"src": "hda", "id": "818c72f58eb43f6e", "uuid": "2b64f07c-3445-420d-8470-adb7619c2d58"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > shhh.flows(flow=flow.dat,lookup=lookup.dat,maxiter=1000,mindelta=0.0000 \r01000000,cutoff=0.01,sigma=0.06,order=A,large=10000,processors=1)\n\nUsing 1 processors.\n\nDivided flow.dat into 1 files.\n\n\n>>>>>\tProcessing flow.dat0.temp (file 1 of 1)\t<<<<<\nReading flowgrams...\nIdentifying unique flowgrams...\nCalculating distances between flowgrams...\n0\t0\t3e-06\n92\t0\t0.007893\n\nTotal time: 0\t0.016342\n\nClustering flowgrams...\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\n\nDenoising flowgrams...\niter\tmaxDelta\tnLL\t\tcycletime\n1\t4\t278.331\t0\t0.00493\n2\t0.152503\t-137.578\t1\t0.406257\n3\t0.023837\t-137.432\t0\t0.013219\n4\t0.0051635\t-137.969\t0\t0.00875\n5\t0.0051331\t-137.97\t0\t0.008823\n6\t0.00510289\t-137.97\t0\t0.008917\n7\t0.00507286\t-137.97\t0\t0.008857\n8\t0.00504301\t-137.97\t0\t0.008783\n9\t0.00501334\t-137.97\t0\t0.008801\n10\t0.00498385\t-137.97\t0\t0.008742\n11\t0.00495454\t-137.97\t0\t0.008999\n12\t0.0049254\t-137.97\t0\t0.008854\n13\t0.00489644\t-137.97\t0\t0.008921\n14\t0.00486765\t-137.97\t0\t0.008917\n15\t0.00483904\t-137.97\t0\t0.008794\n16\t0.0048106\t-137.97\t0\t0.008823\n17\t0.00478232\t-137.97\t0\t0.008929\n18\t0.00475422\t-137.97\t0\t0.008736\n19\t0.00472629\t-137.97\t0\t0.009085\n20\t0.00469853\t-137.97\t0\t0.008853\n21\t0.00467093\t-137.97\t0\t0.008623\n22\t0.0046435\t-137.97\t0\t0.008885\n23\t0.00461623\t-137.97\t0\t0.008739\n24\t0.00458912\t-137.97\t0\t0.008753\n25\t0.00456218\t-137.97\t0\t0.00875\n26\t0.0045354\t-137.97\t0\t0.008777\n27\t0.00450878\t-137.97\t0\t0.008621\n28\t0.00448232\t-137.971\t0\t0.008931\n29\t0.00445602\t-137.971\t0\t0.008834\n30\t0.00442988\t-137.971\t0\t0.00872\n31\t0.00440389\t-137.971\t0\t0.008971\n32\t0.00437806\t-137.971\t0\t0.008745\n33\t0.00435239\t-137.971\t0\t0.00875\n34\t0.00432686\t-137.971\t0\t0.00928\n35\t0.00430149\t-137.971\t0\t0.008953\n36\t0.00427628\t-137.971\t0\t0.008964\n37\t0.00425121\t-137.971\t0\t0.008945\n38\t0.00422629\t-137.971\t0\t0.008866\n39\t0.00420152\t-137.971\t0\t0.00901\n40\t0.0041769\t-137.971\t0\t0.008978\n41\t0.00415243\t-137.971\t0\t0.008768\n42\t0.0041281\t-137.971\t0\t0.009062\n43\t0.00410392\t-137.971\t0\t0.009003\n44\t0.00407989\t-137.971\t0\t0.008777\n45\t0.00405599\t-137.971\t0\t0.009152\n46\t0.00403224\t-137.971\t0\t0.008987\n47\t0.00400863\t-137.971\t0\t0.008721\n48\t0.00398516\t-137.971\t0\t0.009063\n49\t0.00396184\t-137.971\t0\t0.008864\n50\t0.00393865\t-137.971\t0\t0.008778\n51\t0.0039156\t-137.971\t0\t0.009051\n52\t0.00389268\t-137.971\t0\t0.008944\n53\t0.00386991\t-137.971\t0\t0.008737\n54\t0.00384727\t-137.971\t0\t0.008883\n55\t0.00382476\t-137.971\t0\t0.008855\n56\t0.00380239\t-137.972\t0\t0.008767\n57\t0.00378015\t-137.972\t0\t0.009116\n58\t0.00375804\t-137.972\t0\t0.008889\n59\t0.00373607\t-137.972\t0\t0.008794\n60\t0.00371423\t-137.972\t0\t0.008853\n61\t0.00369251\t-137.972\t0\t0.008712\n62\t0.00367093\t-137.972\t0\t0.008978\n63\t0.00364947\t-137.972\t0\t0.009101\n64\t0.00362815\t-137.972\t0\t0.008841\n65\t0.00360694\t-137.972\t0\t0.00901\n66\t0.00358587\t-137.972\t0\t0.008892\n67\t0.00356492\t-137.972\t0\t0.008751\n68\t0.00354409\t-137.972\t0\t0.008796\n69\t0.00352339\t-137.972\t0\t0.008953\n70\t0.00350281\t-137.972\t0\t0.008683\n71\t0.00348236\t-137.972\t0\t0.008907\n72\t0.00346202\t-137.972\t0\t0.008824\n73\t0.00344181\t-137.972\t0\t0.008683\n74\t0.00342171\t-137.972\t0\t0.008857\n75\t0.00340174\t-137.972\t1\t0.008769\n76\t0.00338188\t-137.972\t0\t0.008738\n77\t0.00336214\t-137.972\t0\t0.008859\n78\t0.00334252\t-137.972\t0\t0.00874\n79\t0.00332302\t-137.972\t0\t0.008768\n80\t0.00330363\t-137.972\t0\t0.009004\n81\t0.00328435\t-137.972\t0\t0.008752\n82\t0.00326519\t-137.972\t0\t0.008834\n83\t0.00324615\t-137.972\t0\t0.008925\n84\t0.00322721\t-137.972\t0\t0.008778\n85\t0.00320839\t-137.972\t0\t0.008908\n86\t0.00318968\t-137.972\t0\t0.008882\n87\t0.00317108\t-137.972\t0\t0.008722\n88\t0.00315259\t-137.972\t0\t0.008895\n89\t0.00313421\t-137.973\t0\t0.008862\n90\t0.00311594\t-137.973\t0\t0.00875\n91\t0.00309778\t-137.973\t0\t0.00889\n92\t0.00307972\t-137.973\t0\t0.008985\n93\t0.00306177\t-137.973\t0\t0.008779\n94\t0.00304393\t-137.973\t0\t0.008862\n95\t0.0030262\t-137.973\t0\t0.009519\n96\t0.00300856\t-137.973\t0\t0.00883\n97\t0.00299104\t-137.973\t0\t0.008888\n98\t0.00297361\t-137.973\t0\t0.008847\n99\t0.00295629\t-137.973\t0\t0.008699\n100\t0.00293907\t-137.973\t0\t0.00904\n101\t0.00292196\t-137.973\t0\t0.008866\n102\t0.00290494\t-137.973\t0\t0.008854\n103\t0.00288803\t-137.973\t0\t0.008848\n104\t0.00287121\t-137.973\t0\t0.008683\n105\t0.00285449\t-137.973\t0\t0.008719\n106\t0.00283788\t-137.973\t0\t0.008721\n107\t0.00282136\t-137.973\t0\t0.00874\n108\t0.00280494\t-137.973\t0\t0.008741\n109\t0.00278861\t-137.973\t0\t0.008773\n110\t0.00277238\t-137.973\t0\t0.008712\n111\t0.00275625\t-137.973\t0\t0.00888\n112\t0.00274021\t-137.973\t0\t0.008745\n113\t0.00272427\t-137.973\t0\t0.008805\n114\t0.00270842\t-137.973\t0\t0.008832\n115\t0.00269267\t-137.973\t0\t0.008826\n116\t0.002677\t-137.973\t0\t0.008767\n117\t0.00266143\t-137.973\t0\t0.008913\n118\t0.00264596\t-137.973\t0\t0.008794\n119\t0.00263057\t-137.973\t0\t0.008865\n120\t0.00261527\t-137.973\t0\t0.008933\n121\t0.00260006\t-137.973\t0\t0.008799\n122\t0.00258495\t-137.973\t0\t0.008855\n123\t0.00256992\t-137.973\t0\t0.008878\n124\t0.00255498\t-137.973\t0\t0.008773\n125\t0.00254013\t-137.973\t0\t0.008933\n126\t0.00252536\t-137.973\t0\t0.008727\n127\t0.00251069\t-137.973\t0\t0.008682\n128\t0.0024961\t-137.973\t0\t0.008918\n129\t0.00248159\t-137.973\t0\t0.008772\n130\t0.00246717\t-137.974\t0\t0.008839\n131\t0.00245284\t-137.974\t0\t0.008892\n132\t0.00243859\t-137.974\t0\t0.008759\n133\t0.00242442\t-137.974\t0\t0.008712\n134\t0.00241034\t-137.974\t0\t0.008906\n135\t0.00239634\t-137.974\t0\t0.008733\n136\t0.00238242\t-137.974\t0\t0.008936\n137\t0.00236858\t-137.974\t0\t0.008973\n138\t0.00235483\t-137.974\t0\t0.008772\n139\t0.00234115\t-137.974\t0\t0.008791\n140\t0.00232756\t-137.974\t0\t0.008853\n141\t0.00231404\t-137.974\t0\t0.008769\n142\t0.00230061\t-137.974\t0\t0.009002\n143\t0.00228725\t-137.974\t0\t0.008944\n144\t0.00227398\t-137.974\t0\t0.008706\n145\t0.00226078\t-137.974\t0\t0.008816\n146\t0.00224765\t-137.974\t0\t0.008835\n147\t0.00223461\t-137.974\t0\t0.009058\n148\t0.00222164\t-137.974\t0\t0.009062\n149\t0.00220875\t-137.974\t0\t0.008978\n150\t0.00219593\t-137.974\t0\t0.008807\n151\t0.00218319\t-137.974\t0\t0.009052\n152\t0.00217052\t-137.974\t0\t0.00908\n153\t0.00215793\t-137.974\t0\t0.00897\n154\t0.00214541\t-137.974\t0\t0.009003\n155\t0.00213297\t-137.974\t0\t0.008915\n156\t0.0021206\t-137.974\t0\t0.008991\n157\t0.0021083\t-137.974\t0\t0.008879\n158\t0.00209607\t-137.974\t0\t0.008899\n159\t0.00208391\t-137.974\t0\t0.008838\n160\t0.00207183\t-137.974\t0\t0.008843\n161\t0.00205981\t-137.974\t0\t0.008803\n162\t0.00204787\t-137.974\t0\t0.008767\n163\t0.002036\t-137.974\t0\t0.008855\n164\t0.00202419\t-137.974\t0\t0.008872\n165\t0.00201246\t-137.974\t0\t0.008769\n166\t0.00200079\t-137.974\t0\t0.008861\n167\t0.00198919\t-137.974\t0\t0.008775\n168\t0.00197766\t-137.974\t0\t0.0088\n169\t0.0019662\t-137.974\t0\t0.00922\n170\t0.00195481\t-137.974\t0\t0.008885\n171\t0.00194348\t-137.974\t0\t0.008925\n172\t0.00193222\t-137.974\t0\t0.008938\n173\t0.00192102\t-137.974\t0\t0.008754\n174\t0.00190989\t-137.974\t0\t0.009025\n175\t0.00189882\t-137.974\t0\t0.008919\n176\t0.00188782\t-137.974\t0\t0.008871\n177\t0.00187689\t-137.974\t0\t0.008925\n178\t0.00186601\t-137.974\t0\t0.008966\n179\t0.0018552\t-137.974\t0\t0.008723\n180\t0.00184446\t-137.974\t0\t0.008983\n181\t0.00183377\t-137.974\t0\t0.008896\n182\t0.00182315\t-137.974\t0\t0.008791\n183\t0.0018126\t-137.974\t0\t0.008913\n184\t0.0018021\t-137.974\t0\t0.008788\n185\t0.00179166\t-137.975\t0\t0.008753\n186\t0.00178129\t-137.975\t0\t0.008918\n187\t0.00177097\t-137.975\t0\t0.008884\n188\t0.00176072\t-137.975\t1\t0.008794\n189\t0.00175053\t-137.975\t0\t0.008913\n190\t0.00174039\t-137.975\t0\t0.008714\n191\t0.00173032\t-137.975\t0\t0.008824\n192\t0.0017203\t-137.975\t0\t0.00895\n193\t0.00171034\t-137.975\t0\t0.008744\n194\t0.00170044\t-137.975\t0\t0.008686\n195\t0.0016906\t-137.975\t0\t0.008727\n196\t0.00168082\t-137.975\t0\t0.008683\n197\t0.00167109\t-137.975\t0\t0.00871\n198\t0.00166142\t-137.975\t0\t0.008742\n199\t0.00165181\t-137.975\t0\t0.00872\n200\t0.00164225\t-137.975\t0\t0.008782\n201\t0.00163275\t-137.975\t0\t0.008713\n202\t0.0016233\t-137.975\t0\t0.008739\n203\t0.00161391\t-137.975\t0\t0.008951\n204\t0.00160457\t-137.975\t0\t0.008728\n205\t0.00159529\t-137.975\t0\t0.009111\n206\t0.00158606\t-137.975\t0\t0.008901\n207\t0.00157689\t-137.975\t0\t0.008804\n208\t0.00156777\t-137.975\t0\t0.008821\n209\t0.0015587\t-137.975\t0\t0.009284\n210\t0.00154968\t-137.975\t0\t0.008759\n211\t0.00154072\t-137.975\t0\t0.008978\n212\t0.00153181\t-137.975\t0\t0.008748\n213\t0.00152295\t-137.975\t0\t0.00874\n214\t0.00151415\t-137.975\t0\t0.00891\n215\t0.00150539\t-137.975\t0\t0.008785\n216\t0.00149669\t-137.975\t0\t0.008893\n217\t0.00148803\t-137.975\t0\t0.008917\n218\t0.00147943\t-137.975\t0\t0.008732\n219\t0.00147088\t-137.975\t0\t0.008894\n220\t0.00146237\t-137.975\t0\t0.008909\n221\t0.00145392\t-137.975\t0\t0.00877\n222\t0.00144552\t-137.975\t0\t0.008915\n223\t0.00143716\t-137.975\t0\t0.008884\n224\t0.00142885\t-137.975\t0\t0.008684\n225\t0.0014206\t-137.975\t0\t0.008976\n226\t0.00141239\t-137.975\t0\t0.008864\n227\t0.00140422\t-137.975\t0\t0.008876\n228\t0.00139611\t-137.975\t0\t0.008902\n229\t0.00138804\t-137.975\t0\t0.008807\n230\t0.00138002\t-137.975\t0\t0.008739\n231\t0.00137204\t-137.975\t0\t0.008883\n232\t0.00136412\t-137.975\t0\t0.00886\n233\t0.00135624\t-137.975\t0\t0.008803\n234\t0.0013484\t-137.975\t0\t0.008988\n235\t0.00134061\t-137.975\t0\t0.008924\n236\t0.00133286\t-137.975\t0\t0.008906\n237\t0.00132516\t-137.975\t0\t0.009032\n238\t0.00131751\t-137.975\t0\t0.009022\n239\t0.0013099\t-137.975\t0\t0.008857\n240\t0.00130233\t-137.975\t0\t0.00892\n241\t0.00129481\t-137.975\t0\t0.008801\n242\t0.00128733\t-137.975\t0\t0.008835\n243\t0.0012799\t-137.975\t0\t0.009161\n244\t0.00127251\t-137.975\t0\t0.008762\n245\t0.00126516\t-137.975\t0\t0.009137\n246\t0.00125785\t-137.975\t0\t0.009137\n247\t0.00125059\t-137.975\t0\t0.008747\n248\t0.00124337\t-137.975\t0\t0.008891\n249\t0.00123619\t-137.975\t0\t0.008965\n250\t0.00122905\t-137.975\t0\t0.008741\n251\t0.00122195\t-137.975\t0\t0.008825\n252\t0.0012149\t-137.975\t0\t0.008827\n253\t0.00120788\t-137.975\t0\t0.008711\n254\t0.00120091\t-137.975\t0\t0.009046\n255\t0.00119398\t-137.975\t0\t0.008756\n256\t0.00118708\t-137.975\t0\t0.008759\n257\t0.00118023\t-137.975\t0\t0.008957\n258\t0.00117342\t-137.975\t0\t0.008789\n259\t0.00116665\t-137.975\t0\t0.008828\n260\t0.00115991\t-137.975\t0\t0.008853\n261\t0.00115322\t-137.975\t0\t0.009048\n262\t0.00114656\t-137.975\t0\t0.008865\n263\t0.00113994\t-137.975\t0\t0.008978\n264\t0.00113337\t-137.975\t0\t0.008972\n265\t0.00112682\t-137.976\t0\t0.009087\n266\t0.00112032\t-137.976\t0\t0.009012\n267\t0.00111386\t-137.976\t0\t0.008703\n268\t0.00110743\t-137.976\t0\t0.008866\n269\t0.00110104\t-137.976\t0\t0.008939\n270\t0.00109469\t-137.976\t0\t0.008683\n271\t0.00108837\t-137.976\t0\t0.008865\n272\t0.00108209\t-137.976\t0\t0.009283\n273\t0.00107585\t-137.976\t0\t0.008689\n274\t0.00106964\t-137.976\t0\t0.008755\n275\t0.00106347\t-137.976\t0\t0.008776\n276\t0.00105734\t-137.976\t0\t0.008784\n277\t0.00105124\t-137.976\t0\t0.008837\n278\t0.00104517\t-137.976\t0\t0.008685\n279\t0.00103914\t-137.976\t0\t0.008727\n280\t0.00103315\t-137.976\t0\t0.008684\n281\t0.00102719\t-137.976\t0\t0.008688\n282\t0.00102127\t-137.976\t0\t0.008714\n283\t0.00101537\t-137.976\t0\t0.008906\n284\t0.00100952\t-137.976\t0\t0.00875\n285\t0.0010037\t-137.976\t0\t0.008853\n286\t0.000997908\t-137.976\t0\t0.008751\n287\t0.000992153\t-137.976\t0\t0.008755\n288\t0.000986432\t-137.976\t0\t0.0092\n289\t0.000980744\t-137.976\t0\t0.008897\n290\t0.000975088\t-137.976\t0\t0.008775\n291\t0.000969466\t-137.976\t0\t0.008917\n292\t0.000963876\t-137.976\t0\t0.009056\n293\t0.000958318\t-137.976\t0\t0.008848\n294\t0.000952793\t-137.976\t0\t0.008769\n295\t0.000947299\t-137.976\t0\t0.00879\n296\t0.000941838\t-137.976\t0\t0.008734\n297\t0.000936408\t-137.976\t0\t0.0087\n298\t0.000931009\t-137.976\t0\t0.008689\n299\t0.000925642\t-137.976\t0\t0.008701\n300\t0.000920306\t-137.976\t0\t0.008833\n301\t0.000915001\t-137.976\t1\t0.008725\n302\t0.000909726\t-137.976\t0\t0.008847\n303\t0.000904482\t-137.976\t0\t0.008718\n304\t0.000899269\t-137.976\t0\t0.008702\n305\t0.000894085\t-137.976\t0\t0.008775\n306\t0.000888932\t-137.976\t0\t0.008717\n307\t0.000883809\t-137.976\t0\t0.008921\n308\t0.000878715\t-137.976\t0\t0.0087\n309\t0.00087365\t-137.976\t0\t0.008692\n310\t0.000868615\t-137.976\t0\t0.008759\n311\t0.00086361\t-137.976\t0\t0.008874\n312\t0.000858633\t-137.976\t0\t0.00875\n313\t0.000853685\t-137.976\t0\t0.008814\n314\t0.000848765\t-137.976\t0\t0.008751\n315\t0.000843874\t-137.976\t0\t0.00875\n316\t0.000839011\t-137.976\t0\t0.008845\n317\t0.000834177\t-137.976\t0\t0.008975\n318\t0.00082937\t-137.976\t0\t0.008751\n319\t0.000824592\t-137.976\t0\t0.008814\n320\t0.000819841\t-137.976\t0\t0.008703\n321\t0.000815117\t-137.976\t0\t0.008826\n322\t0.000810421\t-137.976\t0\t0.009548\n323\t0.000805752\t-137.976\t0\t0.008716\n324\t0.00080111\t-137.976\t0\t0.008854\n325\t0.000796494\t-137.976\t0\t0.008852\n326\t0.000791906\t-137.976\t0\t0.008741\n327\t0.000787344\t-137.976\t0\t0.008824\n328\t0.000782808\t-137.976\t0\t0.008885\n329\t0.000778299\t-137.976\t0\t0.00869\n330\t0.000773816\t-137.976\t0\t0.008882\n331\t0.000769358\t-137.976\t0\t0.0088\n332\t0.000764927\t-137.976\t0\t0.008738\n333\t0.000760521\t-137.976\t0\t0.008907\n334\t0.00075614\t-137.976\t0\t0.00887\n335\t0.000751785\t-137.976\t0\t0.008879\n336\t0.000747455\t-137.976\t0\t0.008856\n337\t0.00074315\t-137.976\t0\t0.0088\n338\t0.00073887\t-137.976\t0\t0.008827\n339\t0.000734615\t-137.976\t0\t0.008912\n340\t0.000730384\t-137.976\t0\t0.008918\n341\t0.000726178\t-137.976\t0\t0.008983\n342\t0.000721996\t-137.976\t0\t0.009032\n343\t0.000717839\t-137.976\t0\t0.008772\n344\t0.000713705\t-137.976\t0\t0.008853\n345\t0.000709595\t-137.976\t0\t0.008888\n346\t0.000705509\t-137.976\t0\t0.008746\n347\t0.000701447\t-137.976\t0\t0.008822\n348\t0.000697408\t-137.976\t0\t0.00883\n349\t0.000693392\t-137.976\t0\t0.00881\n350\t0.0006894\t-137.976\t0\t0.008978\n351\t0.00068543\t-137.976\t0\t0.009114\n352\t0.000681484\t-137.976\t0\t0.008724\n353\t0.00067756\t-137.976\t0\t0.008859\n354\t0.000673659\t-137.976\t0\t0.008795\n355\t0.000669781\t-137.976\t0\t0.008593\n356\t0.000665925\t-137.976\t0\t0.009161\n357\t0.000662091\t-137.976\t0\t0.008922\n358\t0.00065828\t-137.976\t0\t0.008914\n359\t0.00065449\t-137.976\t0\t0.008858\n360\t0.000650723\t-137.976\t0\t0.008747\n361\t0.000646977\t-137.976\t0\t0.008715\n362\t0.000643252\t-137.976\t0\t0.008842\n363\t0.00063955\t-137.976\t0\t0.00879\n364\t0.000635868\t-137.976\t0\t0.00874\n365\t0.000632208\t-137.976\t0\t0.008775\n366\t0.000628569\t-137.976\t0\t0.008699\n367\t0.000624951\t-137.976\t0\t0.008786\n368\t0.000621354\t-137.976\t0\t0.008918\n369\t0.000617778\t-137.976\t0\t0.008679\n370\t0.000614222\t-137.976\t0\t0.008855\n371\t0.000610687\t-137.976\t0\t0.008827\n372\t0.000607172\t-137.976\t0\t0.008724\n373\t0.000603678\t-137.976\t0\t0.008846\n374\t0.000600204\t-137.976\t0\t0.00903\n375\t0.00059675\t-137.976\t0\t0.008859\n376\t0.000593315\t-137.976\t0\t0.008963\n377\t0.000589901\t-137.976\t0\t0.008788\n378\t0.000586506\t-137.976\t0\t0.008766\n379\t0.000583131\t-137.976\t0\t0.008915\n380\t0.000579776\t-137.976\t0\t0.008839\n381\t0.000576439\t-137.976\t0\t0.008807\n382\t0.000573122\t-137.976\t0\t0.008929\n383\t0.000569825\t-137.976\t0\t0.008734\n384\t0.000566546\t-137.976\t0\t0.00882\n385\t0.000563286\t-137.976\t0\t0.008827\n386\t0.000560045\t-137.976\t0\t0.008687\n387\t0.000556822\t-137.976\t0\t0.008878\n388\t0.000553619\t-137.976\t0\t0.008841\n389\t0.000550433\t-137.976\t0\t0.008689\n390\t0.000547266\t-137.976\t0\t0.008878\n391\t0.000544118\t-137.976\t0\t0.008783\n392\t0.000540987\t-137.976\t0\t0.008805\n393\t0.000537875\t-137.976\t0\t0.008814\n394\t0.00053478\t-137.976\t0\t0.008818\n395\t0.000531704\t-137.976\t0\t0.008775\n396\t0.000528645\t-137.976\t0\t0.009018\n397\t0.000525604\t-137.976\t0\t0.008684\n398\t0.00052258\t-137.976\t0\t0.008696\n399\t0.000519574\t-137.976\t0\t0.008729\n400\t0.000516585\t-137.976\t0\t0.008704\n401\t0.000513613\t-137.976\t0\t0.008753\n402\t0.000510659\t-137.976\t0\t0.00909\n403\t0.000507721\t-137.976\t0\t0.008891\n404\t0.000504801\t-137.976\t0\t0.008798\n405\t0.000501897\t-137.976\t0\t0.008869\n406\t0.00049901\t-137.976\t0\t0.008684\n407\t0.00049614\t-137.976\t0\t0.008997\n408\t0.000493286\t-137.976\t0\t0.008848\n409\t0.000490449\t-137.976\t0\t0.008687\n410\t0.000487628\t-137.976\t0\t0.008818\n411\t0.000484823\t-137.976\t0\t0.00892\n412\t0.000482035\t-137.976\t0\t0.0087\n413\t0.000479263\t-137.976\t0\t0.00894\n414\t0.000476506\t-137.976\t1\t0.008829\n415\t0.000473766\t-137.976\t0\t0.008718\n416\t0.000471041\t-137.976\t0\t0.008787\n417\t0.000468332\t-137.976\t0\t0.008753\n418\t0.000465639\t-137.976\t0\t0.008756\n419\t0.000462961\t-137.976\t0\t0.008938\n420\t0.000460298\t-137.977\t0\t0.008778\n421\t0.000457651\t-137.977\t0\t0.00875\n422\t0.000455019\t-137.977\t0\t0.00879\n423\t0.000452403\t-137.977\t0\t0.008717\n424\t0.000449801\t-137.977\t0\t0.008851\n425\t0.000447215\t-137.977\t0\t0.008849\n426\t0.000444643\t-137.977\t0\t0.008712\n427\t0.000442086\t-137.977\t0\t0.008825\n428\t0.000439544\t-137.977\t0\t0.008822\n429\t0.000437017\t-137.977\t0\t0.008685\n430\t0.000434504\t-137.977\t0\t0.008816\n431\t0.000432005\t-137.977\t0\t0.008786\n432\t0.000429521\t-137.977\t0\t0.008777\n433\t0.000427052\t-137.977\t0\t0.008816\n43\n..\n0022012\t-137.977\t0\t0.00884\n549\t0.000218855\t-137.977\t0\t0.008965\n550\t0.000217598\t-137.977\t0\t0.009074\n551\t0.000216349\t-137.977\t0\t0.008884\n552\t0.000215106\t-137.977\t0\t0.008797\n553\t0.000213871\t-137.977\t0\t0.008909\n554\t0.000212642\t-137.977\t0\t0.008874\n555\t0.000211421\t-137.977\t0\t0.008854\n556\t0.000210207\t-137.977\t0\t0.008885\n557\t0.000208999\t-137.977\t0\t0.008769\n558\t0.000207799\t-137.977\t0\t0.008881\n559\t0.000206606\t-137.977\t0\t0.008884\n560\t0.000205419\t-137.977\t0\t0.008717\n561\t0.000204239\t-137.977\t0\t0.00891\n562\t0.000203066\t-137.977\t0\t0.008857\n563\t0.0002019\t-137.977\t0\t0.008664\n564\t0.000200741\t-137.977\t0\t0.008932\n565\t0.000199588\t-137.977\t0\t0.008884\n566\t0.000198442\t-137.977\t0\t0.008825\n567\t0.000197302\t-137.977\t0\t0.008889\n568\t0.000196169\t-137.977\t0\t0.008896\n569\t0.000195042\t-137.977\t0\t0.008743\n570\t0.000193922\t-137.977\t0\t0.008958\n571\t0.000192809\t-137.977\t0\t0.008782\n572\t0.000191701\t-137.977\t0\t0.008799\n573\t0.000190601\t-137.977\t0\t0.00878\n574\t0.000189506\t-137.977\t0\t0.008744\n575\t0.000188418\t-137.977\t0\t0.008721\n576\t0.000187336\t-137.977\t0\t0.008846\n577\t0.00018626\t-137.977\t0\t0.008899\n578\t0.00018519\t-137.977\t0\t0.00877\n579\t0.000184127\t-137.977\t0\t0.008713\n580\t0.00018307\t-137.977\t0\t0.008722\n581\t0.000182018\t-137.977\t0\t0.008748\n582\t0.000180973\t-137.977\t0\t0.009127\n583\t0.000179934\t-137.977\t0\t0.008806\n584\t0.000178901\t-137.977\t0\t0.00895\n585\t0.000177873\t-137.977\t0\t0.008802\n586\t0.000176852\t-137.977\t0\t0.008963\n587\t0.000175837\t-137.977\t0\t0.00884\n588\t0.000174827\t-137.977\t0\t0.008762\n589\t0.000173823\t-137.977\t0\t0.008813\n590\t0.000172825\t-137.977\t0\t0.009013\n591\t0.000171832\t-137.977\t0\t0.008715\n592\t0.000170846\t-137.977\t0\t0.008917\n593\t0.000169865\t-137.977\t0\t0.008914\n594\t0.000168889\t-137.977\t0\t0.00889\n595\t0.00016792\t-137.977\t0\t0.008891\n596\t0.000166955\t-137.977\t0\t0.008934\n597\t0.000165997\t-137.977\t0\t0.008739\n598\t0.000165044\t-137.977\t0\t0.008801\n599\t0.000164096\t-137.977\t0\t0.008968\n600\t0.000163154\t-137.977\t0\t0.008819\n601\t0.000162217\t-137.977\t0\t0.009097\n602\t0.000161286\t-137.977\t0\t0.009041\n603\t0.00016036\t-137.977\t0\t0.008981\n604\t0.000159439\t-137.977\t0\t0.009126\n605\t0.000158523\t-137.977\t0\t0.009134\n606\t0.000157613\t-137.977\t0\t0.008817\n607\t0.000156708\t-137.977\t0\t0.00896\n608\t0.000155808\t-137.977\t0\t0.008829\n609\t0.000154914\t-137.977\t0\t0.008743\n610\t0.000154024\t-137.977\t0\t0.008884\n611\t0.00015314\t-137.977\t0\t0.008811\n612\t0.000152261\t-137.977\t0\t0.008768\n613\t0.000151387\t-137.977\t0\t0.00886\n614\t0.000150518\t-137.977\t0\t0.008722\n615\t0.000149653\t-137.977\t0\t0.008909\n616\t0.000148794\t-137.977\t0\t0.008989\n617\t0.00014794\t-137.977\t0\t0.008833\n618\t0.00014709\t-137.977\t0\t0.00911\n619\t0.000146246\t-137.977\t0\t0.009055\n620\t0.000145406\t-137.977\t0\t0.008689\n621\t0.000144572\t-137.977\t0\t0.008862\n622\t0.000143741\t-137.977\t0\t0.008841\n623\t0.000142916\t-137.977\t0\t0.008732\n624\t0.000142096\t-137.977\t0\t0.008859\n625\t0.00014128\t-137.977\t0\t0.008798\n626\t0.000140469\t-137.977\t0\t0.008711\n627\t0.000139662\t-137.977\t0\t0.008943\n628\t0.000138861\t-137.977\t0\t0.0089\n629\t0.000138063\t-137.977\t0\t0.008741\n630\t0.000137271\t-137.977\t0\t0.008832\n631\t0.000136483\t-137.977\t0\t0.008716\n632\t0.000135699\t-137.977\t0\t0.008767\n633\t0.00013492\t-137.977\t0\t0.008831\n634\t0.000134146\t-137.977\t0\t0.008748\n635\t0.000133375\t-137.977\t0\t0.008855\n636\t0.00013261\t-137.977\t0\t0.0088\n637\t0.000131848\t-137.977\t0\t0.008715\n638\t0.000131092\t-137.977\t0\t0.008803\n639\t0.000130339\t-137.977\t0\t0.00889\n640\t0.000129591\t-137.977\t1\t0.008683\n641\t0.000128847\t-137.977\t0\t0.008797\n642\t0.000128107\t-137.977\t0\t0.00877\n643\t0.000127372\t-137.977\t0\t0.008712\n644\t0.00012664\t-137.977\t0\t0.008835\n645\t0.000125913\t-137.977\t0\t0.008876\n646\t0.000125191\t-137.977\t0\t0.008712\n647\t0.000124472\t-137.977\t0\t0.008858\n648\t0.000123757\t-137.977\t0\t0.008772\n649\t0.000123047\t-137.977\t0\t0.008791\n650\t0.000122341\t-137.977\t0\t0.009018\n651\t0.000121638\t-137.977\t0\t0.008878\n652\t0.00012094\t-137.977\t0\t0.008848\n653\t0.000120246\t-137.977\t0\t0.009174\n654\t0.000119555\t-137.977\t0\t0.008843\n655\t0.000118869\t-137.977\t0\t0.008884\n656\t0.000118187\t-137.977\t0\t0.008891\n657\t0.000117508\t-137.977\t0\t0.008828\n658\t0.000116834\t-137.977\t0\t0.008869\n659\t0.000116163\t-137.977\t0\t0.00909\n660\t0.000115496\t-137.977\t0\t0.008683\n661\t0.000114833\t-137.977\t0\t0.008959\n662\t0.000114174\t-137.977\t0\t0.008928\n663\t0.000113519\t-137.977\t0\t0.008795\n664\t0.000112867\t-137.977\t0\t0.00887\n665\t0.000112219\t-137.977\t0\t0.008806\n666\t0.000111575\t-137.977\t0\t0.008747\n667\t0.000110935\t-137.977\t0\t0.008987\n668\t0.000110298\t-137.977\t0\t0.008845\n669\t0.000109665\t-137.977\t0\t0.008798\n670\t0.000109035\t-137.977\t0\t0.008887\n671\t0.000108409\t-137.977\t0\t0.008759\n672\t0.000107787\t-137.977\t0\t0.008797\n673\t0.000107168\t-137.977\t0\t0.008975\n674\t0.000106553\t-137.977\t0\t0.008794\n675\t0.000105942\t-137.977\t0\t0.008821\n676\t0.000105333\t-137.977\t0\t0.008929\n677\t0.000104729\t-137.977\t0\t0.008739\n678\t0.000104128\t-137.977\t0\t0.009004\n679\t0.00010353\t-137.977\t0\t0.009006\n680\t0.000102936\t-137.977\t0\t0.008683\n681\t0.000102345\t-137.977\t0\t0.008904\n682\t0.000101757\t-137.977\t0\t0.008856\n683\t0.000101173\t-137.977\t0\t0.008713\n684\t0.000100593\t-137.977\t0\t0.008923\n685\t0.000100015\t-137.977\t0\t0.008902\n686\t9.94412e-05\t-137.977\t0\t0.008743\n687\t9.88704e-05\t-137.977\t0\t0.009181\n688\t9.83029e-05\t-137.977\t0\t0.008958\n689\t9.77387e-05\t-137.977\t0\t0.008908\n690\t9.71776e-05\t-137.977\t0\t0.009078\n691\t9.66199e-05\t-137.977\t0\t0.008971\n692\t9.60653e-05\t-137.977\t0\t0.008885\n693\t9.55139e-05\t-137.977\t0\t0.008861\n694\t9.49657e-05\t-137.977\t0\t0.008757\n695\t9.44206e-05\t-137.977\t0\t0.009216\n696\t9.38787e-05\t-137.977\t0\t0.00898\n697\t9.33398e-05\t-137.977\t0\t0.008674\n698\t9.28041e-05\t-137.977\t0\t0.008735\n699\t9.22714e-05\t-137.977\t0\t0.008715\n700\t9.17418e-05\t-137.977\t0\t0.008718\n701\t9.12153e-05\t-137.977\t0\t0.008829\n702\t9.06917e-05\t-137.977\t0\t0.008685\n703\t9.01712e-05\t-137.977\t0\t0.008816\n704\t8.96536e-05\t-137.977\t0\t0.008783\n705\t8.91391e-05\t-137.977\t0\t0.008719\n706\t8.86274e-05\t-137.977\t0\t0.008773\n707\t8.81188e-05\t-137.977\t0\t0.008834\n708\t8.7613e-05\t-137.977\t0\t0.008741\n709\t8.71102e-05\t-137.977\t0\t0.008784\n710\t8.66102e-05\t-137.977\t0\t0.008741\n711\t8.61131e-05\t-137.977\t0\t0.008752\n712\t8.56188e-05\t-137.977\t0\t0.008847\n713\t8.51274e-05\t-137.977\t0\t0.008773\n714\t8.46389e-05\t-137.977\t0\t0.008721\n715\t8.41531e-05\t-137.977\t0\t0.009218\n716\t8.36701e-05\t-137.977\t0\t0.008993\n717\t8.31899e-05\t-137.977\t0\t0.009017\n718\t8.27124e-05\t-137.977\t0\t0.008931\n719\t8.22377e-05\t-137.977\t0\t0.008716\n720\t8.17657e-05\t-137.977\t0\t0.008874\n721\t8.12964e-05\t-137.977\t0\t0.008951\n722\t8.08299e-05\t-137.977\t0\t0.008862\n723\t8.0366e-05\t-137.977\t0\t0.008825\n724\t7.99047e-05\t-137.977\t0\t0.008989\n725\t7.94461e-05\t-137.977\t0\t0.008769\n726\t7.89902e-05\t-137.977\t0\t0.00897\n727\t7.85368e-05\t-137.977\t0\t0.008716\n728\t7.80861e-05\t-137.977\t0\t0.008853\n729\t7.76379e-05\t-137.977\t0\t0.008996\n730\t7.71923e-05\t-137.977\t0\t0.008713\n731\t7.67493e-05\t-137.977\t0\t0.008938\n732\t7.63088e-05\t-137.977\t0\t0.008939\n733\t7.58709e-05\t-137.977\t0\t0.008684\n734\t7.54355e-05\t-137.977\t0\t0.008941\n735\t7.50025e-05\t-137.977\t0\t0.009044\n736\t7.45721e-05\t-137.977\t0\t0.008724\n737\t7.41441e-05\t-137.977\t0\t0.008822\n738\t7.37186e-05\t-137.977\t0\t0.008787\n739\t7.32955e-05\t-137.977\t0\t0.00874\n740\t7.28749e-05\t-137.977\t0\t0.009155\n741\t7.24566e-05\t-137.977\t0\t0.00887\n742\t7.20408e-05\t-137.977\t0\t0.008753\n743\t7.16274e-05\t-137.977\t0\t0.009004\n744\t7.12163e-05\t-137.977\t0\t0.008826\n745\t7.08076e-05\t-137.977\t0\t0.008767\n746\t7.04012e-05\t-137.977\t0\t0.00906\n747\t6.99972e-05\t-137.977\t0\t0.00875\n748\t6.95955e-05\t-137.977\t0\t0.008787\n749\t6.91961e-05\t-137.977\t0\t0.008845\n750\t6.8799e-05\t-137.977\t0\t0.008564\n751\t6.84041e-05\t-137.977\t0\t0.008819\n752\t6.80116e-05\t-137.977\t0\t0.008788\n753\t6.76212e-05\t-137.977\t1\t0.008717\n754\t6.72332e-05\t-137.977\t0\t0.008844\n755\t6.68473e-05\t-137.977\t0\t0.008913\n756\t6.64637e-05\t-137.977\t0\t0.008818\n757\t6.60823e-05\t-137.977\t0\t0.008972\n758\t6.5703e-05\t-137.977\t0\t0.008911\n759\t6.5326e-05\t-137.977\t0\t0.008735\n760\t6.49511e-05\t-137.977\t0\t0.008829\n761\t6.45783e-05\t-137.977\t0\t0.008836\n762\t6.42077e-05\t-137.977\t0\t0.008731\n763\t6.38393e-05\t-137.977\t0\t0.008928\n764\t6.34729e-05\t-137.977\t0\t0.008753\n765\t6.31087e-05\t-137.977\t0\t0.008731\n766\t6.27465e-05\t-137.977\t0\t0.008872\n767\t6.23864e-05\t-137.977\t0\t0.008674\n768\t6.20284e-05\t-137.977\t0\t0.008804\n769\t6.16724e-05\t-137.977\t0\t0.008841\n770\t6.13185e-05\t-137.977\t0\t0.008785\n771\t6.09666e-05\t-137.977\t0\t0.008825\n772\t6.06167e-05\t-137.977\t0\t0.008812\n773\t6.02689e-05\t-137.977\t0\t0.008619\n774\t5.9923e-05\t-137.977\t0\t0.008872\n775\t5.95791e-05\t-137.977\t0\t0.008833\n776\t5.92372e-05\t-137.977\t0\t0.008827\n777\t5.88973e-05\t-137.977\t0\t0.008816\n778\t5.85593e-05\t-137.977\t0\t0.008818\n779\t5.82233e-05\t-137.977\t0\t0.00874\n780\t5.78891e-05\t-137.977\t0\t0.009039\n781\t5.75569e-05\t-137.977\t0\t0.008769\n782\t5.72266e-05\t-137.977\t0\t0.008738\n783\t5.68982e-05\t-137.977\t0\t0.008892\n784\t5.65717e-05\t-137.977\t0\t0.008775\n785\t5.62471e-05\t-137.977\t0\t0.008807\n786\t5.59243e-05\t-137.977\t0\t0.008852\n787\t5.56034e-05\t-137.977\t0\t0.008731\n788\t5.52843e-05\t-137.977\t0\t0.008691\n789\t5.49671e-05\t-137.977\t0\t0.008864\n790\t5.46516e-05\t-137.977\t0\t0.008703\n791\t5.4338e-05\t-137.977\t0\t0.009107\n792\t5.40262e-05\t-137.977\t0\t0.008956\n793\t5.37162e-05\t-137.977\t0\t0.008755\n794\t5.34079e-05\t-137.977\t0\t0.008951\n795\t5.31014e-05\t-137.977\t0\t0.008755\n796\t5.27967e-05\t-137.977\t0\t0.008653\n797\t5.24938e-05\t-137.977\t0\t0.0089\n798\t5.21925e-05\t-137.977\t0\t0.008895\n799\t5.1893e-05\t-137.977\t0\t0.008698\n800\t5.15952e-05\t-137.977\t0\t0.00886\n801\t5.12992e-05\t-137.977\t0\t0.008708\n802\t5.10048e-05\t-137.977\t0\t0.008873\n803\t5.07121e-05\t-137.977\t0\t0.00883\n804\t5.04211e-05\t-137.977\t0\t0.008806\n805\t5.01318e-05\t-137.977\t0\t0.008897\n806\t4.98441e-05\t-137.977\t0\t0.008867\n807\t4.95581e-05\t-137.977\t0\t0.008803\n808\t4.92737e-05\t-137.977\t0\t0.008926\n809\t4.89909e-05\t-137.977\t0\t0.008765\n810\t4.87098e-05\t-137.977\t0\t0.008913\n811\t4.84303e-05\t-137.977\t0\t0.008828\n812\t4.81524e-05\t-137.977\t0\t0.008771\n813\t4.78761e-05\t-137.977\t0\t0.008712\n814\t4.76013e-05\t-137.977\t0\t0.008806\n815\t4.73282e-05\t-137.977\t0\t0.008714\n816\t4.70566e-05\t-137.977\t0\t0.008685\n817\t4.67866e-05\t-137.977\t0\t0.008767\n818\t4.65181e-05\t-137.977\t0\t0.008686\n819\t4.62512e-05\t-137.977\t0\t0.00871\n820\t4.59858e-05\t-137.977\t0\t0.008689\n821\t4.57219e-05\t-137.977\t0\t0.008729\n822\t4.54595e-05\t-137.977\t0\t0.008721\n823\t4.51987e-05\t-137.977\t0\t0.00871\n824\t4.49393e-05\t-137.977\t0\t0.008688\n825\t4.46815e-05\t-137.977\t0\t0.008795\n826\t4.44251e-05\t-137.977\t0\t0.009183\n827\t4.41702e-05\t-137.977\t0\t0.008684\n828\t4.39167e-05\t-137.977\t0\t0.008741\n829\t4.36647e-05\t-137.977\t0\t0.008841\n830\t4.34141e-05\t-137.977\t0\t0.008757\n831\t4.3165e-05\t-137.977\t0\t0.008865\n832\t4.29173e-05\t-137.977\t0\t0.008756\n833\t4.26711e-05\t-137.977\t0\t0.008861\n834\t4.24262e-05\t-137.977\t0\t0.008888\n835\t4.21828e-05\t-137.977\t0\t0.008749\n836\t4.19407e-05\t-137.977\t0\t0.008824\n837\t4.17001e-05\t-137.977\t0\t0.00884\n838\t4.14608e-05\t-137.977\t0\t0.008814\n839\t4.12229e-05\t-137.977\t0\t0.00891\n840\t4.09863e-05\t-137.977\t0\t0.008757\n841\t4.07512e-05\t-137.977\t0\t0.00866\n842\t4.05173e-05\t-137.977\t0\t0.008777\n843\t4.02848e-05\t-137.977\t0\t0.008694\n844\t4.00537e-05\t-137.977\t0\t0.008754\n845\t3.98238e-05\t-137.977\t0\t0.008873\n846\t3.95953e-05\t-137.977\t0\t0.008785\n847\t3.93681e-05\t-137.977\t0\t0.008833\n848\t3.91422e-05\t-137.977\t0\t0.008863\n849\t3.89176e-05\t-137.977\t0\t0.008726\n850\t3.86943e-05\t-137.977\t0\t0.008834\n851\t3.84723e-05\t-137.977\t0\t0.008832\n852\t3.82515e-05\t-137.977\t0\t0.008722\n853\t3.80321e-05\t-137.977\t0\t0.009007\n854\t3.78138e-05\t-137.977\t0\t0.009016\n855\t3.75969e-05\t-137.977\t0\t0.008693\n856\t3.73811e-05\t-137.977\t0\t0.008835\n857\t3.71666e-05\t-137.977\t0\t0.008767\n858\t3.69534e-05\t-137.977\t0\t0.00874\n859\t3.67413e-05\t-137.977\t0\t0.008859\n860\t3.65305e-05\t-137.977\t0\t0.00902\n861\t3.63209e-05\t-137.977\t0\t0.008858\n862\t3.61125e-05\t-137.977\t0\t0.008799\n863\t3.59053e-05\t-137.977\t0\t0.008713\n864\t3.56993e-05\t-137.977\t0\t0.008888\n865\t3.54944e-05\t-137.977\t0\t0.008999\n866\t3.52908e-05\t-137.977\t1\t0.00872\n867\t3.50883e-05\t-137.977\t0\t0.0088\n868\t3.48869e-05\t-137.977\t0\t0.008854\n869\t3.46868e-05\t-137.977\t0\t0.008686\n870\t3.44877e-05\t-137.977\t0\t0.008822\n871\t3.42898e-05\t-137.977\t0\t0.009025\n872\t3.40931e-05\t-137.977\t0\t0.008712\n873\t3.38975e-05\t-137.977\t0\t0.008824\n874\t3.3703e-05\t-137.977\t0\t0.008797\n875\t3.35096e-05\t-137.977\t0\t0.008738\n876\t3.33173e-05\t-137.977\t0\t0.008855\n877\t3.31261e-05\t-137.977\t0\t0.008713\n878\t3.29361e-05\t-137.977\t0\t0.008826\n879\t3.27471e-05\t-137.977\t0\t0.008835\n880\t3.25592e-05\t-137.977\t0\t0.008685\n881\t3.23724e-05\t-137.977\t0\t0.008825\n882\t3.21866e-05\t-137.977\t0\t0.008824\n883\t3.20019e-05\t-137.977\t0\t0.00875\n884\t3.18183e-05\t-137.977\t0\t0.008837\n885\t3.16358e-05\t-137.977\t0\t0.008851\n886\t3.14542e-05\t-137.977\t0\t0.008685\n887\t3.12738e-05\t-137.977\t0\t0.008823\n888\t3.10943e-05\t-137.977\t0\t0.008713\n889\t3.09159e-05\t-137.977\t0\t0.008704\n890\t3.07385e-05\t-137.977\t0\t0.008878\n891\t3.05621e-05\t-137.977\t0\t0.008798\n892\t3.03868e-05\t-137.977\t0\t0.00874\n893\t3.02124e-05\t-137.977\t0\t0.00902\n894\t3.00391e-05\t-137.977\t0\t0.008815\n895\t2.98667e-05\t-137.977\t0\t0.008929\n896\t2.96954e-05\t-137.977\t0\t0.008847\n897\t2.9525e-05\t-137.977\t0\t0.008689\n898\t2.93556e-05\t-137.977\t0\t0.008852\n899\t2.91871e-05\t-137.977\t0\t0.009039\n900\t2.90197e-05\t-137.977\t0\t0.008728\n901\t2.88532e-05\t-137.977\t0\t0.008844\n902\t2.86876e-05\t-137.977\t0\t0.008712\n903\t2.8523e-05\t-137.977\t0\t0.008712\n904\t2.83594e-05\t-137.977\t0\t0.008684\n905\t2.81966e-05\t-137.977\t0\t0.008835\n906\t2.80349e-05\t-137.977\t0\t0.008686\n907\t2.7874e-05\t-137.977\t0\t0.008712\n908\t2.77141e-05\t-137.977\t0\t0.008685\n909\t2.75551e-05\t-137.977\t0\t0.008711\n910\t2.7397e-05\t-137.977\t0\t0.008717\n911\t2.72398e-05\t-137.977\t0\t0.008713\n912\t2.70835e-05\t-137.977\t0\t0.008693\n913\t2.69281e-05\t-137.977\t0\t0.008683\n914\t2.67736e-05\t-137.977\t0\t0.008711\n915\t2.66199e-05\t-137.977\t0\t0.008751\n916\t2.64672e-05\t-137.977\t0\t0.008696\n917\t2.63154e-05\t-137.977\t0\t0.008741\n918\t2.61644e-05\t-137.977\t0\t0.008724\n919\t2.60142e-05\t-137.977\t0\t0.009029\n920\t2.5865e-05\t-137.977\t0\t0.0088\n921\t2.57166e-05\t-137.977\t0\t0.008857\n922\t2.5569e-05\t-137.977\t0\t0.008774\n923\t2.54223e-05\t-137.977\t0\t0.008799\n924\t2.52765e-05\t-137.977\t0\t0.008795\n925\t2.51314e-05\t-137.977\t0\t0.008683\n926\t2.49872e-05\t-137.977\t0\t0.008793\n927\t2.48439e-05\t-137.977\t0\t0.008826\n928\t2.47013e-05\t-137.977\t0\t0.008747\n929\t2.45596e-05\t-137.977\t0\t0.00884\n930\t2.44187e-05\t-137.977\t0\t0.008961\n931\t2.42786e-05\t-137.977\t0\t0.008742\n932\t2.41393e-05\t-137.977\t0\t0.008803\n933\t2.40008e-05\t-137.977\t0\t0.008748\n934\t2.38631e-05\t-137.977\t0\t0.008721\n935\t2.37262e-05\t-137.977\t0\t0.008747\n936\t2.359e-05\t-137.977\t0\t0.008739\n937\t2.34547e-05\t-137.977\t0\t0.008719\n938\t2.33201e-05\t-137.977\t0\t0.008779\n939\t2.31863e-05\t-137.977\t0\t0.008831\n940\t2.30533e-05\t-137.977\t0\t0.008897\n941\t2.2921e-05\t-137.977\t0\t0.008806\n942\t2.27895e-05\t-137.977\t0\t0.008625\n943\t2.26587e-05\t-137.977\t0\t0.009146\n944\t2.25287e-05\t-137.977\t0\t0.009091\n945\t2.23995e-05\t-137.977\t0\t0.008753\n946\t2.2271e-05\t-137.977\t0\t0.008945\n947\t2.21432e-05\t-137.977\t0\t0.008978\n948\t2.20161e-05\t-137.977\t0\t0.008719\n949\t2.18898e-05\t-137.977\t0\t0.008846\n950\t2.17642e-05\t-137.977\t0\t0.008772\n951\t2.16394e-05\t-137.977\t0\t0.008731\n952\t2.15152e-05\t-137.977\t0\t0.008938\n953\t2.13918e-05\t-137.977\t0\t0.008777\n954\t2.1269e-05\t-137.977\t0\t0.008721\n955\t2.1147e-05\t-137.977\t0\t0.008807\n956\t2.10257e-05\t-137.977\t0\t0.008817\n957\t2.0905e-05\t-137.977\t0\t0.008683\n958\t2.07851e-05\t-137.977\t0\t0.008845\n959\t2.06658e-05\t-137.977\t0\t0.008681\n960\t2.05473e-05\t-137.977\t0\t0.0088\n961\t2.04294e-05\t-137.977\t0\t0.008848\n962\t2.03122e-05\t-137.977\t0\t0.008714\n963\t2.01956e-05\t-137.977\t0\t0.008757\n964\t2.00797e-05\t-137.977\t0\t0.009116\n965\t1.99645e-05\t-137.977\t0\t0.008828\n966\t1.985e-05\t-137.977\t0\t0.008969\n967\t1.97361e-05\t-137.977\t0\t0.008912\n968\t1.96229e-05\t-137.977\t0\t0.00878\n969\t1.95103e-05\t-137.977\t0\t0.008889\n970\t1.93984e-05\t-137.977\t0\t0.008833\n971\t1.92871e-05\t-137.977\t0\t0.008765\n972\t1.91764e-05\t-137.977\t0\t0.008936\n973\t1.90664e-05\t-137.977\t0\t0.008865\n974\t1.8957e-05\t-137.977\t0\t0.008772\n975\t1.88482e-05\t-137.977\t0\t0.008883\n976\t1.87401e-05\t-137.977\t0\t0.008716\n977\t1.86326e-05\t-137.977\t0\t0.008848\n978\t1.85257e-05\t-137.977\t0\t0.008902\n979\t1.84194e-05\t-137.977\t0\t0.008767\n980\t1.83137e-05\t-137.977\t1\t0.008864\n981\t1.82086e-05\t-137.977\t0\t0.00891\n982\t1.81041e-05\t-137.977\t0\t0.008686\n983\t1.80003e-05\t-137.977\t0\t0.008962\n984\t1.7897e-05\t-137.977\t0\t0.008972\n985\t1.77943e-05\t-137.977\t0\t0.008752\n986\t1.76922e-05\t-137.977\t0\t0.008905\n987\t1.75907e-05\t-137.977\t0\t0.008841\n988\t1.74898e-05\t-137.977\t0\t0.008855\n989\t1.73895e-05\t-137.977\t0\t0.008889\n990\t1.72897e-05\t-137.977\t0\t0.008923\n991\t1.71905e-05\t-137.977\t0\t0.008746\n992\t1.70919e-05\t-137.977\t0\t0.008875\n993\t1.69938e-05\t-137.977\t0\t0.008746\n994\t1.68963e-05\t-137.977\t0\t0.008762\n995\t1.67994e-05\t-137.977\t0\t0.008854\n996\t1.6703e-05\t-137.977\t0\t0.008782\n997\t1.66071e-05\t-137.977\t0\t0.008768\n998\t1.65119e-05\t-137.977\t0\t0.0088\n999\t1.64171e-05\t-137.977\t0\t0.008842\n1000\t1.63229e-05\t-137.977\t0\t0.008814\n\nFinalizing...\nTotal time to process flow.dat:\t10\t9.25086\n\nOutput File Names: \nflow.shhh.qual\nflow.shhh.fasta\nflow.shhh.names\nflow.shhh.counts\nflow.shhh.groups\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2602.dat' flow.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2603.dat' lookup.dat && echo 'shhh.flows( flow=flow.dat, lookup=lookup.dat, maxiter=1000, mindelta=0.000001000000, cutoff=0.01, sigma=0.06, order=A, large=10000, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:26:13.200749", "params": {"cutoff": "\"0.01\"", "mindelta": "\"1e-06\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "order": "\"A\"", "large": "\"10000\"", "maxiter": "\"1000\"", "sigma": "\"0.06\"", "prob": "{\"source\": \"hist\", \"lookup\": {\"values\": [{\"src\": \"hda\", \"id\": 2603}]}, \"__current_case__\": 1}"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "2971", "id": "0a751ae1f530d3b0", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_shhh_flows.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "5777a6cd586901d1"}, "name": {"src": "hda", "id": "e133ff35d26a8aa1"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "5777a6cd586901d1", "uuid": "1cc6590e-9390-471b-a21c-74538fdc1b4a"}, "name": {"src": "hda", "id": "e133ff35d26a8aa1", "uuid": "cb099a08-1915-49f5-b316-653980bb6909"}}, "update_time": "2018-02-08T18:27:08.235372", "tool_id": "mothur_shhh_seqs", "outputs": {"shhh_fasta": {"src": "hda", "id": "b19ebbe1c1d1e884", "uuid": "d9994bf8-4f31-4d47-96fc-2f72512afb63"}, "logfile": {"src": "hda", "id": "a49605dd668f2992", "uuid": "9cc76af6-07f5-458a-878f-d84c573e7999"}, "shhh_map": {"src": "hda", "id": "e64b5914d8ba7854", "uuid": "5f9bd29b-c4a9-411d-8543-68f262cdc3b8"}, "shhh_names": {"src": "hda", "id": "3e4ace9eb2eabedd", "uuid": "5834d8cb-f75c-4513-9458-3678121edd82"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > shhh.seqs(fasta=fasta.dat,name=name.dat,sigma=0.01,processors=1)\n\nUsing 1 processors.\n\nCalculating distances...\n0\t0\n9\t0\nDone.\n/******************************************/\nRunning command: cluster(phylip=fasta.shhh.dist, method=furthest, cutoff=0.08)\n\nUsing 1 processors.\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nunique\t2\t8\t1\n0.05\t2\t6\t2\nIt took 0 seconds to cluster\n\nOutput File Names: \nfasta.shhh.fn.sabund\nfasta.shhh.fn.rabund\nfasta.shhh.fn.list\n\n/******************************************/\n\nOutput File Names: \nfasta.shhh_seqs.map\nfasta.shhh_seqs.fasta\nfasta.shhh_seqs.names\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2610.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2611.dat' name.dat && ln -s 'None' group.dat && echo 'shhh.seqs( fasta=fasta.dat, name=name.dat, sigma=0.01, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:27:04.735094", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "group": "null", "sigma": "\"0.01\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3138", "id": "5bc2b2daf3f5f2ab", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_shhh_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta_in": {"src": "hda", "id": "1cd50e97ce5776f1"}}, "job": {"inputs": {"fasta_in": {"src": "hda", "id": "1cd50e97ce5776f1", "uuid": "9e7a7665-6ca5-4527-a9e9-a63baa6cbfed"}}, "update_time": "2018-02-08T18:27:39.681966", "tool_id": "mothur_sort_seqs", "outputs": {"logfile": {"src": "hda", "id": "346c6a409ca2df72", "uuid": "42f2fa77-d96e-4a9c-8939-d912cb67fc1a"}, "fasta_out": {"src": "hda", "id": "4628ae23f7bf7c59", "uuid": "8900356a-102f-4939-a96f-2d0a8afcf3b9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sort.seqs(fasta=fasta_in.dat,large=false)\n\nUsing fasta_in.dat to determine the order. It contains 98 sequences.\n\nOutput File Names: \nfasta_in.sorted.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2616.dat' fasta_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' flow_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' tax_in.dat && ln -s 'None' accnos.dat && ln -s 'None' count.dat && echo 'sort.seqs( fasta=fasta_in.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:27:35.785519", "params": {"count": "null", "accnos": "null", "dbkey": "\"hg17\"", "large": "\"false\"", "group_in": "null", "tax_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "flow_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3256", "id": "25291f5c38a3933e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sort_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"qfile_in": {"src": "hda", "id": "824743428f8b7c8d"}}, "job": {"inputs": {"qfile_in": {"src": "hda", "id": "824743428f8b7c8d", "uuid": "c9c55f34-7a04-43e3-bb69-ac0f242ccad2"}}, "update_time": "2018-02-08T18:27:59.212444", "tool_id": "mothur_sort_seqs", "outputs": {"logfile": {"src": "hda", "id": "31e158d4a9000232", "uuid": "808de0d3-c1fc-4457-91df-b06e3bcfe3b4"}, "qfile_out": {"src": "hda", "id": "db53bbfda4df48de", "uuid": "cbf4ab99-8973-422b-bd93-f147f201103d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sort.seqs(qfile=qfile_in.dat,large=false)\n\nUsing qfile_in.dat to determine the order. It contains 25 sequences.\n\nOutput File Names: \nqfile_in.sorted.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2619.dat' qfile_in.dat && ln -s 'None' flow_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' tax_in.dat && ln -s 'None' accnos.dat && ln -s 'None' count.dat && echo 'sort.seqs( qfile=qfile_in.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:27:56.051824", "params": {"count": "null", "fasta_in": "null", "dbkey": "\"hg17\"", "large": "\"false\"", "group_in": "null", "tax_in": "null", "accnos": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "flow_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3351", "id": "211e907a60c908e9", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sort_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"group_in": {"src": "hda", "id": "16d880b4edd0df2d"}}, "job": {"inputs": {"group_in": {"src": "hda", "id": "16d880b4edd0df2d", "uuid": "75b739f3-ddc0-4f71-9c88-3d21ab47d1e8"}}, "update_time": "2018-02-08T18:28:18.033002", "tool_id": "mothur_sort_seqs", "outputs": {"group_out": {"src": "hda", "id": "3f996a02633eb191", "uuid": "0dbf0bc4-fcc8-44d2-a46f-0a9215046bf8"}, "logfile": {"src": "hda", "id": "8cbd5613d4a60bc9", "uuid": "405d9f6c-ca17-411f-847c-25be73d2e6a7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sort.seqs(group=group_in.dat,large=false)\n\nUsing group_in.dat to determine the order. It contains 98 sequences.\n\nOutput File Names: \ngroup_in.sorted.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' fasta_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' flow_in.dat && ln -s 'None' name_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2622.dat' group_in.dat && ln -s 'None' tax_in.dat && ln -s 'None' accnos.dat && ln -s 'None' count.dat && echo 'sort.seqs( group=group_in.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:28:13.805640", "params": {"count": "null", "accnos": "null", "fasta_in": "null", "dbkey": "\"hg17\"", "large": "\"false\"", "tax_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "flow_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3445", "id": "0a2f8c1113cd2df5", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sort_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"count": {"src": "hda", "id": "8bf06e7b389a0ffb"}, "fasta_in": {"src": "hda", "id": "d1826c27f8cbf4a0"}}, "job": {"inputs": {"count": {"src": "hda", "id": "8bf06e7b389a0ffb", "uuid": "8e56c30e-7b59-4767-991f-d9688891c932"}, "fasta_in": {"src": "hda", "id": "d1826c27f8cbf4a0", "uuid": "98024751-92aa-4a52-aafd-26a9121a53e3"}}, "update_time": "2018-02-08T18:28:40.437807", "tool_id": "mothur_sort_seqs", "outputs": {"logfile": {"src": "hda", "id": "a300c5f999d0cfba", "uuid": "9ca6f143-214e-4fc6-adcc-6162c94689f3"}, "fasta_out": {"src": "hda", "id": "a46cf8d4ce36a708", "uuid": "16dd653a-47fd-4e16-bd9a-591390988f25"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sort.seqs(fasta=fasta_in.dat,count=count.dat,large=false)\n\nUsing fasta_in.dat to determine the order. It contains 98 sequences.\nOrdered 96 sequences from count.dat.\n\nOutput File Names: \nfasta_in.sorted.dat\ncount.sorted.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2625.dat' fasta_in.dat && ln -s 'None' qfile_in.dat && ln -s 'None' flow_in.dat && ln -s 'None' name_in.dat && ln -s 'None' group_in.dat && ln -s 'None' tax_in.dat && ln -s 'None' accnos.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2626.dat' count.dat && echo 'sort.seqs( fasta=fasta_in.dat, count=count.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:28:37.404630", "params": {"accnos": "null", "dbkey": "\"hg17\"", "large": "\"false\"", "group_in": "null", "tax_in": "null", "qfile_in": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "flow_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3576", "id": "b2c5ddb42b4715c3", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sort_seqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"group_in": {"src": "hda", "id": "c76193b10ac0b663"}, "fasta_in": {"src": "hda", "id": "e706d88604ad5bf3"}, "qfile_in": {"src": "hda", "id": "ba12713cb9628bec"}}, "job": {"inputs": {"group_in": {"src": "hda", "id": "c76193b10ac0b663", "uuid": "c6a6d783-c7c1-493d-be2f-a876d6323589"}, "fasta_in": {"src": "hda", "id": "e706d88604ad5bf3", "uuid": "991a3a59-3d83-4fae-b11a-65f430fdd634"}, "qfile_in": {"src": "hda", "id": "ba12713cb9628bec", "uuid": "02124aba-f4fe-4838-ba90-cb365b9e2576"}}, "update_time": "2018-02-08T18:29:05.595883", "tool_id": "mothur_sort_seqs", "outputs": {"fasta_out": {"src": "hda", "id": "c7b310e48f70e08a", "uuid": "b17499bf-c0d5-4d5b-b7c3-9f4f404ec20b"}, "group_out": {"src": "hda", "id": "33554e7d04f7eca7", "uuid": "e3eafd81-6d26-49ba-9f8a-d6c6a9c8ad6e"}, "logfile": {"src": "hda", "id": "ebfc3f08b652b108", "uuid": "97d399d6-1351-47df-900d-f6ffaca100a0"}, "qfile_out": {"src": "hda", "id": "b04e7e1be4882fea", "uuid": "8ddadd71-545d-482b-a95b-0178f6f4931d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sort.seqs(fasta=fasta_in.dat,qfile=qfile_in.dat,group=group_in.dat,larg \re=false)\n\nUsing fasta_in.dat to determine the order. It contains 98 sequences.\nM00967_43_000000000-A3JHG_1_1101_19936_3208 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_15923_3823 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_14010_4122 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_10776_4204 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_22487_4260 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_13293_4703 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_24357_4866 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_23552_5194 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_7326_5417 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_11148_6457 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_7079_6722 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_8607_6805 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_15208_7185 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_4525_7317 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_9121_7358 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_8480_7498 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_11790_7581 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_20566_7622 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_10073_7632 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_5170_7771 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_18966_7778 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_5494_7973 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_10246_8076 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_23931_8157 was not in the contained the file which determined the order, adding it to the end.\nM00967_43_000000000-A3JHG_1_1101_18269_8162 was not in the contained the file which determined the order, adding it to the end.\nOrdered 25 sequences from qfile_in.dat.\nOrdered 98 sequences from group_in.dat.\n\nOutput File Names: \nfasta_in.sorted.dat\nqfile_in.sorted.dat\ngroup_in.sorted.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2629.dat' fasta_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2630.dat' qfile_in.dat && ln -s 'None' flow_in.dat && ln -s 'None' name_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2631.dat' group_in.dat && ln -s 'None' tax_in.dat && ln -s 'None' accnos.dat && ln -s 'None' count.dat && echo 'sort.seqs( fasta=fasta_in.dat, qfile=qfile_in.dat, group=group_in.dat, large=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:29:02.185987", "params": {"count": "null", "dbkey": "\"hg17\"", "large": "\"false\"", "tax_in": "null", "accnos": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "flow_in": "null", "name_in": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3731", "id": "0b396aab4382c1fc", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sort_seqs.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"search|input": {"src": "hda", "id": "cdd1b52138ec3e26"}, "cutoff": "1", "fasta": {"src": "hda", "id": "9db5f5afb41f3f39"}, "search|type": "count", "accnos": true}, "job": {"inputs": {"input": {"src": "hda", "id": "cdd1b52138ec3e26", "uuid": "f97d3777-7d5a-496e-a5b7-7b011b6d852e"}, "fasta": {"src": "hda", "id": "9db5f5afb41f3f39", "uuid": "a7691f15-bd94-4b72-b433-456b92cec73b"}}, "update_time": "2018-02-08T18:29:36.918042", "tool_id": "mothur_split_abund", "outputs": {"rare_accnos": {"src": "hda", "id": "05138872ca68fd64", "uuid": "ea36fba9-61ad-42b7-b35f-5520c9a4d20b"}, "abund_accnos": {"src": "hda", "id": "a35b136816ca4ba6", "uuid": "3c3ae35d-b8cc-416d-9944-0e815e007ca2"}, "abund_count": {"src": "hda", "id": "91276d14d453a3b2", "uuid": "896492f3-c80a-4355-90ba-18c48015365b"}, "rare_count": {"src": "hda", "id": "63060f896ee9403e", "uuid": "2ec8cd6d-b418-41a4-a12f-016c3c9f4dec"}, "logfile": {"src": "hda", "id": "f678f751d18ba8c1", "uuid": "04e53333-620c-42af-bc0e-f31a264d2031"}, "rare_fasta": {"src": "hda", "id": "2efa83e2c9a3aa93", "uuid": "9c58ec60-46e1-467b-8277-c15fb5e74f9d"}, "abund_fasta": {"src": "hda", "id": "61dab379dc68ff95", "uuid": "dc7edc84-60bb-4e28-959e-2e9bbfb5cec4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > split.abund(fasta=fasta.dat,count=search_input.dat,accnos=true,cutoff=1 \r)\nYou cannot pick groups without group info in your count file; I will disregard your groups selection.\nU68620 is not in your names or list file, ignoring.\nU68667 is not in your names or list file, ignoring.\n\nOutput File Names: \nsearch_input.rare.count_table\nsearch_input.abund.count_table\nrare.accnos\nabund.accnos\nfasta.rare.fasta\nfasta.abund.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2636.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2637.dat' search_input.dat && echo 'split.abund( fasta=fasta.dat, count=search_input.dat, accnos=true, cutoff=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:29:33.061698", "params": {"cutoff": "\"1\"", "search": "{\"input\": {\"values\": [{\"src\": \"hda\", \"id\": 2637}]}, \"type\": \"count\", \"__current_case__\": 2}", "dbkey": "\"hg17\"", "split": "{\"dosplit\": \"no\", \"__current_case__\": 1}", "accnos": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3854", "id": "35c110361200e678", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_split_abund.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"search|input": {"src": "hda", "id": "d7e1f95024c927b1"}, "cutoff": "1", "fasta": {"src": "hda", "id": "9cd1e40020f8e503"}, "search|type": "name", "accnos": true}, "job": {"inputs": {"input": {"src": "hda", "id": "d7e1f95024c927b1", "uuid": "7dc73945-9565-471d-b4fa-4bd8a597de34"}, "fasta": {"src": "hda", "id": "9cd1e40020f8e503", "uuid": "87d8b73f-3f9f-4a3a-afc6-813cec7c4224"}}, "update_time": "2018-02-08T18:30:27.641772", "tool_id": "mothur_split_abund", "outputs": {"abund_names": {"src": "hda", "id": "f791823f89c6163a", "uuid": "7aa7cb68-2cfc-4c17-9401-c1b551ecf743"}, "rare_names": {"src": "hda", "id": "d1ac60a58050f6ed", "uuid": "e4a6a0c5-eb4c-4d24-8617-1dc1aa54a082"}, "rare_accnos": {"src": "hda", "id": "db502a362bf63aa5", "uuid": "1e51b011-00bb-4ffa-8ccd-a0d66e5e5152"}, "abund_accnos": {"src": "hda", "id": "e3466765404e7b1c", "uuid": "247d27da-0689-4e33-b7d3-4b6235ba0cab"}, "logfile": {"src": "hda", "id": "fc26c44486a936db", "uuid": "19c47713-a360-477c-8985-ed31d2e2c3a4"}, "rare_fasta": {"src": "hda", "id": "ab82f8d568f8fb18", "uuid": "463dd8c9-26dd-4416-9b1a-6a5fd9f4c2df"}, "abund_fasta": {"src": "hda", "id": "11d9965bae4dbe18", "uuid": "efd16a42-3ca0-42c4-9844-963d7cfccc31"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > split.abund(fasta=fasta.dat,name=search_input.dat,accnos=true,cutoff=1) \r\u001b[A\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[K)\nU68620 is not in your names or list file, ignoring.\nU68667 is not in your names or list file, ignoring.\n\nOutput File Names: \nsearch_input.rare.names\nsearch_input.abund.names\nsearch_input.rare.accnos\nsearch_input.abund.accnos\nfasta.rare.fasta\nfasta.abund.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2645.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2646.dat' search_input.dat && echo 'split.abund( fasta=fasta.dat, name=search_input.dat, accnos=true, cutoff=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:30:23.593046", "params": {"cutoff": "\"1\"", "search": "{\"input\": {\"values\": [{\"src\": \"hda\", \"id\": 2646}]}, \"type\": \"name\", \"__current_case__\": 0}", "dbkey": "\"hg17\"", "split": "{\"dosplit\": \"no\", \"__current_case__\": 1}", "accnos": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "3979", "id": "3f65e49d411bc75a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_split_abund.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"search|input": {"src": "hda", "id": "32fe67477db245f3"}, "cutoff": "1", "search|type": "name", "split|dosplit": "yes", "split|groups": ["forest", "pasture"], "split|group": {"src": "hda", "id": "3d0e97279f557300"}, "fasta": {"src": "hda", "id": "c2087ad656f5fd9b"}, "accnos": true}, "job": {"inputs": {"input": {"src": "hda", "id": "32fe67477db245f3", "uuid": "fdf6e7df-2c44-4074-9c6b-8bd1c696aac9"}, "fasta": {"src": "hda", "id": "c2087ad656f5fd9b", "uuid": "ebbabcec-254a-49dc-b629-f6187045222f"}, "group": {"src": "hda", "id": "3d0e97279f557300", "uuid": "9ea1d5dd-7a33-4e51-b05d-195c622a3e6d"}}, "update_time": "2018-02-08T18:31:24.163950", "tool_id": "mothur_split_abund", "outputs": {"abund_names": {"src": "hda", "id": "3220fd9000201448", "uuid": "1b92abd6-a9e4-443c-9ef2-4fbdce603b9f"}, "__new_primary_file_pasture|pasture__": {"src": "hda", "id": "b17c01ef6787726a", "uuid": "857bb644-caec-4d2e-a8cc-8c0a5a3a2ef2"}, "rare_accnos": {"src": "hda", "id": "8d1eae6dc7520e79", "uuid": "c3b60632-0579-497d-928e-f5220103ac0c"}, "abund_groups": {"src": "hda", "id": "61f64de29b08b609", "uuid": "bc78c0ea-7561-436d-9d35-d7e9f1f33acd"}, "rare_groups": {"src": "hda", "id": "cd67d5a3e6361697", "uuid": "a95f69ca-b6cc-474e-b34f-5502a685396a"}, "abund_accnos": {"src": "hda", "id": "52716b0ebe92fa96", "uuid": "5f2b1f65-bf25-44a4-8d30-07881af0d9ab"}, "__new_primary_file_pasture|forest__": {"src": "hda", "id": "546df6a89628ce23", "uuid": "06404d8a-b8cc-4666-b24b-14b417fa99e7"}, "logfile": {"src": "hda", "id": "0b9ed415b6d11582", "uuid": "b0cc327d-b3f1-4227-be98-ca2b7db2f6af"}, "rare_fasta": {"src": "hda", "id": "606329f9408a9a88", "uuid": "3653c7f2-b854-4803-9482-7f99fdaa5890"}, "abund_fasta": {"src": "hda", "id": "8cbfae124c6c8023", "uuid": "d9262219-3839-4331-8094-4823c755ccc1"}, "rare_names": {"src": "hda", "id": "ee2119e1cbbc112d", "uuid": "63d0f8b0-a860-4e54-8784-985282623795"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > split.abund(fasta=fasta.dat,name=search_input.dat,group=split_group.dat \r,groups=forest-pasture,accnos=true,cutoff=1)\nU68620 is not in your names or list file, ignoring.\nU68667 is not in your names or list file, ignoring.\n\nOutput File Names: \nsearch_input.forest.abund.names\nsearch_input.forest.rare.names\nsearch_input.pasture.abund.names\nsearch_input.pasture.rare.names\nsplit_group.forest.abund.groups\nsplit_group.forest.rare.groups\nsplit_group.pasture.abund.groups\nsplit_group.pasture.rare.groups\nsearch_input.forest.abund.accnos\nsearch_input.forest.rare.accnos\nsearch_input.pasture.abund.accnos\nsearch_input.pasture.rare.accnos\nfasta.forest.abund.fasta\nfasta.forest.rare.fasta\nfasta.pasture.abund.fasta\nfasta.pasture.rare.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2654.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2655.dat' search_input.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2656.dat' split_group.dat && echo 'split.abund( fasta=fasta.dat, name=search_input.dat, group=split_group.dat, groups=forest-pasture, accnos=true, cutoff=1 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:31:18.285897", "params": {"cutoff": "\"1\"", "search": "{\"input\": {\"values\": [{\"src\": \"hda\", \"id\": 2655}]}, \"type\": \"name\", \"__current_case__\": 0}", "dbkey": "\"hg17\"", "split": "{\"dosplit\": \"yes\", \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 2656}]}, \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 0}", "accnos": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n/tmp/saskia/tmpKSDp0p/job_working_directory/000/727/galaxy_727.sh: line 40: [: /tmp/saskia/tmpKSDp0p/job_working_directory/000/727/working/fasta.forest.abund.fasta: binary operator expected\n/tmp/saskia/tmpKSDp0p/job_working_directory/000/727/galaxy_727.sh: line 40: [: /tmp/saskia/tmpKSDp0p/job_working_directory/000/727/working/fasta.forest.rare.fasta: binary operator expected\n/tmp/saskia/tmpKSDp0p/job_working_directory/000/727/galaxy_727.sh: line 40: [: /tmp/saskia/tmpKSDp0p/job_working_directory/000/727/working/search_input.forest.abund.names: binary operator expected\n/tmp/saskia/tmpKSDp0p/job_working_directory/000/727/galaxy_727.sh: line 40: [: /tmp/saskia/tmpKSDp0p/job_working_directory/000/727/working/search_input.forest.rare.names: binary operator expected\n/tmp/saskia/tmpKSDp0p/job_working_directory/000/727/galaxy_727.sh: line 40: [: /tmp/saskia/tmpKSDp0p/job_working_directory/000/727/working/search_input.forest.abund.accnos: binary operator expected\n/tmp/saskia/tmpKSDp0p/job_working_directory/000/727/galaxy_727.sh: line 40: [: /tmp/saskia/tmpKSDp0p/job_working_directory/000/727/working/search_input.forest.rare.accnos: binary operator expected\n", "job_metrics": [], "model_class": "Job", "external_id": "4120", "id": "8398b6d40e2a8a5d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_split_abund.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"search|input": {"src": "hda", "id": "a91c1fc0bea9aceb"}, "cutoff": "2", "search|type": "list", "split|dosplit": "yes", "split|groups": ["forest", "pasture"], "split|group": {"src": "hda", "id": "38625663880471ee"}, "fasta": {"src": "hda", "id": "9d6afbc2e4d51931"}, "accnos": true}, "job": {"inputs": {"input": {"src": "hda", "id": "a91c1fc0bea9aceb", "uuid": "e90e80a1-a39b-4caa-a737-1cc3a752ad15"}, "fasta": {"src": "hda", "id": "9d6afbc2e4d51931", "uuid": "077c9849-0f47-47e2-b871-4e78e1e080e4"}, "group": {"src": "hda", "id": "38625663880471ee", "uuid": "34f1049d-d4a0-4016-8bb1-9624460bac3f"}}, "update_time": "2018-02-08T18:33:04.548476", "tool_id": "mothur_split_abund", "outputs": {"__new_primary_file_pasture.unique|pasture.0.12__": {"src": "hda", "id": "34f3021ca818ca08", "uuid": "3da82f1c-e964-42e3-a67b-4c37e89c6d44"}, "__new_primary_file_unique.pasture|0.10.pasture__": {"src": "hda", "id": "44df9ab0c82911b3", "uuid": "dddf1502-abe5-446a-bbfb-657c4bbf68ef"}, "__new_primary_file_pasture.unique|pasture.unique__": {"src": "hda", "id": "2d327ef0fd7d7413", "uuid": "bea94b67-85b9-40d9-97f5-4eb0c56fe9c2"}, "__new_primary_file_pasture.unique|forest.0.55__": {"src": "hda", "id": "21287174daf9a2ff", "uuid": "7cca10c9-abf6-446e-a3e4-0fb8f1e29b14"}, "__new_primary_file_pasture.unique|pasture.0.41__": {"src": "hda", "id": "a3abe17bd62f7963", "uuid": "66f278e4-3536-4bab-b9a7-c22659d275d0"}, "__new_primary_file_unique.pasture|0.13.forest__": {"src": "hda", "id": "a1a7be0669113a63", "uuid": "75ee928d-f83b-4346-8968-10483df03e3b"}, "__new_primary_file_pasture.unique|pasture.0.08__": {"src": "hda", "id": "1001f6eb6280cf29", "uuid": "7e13c17c-0314-4a2f-8e07-628673b1bdb4"}, "__new_primary_file_unique.pasture|0.16.pasture__": {"src": "hda", "id": "1f536837108bb3e1", "uuid": "5aabb9cb-f0c2-4d03-b8e3-e94d83049d88"}, "__new_primary_file_pasture.unique|pasture.0.14__": {"src": "hda", "id": "fa1b44cc7da7537e", "uuid": "4e208f9a-82da-49dc-8923-2521ef01df22"}, "__new_primary_file_unique.pasture|0.25.forest__": {"src": "hda", "id": "3785db0e6e8ab673", "uuid": "9e637bab-957a-4a25-8b0c-3a205ef69d90"}, "__new_primary_file_unique.pasture|0.12.forest__": {"src": "hda", "id": "f6eb48b5c6876d69", "uuid": "dda6c294-429f-4f5d-949d-7e68d2fd5ce9"}, "__new_primary_file_unique.pasture|0.06.pasture__": {"src": "hda", "id": "0d9b944f9ea1507d", "uuid": "27989134-cccf-4427-8410-1d523117f94d"}, "__new_primary_file_unique.pasture|0.07.pasture__": {"src": "hda", "id": "daa7a493491aea7c", "uuid": "6a4e6537-72b8-4abf-8d61-ef107b5321b3"}, "__new_primary_file_pasture.unique|forest.0.29__": {"src": "hda", "id": "71e2f5fbec539cb0", "uuid": "cbbfa7f6-dc55-43d2-adae-cb1c13d1249f"}, "__new_primary_file_pasture.unique|forest.0.04__": {"src": "hda", "id": "0837ee7761de7d5d", "uuid": "bb6733da-8f28-44ad-9574-53b0a10af108"}, "__new_primary_file_pasture.unique|forest.0.38__": {"src": "hda", "id": "73280a05d3abe2bb", "uuid": "635e94ec-9a90-4288-9491-c4aca3a7279a"}, "__new_primary_file_pasture.unique|forest.0.23__": {"src": "hda", "id": "f4846dae9c46dda8", "uuid": "ff4e0899-60c2-4b72-8bd8-522081d236d3"}, "__new_primary_file_pasture.unique|pasture.0.19__": {"src": "hda", "id": "e9d10842c2bd9548", "uuid": "07bc6a14-dff7-4105-990f-b8c0710addbc"}, "__new_primary_file_pasture.unique|pasture.0.02__": {"src": "hda", "id": "7f06dca5a68a4df6", "uuid": "4aa58319-c5b9-44a6-b2eb-3cd5b39f86fe"}, "__new_primary_file_pasture.unique|pasture.0.06__": {"src": "hda", "id": "a3a9be14640a210a", "uuid": "c4fdaad7-7e60-40d0-9e97-bacf289903ee"}, "__new_primary_file_pasture.unique|pasture.0.29__": {"src": "hda", "id": "ffd8b0fd2ec1809d", "uuid": "48629431-6aa4-496d-8891-7e083471a389"}, "__new_primary_file_unique.pasture|0.09.pasture__": {"src": "hda", "id": "94c8da2fb4589d20", "uuid": "e1c39953-22ae-4f50-b048-d147040f4694"}, "__new_primary_file_pasture.unique|pasture.0.33__": {"src": "hda", "id": "927ae8c8ca1bfc0e", "uuid": "12a9831b-a025-44fd-9301-b5fe99792bd5"}, "__new_primary_file_unique.pasture|0.05.pasture__": {"src": "hda", "id": "0be5b708c541367a", "uuid": "24773a69-72af-488f-b363-696a7f29c4ff"}, "__new_primary_file_pasture.unique|forest.0.08__": {"src": "hda", "id": "e36cd78fdee01d48", "uuid": "55a92db0-4b4c-400b-be26-f50ecf8c5505"}, "logfile": {"src": "hda", "id": "45f6fabd1e777caa", "uuid": "4421e7af-5733-477f-9551-5145b0a246fc"}, "__new_primary_file_unique.pasture|0.18.forest__": {"src": "hda", "id": "9723e18dcd32f342", "uuid": "7361ab1a-9df3-48d5-8b70-3b3bcc6c9d10"}, "__new_primary_file_unique.pasture|0.01.forest__": {"src": "hda", "id": "020c1c2acedf3864", "uuid": "f815e66b-e683-494b-adac-620445019503"}, "__new_primary_file_unique.pasture|0.02.forest__": {"src": "hda", "id": "aa7c1f63b90ef34b", "uuid": "a6403c84-fe72-48b5-9d70-3a3f0e4d4ad2"}, "__new_primary_file_pasture.unique|forest.0.16__": {"src": "hda", "id": "f6599a81850ce372", "uuid": "8b475d71-13b8-40d6-a543-8cd4228dc641"}, "__new_primary_file_pasture.unique|forest.0.18__": {"src": "hda", "id": "8c59d3e9558d8b1d", "uuid": "29a5b6a0-dfc8-4ca4-a788-9a7eaf7e84dd"}, "__new_primary_file_unique.pasture|0.10.forest__": {"src": "hda", "id": "6ffcaf11caef1146", "uuid": "0b5d95aa-1a18-44f5-be59-53992c64e97a"}, "__new_primary_file_pasture.unique|forest.0.27__": {"src": "hda", "id": "80f25062d487fa22", "uuid": "9e898022-521a-4eda-86bd-dde54a296a0a"}, "__new_primary_file_unique.pasture|0.20.forest__": {"src": "hda", "id": "10bcf26552f7eef4", "uuid": "95ec2ae5-b09f-4ef9-b7bc-2242ae754aa5"}, "__new_primary_file_unique.pasture|0.17.pasture__": {"src": "hda", "id": "ea2bb0f87fe2e422", "uuid": "e79680fe-b19d-4ea2-8322-45672c3039c7"}, "__new_primary_file_pasture.unique|forest.0.12__": {"src": "hda", "id": "f3d7d5a05f01d749", "uuid": "f8aa6fbe-88d1-4f5f-bf58-73d6d0c40de9"}, "__new_primary_file_pasture.unique|pasture.0.15__": {"src": "hda", "id": "a6f55d07804e6be4", "uuid": "83384801-2119-494f-8ad8-46f266e1379c"}, "__new_primary_file_pasture.unique|forest.0.09__": {"src": "hda", "id": "dfaccdf5ff89bc40", "uuid": "5508dda4-dffd-4d76-8ac4-f39db9c73cd7"}, "__new_primary_file_unique.pasture|0.04.forest__": {"src": "hda", "id": "35b8ee2b5f1901aa", "uuid": "004c182b-4a6d-4b30-83d7-61aaefba68e5"}, "__new_primary_file_unique.pasture|unique.pasture__": {"src": "hda", "id": "bf8cc34430ad9906", "uuid": "375d2d4a-8bd5-49e3-a21d-85fa0996bedb"}, "__new_primary_file_pasture.unique|forest.0.14__": {"src": "hda", "id": "32ab6f30237f4582", "uuid": "13e98bfd-927f-4ce2-8d4f-ee46eb330754"}, "__new_primary_file_unique.pasture|0.12.pasture__": {"src": "hda", "id": "633c140f2b7719e3", "uuid": "e7e67d3d-c604-495a-889f-647c4ab6a87b"}, "__new_primary_file_pasture.unique|pasture.0.36__": {"src": "hda", "id": "52d813d703956661", "uuid": "1ff38245-86de-423f-803f-bf37ab57b317"}, "__new_primary_file_unique.pasture|0.24.pasture__": {"src": "hda", "id": "8b71d8e9577cc223", "uuid": "f6bd7e3b-df3c-4418-b306-c5ee95bab497"}, "__new_primary_file_pasture.unique|pasture.0.05__": {"src": "hda", "id": "0d9acbe318150a95", "uuid": "70098a3a-585b-42fd-82d0-bd733cab23fa"}, "__new_primary_file_unique.pasture|0.02.pasture__": {"src": "hda", "id": "f9e468553a25d9fd", "uuid": "4989e0f3-d87c-4b7a-932d-2cb15af6cbc0"}, "__new_primary_file_unique.pasture|0.33.forest__": {"src": "hda", "id": "b23e703b5ea7d32f", "uuid": "a6c7bad1-3b42-416c-9ed3-678a375f1ff4"}, "__new_primary_file_unique.pasture|0.29.pasture__": {"src": "hda", "id": "38df33cb423066a8", "uuid": "d4d12825-caa9-4209-ab68-561719fd745c"}, "__new_primary_file_unique.pasture|0.03.forest__": {"src": "hda", "id": "94fa75d45510e6a9", "uuid": "bc3a9d56-8f3b-4e71-ad11-28b57a805e93"}, "__new_primary_file_pasture.unique|pasture.0.22__": {"src": "hda", "id": "fe56f2ee220cc361", "uuid": "2a848024-c2f7-4af4-83c9-d048e744153f"}, "__new_primary_file_unique.pasture|0.41.forest__": {"src": "hda", "id": "03dd021335d99a10", "uuid": "415197a8-6f4a-4e1e-b962-666ae226e473"}, "__new_primary_file_pasture.unique|forest.0.45__": {"src": "hda", "id": "05c81e5a27822056", "uuid": "6d838c86-e074-42bf-90b8-1bc0f48c1923"}, "__new_primary_file_pasture.unique|pasture.0.24__": {"src": "hda", "id": "5de53bf23c346d82", "uuid": "e9e31f7b-60fd-43d3-960c-b73d94128f67"}, "__new_primary_file_unique.pasture|0.04.pasture__": {"src": "hda", "id": "592507f01b7f6669", "uuid": "72727406-5132-4f8b-a030-659a72f837da"}, "__new_primary_file_pasture.unique|forest.0.20__": {"src": "hda", "id": "839fa62261ce6bf7", "uuid": "74483308-c0a0-4cf9-99f8-0109f7cf4970"}, "__new_primary_file_pasture.unique|pasture.0.18__": {"src": "hda", "id": "703e5a02f7219220", "uuid": "e4921943-6b1c-47de-869a-ded21bd5a2aa"}, "__new_primary_file_pasture.unique|pasture.0.20__": {"src": "hda", "id": "5c5231f664a2e9d4", "uuid": "cc06e5cd-cc93-4b0a-a349-32e388076cf3"}, "__new_primary_file_pasture.unique|pasture.0.03__": {"src": "hda", "id": "b45c27f9d711498e", "uuid": "a5852b81-f3e5-4df1-9bdc-c73aeab3044d"}, "__new_primary_file_unique.pasture|0.27.pasture__": {"src": "hda", "id": "0fbb931d5effebbf", "uuid": "af68633e-8907-410a-83e4-0cc0e04c6563"}, "__new_primary_file_pasture.unique|pasture.0.55__": {"src": "hda", "id": "a9b2663a291f3852", "uuid": "baf2ba41-ce3b-40a7-b33b-6445dcbc0351"}, "__new_primary_file_pasture.unique|pasture.0.07__": {"src": "hda", "id": "46f445f4cc858241", "uuid": "ec753803-07ee-48b7-a3fe-7587c7281bbf"}, "__new_primary_file_pasture.unique|pasture.0.26__": {"src": "hda", "id": "9d1030461f038268", "uuid": "fcaeaa00-9efc-4bbe-bf7f-1dce2c7a8d6b"}, "__new_primary_file_unique.pasture|0.01.pasture__": {"src": "hda", "id": "e57daa11a492a578", "uuid": "ba4f8bd2-0aee-43a6-a179-73145a47a3ac"}, "__new_primary_file_unique.pasture|0.45.pasture__": {"src": "hda", "id": "16c97d2a7181abd7", "uuid": "26ece572-a0e1-4466-9fae-6e7027fca5cf"}, "__new_primary_file_unique.pasture|0.19.pasture__": {"src": "hda", "id": "1265839b9aa49f36", "uuid": "a516da45-fb5b-4aa3-9497-2c68c8c93a2a"}, "__new_primary_file_pasture.unique|pasture.0.16__": {"src": "hda", "id": "eb0c3eb56993b7f9", "uuid": "ae753a6b-baaf-4edc-9d89-bd433101d818"}, "__new_primary_file_pasture.unique|forest.0.24__": {"src": "hda", "id": "c951bedc04e6642e", "uuid": "075d7464-a597-4a29-a5e8-007776918af8"}, "__new_primary_file_pasture.unique|pasture.0.45__": {"src": "hda", "id": "afc7695cd062ac4c", "uuid": "edf3630d-acfc-471b-93e9-7ed869d526c8"}, "__new_primary_file_unique.pasture|0.23.forest__": {"src": "hda", "id": "90f227e5e2787869", "uuid": "26b4cb56-0894-47ee-a3d0-d94903f0bc60"}, "__new_primary_file_pasture.unique|pasture.0.38__": {"src": "hda", "id": "b014b3235f08d488", "uuid": "98565b78-facb-4ab0-ab35-b24297b12cca"}, "__new_primary_file_pasture.unique|pasture.0.10__": {"src": "hda", "id": "5d482dc60d4e3f5d", "uuid": "47d7ef9e-7b48-4834-bed9-abc890da01d5"}, "__new_primary_file_pasture.unique|forest.0.26__": {"src": "hda", "id": "2b432fc82309b126", "uuid": "28507aad-72b8-49bb-bebc-a619a244ed68"}, "__new_primary_file_pasture.unique|forest.0.41__": {"src": "hda", "id": "8de162cf4791057a", "uuid": "4d94a55c-ca6f-49e4-9f09-27abc5064ab2"}, "__new_primary_file_unique.pasture|0.25.pasture__": {"src": "hda", "id": "8e684dcf60d2ff56", "uuid": "2f8e5dec-72c9-41f9-acbb-4ed848097c49"}, "__new_primary_file_pasture.unique|forest.0.13__": {"src": "hda", "id": "a97d935ada75dcc1", "uuid": "f8426c00-4b3a-4f5b-b5e2-5101e6c05883"}, "__new_primary_file_unique.pasture|0.27.forest__": {"src": "hda", "id": "4a45f4ceb05e1236", "uuid": "72805448-7856-4e35-bb42-c5b26ded7ba1"}, "__new_primary_file_pasture.unique|forest.0.19__": {"src": "hda", "id": "88a35741bbd524f3", "uuid": "18349777-c634-453c-ad72-3433e96010eb"}, "__new_primary_file_pasture.unique|forest.0.15__": {"src": "hda", "id": "5504b86ef49829d2", "uuid": "ffed533d-8345-4807-9b26-eca43038dc7b"}, "__new_primary_file_unique.pasture|0.36.forest__": {"src": "hda", "id": "612cea12058b045a", "uuid": "6e37e259-8df2-4b75-a863-f243ba4dc175"}, "__new_primary_file_pasture.unique|forest.0.32__": {"src": "hda", "id": "823a1bc8f61c9ec9", "uuid": "8cf1a1ad-abaf-4b27-986e-c588497d8be6"}, "__new_primary_file_unique.pasture|0.38.pasture__": {"src": "hda", "id": "95187c0e8b2e3d77", "uuid": "b31d739f-e0a0-4725-8aca-c72d5d8327b4"}, "__new_primary_file_unique.pasture|0.06.forest__": {"src": "hda", "id": "0070ab21b91d36af", "uuid": "3df335d7-193d-4e89-841c-657d3fcdc47b"}, "__new_primary_file_unique.pasture|0.22.pasture__": {"src": "hda", "id": "0789d886122f2087", "uuid": "f170bc74-0fd5-41a5-9b51-89fb1c4b8e89"}, "__new_primary_file_unique.pasture|0.11.forest__": {"src": "hda", "id": "1cf44ac8f2ca94da", "uuid": "3972e5be-af99-48b2-aa2b-af4b581f7bd0"}, "__new_primary_file_pasture.unique|pasture.0.23__": {"src": "hda", "id": "6a2fb5788687d052", "uuid": "731a8722-0b07-4761-bc92-86f6d61cb99e"}, "__new_primary_file_unique.pasture|0.21.pasture__": {"src": "hda", "id": "2ba45ba56ab11ec3", "uuid": "f0faceab-5344-4812-91f6-bcccfada240d"}, "__new_primary_file_unique.pasture|0.19.forest__": {"src": "hda", "id": "cfa5d4d4484eeebb", "uuid": "836ce5a8-9fa0-4627-8fc9-8445e2327743"}, "__new_primary_file_pasture.unique|forest.0.02__": {"src": "hda", "id": "786e143302d19395", "uuid": "0e0543ac-05f0-4371-884d-baa4431fd2e4"}, "__new_primary_file_pasture.unique|pasture.0.25__": {"src": "hda", "id": "e614c240f75d0125", "uuid": "93577a79-aeda-4838-9037-d4c79ab25276"}, "__new_primary_file_unique.pasture|0.55.pasture__": {"src": "hda", "id": "7a3d980bfef83efd", "uuid": "73ba5336-eb44-4f7a-85e0-3a5cb5731862"}, "__new_primary_file_pasture.unique|forest.0.21__": {"src": "hda", "id": "bc20c306c7363c6f", "uuid": "97fcceed-6bb9-4e09-a513-13baed2eba5a"}, "__new_primary_file_unique.pasture|0.18.pasture__": {"src": "hda", "id": "88c3e2aa0e098102", "uuid": "95c4c608-e0c5-4599-8129-a991a9bc9944"}, "__new_primary_file_unique.pasture|0.03.pasture__": {"src": "hda", "id": "41eb5160056d0dd7", "uuid": "5f5146d2-30ef-45c6-a740-48c6088b5c36"}, "__new_primary_file_pasture.unique|forest.0.06__": {"src": "hda", "id": "f1735000ceaa96c7", "uuid": "fd647ae7-3a87-4b2a-8bb5-fd12cd5d3c03"}, "__new_primary_file_unique.pasture|0.17.forest__": {"src": "hda", "id": "e92007f01f461c3b", "uuid": "b5d29455-87c4-4b8b-ab60-c669a45f14ff"}, "__new_primary_file_unique.pasture|0.21.forest__": {"src": "hda", "id": "a72cfe8d7dc00791", "uuid": "40c6c7b4-ea5f-4c18-8cd7-10323eeae6ef"}, "__new_primary_file_unique.pasture|unique.forest__": {"src": "hda", "id": "67eef77c2f9bcaa2", "uuid": "d1d40e8c-eaf0-4454-8797-f71a5b0b4460"}, "__new_primary_file_unique.pasture|0.26.forest__": {"src": "hda", "id": "a1ccf4ae9b8614ff", "uuid": "4a7e4482-82ac-4fcf-a4ad-235db114182c"}, "__new_primary_file_pasture.unique|pasture.0.21__": {"src": "hda", "id": "606e3ef8eac308b5", "uuid": "47dd1200-1fdc-415a-9e18-fb12611da2b0"}, "__new_primary_file_unique.pasture|0.45.forest__": {"src": "hda", "id": "22cb5fc644c58a5a", "uuid": "df612a46-d11d-4ecf-af77-e9e4d16d9fed"}, "__new_primary_file_unique.pasture|0.33.pasture__": {"src": "hda", "id": "0e56755c1543e19a", "uuid": "81f52878-1f03-4a9a-8fb8-7f1da327a7ee"}, "__new_primary_file_unique.pasture|0.08.pasture__": {"src": "hda", "id": "ad0ff5ee11869c5b", "uuid": "6e07bc5b-9d87-4e60-961e-42a684cb80c5"}, "__new_primary_file_unique.pasture|0.11.pasture__": {"src": "hda", "id": "e0c9f8fa9e2a9a1f", "uuid": "84475843-31c2-4274-87a6-6239685b92a6"}, "__new_primary_file_unique.pasture|0.29.forest__": {"src": "hda", "id": "ed0f3d9d31cb16f5", "uuid": "51a716d4-b71d-4f70-8129-46144cf47b3e"}, "__new_primary_file_pasture.unique|pasture.0.04__": {"src": "hda", "id": "4afaca0e255a3fe7", "uuid": "c4d2c701-31c8-414c-9352-4d520978ea7a"}, "__new_primary_file_pasture.unique|forest.0.10__": {"src": "hda", "id": "5ff6f23d86855864", "uuid": "7dd79160-7908-48f3-bc7c-20af82f4f5ca"}, "__new_primary_file_pasture.unique|pasture.0.17__": {"src": "hda", "id": "3b764b52f1bd148c", "uuid": "41f2de98-340b-4b87-ad59-ddd9294b5d4a"}, "__new_primary_file_unique.pasture|0.16.forest__": {"src": "hda", "id": "f5edbdc74c048cb7", "uuid": "e6497537-42bd-4fb0-ab43-566a25a3d7d5"}, "__new_primary_file_unique.pasture|0.09.forest__": {"src": "hda", "id": "3ad46d0876505527", "uuid": "38cb5145-ce69-4a7f-b0f8-abc2c2cd59d9"}, "__new_primary_file_pasture.unique|pasture.0.11__": {"src": "hda", "id": "642c89e257077ace", "uuid": "a8b01cdd-73eb-4c36-a64f-7eae63b450f9"}, "__new_primary_file_unique.pasture|0.07.forest__": {"src": "hda", "id": "b7ab6693497f1546", "uuid": "a7760d4a-8331-480b-985e-6ede1a474803"}, "__new_primary_file_pasture.unique|forest.0.33__": {"src": "hda", "id": "9b721d17ce9398bd", "uuid": "9a19302c-584b-4e8f-9737-200cc5504d5f"}, "__new_primary_file_pasture.unique|pasture.0.27__": {"src": "hda", "id": "a7f9f960bf14b912", "uuid": "de677757-63a9-4c9a-a31a-7ba42d194c30"}, "__new_primary_file_unique.pasture|0.13.pasture__": {"src": "hda", "id": "cb22b884c09c9a4a", "uuid": "0ef4646b-df13-47c4-95d5-92e341c1ed9a"}, "__new_primary_file_pasture.unique|pasture.0.13__": {"src": "hda", "id": "77c59cb779645430", "uuid": "0fb2e472-7021-4f76-959f-7f0c93577af2"}, "__new_primary_file_pasture.unique|pasture.0.09__": {"src": "hda", "id": "e9a0109cf14053bb", "uuid": "920261f9-8b79-4e21-84b1-a31638d23eff"}, "__new_primary_file_unique.pasture|0.15.forest__": {"src": "hda", "id": "3e23ba40b1da2c39", "uuid": "4825aede-38ba-4462-bde9-90ee0c91c263"}, "__new_primary_file_unique.pasture|0.38.forest__": {"src": "hda", "id": "f1dd4f7bf6c1b572", "uuid": "c0cefec2-aa56-49ca-a8fb-58a8eeaf8596"}, "__new_primary_file_pasture.unique|forest.0.05__": {"src": "hda", "id": "27120e02373f6774", "uuid": "256e47e3-bb06-4757-9c3f-051b94801ea4"}, "__new_primary_file_unique.pasture|0.14.forest__": {"src": "hda", "id": "ca9771e82e1e81c0", "uuid": "10b40e6f-aa2a-4bba-b371-2fee16151cd1"}, "__new_primary_file_unique.pasture|0.23.pasture__": {"src": "hda", "id": "28a3d07ded47537c", "uuid": "d427bbdb-c901-4ae8-9221-882014b34fd8"}, "__new_primary_file_pasture.unique|forest.0.22__": {"src": "hda", "id": "acc1e364ecb5d595", "uuid": "d75870b8-fc57-46db-a12b-f0912b17eda1"}, "__new_primary_file_unique.pasture|0.22.forest__": {"src": "hda", "id": "d7df3153d415bfb1", "uuid": "5d36b538-f42a-4d1b-b005-4c30f8ccb016"}, "__new_primary_file_pasture.unique|forest.0.03__": {"src": "hda", "id": "9c2ad00c99c65fad", "uuid": "da1e4bad-6d4f-4b5d-998e-dbbb759c89ac"}, "__new_primary_file_unique.pasture|0.55.forest__": {"src": "hda", "id": "0ffa75d02bcbec96", "uuid": "8af734ca-679b-49d0-856b-c8bd0d7bc56a"}, "__new_primary_file_unique.pasture|0.20.pasture__": {"src": "hda", "id": "7e19a36c8d7f6ccd", "uuid": "d92904d4-9498-49c7-bd5d-82fa5d7a0c3c"}, "__new_primary_file_unique.pasture|0.32.pasture__": {"src": "hda", "id": "226ed7c9e7c4dde3", "uuid": "345e7498-4b17-4b44-a53a-e727a3ea3e69"}, "__new_primary_file_pasture.unique|pasture.0.01__": {"src": "hda", "id": "9d880b6fef8dd1a7", "uuid": "25dc2cde-c472-4650-8f7b-404c88bf6aca"}, "__new_primary_file_unique.pasture|0.05.forest__": {"src": "hda", "id": "f4c6523a3f3132e1", "uuid": "cbbdf025-f779-4d69-9f55-e2d6d024256f"}, "__new_primary_file_pasture.unique|forest.0.01__": {"src": "hda", "id": "733d33a681415efe", "uuid": "998de589-eeb4-4eaf-ac51-5935afdafa59"}, "__new_primary_file_pasture.unique|forest.unique__": {"src": "hda", "id": "164f6a2d7032da6e", "uuid": "6d946417-d1b0-4d1e-b4f1-320ecc9a70f9"}, "__new_primary_file_unique.pasture|0.08.forest__": {"src": "hda", "id": "c9bfc8877335e3a8", "uuid": "2f9981d8-4e3c-492e-8b6a-b348809cb939"}, "__new_primary_file_pasture.unique|forest.0.07__": {"src": "hda", "id": "1dc5ab55aa6b887f", "uuid": "86f55ec4-3914-49d1-8d04-d76b7944fae9"}, "__new_primary_file_pasture.unique|pasture.0.32__": {"src": "hda", "id": "26c0054211fe320f", "uuid": "08e089c0-49df-42b7-8e4b-77a493ed56d9"}, "__new_primary_file_unique.pasture|0.32.forest__": {"src": "hda", "id": "0c5bf0fee2c9f2f2", "uuid": "54703ca7-1b6b-425e-99e3-9b443b9dc764"}, "__new_primary_file_unique.pasture|0.26.pasture__": {"src": "hda", "id": "ed3993a642a536c2", "uuid": "55fda38d-9035-46c3-9479-4ba397cd8e96"}, "__new_primary_file_pasture.unique|forest.0.25__": {"src": "hda", "id": "d4e6425fff4b7b44", "uuid": "dbaa8103-4e50-4ccc-a63d-d6f071d35ec8"}, "__new_primary_file_unique.pasture|0.15.pasture__": {"src": "hda", "id": "e07ab57151a51654", "uuid": "f0ea7182-bb30-4012-bf7e-06f2c98ecff8"}, "__new_primary_file_unique.pasture|0.36.pasture__": {"src": "hda", "id": "aaff7b2db40e0f9b", "uuid": "bde40b31-480e-43fc-b06c-90caf6fa0966"}, "__new_primary_file_unique.pasture|0.24.forest__": {"src": "hda", "id": "d7b4881ce8f2a650", "uuid": "403d4138-0734-4e0e-beb8-37b8fed1c9a5"}, "__new_primary_file_pasture.unique|forest.0.11__": {"src": "hda", "id": "0f9d27ef44328c88", "uuid": "4f8c9396-37ca-4d86-bbf6-3af3f9bd3514"}, "__new_primary_file_unique.pasture|0.14.pasture__": {"src": "hda", "id": "d7384c1e0a3adbb9", "uuid": "224cc942-84dc-4272-ae33-0ffd664c3469"}, "__new_primary_file_pasture.unique|forest.0.36__": {"src": "hda", "id": "786cdb8512e719d3", "uuid": "29a13eb1-237f-4fb9-8de7-2b92ba28252f"}, "__new_primary_file_pasture.unique|forest.0.17__": {"src": "hda", "id": "80bae1ac661749cb", "uuid": "8d07c84c-4f29-4ffb-ae7b-c98646daf9a6"}, "__new_primary_file_unique.pasture|0.41.pasture__": {"src": "hda", "id": "cdd00c2f56d70d8c", "uuid": "263e2a70-b626-454e-b16e-4d7bc06ff47d"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > split.abund(fasta=fasta.dat,list=search_input.dat,group=split_group.dat \r,groups=forest-pasture,accnos=true,cutoff=2)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \nsearch_input.forest.unique.rare.list\nsearch_input.forest.unique.abund.list\nsearch_input.pasture.unique.rare.list\nsearch_input.pasture.unique.abund.list\nsplit_group.unique.forest.abund.groups\nsplit_group.unique.forest.rare.groups\nsplit_group.unique.pasture.abund.groups\nsplit_group.unique.pasture.rare.groups\nsearch_input.unique.forest.abund.accnos\nsearch_input.unique.forest.rare.accnos\nsearch_input.unique.pasture.abund.accnos\nsearch_input.unique.pasture.rare.accnos\nfasta.unique.forest.abund.fasta\nfasta.unique.forest.rare.fasta\nfasta.unique.pasture.abund.fasta\nfasta.unique.pasture.rare.fasta\nsearch_input.forest.0.01.rare.list\nsearch_input.forest.0.01.abund.list\nsearch_input.pasture.0.01.rare.list\nsearch_input.pasture.0.01.abund.list\nsplit_group.0.01.forest.abund.groups\nsplit_group.0.01.forest.rare.groups\nsplit_group.0.01.pasture.abund.groups\nsplit_group.0.01.pasture.rare.groups\nsearch_input.0.01.forest.abund.accnos\nsearch_input.0.01.forest.rare.accnos\nsearch_input.0.01.pasture.abund.accnos\nsearch_input.0.01.pasture.rare.accnos\nfasta.0.01.forest.abund.fasta\nfasta.0.01.forest.rare.fasta\nfasta.0.01.pasture.abund.fasta\nfasta.0.01.pasture.rare.fasta\nsearch_input.forest.0.02.rare.list\nsearch_input.forest.0.02.abund.list\nsearch_input.pasture.0.02.rare.list\nsearch_input.pasture.0.02.abund.list\nsplit_group.0.02.forest.abund.groups\nsplit_group.0.02.forest.rare.groups\nsplit_group.0.02.pasture.abund.groups\nsplit_group.0.02.pasture.rare.groups\nsearch_input.0.02.forest.abund.accnos\nsearch_input.0.02.forest.rare.accnos\nsearch_input.0.02.pasture.abund.accnos\nsearch_input.0.02.pasture.rare.accnos\nfasta.0.02.forest.abund.fasta\nfasta.0.02.forest.rare.fasta\nfasta.0.02.pasture.abund.fasta\nfasta.0.02.pasture.rare.fasta\nsearch_input.forest.0.03.rare.list\nsearch_input.forest.0.03.abund.list\nsearch_input.pasture.0.03.rare.list\nsearch_input.pasture.0.03.abund.list\nsplit_group.0.03.forest.abund.groups\nsplit_group.0.03.forest.rare.groups\nsplit_group.0.03.pasture.abund.groups\nsplit_group.0.03.pasture.rare.groups\nsearch_input.0.03.forest.abund.accnos\nsearch_input.0.03.forest.rare.accnos\nsearch_input.0.03.pasture.abund.accnos\nsearch_input.0.03.pasture.rare.accnos\nfasta.0.03.forest.abund.fasta\nfasta.0.03.forest.rare.fasta\nfasta.0.03.pasture.abund.fasta\nfasta.0.03.pasture.rare.fasta\nsearch_input.forest.0.04.rare.list\nsearch_input.forest.0.04.abund.list\nsearch_input.pasture.0.04.rare.list\nsearch_input.pasture.0.04.abund.list\nsplit_group.0.04.forest.abund.groups\nsplit_group.0.04.forest.rare.groups\nsplit_group.0.04.pasture.abund.groups\nsplit_group.0.04.pasture.rare.groups\nsearch_input.0.04.forest.abund.accnos\nsearch_input.0.04.forest.rare.accnos\nsearch_input.0.04.pasture.abund.accnos\nsearch_input.0.04.pasture.rare.accnos\nfasta.0.04.forest.abund.fasta\nfasta.0.04.forest.rare.fasta\nfasta.0.04.pasture.abund.fasta\nfasta.0.04.pasture.rare.fasta\nsearch_input.forest.0.05.rare.list\nsearch_input.forest.0.05.abund.list\nsearch_input.pasture.0.05.rare.list\nsearch_input.pasture.0.05.abund.list\nsplit_group.0.05.forest.abund.groups\nsplit_group.0.05.forest.rare.groups\nsplit_group.0.05.pasture.abund.groups\nsplit_group.0.05.pasture.rare.groups\nsearch_input.0.05.forest.abund.accnos\nsearch_input.0.05.forest.rare.accnos\nsearch_input.0.05.pasture.abund.accnos\nsearch_input.0.05.pasture.rare.accnos\nfasta.0.05.forest.abund.fasta\nfasta.0.05.forest.rare.fasta\nfasta.0.05.pasture.abund.fasta\nfasta.0.05.pasture.rare.fasta\nsearch_input.forest.0.06.rare.list\nsearch_input.forest.0.06.abund.list\nsearch_input.pasture.0.06.rare.list\nsearch_input.pasture.0.06.abund.list\nsplit_group.0.06.forest.abund.groups\nsplit_group.0.06.forest.rare.groups\nsplit_group.0.06.pasture.abund.groups\nsplit_group.0.06.pasture.rare.groups\nsearch_input.0.06.forest.abund.accnos\nsearch_input.0.06.forest.rare.accnos\nsearch_input.0.06.pasture.abund.accnos\nsearch_input.0.06.pasture.rare.accnos\nfasta.0.06.forest.abund.fasta\nfasta.0.06.forest.rare.fasta\nfasta.0.06.pasture.abund.fasta\nfasta.0.06.pasture.rare.fasta\nsearch_input.forest.0.07.rare.list\nsearch_input.forest.0.07.abund.list\nsearch_input.pasture.0.07.rare.list\nsearch_input.pasture.0.07.abund.list\nsplit_group.0.07.forest.abund.groups\nsplit_group.0.07.forest.rare.groups\nsplit_group.0.07.pasture.abund.groups\nsplit_group.0.07.pasture.rare.groups\nsearch_input.0.07.forest.abund.accnos\nsearch_input.0.07.forest.rare.accnos\nsearch_input.0.07.pasture.abund.accnos\nsearch_input.0.07.pasture.rare.accnos\nfasta.0.07.forest.abund.fasta\nfasta.0.07.forest.rare.fasta\nfasta.0.07.pasture.abund.fasta\nfasta.0.07.pasture.rare.fasta\nsearch_input.forest.0.08.rare.list\nsearch_input.forest.0.08.abund.list\nsearch_input.pasture.0.08.rare.list\nsearch_input.pasture.0.08.abund.list\nsplit_group.0.08.forest.abund.groups\nsplit_group.0.08.forest.rare.groups\nsplit_group.0.08.pasture.abund.groups\nsplit_group.0.08.pasture.rare.groups\nsearch_input.0.08.forest.abund.accnos\nsearch_input.0.08.forest.rare.accnos\nsearch_input.0.08.pasture.abund.accnos\nsearch_input.0.08.pasture.rare.accnos\nfasta.0.08.forest.abund.fasta\nfasta.0.08.forest.rare.fasta\nfasta.0.08.pasture.abund.fasta\nfasta.0.08.pasture.rare.fasta\nsearch_input.forest.0.09.rare.list\nsearch_input.forest.0.09.abund.list\nsearch_input.pasture.0.09.rare.list\nsearch_input.pasture.0.09.abund.list\nsplit_group.0.09.forest.abund.groups\nsplit_group.0.09.forest.rare.groups\nsplit_group.0.09.pasture.abund.groups\nsplit_group.0.09.pasture.rare.groups\nsearch_input.0.09.forest.abund.accnos\nsearch_input.0.09.forest.rare.accnos\nsearch_input.0.09.pasture.abund.accnos\nsearch_input.0.09.pasture.rare.accnos\nfasta.0.09.forest.abund.fasta\nfasta.0.09.forest.rare.fasta\nfasta.0.09.pasture.abund.fasta\nfasta.0.09.pasture.rare.fasta\nsearch_input.forest.0.10.rare.list\nsearch_input.forest.0.10.abund.list\nsearch_input.pasture.0.10.rare.list\nsearch_input.pasture.0.10.abund.list\nsplit_group.0.10.forest.abund.groups\nsplit_group.0.10.forest.rare.groups\nsplit_group.0.10.pasture.abund.groups\nsplit_group.0.10.pasture.rare.groups\nsearch_input.0.10.forest.abund.accnos\nsearch_input.0.10.forest.rare.accnos\nsearch_input.0.10.pasture.abund.accnos\nsearch_input.0.10.pasture.rare.accnos\nfasta.0.10.forest.abund.fasta\nfasta.0.10.forest.rare.fasta\nfasta.0.10.pasture.abund.fasta\nfasta.0.10.pasture.rare.fasta\nsearch_input.forest.0.11.rare.list\nsearch_input.forest.0.11.abund.list\nsearch_input.pasture.0.11.rare.list\nsearch_input.pasture.0.11.abund.list\nsplit_group.0.11.forest.abund.groups\nsplit_group.0.11.forest.rare.groups\nsplit_group.0.11.pasture.abund.groups\nsplit_group.0.11.pasture.rare.groups\nsearch_input.0.11.forest.abund.accnos\nsearch_input.0.11.forest.rare.accnos\nsearch_input.0.11.pasture.abund.accnos\nsearch_input.0.11.pasture.rare.accnos\nfasta.0.11.forest.abund.fasta\nfasta.0.11.forest.rare.fasta\nfasta.0.11.pasture.abund.fasta\nfasta.0.11.pasture.rare.fasta\nsearch_input.forest.0.12.rare.list\nsearch_input.forest.0.12.abund.list\nsearch_input.pasture.0.12.rare.list\nsearch_input.pasture.0.12.abund.list\nsplit_group.0.12.forest.abund.groups\nsplit_group.0.12.forest.rare.groups\nsplit_group.0.12.pasture.abund.groups\nsplit_group.0.12.pasture.rare.groups\nsearch_input.0.12.forest.abund.accnos\nsearch_input.0.12.forest.rare.accnos\nsearch_input.0.12.pasture.abund.accnos\nsearch_input.0.12.pasture.rare.accnos\nfasta.0.12.forest.abund.fasta\nfasta.0.12.forest.rare.fasta\nfasta.0.12.pasture.abund.fasta\nfasta.0.12.pasture.rare.fasta\nsearch_input.forest.0.13.rare.list\nsearch_input.forest.0.13.abund.list\nsearch_input.pasture.0.13.rare.list\nsearch_input.pasture.0.13.abund.list\nsplit_group.0.13.forest.abund.groups\nsplit_group.0.13.forest.rare.groups\nsplit_group.0.13.pasture.abund.groups\nsplit_group.0.13.pasture.rare.groups\nsearch_input.0.13.forest.abund.accnos\nsearch_input.0.13.forest.rare.accnos\nsearch_input.0.13.pasture.abund.accnos\nsearch_input.0.13.pasture.rare.accnos\nfasta.0.13.forest.abund.fasta\nfasta.0.13.forest.rare.fasta\nfasta.0.13.pasture.abund.fasta\nfasta.0.13.pasture.rare.fasta\nsearch_input.forest.0.14.rare.list\nsearch_input.forest.0.14.abund.list\nsearch_input.pasture.0.14.rare.list\nsearch_input.pasture.0.14.abund.list\nsplit_group.0.14.forest.abund.groups\nsplit_group.0.14.forest.rare.groups\nsplit_group.0.14.pasture.abund.groups\nsplit_group.0.14.pasture.rare.groups\nsearch_input.0.14.forest.abund.accnos\nsearch_input.0.14.forest.rare.accnos\nsearch_input.0.14.pasture.abund.accnos\nsearch_input.0.14.pasture.rare.accnos\nfasta.0.14.forest.abund.fasta\nfasta.0.14.forest.rare.fasta\nfasta.0.14.pasture.abund.fasta\nfasta.0.14.pasture.rare.fasta\nsearch_input.forest.0.15.rare.list\nsearch_input.forest.0.15.abund.list\nsearch_input.pasture.0.15.rare.list\nsearch_input.pasture.0.15.abund.list\nsplit_group.0.15.forest.abund.groups\nsplit_group.0.15.forest.rare.groups\nsplit_group.0.15.pasture.abund.groups\nsplit_group.0.15.pasture.rare.groups\nsearch_input.0.15.forest.abund.accnos\nsearch_input.0.15.forest.rare.accnos\nsearch_input.0.15.pasture.abund.accnos\nsearch_input.0.15.pasture.rare.accnos\nfasta.0.15.forest.abund.fasta\nfasta.0.15.forest.rare.fasta\nfasta.0.15.pasture.abund.fasta\nfasta.0.15.pasture.rare.fasta\nsearch_input.forest.0.16.rare.list\nsearch_input.forest.0.16.abund.list\nsearch_input.pasture.0.16.rare.list\nsearch_input.pasture.0.16.abund.list\nsplit_group.0.16.forest.abund.groups\nsplit_group.0.16.forest.rare.groups\nsplit_group.0.16.pasture.abund.groups\nsplit_group.0.16.pasture.rare.groups\nsearch_input.0.16.forest.abund.accnos\nsearch_input.0.16.forest.rare.accnos\nsearch_input.0.16.pasture.abund.accnos\nsearch_input.0.16.pasture.rare.accnos\nfasta.0.16.forest.abund.fasta\nfasta.0.16.forest.rare.fasta\nfasta.0.16.pasture.abund.fasta\nfasta.0.16.pasture.rare.fasta\nsearch_input.forest.0.17.rare.list\nsearch_input.forest.0.17.abund.list\nsearch_input.pasture.0.17.rare.list\nsearch_input.pasture.0.17.abund.list\nsplit_group.0.17.forest.abund.groups\nsplit_group.0.17.forest.rare.groups\nsplit_group.0.17.pasture.abund.groups\nsplit_group.0.17.pasture.rare.groups\nsearch_input.0.17.forest.abund.accnos\nsearch_input.0.17.forest.rare.accnos\nsearch_input.0.17.pasture.abund.accnos\nsearch_input.0.17.pasture.rare.accnos\nfasta.0.17.forest.abund.fasta\nfasta.0.17.forest.rare.fasta\nfasta.0.17.pasture.abund.fasta\nfasta.0.17.pasture.rare.fasta\nsearch_input.forest.0.18.rare.list\nsearch_input.forest.0.18.abund.list\nsearch_input.pasture.0.18.rare.list\nsearch_input.pasture.0.18.abund.list\nsplit_group.0.18.forest.abund.groups\nsplit_group.0.18.forest.rare.groups\nsplit_group.0.18.pasture.abund.groups\nsplit_group.0.18.pasture.rare.groups\nsearch_input.0.18.forest.abund.accnos\nsearch_input.0.18.forest.rare.accnos\nsearch_input.0.18.pasture.abund.accnos\nsearch_input.0.18.pasture.rare.accnos\nfasta.0.18.forest.abund.fasta\nfasta.0.18.forest.rare.fasta\nfasta.0.18.pasture.abund.fasta\nfasta.0.18.pasture.rare.fasta\nsearch_input.forest.0.19.rare.list\nsearch_input.forest.0.19.abund.list\nsearch_input.pasture.0.19.rare.list\nsearch_input.pasture.0.19.abund.list\nsplit_group.0.19.forest.abund.groups\nsplit_group.0.19.forest.rare.groups\nsplit_group.0.19.pasture.abund.groups\nsplit_group.0.19.pasture.rare.groups\nsearch_input.0.19.forest.abund.accnos\nsearch_input.0.19.forest.rare.accnos\nsearch_input.0.19.pasture.abund.accnos\nsearch_input.0.19.pasture.rare.accnos\nfasta.0.19.forest.abund.fasta\nfasta.0.19.forest.rare.fasta\nfasta.0.19.pasture.abund.fasta\nfasta.0.19.pasture.rare.fasta\nsearch_input.forest.0.20.rare.list\nsearch_input.forest.0.20.abund.list\nsearch_input.pasture.0.20.rare.list\nsearch_input.pasture.0.20.abund.list\nsplit_group.0.20.forest.abund.groups\nsplit_group.0.20.forest.rare.groups\nsplit_group.0.20.pasture.abund.groups\nsplit_group.0.20.pasture.rare.groups\nsearch_input.0.20.forest.abund.accnos\nsearch_input.0.20.forest.rare.accnos\nsearch_input.0.20.pasture.abund.accnos\nsearch_input.0.20.pasture.rare.accnos\nfasta.0.20.forest.abund.fasta\nfasta.0.20.forest.rare.fasta\nfasta.0.20.pasture.abund.fasta\nfasta.0.20.pasture.rare.fasta\nsearch_input.forest.0.21.rare.list\nsearch_input.forest.0.21.abund.list\nsearch_input.pasture.0.21.rare.list\nsearch_input.pasture.0.21.abund.list\nsplit_group.0.21.forest.abund.groups\nsplit_group.0.21.forest.rare.groups\nsplit_group.0.21.pasture.abund.groups\nsplit_group.0.21.pasture.rare.groups\nsearch_input.0.21.forest.abund.accnos\nsearch_input.0.21.forest.rare.accnos\nsearch_input.0.21.pasture.abund.accnos\nsearch_input.0.21.pasture.rare.accnos\nfasta.0.21.forest.abund.fasta\nfasta.0.21.forest.rare.fasta\nfasta.0.21.pasture.abund.fasta\nfasta.0.21.pasture.rare.fasta\nsearch_input.forest.0.22.rare.list\nsearch_input.forest.0.22.abund.list\nsearch_input.pasture.0.22.rare.list\nsearch_input.pasture.0.22.abund.list\nsplit_group.0.22.forest.abund.groups\nsplit_group.0.22.forest.rare.groups\nsplit_group.0.22.pasture.abund.groups\nsplit_group.0.22.pasture.rare.groups\nsearch_input.0.22.forest.abund.accnos\nsearch_input.0.22.forest.rare.accnos\nsearch_input.0.22.pasture.abund.accnos\nsearch_input.0.22.pasture.rare.accnos\nfasta.0.22.forest.abund.fasta\nfasta.0.22.forest.rare.fasta\nfasta.0.22.pasture.abund.fasta\nfasta.0.22.pasture.rare.fasta\nsearch_input.forest.0.23.rare.list\nsearch_input.forest.0.23.abund.list\nsearch_input.pasture.0.23.rare.list\nsearch_input.pasture.0.23.abund.list\nsplit_group.0.23.forest.abund.groups\nsplit_group.0.23.forest.rare.groups\nsplit_group.0.23.pasture.abund.groups\nsplit_group.0.23.pasture.rare.groups\nsearch_input.0.23.forest.abund.accnos\nsearch_input.0.23.forest.rare.accnos\nsearch_input.0.23.pasture.abund.accnos\nsearch_input.0.23.pasture.rare.accnos\nfasta.0.23.forest.abund.fasta\nfasta.0.23.forest.rare.fasta\nfasta.0.23.pasture.abund.fasta\nfasta.0.23.pasture.rare.fasta\nsearch_input.forest.0.24.rare.list\nsearch_input.forest.0.24.abund.list\nsearch_input.pasture.0.24.rare.list\nsearch_input.pasture.0.24.abund.list\nsplit_group.0.24.forest.abund.groups\nsplit_group.0.24.forest.rare.groups\nsplit_group.0.24.pasture.abund.groups\nsplit_group.0.24.pasture.rare.groups\nsearch_input.0.24.forest.abund.accnos\nsearch_input.0.24.forest.rare.accnos\nsearch_input.0.24.pasture.abund.accnos\nsearch_input.0.24.pasture.rare.accnos\nfasta.0.24.forest.abund.fasta\nfasta.0.24.forest.rare.fasta\nfasta.0.24.pasture.abund.fasta\nfasta.0.24.pasture.rare.fasta\nsearch_input.forest.0.25.rare.list\nsearch_input.forest.0.25.abund.list\nsearch_input.pasture.0.25.rare.list\nsearch_input.pasture.0.25.abund.list\nsplit_group.0.25.forest.abund.groups\nsplit_group.0.25.forest.rare.groups\nsplit_group.0.25.pasture.abund.groups\nsplit_group.0.25.pasture.rare.groups\nsearch_input.0.25.forest.abund.accnos\nsearch_input.0.25.forest.rare.accnos\nsearch_input.0.25.pasture.abund.accnos\nsearch_input.0.25.pasture.rare.accnos\nfasta.0.25.forest.abund.fasta\nfasta.0.25.forest.rare.fasta\nfasta.0.25.pasture.abund.fasta\nfasta.0.25.pasture.rare.fasta\nsearch_input.forest.0.26.rare.list\nsearch_input.forest.0.26.abund.list\nsearch_input.pasture.0.26.rare.list\nsearch_input.pasture.0.26.abund.list\nsplit_group.0.26.forest.abund.groups\nsplit_group.0.26.forest.rare.groups\nsplit_group.0.26.pasture.abund.groups\nsplit_group.0.26.pasture.rare.groups\nsearch_input.0.26.forest.abund.accnos\nsearch_input.0.26.forest.rare.accnos\nsearch_input.0.26.pasture.abund.accnos\nsearch_input.0.26.pasture.rare.accnos\nfasta.0.26.forest.abund.fasta\nfasta.0.26.forest.rare.fasta\nfasta.0.26.pasture.abund.fasta\nfasta.0.26.pasture.rare.fasta\nsearch_input.forest.0.27.rare.list\nsearch_input.forest.0.27.abund.list\nsearch_input.pasture.0.27.rare.list\nsearch_input.pasture.0.27.abund.list\nsplit_group.0.27.forest.abund.groups\nsplit_group.0.27.forest.rare.groups\nsplit_group.0.27.pasture.abund.groups\nsplit_group.0.27.pasture.rare.groups\nsearch_input.0.27.forest.abund.accnos\nsearch_input.0.27.forest.rare.accnos\nsearch_input.0.27.pasture.abund.accnos\nsearch_input.0.27.pasture.rare.accnos\nfasta.0.27.forest.abund.fasta\nfasta.0.27.forest.rare.fasta\nfasta.0.27.pasture.abund.fasta\nfasta.0.27.pasture.rare.fasta\nsearch_input.forest.0.29.rare.list\nsearch_input.forest.0.29.abund.list\nsearch_input.pasture.0.29.rare.list\nsearch_input.pasture.0.29.abund.list\nsplit_group.0.29.forest.abund.groups\nsplit_group.0.29.forest.rare.groups\nsplit_group.0.29.pasture.abund.groups\nsplit_group.0.29.pasture.rare.groups\nsearch_input.0.29.forest.abund.accnos\nsearch_input.0.29.forest.rare.accnos\nsearch_input.0.29.pasture.abund.accnos\nsearch_input.0.29.pasture.rare.accnos\nfasta.0.29.forest.abund.fasta\nfasta.0.29.forest.rare.fasta\nfasta.0.29.pasture.abund.fasta\nfasta.0.29.pasture.rare.fasta\nsearch_input.forest.0.32.rare.list\nsearch_input.forest.0.32.abund.list\nsearch_input.pasture.0.32.rare.list\nsearch_input.pasture.0.32.abund.list\nsplit_group.0.32.forest.abund.groups\nsplit_group.0.32.forest.rare.groups\nsplit_group.0.32.pasture.abund.groups\nsplit_group.0.32.pasture.rare.groups\nsearch_input.0.32.forest.abund.accnos\nsearch_input.0.32.forest.rare.accnos\nsearch_input.0.32.pasture.abund.accnos\nsearch_input.0.32.pasture.rare.accnos\nfasta.0.32.forest.abund.fasta\nfasta.0.32.forest.rare.fasta\nfasta.0.32.pasture.abund.fasta\nfasta.0.32.pasture.rare.fasta\nsearch_input.forest.0.33.rare.list\nsearch_input.forest.0.33.abund.list\nsearch_input.pasture.0.33.rare.list\nsearch_input.pasture.0.33.abund.list\nsplit_group.0.33.forest.abund.groups\nsplit_group.0.33.forest.rare.groups\nsplit_group.0.33.pasture.abund.groups\nsplit_group.0.33.pasture.rare.groups\nsearch_input.0.33.forest.abund.accnos\nsearch_input.0.33.forest.rare.accnos\nsearch_input.0.33.pasture.abund.accnos\nsearch_input.0.33.pasture.rare.accnos\nfasta.0.33.forest.abund.fasta\nfasta.0.33.forest.rare.fasta\nfasta.0.33.pasture.abund.fasta\nfasta.0.33.pasture.rare.fasta\nsearch_input.forest.0.36.rare.list\nsearch_input.forest.0.36.abund.list\nsearch_input.pasture.0.36.rare.list\nsearch_input.pasture.0.36.abund.list\nsplit_group.0.36.forest.abund.groups\nsplit_group.0.36.forest.rare.groups\nsplit_group.0.36.pasture.abund.groups\nsplit_group.0.36.pasture.rare.groups\nsearch_input.0.36.forest.abund.accnos\nsearch_input.0.36.forest.rare.accnos\nsearch_input.0.36.pasture.abund.accnos\nsearch_input.0.36.pasture.rare.accnos\nfasta.0.36.forest.abund.fasta\nfasta.0.36.forest.rare.fasta\nfasta.0.36.pasture.abund.fasta\nfasta.0.36.pasture.rare.fasta\nsearch_input.forest.0.38.rare.list\nsearch_input.forest.0.38.abund.list\nsearch_input.pasture.0.38.rare.list\nsearch_input.pasture.0.38.abund.list\nsplit_group.0.38.forest.abund.groups\nsplit_group.0.38.forest.rare.groups\nsplit_group.0.38.pasture.abund.groups\nsplit_group.0.38.pasture.rare.groups\nsearch_input.0.38.forest.abund.accnos\nsearch_input.0.38.forest.rare.accnos\nsearch_input.0.38.pasture.abund.accnos\nsearch_input.0.38.pasture.rare.accnos\nfasta.0.38.forest.abund.fasta\nfasta.0.38.forest.rare.fasta\nfasta.0.38.pasture.abund.fasta\nfasta.0.38.pasture.rare.fasta\nsearch_input.forest.0.41.rare.list\nsearch_input.forest.0.41.abund.list\nsearch_input.pasture.0.41.rare.list\nsearch_input.pasture.0.41.abund.list\nsplit_group.0.41.forest.abund.groups\nsplit_group.0.41.forest.rare.groups\nsplit_group.0.41.pasture.abund.groups\nsplit_group.0.41.pasture.rare.groups\nsearch_input.0.41.forest.abund.accnos\nsearch_input.0.41.forest.rare.accnos\nsearch_input.0.41.pasture.abund.accnos\nsearch_input.0.41.pasture.rare.accnos\nfasta.0.41.forest.abund.fasta\nfasta.0.41.forest.rare.fasta\nfasta.0.41.pasture.abund.fasta\nfasta.0.41.pasture.rare.fasta\nsearch_input.forest.0.45.rare.list\nsearch_input.forest.0.45.abund.list\nsearch_input.pasture.0.45.rare.list\nsearch_input.pasture.0.45.abund.list\nsplit_group.0.45.forest.abund.groups\nsplit_group.0.45.forest.rare.groups\nsplit_group.0.45.pasture.abund.groups\nsplit_group.0.45.pasture.rare.groups\nsearch_input.0.45.forest.abund.accnos\nsearch_input.0.45.forest.rare.accnos\nsearch_input.0.45.pasture.abund.accnos\nsearch_input.0.45.pasture.rare.accnos\nfasta.0.45.forest.abund.fasta\nfasta.0.45.forest.rare.fasta\nfasta.0.45.pasture.abund.fasta\nfasta.0.45.pasture.rare.fasta\nsearch_input.forest.0.55.rare.list\nsearch_input.forest.0.55.abund.list\nsearch_input.pasture.0.55.rare.list\nsearch_input.pasture.0.55.abund.list\nsplit_group.0.55.forest.abund.groups\nsplit_group.0.55.forest.rare.groups\nsplit_group.0.55.pasture.abund.groups\nsplit_group.0.55.pasture.rare.groups\nsearch_input.0.55.forest.abund.accnos\nsearch_input.0.55.forest.rare.accnos\nsearch_input.0.55.pasture.abund.accnos\nsearch_input.0.55.pasture.rare.accnos\nfasta.0.55.forest.abund.fasta\nfasta.0.55.forest.rare.fasta\nfasta.0.55.pasture.abund.fasta\nfasta.0.55.pasture.rare.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2682.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2683.dat' search_input.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/002/dataset_2684.dat' split_group.dat && echo 'split.abund( fasta=fasta.dat, list=search_input.dat, group=split_group.dat, groups=forest-pasture, accnos=true, cutoff=2 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:32:21.857882", "params": {"cutoff": "\"2\"", "search": "{\"input\": {\"values\": [{\"src\": \"hda\", \"id\": 2683}]}, \"type\": \"list\", \"__current_case__\": 1, \"label\": null}", "dbkey": "\"hg17\"", "split": "{\"dosplit\": \"yes\", \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 2684}]}, \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 0}", "accnos": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "4268", "id": "a97fae24847b82ef", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_split_abund.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"search|input": {"src": "hda", "id": "38360e2d3ab06177"}, "cutoff": "2", "search|type": "list", "split|dosplit": "yes", "split|group": {"src": "hda", "id": "7fd9dcdabb947ccd"}, "split|groups": ["forest", "pasture"], "search|label": ["0.05", "0.22"], "fasta": {"src": "hda", "id": "5a062b1ff6cc9d5a"}, "accnos": true}, "job": {"inputs": {"input": {"src": "hda", "id": "38360e2d3ab06177", "uuid": "d0b2ed14-9037-4dd5-ae88-b7585e53d01d"}, "fasta": {"src": "hda", "id": "5a062b1ff6cc9d5a", "uuid": "a5a3ef3b-52e9-49cc-a4fc-8c86ccf0771e"}, "group": {"src": "hda", "id": "7fd9dcdabb947ccd", "uuid": "fd5545e9-1c74-45f8-afdb-aac61299fd9c"}}, "update_time": "2018-02-08T18:34:21.332942", "tool_id": "mothur_split_abund", "outputs": {"__new_primary_file_0.22.pasture|0.22.pasture__": {"src": "hda", "id": "d16be2ae47deec72", "uuid": "e0e1bc85-d362-4c10-99ed-37f4e5dc12a9"}, "__new_primary_file_pasture.0.22|forest.0.05__": {"src": "hda", "id": "ab54917a7131c881", "uuid": "6d56c002-39f5-47ab-8a9c-09b75b732005"}, "__new_primary_file_pasture.0.22|forest.0.22__": {"src": "hda", "id": "8e584b6d1dcf6293", "uuid": "377f5b7d-fdf7-477e-ba68-467ec6554408"}, "__new_primary_file_0.22.pasture|0.05.pasture__": {"src": "hda", "id": "b9aa8dda8024d3ce", "uuid": "daaa40c3-883f-47f0-95d1-33311618cfc4"}, "__new_primary_file_pasture.0.22|pasture.0.22__": {"src": "hda", "id": "28b0a5b79d875620", "uuid": "e01a2820-65d9-403c-9adf-6c096bd2a8eb"}, "__new_primary_file_0.22.pasture|0.05.forest__": {"src": "hda", "id": "44d57fb3b86c5aae", "uuid": "be5f6fb8-3477-45f8-b5cc-be9589ef8d22"}, "__new_primary_file_pasture.0.22|pasture.0.05__": {"src": "hda", "id": "bb320b551226491d", "uuid": "50a0d19c-a9cb-4bf5-9cc5-0347397aa46b"}, "logfile": {"src": "hda", "id": "90c7d1a0099e9a76", "uuid": "2419fe03-fbd8-4951-971c-a1e31e00592b"}, "__new_primary_file_0.22.pasture|0.22.forest__": {"src": "hda", "id": "51ecdd8f7307fd69", "uuid": "6819aa98-7c97-4468-a665-c3b4033568b5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > split.abund(fasta=fasta.dat,list=search_input.dat,label=0.05-0.22,group \r=split_group.dat,groups=forest-pasture,accnos=true,cutoff=2)\n0.05\n0.22\n\nOutput File Names: \nsearch_input.forest.0.05.rare.list\nsearch_input.forest.0.05.abund.list\nsearch_input.pasture.0.05.rare.list\nsearch_input.pasture.0.05.abund.list\nsplit_group.0.05.forest.abund.groups\nsplit_group.0.05.forest.rare.groups\nsplit_group.0.05.pasture.abund.groups\nsplit_group.0.05.pasture.rare.groups\nsearch_input.0.05.forest.abund.accnos\nsearch_input.0.05.forest.rare.accnos\nsearch_input.0.05.pasture.abund.accnos\nsearch_input.0.05.pasture.rare.accnos\nfasta.0.05.forest.abund.fasta\nfasta.0.05.forest.rare.fasta\nfasta.0.05.pasture.abund.fasta\nfasta.0.05.pasture.rare.fasta\nsearch_input.forest.0.22.rare.list\nsearch_input.forest.0.22.abund.list\nsearch_input.pasture.0.22.rare.list\nsearch_input.pasture.0.22.abund.list\nsplit_group.0.22.forest.abund.groups\nsplit_group.0.22.forest.rare.groups\nsplit_group.0.22.pasture.abund.groups\nsplit_group.0.22.pasture.rare.groups\nsearch_input.0.22.forest.abund.accnos\nsearch_input.0.22.forest.rare.accnos\nsearch_input.0.22.pasture.abund.accnos\nsearch_input.0.22.pasture.rare.accnos\nfasta.0.22.forest.abund.fasta\nfasta.0.22.forest.rare.fasta\nfasta.0.22.pasture.abund.fasta\nfasta.0.22.pasture.rare.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3262.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3263.dat' search_input.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3264.dat' split_group.dat && echo 'split.abund( fasta=fasta.dat, list=search_input.dat, label=0.05-0.22, group=split_group.dat, groups=forest-pasture, accnos=true, cutoff=2 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:34:15.959750", "params": {"cutoff": "\"2\"", "search": "{\"input\": {\"values\": [{\"src\": \"hda\", \"id\": 3263}]}, \"type\": \"list\", \"__current_case__\": 1, \"label\": [\"0.05\", \"0.22\"]}", "dbkey": "\"hg17\"", "split": "{\"dosplit\": \"yes\", \"group\": {\"values\": [{\"src\": \"hda\", \"id\": 3264}]}, \"groups\": [\"forest\", \"pasture\"], \"__current_case__\": 0}", "accnos": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "4425", "id": "9ecc9b17e1423ee8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_split_abund.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "94e36d9344f4dff1"}, "group": {"src": "hda", "id": "77055d672d3dfc70"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "94e36d9344f4dff1", "uuid": "bcb0a685-26a1-473e-8db2-731290c2d71a"}, "group": {"src": "hda", "id": "77055d672d3dfc70", "uuid": "2f686bf5-cc63-4dac-bacd-d82878b6663b"}}, "update_time": "2018-02-08T18:35:19.336599", "tool_id": "mothur_split_groups", "outputs": {"__new_primary_file_pasture|forest__": {"src": "hda", "id": "086a78d5d6cf5d6e", "uuid": "1f832a18-6aee-4670-a3a9-1d87ce78cfa1"}, "logfile": {"src": "hda", "id": "2ea441e22c11eebd", "uuid": "331204e8-c42f-4b25-b488-c5e55ea91543"}, "__new_primary_file_pasture|pasture__": {"src": "hda", "id": "ace7c95418a0de52", "uuid": "d11fd81b-73bd-4f17-9c52-a544e8145683"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > split.groups(fasta=fasta.dat,group=group.dat)\n\nProcessing group: forest\nProcessing group: pasture\n\nOutput File Names: \nfasta.forest.fasta\nfasta.pasture.fasta\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' name.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3298.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3299.dat' group.dat && echo 'split.groups( fasta=fasta.dat, group=group.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:35:16.412552", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "groups": "null", "name": "null"}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "4550", "id": "7ec799cf0545a3b8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_split_groups.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|format": "list", "input|otu": {"src": "hda", "id": "2e7cb023461a16f4"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "2e7cb023461a16f4", "uuid": "838e9592-03b6-4a6c-836c-502754f9c3a1"}}, "update_time": "2018-02-08T18:35:43.597787", "tool_id": "mothur_sub_sample", "outputs": {"__new_primary_file_unique|0.10__": {"src": "hda", "id": "fd4a4a3fe46f280b", "uuid": "bc41ab14-c9f3-427b-a331-7c36da5d7dc7"}, "__new_primary_file_unique|0.05__": {"src": "hda", "id": "c64ee5ee7f79f0a6", "uuid": "cb5eb702-6ca0-43ff-add9-b7f2b7cf3450"}, "__new_primary_file_unique|0.17__": {"src": "hda", "id": "ec09a227354975ff", "uuid": "836f92e1-34ba-41e9-a565-3f77bde0324e"}, "__new_primary_file_unique|0.02__": {"src": "hda", "id": "45a337b5db97ab85", "uuid": "08901a22-bd50-4fb3-b244-041281afb8ff"}, "__new_primary_file_unique|0.21__": {"src": "hda", "id": "94fd33d364fcc131", "uuid": "107a3582-b007-4093-aa74-592e23bbd511"}, "__new_primary_file_unique|0.16__": {"src": "hda", "id": "c7c45b9b7153b04b", "uuid": "0c5d48a4-d3c2-4bbe-a53d-02a47be5b02e"}, "__new_primary_file_unique|0.45__": {"src": "hda", "id": "4c2ab93933e14931", "uuid": "91077f83-fe87-4f99-9827-17b0f990d620"}, "__new_primary_file_unique|0.03__": {"src": "hda", "id": "041847c37ff1f11d", "uuid": "15225a6a-10ef-4e9a-8a01-5bd335636c72"}, "__new_primary_file_unique|0.15__": {"src": "hda", "id": "fd10df936e5a6ffd", "uuid": "0595e1fb-4082-4417-af63-833df5b63f82"}, "__new_primary_file_unique|0.08__": {"src": "hda", "id": "db7b606431d708fd", "uuid": "7ad15d11-b0e7-41b9-99f3-b46a4628a7e8"}, "__new_primary_file_unique|0.14__": {"src": "hda", "id": "fedc92590bf7a1e3", "uuid": "036ed503-f693-4973-b57d-00786b4027ca"}, "__new_primary_file_unique|0.13__": {"src": "hda", "id": "fa68b0f5b7e3310f", "uuid": "1bb4262c-7f17-487d-b369-6fd216bdb468"}, "__new_primary_file_unique|0.09__": {"src": "hda", "id": "becaa11690574381", "uuid": "a5b3a3f3-3c59-44c0-b930-3e8db1d85e9d"}, "__new_primary_file_unique|0.12__": {"src": "hda", "id": "2b8bcf1bee106508", "uuid": "17439678-5ed0-4a85-a4d6-fa15666f7590"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "ca918f436c0404da", "uuid": "dd2c7108-a96c-4100-8d96-2785d0ffa2c7"}, "__new_primary_file_unique|0.11__": {"src": "hda", "id": "52ae354051a713cf", "uuid": "3ce96159-82e0-4e0e-a644-1522dd4ab280"}, "__new_primary_file_unique|0.41__": {"src": "hda", "id": "a21f6630d51aa237", "uuid": "6b2c9e56-d4b3-4deb-8f52-bee0305572cf"}, "__new_primary_file_unique|0.06__": {"src": "hda", "id": "e88c34232705ba65", "uuid": "81cafa7f-41d0-429e-8038-58cab8fc431b"}, "__new_primary_file_unique|0.25__": {"src": "hda", "id": "7c3a3946772cd3a5", "uuid": "9ac59227-fa48-4d82-85ad-75448bbced38"}, "__new_primary_file_unique|0.22__": {"src": "hda", "id": "25c2f28094be3e4a", "uuid": "a56e8353-e761-45df-820e-fb3342713ea7"}, "__new_primary_file_unique|0.36__": {"src": "hda", "id": "610851f8602f4f94", "uuid": "035d59ef-d1d7-4967-bb23-4fb16e3b5ed2"}, "__new_primary_file_unique|0.04__": {"src": "hda", "id": "3883bbf3e69f96c4", "uuid": "a42088ee-667c-44a9-b5ad-dd6b80141c6c"}, "__new_primary_file_unique|0.23__": {"src": "hda", "id": "c53c947799f8d062", "uuid": "0f9e30d9-8dbf-4829-8584-0bbdce6be1e1"}, "__new_primary_file_unique|0.33__": {"src": "hda", "id": "dccae4d18ce46393", "uuid": "1e44f7be-25ed-43b2-a1c1-205fbafe265f"}, "logfile": {"src": "hda", "id": "bf85b7bcdfa19ca1", "uuid": "38f29163-266b-48b0-9624-8bfd516f73e7"}, "__new_primary_file_unique|0.20__": {"src": "hda", "id": "eb14a43b730af9b0", "uuid": "a031af33-4cd8-4e5b-926c-a31e5bd60efc"}, "__new_primary_file_unique|0.29__": {"src": "hda", "id": "783cb8e61a95c257", "uuid": "a233e3ce-f9cb-41e7-ba68-4fbef3cc7031"}, "__new_primary_file_unique|0.38__": {"src": "hda", "id": "77520fba82154a85", "uuid": "6683bbc2-c8eb-4caa-b5c0-175565aaef41"}, "__new_primary_file_unique|0.55__": {"src": "hda", "id": "07494a3104a83c58", "uuid": "867eb8e2-805b-43b8-a020-254c764a27c4"}, "__new_primary_file_unique|0.07__": {"src": "hda", "id": "1bd4fe964f1633ec", "uuid": "3d529eea-171f-42bc-9ee7-b2b5ee04b27c"}, "__new_primary_file_unique|0.26__": {"src": "hda", "id": "c0e32004680aebdc", "uuid": "19c1897d-da47-4cbe-9aaf-a2402357915d"}, "__new_primary_file_unique|0.32__": {"src": "hda", "id": "8191b8e06b896e17", "uuid": "ff6c896b-e40b-4ba4-a214-237c1c89323c"}, "__new_primary_file_unique|0.27__": {"src": "hda", "id": "59b498d849471e88", "uuid": "20a0b8de-3faa-4698-afe3-cbf5e32ec68c"}, "__new_primary_file_unique|0.19__": {"src": "hda", "id": "713308dcadc7b298", "uuid": "81cc846e-6e1e-40ce-8928-d283c86af865"}, "__new_primary_file_unique|0.01__": {"src": "hda", "id": "94a9be080ede912f", "uuid": "2c99ebe0-181a-4ed9-a6d1-fcff02f1f95d"}, "__new_primary_file_unique|0.24__": {"src": "hda", "id": "8cd99efd35c03f63", "uuid": "df0df989-9b8f-4e8e-9656-364cbf999132"}, "__new_primary_file_unique|0.18__": {"src": "hda", "id": "098690efcaf79838", "uuid": "fea1943c-c4b0-4b4a-8939-b46a3b520e28"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sub.sample(list=input_otu.dat)\nSampling 9 from 98.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.unique.subsample.dat\ninput_otu.0.01.subsample.dat\ninput_otu.0.02.subsample.dat\ninput_otu.0.03.subsample.dat\ninput_otu.0.04.subsample.dat\ninput_otu.0.05.subsample.dat\ninput_otu.0.06.subsample.dat\ninput_otu.0.07.subsample.dat\ninput_otu.0.08.subsample.dat\ninput_otu.0.09.subsample.dat\ninput_otu.0.10.subsample.dat\ninput_otu.0.11.subsample.dat\ninput_otu.0.12.subsample.dat\ninput_otu.0.13.subsample.dat\ninput_otu.0.14.subsample.dat\ninput_otu.0.15.subsample.dat\ninput_otu.0.16.subsample.dat\ninput_otu.0.17.subsample.dat\ninput_otu.0.18.subsample.dat\ninput_otu.0.19.subsample.dat\ninput_otu.0.20.subsample.dat\ninput_otu.0.21.subsample.dat\ninput_otu.0.22.subsample.dat\ninput_otu.0.23.subsample.dat\ninput_otu.0.24.subsample.dat\ninput_otu.0.25.subsample.dat\ninput_otu.0.26.subsample.dat\ninput_otu.0.27.subsample.dat\ninput_otu.0.29.subsample.dat\ninput_otu.0.32.subsample.dat\ninput_otu.0.33.subsample.dat\ninput_otu.0.36.subsample.dat\ninput_otu.0.38.subsample.dat\ninput_otu.0.41.subsample.dat\ninput_otu.0.45.subsample.dat\ninput_otu.0.55.subsample.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3303.dat' input_otu.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && echo 'sub.sample( list=input_otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:35:38.794951", "params": {"count": "null", "taxonomy": "null", "dbkey": "\"hg17\"", "input": "{\"label\": null, \"use_group\": {\"to_filter\": \"no\", \"__current_case__\": 0}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3303}]}, \"__current_case__\": 1, \"format\": \"list\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "4648", "id": "25d0f693a44d3b63", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sub_sample.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|use_group|to_filter": "yes", "input|format": "list", "input|label": ["0.20", "0.45", "0.55"], "input|use_group|group_in": {"src": "hda", "id": "6c33be6b38ca33c8"}, "input|otu": {"src": "hda", "id": "a6914750373c5dca"}, "input|use_group|groups": ["forest", "pasture"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "a6914750373c5dca", "uuid": "273992d2-624e-4e47-9e79-53149cf7489e"}, "input|group_in": {"src": "hda", "id": "6c33be6b38ca33c8", "uuid": "4e6343ec-eef2-4ddf-870e-9f1771d9160f"}}, "update_time": "2018-02-08T18:36:06.787393", "tool_id": "mothur_sub_sample", "outputs": {"group_out": {"src": "hda", "id": "e1d9bb3f99cf6cdf", "uuid": "71c9c6f1-8226-4835-9d0e-0aac8d68b7cb"}, "__new_primary_file_0.55|0.45__": {"src": "hda", "id": "9ae55fc576dc60f1", "uuid": "47707b9a-c6e9-4112-8550-b72d078f5d33"}, "logfile": {"src": "hda", "id": "124f3cdfbbd95fda", "uuid": "14a1fcc8-3c6c-4dcb-b91b-f5f92ea6b31a"}, "__new_primary_file_0.55|0.20__": {"src": "hda", "id": "d7fb8460258b019b", "uuid": "034a36b0-49a6-4c55-a60f-4ec36e35a084"}, "__new_primary_file_0.55|0.55__": {"src": "hda", "id": "68ee566869d6b1ed", "uuid": "670a77ac-fda5-46e2-a978-5fcd0bad7785"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sub.sample(list=input_otu.dat,label=0.20-0.45-0.55,group=input_use_grou \rp_group_in.dat,groups=forest-pasture,persample=false)\nSampling 9 from 98.\n0.20\n0.45\n0.55\n\nOutput File Names: \ninput_use_group_group_in.subsample.dat\ninput_otu.0.20.subsample.dat\ninput_otu.0.45.subsample.dat\ninput_otu.0.55.subsample.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3341.dat' input_otu.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3342.dat' input_use_group_group_in.dat && echo 'sub.sample( list=input_otu.dat ,label=0.20-0.45-0.55 ,group=input_use_group_group_in.dat ,groups=forest-pasture ,persample=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:36:03.484357", "params": {"count": "null", "taxonomy": "null", "dbkey": "\"hg17\"", "input": "{\"label\": [\"0.20\", \"0.45\", \"0.55\"], \"use_group\": {\"groups\": [\"forest\", \"pasture\"], \"group_in\": {\"values\": [{\"src\": \"hda\", \"id\": 3342}]}, \"to_filter\": \"yes\", \"__current_case__\": 1, \"persample\": \"false\"}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3341}]}, \"__current_case__\": 1, \"format\": \"list\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "4799", "id": "5d14d4d6e1b26e70", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sub_sample.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"taxonomy": {"src": "hda", "id": "1f575f6909f01a06"}, "input|format": "fasta", "input|otu": {"src": "hda", "id": "bece6f670e32e3b2"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "1f575f6909f01a06", "uuid": "6e828b79-1871-4f06-bc3b-31124c33f80f"}, "otu": {"src": "hda", "id": "bece6f670e32e3b2", "uuid": "45d3232c-e01f-434b-baf0-a36f8911e6d7"}}, "update_time": "2018-02-08T18:36:27.157284", "tool_id": "mothur_sub_sample", "outputs": {"logfile": {"src": "hda", "id": "08fc905d422a8de9", "uuid": "50b3fb39-3176-4b2a-8d7d-56affc461bdb"}, "taxonomy_out": {"src": "hda", "id": "94b1487945e42c0e", "uuid": "ca5f7679-1915-4578-95cb-044a508074d0"}, "fasta_out": {"src": "hda", "id": "4ea647ba3b7d95df", "uuid": "071973e8-c400-49ef-b9a5-6657b427e0ae"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sub.sample(fasta=input_otu.dat,taxonomy=taxonomy.dat)\nSampling 9 from 98.\n\nOutput File Names: \ntaxonomy.subsample.dat\ninput_otu.subsample.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3348.dat' input_otu.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3349.dat' taxonomy.dat && ln -s 'None' input_name_in.dat && echo 'sub.sample( fasta=input_otu.dat ,taxonomy=taxonomy.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:36:23.949610", "params": {"count": "null", "input": "{\"name_in\": null, \"use_group\": {\"to_filter\": \"no\", \"__current_case__\": 0}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3348}]}, \"__current_case__\": 0, \"format\": \"fasta\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "4910", "id": "3299fdcb51cc47eb", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sub_sample.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"input|use_group|to_filter": "yes", "input|format": "fasta", "input|use_group|group_in": {"src": "hda", "id": "eee039b20a991e3a"}, "input|name_in": {"src": "hda", "id": "b5720c569f7288b1"}, "input|otu": {"src": "hda", "id": "ee0ce12141350359"}, "input|use_group|groups": ["forest", "pasture"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "ee0ce12141350359", "uuid": "42469f25-5708-4222-8760-ff76e6d4d9c3"}, "name_in": {"src": "hda", "id": "b5720c569f7288b1", "uuid": "e240f77e-5836-449b-9fb9-ee9ed7a7aa34"}, "input|group_in": {"src": "hda", "id": "eee039b20a991e3a", "uuid": "a42c8f9c-d99a-48c9-a576-c8456e430272"}}, "update_time": "2018-02-08T18:36:57.127387", "tool_id": "mothur_sub_sample", "outputs": {"group_out": {"src": "hda", "id": "23aff3aec83edf3b", "uuid": "154fd6b1-2176-4bd8-ba50-bf69094a6a5d"}, "logfile": {"src": "hda", "id": "e05ecd771fc816b3", "uuid": "217b049f-b60a-4381-babb-7d066d4f80e9"}, "names_out": {"src": "hda", "id": "26cbd2176813479a", "uuid": "98e02803-23f3-4b1e-9643-8f39ea708d6a"}, "fasta_out": {"src": "hda", "id": "91ae72a932583c4d", "uuid": "3f0fd802-fd00-4559-820b-2a76a91912d9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sub.sample(fasta=input_otu.dat,name=input_name_in.dat,group=input_use_g \rroup_group_in.dat,groups=forest-pasture,persample=false)\nSampling 9 from 98.\nDeconvoluting subsampled fasta file... \n/******************************************/\nRunning command: unique.seqs(fasta=input_otu.subsample.dat)\n9\t9\n\nOutput File Names: \ninput_otu.subsample.names\ninput_otu.subsample.unique.dat\n\n/******************************************/\nDone.\n\nOutput File Names: \ninput_name_in.subsample.dat\ninput_otu.subsample.dat\ninput_use_group_group_in.subsample.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3353.dat' input_otu.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3354.dat' input_name_in.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3355.dat' input_use_group_group_in.dat && echo 'sub.sample( fasta=input_otu.dat ,name=input_name_in.dat ,group=input_use_group_group_in.dat ,groups=forest-pasture ,persample=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:36:53.756809", "params": {"count": "null", "taxonomy": "null", "dbkey": "\"hg17\"", "input": "{\"name_in\": {\"values\": [{\"src\": \"hda\", \"id\": 3354}]}, \"use_group\": {\"groups\": [\"forest\", \"pasture\"], \"group_in\": {\"values\": [{\"src\": \"hda\", \"id\": 3355}]}, \"to_filter\": \"yes\", \"__current_case__\": 1, \"persample\": \"false\"}, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3353}]}, \"__current_case__\": 0, \"format\": \"fasta\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5043", "id": "8ef1d4aff90ec17a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sub_sample.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"input|label": ["unique", "0.20"], "input|groups": "forest", "input|format": "shared", "input|otu": {"src": "hda", "id": "ef698126cba35364"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "ef698126cba35364", "uuid": "e59a69f6-ea54-4896-a614-6a30742cb504"}}, "update_time": "2018-02-08T18:37:24.623961", "tool_id": "mothur_sub_sample", "outputs": {"__new_primary_file_unique|0.20__": {"src": "hda", "id": "8197278eca4fd946", "uuid": "b6bbe5af-0df4-4784-b8e0-d1b94535fff7"}, "__new_primary_file_unique|unique__": {"src": "hda", "id": "3ed661d3927e064a", "uuid": "ce0d0dd6-a206-4810-9de8-2bc82dd76873"}, "logfile": {"src": "hda", "id": "85326d390990318f", "uuid": "1e3805df-515e-4e08-8f96-1e000697d674"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sub.sample(shared=input_otu.dat,groups=forest,label=unique-0.20)\nSampling 49 from each group.\nunique\n0.20\n\nOutput File Names: \ninput_otu.unique.subsample.dat\ninput_otu.0.20.subsample.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3360.dat' input_otu.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && echo 'sub.sample( shared=input_otu.dat ,groups=forest ,label=unique-0.20 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:37:21.465530", "params": {"count": "null", "taxonomy": "null", "dbkey": "\"hg17\"", "input": "{\"groups\": \"forest\", \"label\": [\"unique\", \"0.20\"], \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3360}]}, \"__current_case__\": 2, \"format\": \"shared\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5144", "id": "28ff0d67f20f4379", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sub_sample.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"input|format": "rabund", "input|otu": {"src": "hda", "id": "edee4d329f8f498b"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "edee4d329f8f498b", "uuid": "d7a3be04-025a-4ede-a135-079084fb394f"}}, "update_time": "2018-02-08T18:37:42.101206", "tool_id": "mothur_sub_sample", "outputs": {"rabund_out": {"src": "hda", "id": "d7f196f58f1b0b71", "uuid": "d6cfb504-3504-4392-bf5e-7afcb080ec67"}, "logfile": {"src": "hda", "id": "46e41148fd1dda0c", "uuid": "011d4c74-d116-42a0-b8a6-a250368b8f9a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sub.sample(rabund=input_otu.dat)\nSampling 9 from 98.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.subsample.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3364.dat' input_otu.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && echo 'sub.sample( rabund=input_otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:37:38.974213", "params": {"count": "null", "taxonomy": "null", "dbkey": "\"hg17\"", "input": "{\"label\": null, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3364}]}, \"__current_case__\": 4, \"format\": \"rabund\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5235", "id": "45a4f11c8f7e7223", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sub_sample.test_tool_000005", "has_data": true}, {"data": {"status": "success", "inputs": {"input|format": "sabund", "input|otu": {"src": "hda", "id": "10d4ec46a6dab525"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "10d4ec46a6dab525", "uuid": "485908f3-8e8b-4984-a10e-f9718499bf14"}}, "update_time": "2018-02-08T18:37:59.562528", "tool_id": "mothur_sub_sample", "outputs": {"sabund_out": {"src": "hda", "id": "edb9aecf4037cd61", "uuid": "844b4d73-8677-45ee-93cf-9da60b83311f"}, "logfile": {"src": "hda", "id": "78353c3ca164fa23", "uuid": "30f65e57-bb1f-4dbb-9cfe-e552341c898a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > sub.sample(sabund=input_otu.dat)\nSampling 9 from 98.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.subsample.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3367.dat' input_otu.dat && ln -s 'None' count.dat && ln -s 'None' taxonomy.dat && echo 'sub.sample( sabund=input_otu.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:37:56.411698", "params": {"count": "null", "taxonomy": "null", "dbkey": "\"hg17\"", "input": "{\"label\": null, \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3367}]}, \"__current_case__\": 3, \"format\": \"sabund\"}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5329", "id": "973cca1598618f36", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_sub_sample.test_tool_000006", "has_data": true}, {"data": {"status": "success", "inputs": {"qfile": {"src": "hda", "id": "997fdd605baf4477"}}, "job": {"inputs": {"qfile": {"src": "hda", "id": "997fdd605baf4477", "uuid": "b13158ea-6190-42e6-a8ae-3a5c21ead029"}}, "update_time": "2018-02-08T18:38:17.046071", "tool_id": "mothur_summary_qual", "outputs": {"logfile": {"src": "hda", "id": "be79454c845000eb", "uuid": "75a6e837-a714-412f-8804-367ca29718e0"}, "out_summary": {"src": "hda", "id": "c4be6070688ee40e", "uuid": "b3c138ce-bf0f-42a9-827e-bd29523e12e1"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.qual(qfile=qfile.dat)\n\nUsing 1 processors.\n\nPosition\tNumSeqs\tAverageQ\n0\t25\t31.760000\n100\t25\t29.719999\n200\t25\t28.799999\n\nIt took 0 secs to create the summary file for 25 sequences.\n\n\nOutput File Names: \nqfile.qual.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3370.dat' qfile.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'summary.qual( qfile=qfile.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:38:13.919763", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5418", "id": "76bb1b91489711f4", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_qual.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "56ac79356c05acc8"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "56ac79356c05acc8", "uuid": "6f0d83d5-f9ac-46f9-9ace-50ad5ceeb974"}}, "update_time": "2018-02-08T18:38:29.506638", "tool_id": "mothur_summary_seqs", "outputs": {"logfile": {"src": "hda", "id": "d5f96994fda893d3", "uuid": "75fbfa36-0d67-4a1f-abbe-68f632470429"}, "out_summary": {"src": "hda", "id": "08a03081f5d556bd", "uuid": "cef79172-0f84-4dc6-a21a-226ca0d18391"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.seqs(fasta=fasta.dat,processors=1)\n\nUsing 1 processors.\n\n\t\tStart\tEnd\tNBases\tAmbigs\tPolymer\tNumSeqs\nMinimum:\t1\t252\t252\t0\t3\t1\n2.5%-tile:\t1\t252\t252\t0\t3\t1\n25%-tile:\t1\t253\t253\t0\t4\t7\nMedian: \t1\t253\t253\t0\t4\t13\n75%-tile:\t1\t253\t253\t0\t5\t19\n97.5%-tile:\t1\t254\t254\t8\t6\t25\nMaximum:\t1\t254\t254\t8\t6\t25\nMean:\t1\t252.92\t252.92\t0.4\t4.24\n# of Seqs:\t25\n\nOutput File Names: \nfasta.summary\n\nIt took 0 secs to summarize 25 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3373.dat' fasta.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'summary.seqs( fasta=fasta.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:38:26.369792", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5507", "id": "40537184298763b3", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "bfbf916ea0862825"}, "name": {"src": "hda", "id": "a1bca696e6338746"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "bfbf916ea0862825", "uuid": "441d697c-304b-48b5-b977-c692f16ebf90"}, "name": {"src": "hda", "id": "a1bca696e6338746", "uuid": "fd30122b-1410-4d81-a9c9-06d3623f37cf"}}, "update_time": "2018-02-08T18:38:50.021600", "tool_id": "mothur_summary_seqs", "outputs": {"logfile": {"src": "hda", "id": "d308ef85a2ecdd63", "uuid": "8d77bc24-c3a9-476a-a08f-88dcc3f16174"}, "out_summary": {"src": "hda", "id": "bd5984605556083f", "uuid": "97a18d25-524f-41a4-9f71-b5db69e2a367"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.seqs(fasta=fasta.dat,name=name.dat,processors=1)\n\nUsing 1 processors.\n\n\t\tStart\tEnd\tNBases\tAmbigs\tPolymer\tNumSeqs\nMinimum:\t1\t422\t422\t0\t4\t1\n2.5%-tile:\t1\t436\t436\t0\t4\t3\n25%-tile:\t1\t507\t507\t1\t5\t25\nMedian: \t1\t530\t530\t3\t5\t50\n75%-tile:\t1\t961\t961\t6\t6\t74\n97.5%-tile:\t1\t973\t973\t15\t8\t96\nMaximum:\t1\t978\t978\t20\t9\t98\nMean:\t1\t678.235\t678.235\t4.54082\t5.44898\n# of unique seqs:\t96\ntotal # of seqs:\t98\n\nOutput File Names: \nfasta.summary\n\nIt took 0 secs to summarize 98 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3376.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3377.dat' name.dat && ln -s 'None' count.dat && echo 'summary.seqs( fasta=fasta.dat, name=name.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:38:46.918829", "params": {"count": "null", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5627", "id": "0cc52239f966e8d8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"count": {"src": "hda", "id": "d32f8d2680587f70"}, "fasta": {"src": "hda", "id": "561fb224c4db80ce"}}, "job": {"inputs": {"count": {"src": "hda", "id": "d32f8d2680587f70", "uuid": "89db742d-5a41-4b17-8121-7d7990cac273"}, "fasta": {"src": "hda", "id": "561fb224c4db80ce", "uuid": "82f53e55-3751-4359-9711-7e6d49e40902"}}, "update_time": "2018-02-08T18:39:10.818528", "tool_id": "mothur_summary_seqs", "outputs": {"logfile": {"src": "hda", "id": "183b6b1fd8567283", "uuid": "f98a65a4-a5af-44c6-901d-c2870b7e17a4"}, "out_summary": {"src": "hda", "id": "309dfc9ec023321e", "uuid": "88e59858-87d0-4485-813c-2060acf87822"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.seqs(fasta=fasta.dat,count=count.dat,processors=1)\n\nUsing 1 processors.\n\n\t\tStart\tEnd\tNBases\tAmbigs\tPolymer\tNumSeqs\nMinimum:\t1\t422\t422\t0\t4\t1\n2.5%-tile:\t1\t436\t436\t0\t4\t3\n25%-tile:\t1\t507\t507\t1\t5\t25\nMedian: \t1\t530\t530\t3\t5\t50\n75%-tile:\t1\t961\t961\t6\t6\t74\n97.5%-tile:\t1\t973\t973\t15\t8\t96\nMaximum:\t1\t978\t978\t20\t9\t98\nMean:\t1\t678.235\t678.235\t4.54082\t5.44898\n# of unique seqs:\t96\ntotal # of seqs:\t98\n\nOutput File Names: \nfasta.summary\n\nIt took 0 secs to summarize 98 sequences.\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3380.dat' fasta.dat && ln -s 'None' name.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3381.dat' count.dat && echo 'summary.seqs( fasta=fasta.dat, count=count.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:39:07.731295", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "name": "null", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5738", "id": "20daa85480c5e233", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "0426109cd781ead0"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "0426109cd781ead0", "uuid": "bdb3a54a-e140-44c2-9d09-1eea16f2634a"}}, "update_time": "2018-02-08T18:39:28.523455", "tool_id": "mothur_summary_shared", "outputs": {"logfile": {"src": "hda", "id": "66e1b7e2cc1eadad", "uuid": "98586141-b915-4211-8008-76ce467ce6fa"}, "summary": {"src": "hda", "id": "3cd2bed6e83f9950", "uuid": "59846e5d-4dc2-4cfb-9db0-7d6977934fe4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.shared(shared=otu.dat,calc=sharedsobs-sharedchao-sharedace-jcla \rss-jest-sorclass-sorest-jabund-sorabund-thetan-thetayc,all=false,distance=false, \routput=lt,processors=1)\n\nUsing 1 processors.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3384.dat' otu.dat && echo 'summary.shared( shared=otu.dat, calc=sharedsobs-sharedchao-sharedace-jclass-jest-sorclass-sorest-jabund-sorabund-thetan-thetayc, all=false, distance=false, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:39:25.392601", "params": {"distance": "\"false\"", "all": "\"false\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"use\": \"no\", \"__current_case__\": 1}", "groups": "null", "output": "\"lt\"", "calc": "[\"sharedsobs\", \"sharedchao\", \"sharedace\", \"jclass\", \"jest\", \"sorclass\", \"sorest\", \"jabund\", \"sorabund\", \"thetan\", \"thetayc\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5829", "id": "68b1b014e79dbbac", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"subsample|use": "yes", "otu": {"src": "hda", "id": "254a819efefe8354"}, "subsample|iters": "42", "subsample|subsample": "10"}, "job": {"inputs": {"otu": {"src": "hda", "id": "254a819efefe8354", "uuid": "aaf98054-0ba0-481b-91bf-9da58d5967e4"}}, "update_time": "2018-02-08T18:39:46.006201", "tool_id": "mothur_summary_shared", "outputs": {"logfile": {"src": "hda", "id": "cded715b2eb96d19", "uuid": "daa6c625-e03b-4735-8b46-013ba527ad23"}, "summary": {"src": "hda", "id": "c6fdefa03add2afa", "uuid": "95ec8fed-62b1-4cc9-8287-621a7afac31e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.shared(shared=otu.dat,calc=sharedsobs-sharedchao-sharedace-jcla \rss-jest-sorclass-sorest-jabund-sorabund-thetan-thetayc,all=false,distance=false, \rsubsample=10,iters=42,output=lt,processors=1)\n\nUsing 1 processors.\n0.10\n\nOutput File Names: \notu.summary\notu.sharedsobs.0.10.lt.dist\notu.sharedchao.0.10.lt.dist\notu.sharedace.0.10.lt.dist\notu.jclass.0.10.lt.dist\notu.jest.0.10.lt.dist\notu.sorclass.0.10.lt.dist\notu.sorest.0.10.lt.dist\notu.jabund.0.10.lt.dist\notu.sorabund.0.10.lt.dist\notu.thetan.0.10.lt.dist\notu.thetayc.0.10.lt.dist\notu.sharedsobs.0.10.lt.ave.dist\notu.sharedsobs.0.10.lt.std.dist\notu.sharedchao.0.10.lt.ave.dist\notu.sharedchao.0.10.lt.std.dist\notu.sharedace.0.10.lt.ave.dist\notu.sharedace.0.10.lt.std.dist\notu.jclass.0.10.lt.ave.dist\notu.jclass.0.10.lt.std.dist\notu.jest.0.10.lt.ave.dist\notu.jest.0.10.lt.std.dist\notu.sorclass.0.10.lt.ave.dist\notu.sorclass.0.10.lt.std.dist\notu.sorest.0.10.lt.ave.dist\notu.sorest.0.10.lt.std.dist\notu.jabund.0.10.lt.ave.dist\notu.jabund.0.10.lt.std.dist\notu.sorabund.0.10.lt.ave.dist\notu.sorabund.0.10.lt.std.dist\notu.thetan.0.10.lt.ave.dist\notu.thetan.0.10.lt.std.dist\notu.thetayc.0.10.lt.ave.dist\notu.thetayc.0.10.lt.std.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3387.dat' otu.dat && echo 'summary.shared( shared=otu.dat, calc=sharedsobs-sharedchao-sharedace-jclass-jest-sorclass-sorest-jabund-sorabund-thetan-thetayc, all=false, distance=false, subsample=10, iters=42, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:39:42.829423", "params": {"distance": "\"false\"", "all": "\"false\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"iters\": \"42\", \"subsample\": \"10\", \"use\": \"yes\", \"__current_case__\": 0}", "groups": "null", "output": "\"lt\"", "calc": "[\"sharedsobs\", \"sharedchao\", \"sharedace\", \"jclass\", \"jest\", \"sorclass\", \"sorest\", \"jabund\", \"sorabund\", \"thetan\", \"thetayc\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "5925", "id": "71eba17e79d46ea5", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"calc": ["sharedsobs", "sharedchao", "sharedace", "anderberg", "jclass", "jest", "kulczynski", "kulczynskicody", "kstest", "lennon", "ochiai", "sorclass", "sorest", "whittaker", "hamming", "memchi2", "memchord", "memeuclidean", "mempearson", "braycurtis", "jabund", "morisitahorn", "sorabund", "thetan", "thetayc", "canberra", "gower", "hellinger", "manhattan", "odum", "soergel", "spearman", "speciesprofile", "structchi2", "structchord", "structeuclidean", "structkulczynski", "structpearson", "sharednseqs", "sharedobserved"], "otu": {"src": "hda", "id": "e747dd9ffcf57168"}, "groups": ["forest", "pasture"], "label": ["0.05", "0.22", "0.32"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "e747dd9ffcf57168", "uuid": "59d81e55-859a-492b-aa87-40e647394b7e"}}, "update_time": "2018-02-08T18:40:03.413375", "tool_id": "mothur_summary_shared", "outputs": {"logfile": {"src": "hda", "id": "75d696f5e8005428", "uuid": "d3c6f0a0-fa22-4672-94c1-da0bf5ab2f46"}, "summary": {"src": "hda", "id": "da7a9cd1bf67613c", "uuid": "d24a67fa-9b8b-4683-becf-e5e71f369043"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.shared(shared=otu.dat,label=0.05-0.22-0.32,groups=forest-pastur \re,calc=sharedsobs-sharedchao-sharedace-anderberg-jclass-jest-kulczynski-kulczyns \rkicody-kstest-lennon-ochiai-sorclass-sorest-whittaker-hamming-memchi2-memchord-m \remeuclidean-mempearson-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc-ca \rnberra-gower-hellinger-manhattan-odum-soergel-spearman-speciesprofile-structchi2 \r-structchord-structeuclidean-structkulczynski-structpearson-sharednseqs-sharedob \rserved,all=false,distance=false,output=lt,processors=1)\n\nUsing 1 processors.\nsharedobserved is not a valid estimator for the summary.shared command and will be disregarded. Valid estimators are anderberg, braycurtis, canberra, default, gower, hamming, hellinger, jabund, jclass, jest, jsd, kstest, kulczynski, kulczynskicody, lennon, manhattan, memchi2, memchord, memeuclidean, mempearson, morisitahorn, ochiai, odum, rjsd, sharedace, sharedchao, sharednseqs, sharedsobs, soergel, sorabund, sorclass, sorest, spearman, speciesprofile, structchi2, structchord, structeuclidean, structkulczynski, structpearson, thetan, thetayc, whittaker, \n0.05\n0.22\n0.32\n\nOutput File Names: \notu.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3390.dat' otu.dat && echo 'summary.shared( shared=otu.dat, label=0.05-0.22-0.32, groups=forest-pasture, calc=sharedsobs-sharedchao-sharedace-anderberg-jclass-jest-kulczynski-kulczynskicody-kstest-lennon-ochiai-sorclass-sorest-whittaker-hamming-memchi2-memchord-memeuclidean-mempearson-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc-canberra-gower-hellinger-manhattan-odum-soergel-spearman-speciesprofile-structchi2-structchord-structeuclidean-structkulczynski-structpearson-sharednseqs-sharedobserved, all=false, distance=false, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:40:00.489517", "params": {"distance": "\"false\"", "all": "\"false\"", "dbkey": "\"hg17\"", "label": "[\"0.05\", \"0.22\", \"0.32\"]", "subsample": "{\"use\": \"no\", \"__current_case__\": 1}", "groups": "[\"forest\", \"pasture\"]", "output": "\"lt\"", "calc": "[\"sharedsobs\", \"sharedchao\", \"sharedace\", \"anderberg\", \"jclass\", \"jest\", \"kulczynski\", \"kulczynskicody\", \"kstest\", \"lennon\", \"ochiai\", \"sorclass\", \"sorest\", \"whittaker\", \"hamming\", \"memchi2\", \"memchord\", \"memeuclidean\", \"mempearson\", \"braycurtis\", \"jabund\", \"morisitahorn\", \"sorabund\", \"thetan\", \"thetayc\", \"canberra\", \"gower\", \"hellinger\", \"manhattan\", \"odum\", \"soergel\", \"spearman\", \"speciesprofile\", \"structchi2\", \"structchord\", \"structeuclidean\", \"structkulczynski\", \"structpearson\", \"sharednseqs\", \"sharedobserved\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6045", "id": "617cf9f340bd6e86", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_shared.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"distance": true, "calc": "sorclass", "otu": {"src": "hda", "id": "b443405669a58394"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "b443405669a58394", "uuid": "9c2927b2-b6be-4c3d-9f35-e3ffb0ed545c"}}, "update_time": "2018-02-08T18:40:22.695570", "tool_id": "mothur_summary_shared", "outputs": {"__new_primary_file_sorclass.unique.lt|sorclass.0.20.lt__": {"src": "hda", "id": "c6b272724420a0c3", "uuid": "c3c3c914-e794-404a-8ae6-c5f927315eb3"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.16.lt__": {"src": "hda", "id": "fbf13bbace0e382f", "uuid": "ced285e3-693a-4653-8054-29c1e871b8c8"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.38.lt__": {"src": "hda", "id": "a9b933fa687d9518", "uuid": "d34cfb4c-ae40-41e5-8925-4955c6f0d4b7"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.41.lt__": {"src": "hda", "id": "5a3d96751cec6e3e", "uuid": "4446d774-e6cc-44d6-92a3-17aa2eb4a61e"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.15.lt__": {"src": "hda", "id": "7b9f8b98c4ffad77", "uuid": "7516dc4e-4037-4c88-9afd-cf7ff670952e"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.12.lt__": {"src": "hda", "id": "3282233258f0f7fb", "uuid": "fc7b66ab-3c8a-4ab3-9496-ba84db2f0731"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.08.lt__": {"src": "hda", "id": "549fe069f41f5e42", "uuid": "365bffa5-59d1-44fa-b958-25b05b357828"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.11.lt__": {"src": "hda", "id": "feb74fd2f7fd44fb", "uuid": "5537588f-6aa0-4c34-86b9-bcac45e7c8ef"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.36.lt__": {"src": "hda", "id": "6c0029535d6b5111", "uuid": "1aaea491-b9b1-4052-b65a-c98cfab6ed52"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.33.lt__": {"src": "hda", "id": "fca77c5af4471e3e", "uuid": "e9edeb83-266d-4fe6-8160-86a967b21ddb"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.25.lt__": {"src": "hda", "id": "710299148e65bdb4", "uuid": "db0a5fc7-2f8d-4eb4-9dc2-e57635ca41ab"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.19.lt__": {"src": "hda", "id": "1e9f3a99da895dd5", "uuid": "08b73e49-5643-466c-86c6-23ce58861812"}, "__new_primary_file_sorclass.unique.lt|sorclass.unique.lt__": {"src": "hda", "id": "fc51f4aebb0d65c0", "uuid": "8fa6fbcb-a7f8-4800-a968-a4911976e902"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.32.lt__": {"src": "hda", "id": "bec9e7f6333d2f36", "uuid": "156b9944-86bc-45ef-ac41-9d5291dd252d"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.26.lt__": {"src": "hda", "id": "bf875c8c7ae3c4c1", "uuid": "90d2df26-0a4e-4e6d-ac1c-81cb840c3761"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.03.lt__": {"src": "hda", "id": "9e4763fe06d09ee1", "uuid": "cebd135c-c029-42e4-8a13-edcf9f7fa2a8"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.04.lt__": {"src": "hda", "id": "a3a91b9854e528c1", "uuid": "8c3d70ea-ac21-4191-9e66-60bb499d8e46"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.14.lt__": {"src": "hda", "id": "6b308095f18dba3b", "uuid": "9ba48b4e-d989-467d-adfb-5583f91b0f62"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.01.lt__": {"src": "hda", "id": "d0f92696983585f3", "uuid": "3836c464-9fa2-42ab-8f7a-98eeae340704"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.18.lt__": {"src": "hda", "id": "b97c4dee7d66e350", "uuid": "beca01d7-5288-44c6-ba13-8d6bce14c1fc"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.09.lt__": {"src": "hda", "id": "c57e8cad56a6ff2a", "uuid": "cfc4ffbc-8b06-4608-9448-6e8bdbbee96a"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.29.lt__": {"src": "hda", "id": "49b04723a575686c", "uuid": "efac65e1-b627-4685-960b-021dc4682f49"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.22.lt__": {"src": "hda", "id": "10b3c1fe38490935", "uuid": "d7be3e40-f86a-41e5-9cbd-bebc6ca8a987"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.21.lt__": {"src": "hda", "id": "30b2b5ef7167ced6", "uuid": "50d3ac63-53e2-43bd-966c-0dbf3b34fa53"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.05.lt__": {"src": "hda", "id": "8031952532462a13", "uuid": "d9dfc3e0-370d-42a5-a4b9-a7fc39506fab"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.23.lt__": {"src": "hda", "id": "0dea4abf9bb0415a", "uuid": "c692dc6d-b5db-4d53-a90d-d7f162177c91"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.02.lt__": {"src": "hda", "id": "5936ec972cea4795", "uuid": "0a08ca9f-39b2-44b1-a5f4-f422a557ddb3"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.06.lt__": {"src": "hda", "id": "4efb683e59835243", "uuid": "ff63daba-f9ac-495b-9c99-004a47c23bc6"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.27.lt__": {"src": "hda", "id": "777dd7569c196c76", "uuid": "956fcdce-a6d3-4d84-b713-c35ab476121b"}, "logfile": {"src": "hda", "id": "10212f8402b2f379", "uuid": "93761f5c-938e-46a6-adcb-511c4a7d4032"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.45.lt__": {"src": "hda", "id": "0d3149843a425eae", "uuid": "ed2d13b5-f26e-454d-86a4-956bcea163d6"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.24.lt__": {"src": "hda", "id": "bfd4ea23a1e8bbdd", "uuid": "b2d06a53-2ec3-4e5b-be3c-6a27f2d87d0f"}, "summary": {"src": "hda", "id": "8747915bc2bfc819", "uuid": "05e4e93c-2242-4fff-85b0-37eebcd5fd19"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.13.lt__": {"src": "hda", "id": "5fc0b50ca858f8c5", "uuid": "95c1eeb0-1d07-468a-a70a-883db948f832"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.10.lt__": {"src": "hda", "id": "f8ccb799d73ec3dd", "uuid": "548923ee-863b-4120-a0dd-2d27df2d49c2"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.17.lt__": {"src": "hda", "id": "74bd528cdd946582", "uuid": "c3f23ca4-9d84-4027-9dc2-e7f85a80fcd7"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.07.lt__": {"src": "hda", "id": "f241b8715eaa6b7a", "uuid": "e60417f2-c85b-4b50-ae86-feb13f49d5a5"}, "__new_primary_file_sorclass.unique.lt|sorclass.0.55.lt__": {"src": "hda", "id": "af41e4fac73960a1", "uuid": "90ea88dc-ea36-4b42-a782-e4d6556864b8"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.shared(shared=otu.dat,calc=sorclass,all=false,distance=true,out \rput=lt,processors=1)\n\nUsing 1 processors.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.summary\notu.sorclass.unique.lt.dist\notu.sorclass.0.01.lt.dist\notu.sorclass.0.02.lt.dist\notu.sorclass.0.03.lt.dist\notu.sorclass.0.04.lt.dist\notu.sorclass.0.05.lt.dist\notu.sorclass.0.06.lt.dist\notu.sorclass.0.07.lt.dist\notu.sorclass.0.08.lt.dist\notu.sorclass.0.09.lt.dist\notu.sorclass.0.10.lt.dist\notu.sorclass.0.11.lt.dist\notu.sorclass.0.12.lt.dist\notu.sorclass.0.13.lt.dist\notu.sorclass.0.14.lt.dist\notu.sorclass.0.15.lt.dist\notu.sorclass.0.16.lt.dist\notu.sorclass.0.17.lt.dist\notu.sorclass.0.18.lt.dist\notu.sorclass.0.19.lt.dist\notu.sorclass.0.20.lt.dist\notu.sorclass.0.21.lt.dist\notu.sorclass.0.22.lt.dist\notu.sorclass.0.23.lt.dist\notu.sorclass.0.24.lt.dist\notu.sorclass.0.25.lt.dist\notu.sorclass.0.26.lt.dist\notu.sorclass.0.27.lt.dist\notu.sorclass.0.29.lt.dist\notu.sorclass.0.32.lt.dist\notu.sorclass.0.33.lt.dist\notu.sorclass.0.36.lt.dist\notu.sorclass.0.38.lt.dist\notu.sorclass.0.41.lt.dist\notu.sorclass.0.45.lt.dist\notu.sorclass.0.55.lt.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3393.dat' otu.dat && echo 'summary.shared( shared=otu.dat, calc=sorclass, all=false, distance=true, output=lt, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:40:17.726109", "params": {"distance": "\"true\"", "all": "\"false\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"use\": \"no\", \"__current_case__\": 1}", "groups": "null", "output": "\"lt\"", "calc": "\"sorclass\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6135", "id": "e033f1f6a16a5fdb", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_shared.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "bcc40440bc682f91"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "bcc40440bc682f91", "uuid": "cfb793d1-0a5b-4fb0-8348-342f73d77406"}}, "update_time": "2018-02-08T18:40:47.563664", "tool_id": "mothur_summary_single", "outputs": {"subsample_summary": {"src": "hda", "id": "8223d3aea03f91a3", "uuid": "5013c585-03ac-4702-934b-1120f0e54c2b"}, "logfile": {"src": "hda", "id": "a8b76ec0d8bb9cbb", "uuid": "0121e22c-dc77-450e-b2b8-d470c1e949cd"}, "summary": {"src": "hda", "id": "e75c6e7fd38a1506", "uuid": "498bcf3f-59f1-4df3-9878-5b7e881d6eef"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.single(shared=otu.dat,groupmode=true,calc=ace-chao-jack-sobs-si \rmpson-shannon-npshannon,abund=10)\n\nProcessing group forest\n\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nProcessing group pasture\n\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.groups.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3432.dat' otu.dat && echo 'summary.single( shared=otu.dat, groupmode=true ,calc=ace-chao-jack-sobs-simpson-shannon-npshannon ,abund=10 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:40:44.372596", "params": {"abund": "\"10\"", "groupmode": "\"true\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"use\": \"no\", \"__current_case__\": 1}", "calc": "[\"ace\", \"chao\", \"jack\", \"sobs\", \"simpson\", \"shannon\", \"npshannon\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6237", "id": "f691a5951523571b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_single.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"calc": ["ace", "bootstrap", "chao", "jack", "sobs", "simpsoneven", "shannoneven", "heip", "smithwilson", "bergerparker", "coverage", "goodscoverage", "simpson", "invsimpson", "qstat", "shannon", "npshannon", "boneh", "efron", "shen", "solow", "logseries", "geometric", "bstick", "nseqs"], "otu": {"src": "hda", "id": "7d4fdaa4731a0a66"}, "label": ["0.05", "0.22", "0.32"]}, "job": {"inputs": {"otu": {"src": "hda", "id": "7d4fdaa4731a0a66", "uuid": "d335fa95-0e14-4417-ac8d-7dda122edf81"}}, "update_time": "2018-02-08T18:41:05.019830", "tool_id": "mothur_summary_single", "outputs": {"subsample_summary": {"src": "hda", "id": "7058e5df1feb4870", "uuid": "6677b51b-6194-4588-9305-54a602c6e0d8"}, "logfile": {"src": "hda", "id": "3c8c6806cad72b43", "uuid": "98646530-a51f-40f7-bfe0-dfb9c1d72bd1"}, "summary": {"src": "hda", "id": "97e0cfb4245121c2", "uuid": "a6b1aaa8-0a10-4db0-9562-c5b664054a9e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.single(shared=otu.dat,groupmode=true,label=0.05-0.22-0.32,calc= \race-bootstrap-chao-jack-sobs-simpsoneven-shannoneven-heip-smithwilson-bergerpark \rer-coverage-goodscoverage-simpson-invsimpson-qstat-shannon-npshannon-boneh-efron \r-shen-solow-logseries-geometric-bstick-nseqs,abund=10)\n\nProcessing group forest\n\n0.05\n0.22\n0.32\n\nProcessing group pasture\n\n0.05\n0.22\n0.32\n\nOutput File Names: \notu.groups.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3436.dat' otu.dat && echo 'summary.single( shared=otu.dat, groupmode=true ,label=0.05-0.22-0.32 ,calc=ace-bootstrap-chao-jack-sobs-simpsoneven-shannoneven-heip-smithwilson-bergerparker-coverage-goodscoverage-simpson-invsimpson-qstat-shannon-npshannon-boneh-efron-shen-solow-logseries-geometric-bstick-nseqs ,abund=10 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:41:01.859227", "params": {"abund": "\"10\"", "groupmode": "\"true\"", "dbkey": "\"hg17\"", "label": "[\"0.05\", \"0.22\", \"0.32\"]", "subsample": "{\"use\": \"no\", \"__current_case__\": 1}", "calc": "[\"ace\", \"bootstrap\", \"chao\", \"jack\", \"sobs\", \"simpsoneven\", \"shannoneven\", \"heip\", \"smithwilson\", \"bergerparker\", \"coverage\", \"goodscoverage\", \"simpson\", \"invsimpson\", \"qstat\", \"shannon\", \"npshannon\", \"boneh\", \"efron\", \"shen\", \"solow\", \"logseries\", \"geometric\", \"bstick\", \"nseqs\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6322", "id": "824db84bb730ff40", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_single.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"otu": {"src": "hda", "id": "046dc814339ceff4"}, "groupmode": false}, "job": {"inputs": {"otu": {"src": "hda", "id": "046dc814339ceff4", "uuid": "5d866346-b6e2-40e8-aa7f-21a7a7ca52b8"}}, "update_time": "2018-02-08T18:41:22.364406", "tool_id": "mothur_summary_single", "outputs": {"__new_primary_file_pasture|forest__": {"src": "hda", "id": "10280f41f2c7c752", "uuid": "280db29e-fa14-46cb-b8eb-b36a5103e501"}, "logfile": {"src": "hda", "id": "7ecd6e9675e139a5", "uuid": "c199174e-86c5-4c48-929e-045952aea5da"}, "__new_primary_file_pasture|pasture__": {"src": "hda", "id": "09457d21386fcba3", "uuid": "134660e0-0e9f-41d3-8967-863d43c77492"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.single(shared=otu.dat,groupmode=false,calc=ace-chao-jack-sobs-s \rimpson-shannon-npshannon,abund=10)\n\nProcessing group forest\n\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nProcessing group pasture\n\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.forest.summary\notu.pasture.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3440.dat' otu.dat && echo 'summary.single( shared=otu.dat, groupmode=false ,calc=ace-chao-jack-sobs-simpson-shannon-npshannon ,abund=10 )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:41:19.336102", "params": {"abund": "\"10\"", "groupmode": "\"false\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"use\": \"no\", \"__current_case__\": 1}", "calc": "[\"ace\", \"chao\", \"jack\", \"sobs\", \"simpson\", \"shannon\", \"npshannon\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6407", "id": "030656b247de0efe", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_single.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"subsample|use": "yes", "otu": {"src": "hda", "id": "637ab171f9780706"}, "subsample|iters": "42", "subsample|subsample": "10"}, "job": {"inputs": {"otu": {"src": "hda", "id": "637ab171f9780706", "uuid": "50d44bc0-2460-415c-b57b-6488b6c68d87"}}, "update_time": "2018-02-08T18:41:39.911044", "tool_id": "mothur_summary_single", "outputs": {"subsample_summary": {"src": "hda", "id": "bd8bdd2a2038a190", "uuid": "153e4833-9b1e-4ebb-9b30-3edeb40fd930"}, "logfile": {"src": "hda", "id": "7822d21d2c1efd0f", "uuid": "6e7de8a6-23f3-48b9-a297-f29da3fa89e3"}, "summary": {"src": "hda", "id": "1bf84afd7b930518", "uuid": "ab83ce62-5f57-4e0c-b7e4-e6a3017d55a6"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.single(rabund=otu.dat,calc=ace-chao-jack-sobs-simpson-shannon-n \rpshannon,abund=10,subsample=10,iters=42)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \notu.summary\notu.ave_std.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3444.dat' otu.dat && echo 'summary.single( rabund=otu.dat ,calc=ace-chao-jack-sobs-simpson-shannon-npshannon ,abund=10 ,subsample=10 ,iters=42 )' | sed 's/ //g' | mothur | tee mothur.out.log && mv otu.*ave_std.summary otu.ave-std", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:41:36.674896", "params": {"abund": "\"10\"", "groupmode": "\"true\"", "dbkey": "\"hg17\"", "label": "null", "subsample": "{\"iters\": \"42\", \"subsample\": \"10\", \"use\": \"yes\", \"__current_case__\": 0}", "calc": "[\"ace\", \"chao\", \"jack\", \"sobs\", \"simpson\", \"shannon\", \"npshannon\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "size": "\"\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6495", "id": "35610b944eae1662", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_single.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"tax|source": "hist", "tax|taxonomy": {"src": "hda", "id": "97f081ffc622334b"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "97f081ffc622334b", "uuid": "94641a0d-5fcd-4a33-9735-80ca65bbce70"}}, "update_time": "2018-02-08T18:42:02.367553", "tool_id": "mothur_summary_tax", "outputs": {"logfile": {"src": "hda", "id": "ef827ef9990b2a18", "uuid": "637cc626-75b4-4632-8123-48e27a7d16d9"}, "taxsummary": {"src": "hda", "id": "13bed055b69c3f53", "uuid": "013032a7-b3f4-4148-b0c5-5d9301e501f5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.tax(taxonomy=tax.taxonomy.dat,relabund=false)\n\nIt took 0 secs to create the summary file for 242 sequences.\n\n\nOutput File Names: \ntax.taxonomy.tax.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3448.dat' tax.taxonomy.dat && ln -s 'None' name.dat && ln -s 'None' group.dat && ln -s 'None' count.dat && echo 'summary.tax( taxonomy=tax.taxonomy.dat, relabund=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:41:59.440341", "params": {"count": "null", "group": "null", "name": "null", "relabund": "\"false\"", "tax": "{\"source\": \"hist\", \"__current_case__\": 1, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 3448}]}}", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6584", "id": "0f7bfbeda1808692", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_tax.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"tax|source": "hist", "tax|taxonomy": {"src": "hda", "id": "5703175d6b845ade"}}, "job": {"inputs": {"taxonomy": {"src": "hda", "id": "5703175d6b845ade", "uuid": "523cfa41-689b-48c1-84d2-c6b4b8fabf74"}}, "update_time": "2018-02-08T18:42:19.745721", "tool_id": "mothur_summary_tax", "outputs": {"logfile": {"src": "hda", "id": "a062654a409016a9", "uuid": "afd4ff3b-f29e-4de1-b3ad-9effa990ef5b"}, "taxsummary": {"src": "hda", "id": "498b124981096150", "uuid": "7794df82-88d4-4f07-a14c-5237fa5da76a"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > summary.tax(taxonomy=tax.taxonomy.dat,relabund=false)\n\nIt took 0 secs to create the summary file for 242 sequences.\n\n\nOutput File Names: \ntax.taxonomy.tax.summary\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3451.dat' tax.taxonomy.dat && ln -s 'None' name.dat && ln -s 'None' group.dat && ln -s 'None' count.dat && echo 'summary.tax( taxonomy=tax.taxonomy.dat, relabund=false )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:42:16.663062", "params": {"count": "null", "group": "null", "name": "null", "relabund": "\"false\"", "tax": "{\"source\": \"hist\", \"__current_case__\": 1, \"taxonomy\": {\"values\": [{\"src\": \"hda\", \"id\": 3451}]}}", "dbkey": "\"hg17\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6673", "id": "32e4cd7ce068c585", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_summary_tax.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|dist": {"src": "hda", "id": "6201901e7bcadfb4"}, "input|source": "phylip"}, "job": {"inputs": {"dist": {"src": "hda", "id": "6201901e7bcadfb4", "uuid": "62a2698a-0ed3-4ecb-8d7d-3a9ac80d514e"}}, "update_time": "2018-02-08T18:42:37.247942", "tool_id": "mothur_tree_shared", "outputs": {"logfile": {"src": "hda", "id": "231281dccddcf77b", "uuid": "d331c62c-2528-404b-8d3e-fae0d559cbb2"}, "tre": {"src": "hda", "id": "bcdc79e6d8f62c6d", "uuid": "3b6a726e-e127-40bb-b982-64d8d017cb9b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > tree.shared(phylip=input_dist.dat,calc=jclass-thetayc,processors=1)\n\nUsing 1 processors.\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nTree complete. \n\nOutput File Names: \ninput_dist.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3454.dat' input_dist.dat && ln -s 'None' input_name.dat && echo 'tree.shared( phylip=input_dist.dat, calc=jclass-thetayc, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:42:34.145621", "params": {"input": "{\"source\": \"phylip\", \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 3454}]}, \"name\": null, \"__current_case__\": 1}", "calc": "[\"jclass\", \"thetayc\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6772", "id": "d1ff5636c3d156c1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_tree_shared.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|subsampling|use": "yes", "input|dist": {"src": "hda", "id": "1e7f0208842c57c7"}, "input|source": "shared", "calc": "jclass"}, "job": {"inputs": {"dist": {"src": "hda", "id": "1e7f0208842c57c7", "uuid": "0ae79539-5fcb-4343-9b3e-5c8e69f205e3"}}, "update_time": "2018-02-08T18:43:01.130960", "tool_id": "mothur_tree_shared", "outputs": {"__new_primary_file_jclass.unique.cons|jclass.0.41.all__": {"src": "hda", "id": "cefa370203f56b4d", "uuid": "1d4c4365-920c-4bd3-91ef-ce3afb0c0128"}, "__new_primary_file_jclass.unique.cons|jclass.unique.cons__": {"src": "hda", "id": "2637607f2be8cd75", "uuid": "07c88a39-b2b3-4e00-9449-7c539db7af00"}, "__new_primary_file_jclass.unique.cons|jclass.0.22.all__": {"src": "hda", "id": "9af146ccceb7a9ff", "uuid": "12b554db-cb71-47d5-9bb1-063847b32c3e"}, "__new_primary_file_jclass.unique.cons|jclass.0.09.cons__": {"src": "hda", "id": "f5183b488f878855", "uuid": "7ba3e895-0c5c-4942-836b-e5991eb3ede9"}, "__new_primary_file_jclass.unique.cons|jclass.0.09.ave__": {"src": "hda", "id": "4696558d52315110", "uuid": "c21e999f-9001-4af0-9472-a652db9f0f79"}, "__new_primary_file_jclass.unique.cons|jclass.0.19.cons__": {"src": "hda", "id": "b90a27cf76146e04", "uuid": "4744d434-85b7-4137-9bcb-d8f97c1cad1c"}, "__new_primary_file_jclass.unique.cons|jclass.0.07.all__": {"src": "hda", "id": "bfb714ed193bbbf1", "uuid": "fd2cd682-9903-4ebc-98f8-4053e6dd9c13"}, "__new_primary_file_jclass.unique.cons|jclass.0.05.all__": {"src": "hda", "id": "7ed7e924d2c41cf0", "uuid": "31513a8f-7978-4f66-b93a-75980f55d157"}, "__new_primary_file_jclass.unique.cons|jclass.0.04.cons__": {"src": "hda", "id": "bc4f04b48f12a516", "uuid": "27f27a26-a9e8-47d3-83af-0f3f10728760"}, "__new_primary_file_jclass.unique.cons|jclass.0.33.all__": {"src": "hda", "id": "1062773c46e9fe85", "uuid": "fe6210fa-61f6-443e-83c6-0420b6723edb"}, "__new_primary_file_jclass.unique.cons|jclass.0.11.cons__": {"src": "hda", "id": "08207c70a7404e17", "uuid": "9612bd14-2bc4-4b11-8937-f0789c7955b4"}, "__new_primary_file_jclass.unique.cons|jclass.0.13.cons__": {"src": "hda", "id": "91f274fdab0ebf41", "uuid": "ecac312b-7d59-4502-b059-e94a3f325928"}, "__new_primary_file_jclass.unique.cons|jclass.0.29.cons__": {"src": "hda", "id": "339a5e652c8c8ce3", "uuid": "1e4ad904-1563-423a-af8c-39496839fe2c"}, "__new_primary_file_jclass.unique.cons|jclass.0.25.ave__": {"src": "hda", "id": "26c43c2b1e01afd2", "uuid": "a833d429-77fb-4994-a968-cf0a4c8b9a6f"}, "__new_primary_file_jclass.unique.cons|jclass.0.21.all__": {"src": "hda", "id": "6ef1f29760afdb4d", "uuid": "87d382ee-c578-4ca7-9732-fa06d8854b26"}, "__new_primary_file_jclass.unique.cons|jclass.0.45.all__": {"src": "hda", "id": "41ce475ac7576c53", "uuid": "9eeac668-0707-4be7-888a-2b740b9e631f"}, "__new_primary_file_jclass.unique.cons|jclass.0.22.ave__": {"src": "hda", "id": "f5703005ff1c4ba3", "uuid": "d99a3971-f0a1-45fb-a34c-d84233d25634"}, "__new_primary_file_jclass.unique.cons|jclass.0.20.cons__": {"src": "hda", "id": "0e5e2ae65bff54c6", "uuid": "62827fdc-91e4-429c-ab7a-c75a385e9048"}, "__new_primary_file_jclass.unique.cons|jclass.0.14.all__": {"src": "hda", "id": "d0f1fb5f56b983ed", "uuid": "cb8edcbe-5993-46d7-b3a5-498faecb39f1"}, "logfile": {"src": "hda", "id": "0e2c78e69502ab1f", "uuid": "9d186dc8-689f-40df-aad1-97805cb89027"}, "__new_primary_file_jclass.unique.cons|jclass.0.03.ave__": {"src": "hda", "id": "a54c5ea4f6a7e520", "uuid": "fe65e820-b3b7-4950-9baf-4cf58d3aabf2"}, "__new_primary_file_jclass.unique.cons|jclass.0.04.ave__": {"src": "hda", "id": "473ef13118f78bca", "uuid": "c36370d7-2989-470f-85ce-9e94544a6137"}, "__new_primary_file_jclass.unique.cons|jclass.0.01.cons__": {"src": "hda", "id": "a2a35295eedda3c8", "uuid": "0ebdbfc0-8f34-41ff-97d4-d814e718e721"}, "__new_primary_file_jclass.unique.cons|jclass.0.27.cons__": {"src": "hda", "id": "9084fbeddb842dfb", "uuid": "1c7a0fc5-a683-4144-8563-6e2b7ddd8d71"}, "__new_primary_file_jclass.unique.cons|jclass.0.36.all__": {"src": "hda", "id": "5b06b05babb42b2f", "uuid": "7f00ebd2-7931-42c7-b561-093f51a19432"}, "__new_primary_file_jclass.unique.cons|jclass.0.07.ave__": {"src": "hda", "id": "02a68c66e780729b", "uuid": "0b47ca13-96d6-4a75-b67d-c8bd65f159fb"}, "__new_primary_file_jclass.unique.cons|jclass.0.13.all__": {"src": "hda", "id": "2605f593ff8e052c", "uuid": "e02b1b74-ac8c-404a-9d8b-b37e927f63a3"}, "__new_primary_file_jclass.unique.cons|jclass.0.24.cons__": {"src": "hda", "id": "b4a7f0be7bdd9036", "uuid": "735b26ce-3e59-4d51-9a27-db31de4be6e0"}, "__new_primary_file_jclass.unique.cons|jclass.0.55.all__": {"src": "hda", "id": "89b4268555d04c86", "uuid": "bd089a94-139e-4c6c-b3b8-ed5162151438"}, "__new_primary_file_jclass.unique.cons|jclass.0.24.ave__": {"src": "hda", "id": "127bf7c610257c79", "uuid": "72c93777-dd9a-4649-b5a5-ba70cdc79034"}, "__new_primary_file_jclass.unique.cons|jclass.unique.ave__": {"src": "hda", "id": "c7f75beafd749f4e", "uuid": "ca17d53b-b99c-4765-815b-89d57d3340b0"}, "__new_primary_file_jclass.unique.cons|jclass.0.01.all__": {"src": "hda", "id": "5757be15efe06038", "uuid": "c155d9b5-bdca-4b27-97a4-ba6682936e45"}, "__new_primary_file_jclass.unique.cons|jclass.0.16.cons__": {"src": "hda", "id": "3d8c10c7d0f018f2", "uuid": "a7eba47f-5c9d-4c37-9dcb-e5022c327f35"}, "__new_primary_file_jclass.unique.cons|jclass.0.10.ave__": {"src": "hda", "id": "1a2ff28cf3244126", "uuid": "d1e7c366-d64e-423e-970b-1be872b64090"}, "__new_primary_file_jclass.unique.cons|jclass.0.26.ave__": {"src": "hda", "id": "58cd38bfa6b7501d", "uuid": "4f5878e6-2538-4922-870f-3a542621a724"}, "__new_primary_file_jclass.unique.cons|jclass.0.20.ave__": {"src": "hda", "id": "f4c6813f0cc2980b", "uuid": "d6459284-77ec-41e2-a469-275d5e119ba7"}, "__new_primary_file_jclass.unique.cons|jclass.0.02.cons__": {"src": "hda", "id": "7a78f85085f15095", "uuid": "3af03e48-6079-4f75-b2c1-a4a616389287"}, "__new_primary_file_jclass.unique.cons|jclass.0.15.all__": {"src": "hda", "id": "7a098213efc5ffbd", "uuid": "5392de9b-e2f8-432e-b47c-2cbd62bcf1ab"}, "__new_primary_file_jclass.unique.cons|jclass.0.12.cons__": {"src": "hda", "id": "e02ae21b67f9ccf0", "uuid": "08517c5c-233b-4c40-88b3-58ee4d918ec2"}, "__new_primary_file_jclass.unique.cons|jclass.0.02.all__": {"src": "hda", "id": "fa66a325c81bf393", "uuid": "2ed2b440-673e-4fda-9070-f9639779fab9"}, "__new_primary_file_jclass.unique.cons|jclass.0.14.ave__": {"src": "hda", "id": "6c0085e70c0e2fb1", "uuid": "c06bb0b7-959b-4355-a3a6-686c0a984779"}, "__new_primary_file_jclass.unique.cons|jclass.0.33.cons__": {"src": "hda", "id": "1dce9a5c4056a316", "uuid": "b4733956-0ab6-4080-8c22-f4b62304b71e"}, "__new_primary_file_jclass.unique.cons|jclass.0.15.ave__": {"src": "hda", "id": "a48421fd27694e83", "uuid": "39b45de7-4f1d-45ed-a7fa-52cb22a3bfff"}, "__new_primary_file_jclass.unique.cons|jclass.0.12.all__": {"src": "hda", "id": "ded41ec0cabd0d4c", "uuid": "56475a11-6abb-4716-ad37-c7e7c6d7940f"}, "__new_primary_file_jclass.unique.cons|jclass.0.21.ave__": {"src": "hda", "id": "4702ed7de75d9e6c", "uuid": "c16f9dab-1ae7-4801-8689-b56a6462af1d"}, "__new_primary_file_jclass.unique.cons|jclass.0.36.cons__": {"src": "hda", "id": "f9fd16f2f60b966c", "uuid": "ffdb3c02-da8e-4a68-aac1-6f6c473d95a3"}, "__new_primary_file_jclass.unique.cons|jclass.0.10.cons__": {"src": "hda", "id": "29122f8690196732", "uuid": "c66a5a3e-26fc-4134-b899-72b30e4465e8"}, "__new_primary_file_jclass.unique.cons|jclass.0.06.cons__": {"src": "hda", "id": "a277db1fc5156ec0", "uuid": "7a001518-58fa-4b7c-85a7-4b6a155f054a"}, "__new_primary_file_jclass.unique.cons|jclass.0.18.ave__": {"src": "hda", "id": "3b2fda51e92723df", "uuid": "b8aac911-d547-4aff-92ee-3f56056b5743"}, "__new_primary_file_jclass.unique.cons|jclass.unique.all__": {"src": "hda", "id": "41b27825e9cea01e", "uuid": "2d729e68-ae5a-4ca0-aa52-663fa08203b3"}, "__new_primary_file_jclass.unique.cons|jclass.0.26.cons__": {"src": "hda", "id": "dbd64d3340c362e6", "uuid": "42d9518d-c722-41b7-9236-a45bd425e50e"}, "__new_primary_file_jclass.unique.cons|jclass.0.08.cons__": {"src": "hda", "id": "3c5d52a70d28e8ab", "uuid": "ebe10ea2-b4d2-4443-8e69-d2faff1432ea"}, "__new_primary_file_jclass.unique.cons|jclass.0.38.cons__": {"src": "hda", "id": "1bed268f0134058b", "uuid": "b7e55633-d37a-4219-a67a-217a24f5b67c"}, "__new_primary_file_jclass.unique.cons|jclass.0.55.ave__": {"src": "hda", "id": "ee6e00838f800571", "uuid": "f2944ee7-0d2b-43c6-bc21-8350c44ccd85"}, "__new_primary_file_jclass.unique.cons|jclass.0.11.all__": {"src": "hda", "id": "f01fa3da48623b70", "uuid": "696fc14f-91b9-4231-ae6b-54355764606b"}, "__new_primary_file_jclass.unique.cons|jclass.0.08.all__": {"src": "hda", "id": "9646fef2d4e6d0c3", "uuid": "3673b3da-119e-41a7-b440-ddb871e21d8b"}, "__new_primary_file_jclass.unique.cons|jclass.0.55.cons__": {"src": "hda", "id": "7937873ab2c9a124", "uuid": "324fa1b2-dcf9-4a49-963d-5cfc3ca47152"}, "__new_primary_file_jclass.unique.cons|jclass.0.23.all__": {"src": "hda", "id": "19529905d8a823d9", "uuid": "dab83ece-7f29-4c2b-8b98-c6a35d87a015"}, "__new_primary_file_jclass.unique.cons|jclass.0.20.all__": {"src": "hda", "id": "b30cfcb836338f04", "uuid": "8aad1f91-3227-475e-8a74-81c791511a98"}, "__new_primary_file_jclass.unique.cons|jclass.0.45.cons__": {"src": "hda", "id": "5488ad1b4e0ba307", "uuid": "db2787e0-c7cd-47f3-bcb1-20ac0e9a021e"}, "__new_primary_file_jclass.unique.cons|jclass.0.08.ave__": {"src": "hda", "id": "28259fe61e700a00", "uuid": "cb2a5a9d-015f-4f1d-9df3-0f3f31ea6b97"}, "__new_primary_file_jclass.unique.cons|jclass.0.45.ave__": {"src": "hda", "id": "52f2fbd647be780c", "uuid": "fd7b3dd6-94c7-489c-be81-9ef23b99c7c1"}, "__new_primary_file_jclass.unique.cons|jclass.0.36.ave__": {"src": "hda", "id": "b74760b6ac6d2c3c", "uuid": "4c0a8d06-da17-47b3-bbd1-3e401dfb8ff5"}, "__new_primary_file_jclass.unique.cons|jclass.0.15.cons__": {"src": "hda", "id": "6d81bb179dd499b2", "uuid": "6338e4d2-4b6e-489e-8025-aaaadf2d23cf"}, "__new_primary_file_jclass.unique.cons|jclass.0.06.all__": {"src": "hda", "id": "6aa1ea2ef35e34c5", "uuid": "0884d0b7-d6bf-41e8-8957-7a4033f52df0"}, "__new_primary_file_jclass.unique.cons|jclass.0.38.all__": {"src": "hda", "id": "c869b752c6b2eb60", "uuid": "c992ccde-65a6-42bf-ac22-d0e0a8ab1c16"}, "__new_primary_file_jclass.unique.cons|jclass.0.29.all__": {"src": "hda", "id": "49288d877267ba91", "uuid": "4871b1be-a5c5-4e33-a01a-3c68e815d851"}, "__new_primary_file_jclass.unique.cons|jclass.0.12.ave__": {"src": "hda", "id": "0b8bb54d4f31adad", "uuid": "7eae9102-f762-4436-89b7-328760a9ee17"}, "__new_primary_file_jclass.unique.cons|jclass.0.09.all__": {"src": "hda", "id": "f6c2580558e569f6", "uuid": "d5f4c946-a8a6-4972-8dcc-13976c32046e"}, "__new_primary_file_jclass.unique.cons|jclass.0.16.ave__": {"src": "hda", "id": "7873ccc5fd74f4f1", "uuid": "7bba890d-3aec-430c-bb4b-8f1d16a0ae78"}, "__new_primary_file_jclass.unique.cons|jclass.0.14.cons__": {"src": "hda", "id": "75b26e49ceae1eeb", "uuid": "4a30c374-5355-4cec-8ddd-2e25798b8e2a"}, "__new_primary_file_jclass.unique.cons|jclass.0.26.all__": {"src": "hda", "id": "8f9d89727089361a", "uuid": "c7423e8c-fc60-496b-8b6b-22555bfe5c9e"}, "__new_primary_file_jclass.unique.cons|jclass.0.18.cons__": {"src": "hda", "id": "e32f528d83141913", "uuid": "15c20cca-b80f-46d3-b28d-c634c991773f"}, "__new_primary_file_jclass.unique.cons|jclass.0.04.all__": {"src": "hda", "id": "7d8cbef36d177eef", "uuid": "2ff4d0cc-07b4-4987-a5b4-4953f0a78a6f"}, "__new_primary_file_jclass.unique.cons|jclass.0.05.cons__": {"src": "hda", "id": "d5b7641ac5493809", "uuid": "fe9a71f6-86b6-4572-ba58-cb1a1c218a70"}, "__new_primary_file_jclass.unique.cons|jclass.0.16.all__": {"src": "hda", "id": "87e08c75578866e4", "uuid": "24af2c5e-998a-4ff0-881c-0b3b0f0ac1c0"}, "__new_primary_file_jclass.unique.cons|jclass.0.32.ave__": {"src": "hda", "id": "afbfa110d078d42e", "uuid": "669d11fb-5add-4fd6-b32f-50e3a4b16e42"}, "__new_primary_file_jclass.unique.cons|jclass.0.19.all__": {"src": "hda", "id": "caaf02ce5246e812", "uuid": "3659354a-ee03-45da-9960-227e72faeb93"}, "__new_primary_file_jclass.unique.cons|jclass.0.23.ave__": {"src": "hda", "id": "55c097e30896211f", "uuid": "40ee903a-f30d-41aa-8e92-b5cd2f8a3b7a"}, "__new_primary_file_jclass.unique.cons|jclass.0.06.ave__": {"src": "hda", "id": "4f36b45233d4a4cd", "uuid": "68063fb2-a1b4-4863-b196-fe650bc1b055"}, "__new_primary_file_jclass.unique.cons|jclass.0.17.all__": {"src": "hda", "id": "e8dfec8e2152738e", "uuid": "8e972b96-66ba-4cb5-90f4-7692afe8f7a2"}, "__new_primary_file_jclass.unique.cons|jclass.0.27.ave__": {"src": "hda", "id": "a9f5eaca107f0076", "uuid": "096485cb-e7e8-42e9-8245-04e967e8a6ce"}, "__new_primary_file_jclass.unique.cons|jclass.0.25.cons__": {"src": "hda", "id": "4c20688f418aa5ff", "uuid": "e23e86ff-b647-4ee1-9579-9803f99870db"}, "__new_primary_file_jclass.unique.cons|jclass.0.17.cons__": {"src": "hda", "id": "b235a5ef93cea8ef", "uuid": "3eb3dc04-8560-4f07-8591-78be90d8a886"}, "__new_primary_file_jclass.unique.cons|jclass.0.21.cons__": {"src": "hda", "id": "58d0df78d95b4877", "uuid": "83e3e5e6-8938-47bd-8d93-5ace271d1747"}, "__new_primary_file_jclass.unique.cons|jclass.0.03.all__": {"src": "hda", "id": "56b1cb88808025dc", "uuid": "34e2c1cf-cf2a-4e8c-9a2a-d24e9dcad3e6"}, "__new_primary_file_jclass.unique.cons|jclass.0.03.cons__": {"src": "hda", "id": "2db4a1e581166c6b", "uuid": "d904f972-e159-4cf8-8c4a-935abcb1deda"}, "__new_primary_file_jclass.unique.cons|jclass.0.23.cons__": {"src": "hda", "id": "b59f53c4ad99464c", "uuid": "5d324a8a-9db7-4fee-8f00-9d6b55229124"}, "__new_primary_file_jclass.unique.cons|jclass.0.18.all__": {"src": "hda", "id": "09a267cd5580f2ec", "uuid": "abf37bb0-8510-4bb7-9e41-9b72839ccac5"}, "__new_primary_file_jclass.unique.cons|jclass.0.17.ave__": {"src": "hda", "id": "338d40563fa708aa", "uuid": "f46ea19a-ae93-4f31-8381-d176d01a150f"}, "__new_primary_file_jclass.unique.cons|jclass.0.02.ave__": {"src": "hda", "id": "55e3ef465ca24045", "uuid": "8089ccd8-5200-423a-87bb-556682b4bb69"}, "__new_primary_file_jclass.unique.cons|jclass.0.25.all__": {"src": "hda", "id": "a7435d8ab6fe090c", "uuid": "74b9639d-3742-40c5-8ba6-b31f9b3cbf06"}, "__new_primary_file_jclass.unique.cons|jclass.0.33.ave__": {"src": "hda", "id": "749756d5b7b1d3e1", "uuid": "2c7e546f-bcc2-453d-aab4-94e5eef8acdf"}, "__new_primary_file_jclass.unique.cons|jclass.0.22.cons__": {"src": "hda", "id": "2d71385af4c10216", "uuid": "dd409775-6222-4711-adc0-bb8e52bd8fd2"}, "__new_primary_file_jclass.unique.cons|jclass.0.41.cons__": {"src": "hda", "id": "8d6ed66573704eec", "uuid": "c1b36a05-5839-4896-9fe0-c5e64e83ac3a"}, "__new_primary_file_jclass.unique.cons|jclass.0.13.ave__": {"src": "hda", "id": "4f2303e786a8aa1a", "uuid": "05fbb359-b5d6-4e10-b176-206719d56439"}, "__new_primary_file_jclass.unique.cons|jclass.0.41.ave__": {"src": "hda", "id": "9a9674f3715775b8", "uuid": "8929b193-8790-4e65-af9c-70218bb24ad2"}, "__new_primary_file_jclass.unique.cons|jclass.0.27.all__": {"src": "hda", "id": "7a877928f08a37f2", "uuid": "97805f61-2c09-4220-8d5c-110ef998d7f7"}, "__new_primary_file_jclass.unique.cons|jclass.0.32.cons__": {"src": "hda", "id": "f67920aad2a3bc05", "uuid": "ad781555-3c40-41fc-bb18-4e5724944ce0"}, "__new_primary_file_jclass.unique.cons|jclass.0.10.all__": {"src": "hda", "id": "22a81c9c4e0c0ce1", "uuid": "4cd2e75f-07d9-4088-a744-ce71d66692ca"}, "__new_primary_file_jclass.unique.cons|jclass.0.24.all__": {"src": "hda", "id": "30e1dc3b30d9883e", "uuid": "256c0c2d-f1c6-4310-8864-35c2639ee2da"}, "__new_primary_file_jclass.unique.cons|jclass.0.05.ave__": {"src": "hda", "id": "82c91c59d67b5472", "uuid": "8e5f97bc-4c65-43c7-946d-3af8694c2f93"}, "__new_primary_file_jclass.unique.cons|jclass.0.29.ave__": {"src": "hda", "id": "ba55981b7d786ccd", "uuid": "25c46b16-8b69-4209-9039-608684d18c03"}, "__new_primary_file_jclass.unique.cons|jclass.0.38.ave__": {"src": "hda", "id": "f1ffd5138cc4a01d", "uuid": "474884c6-2d98-4793-834f-4fbf5d185cfb"}, "__new_primary_file_jclass.unique.cons|jclass.0.01.ave__": {"src": "hda", "id": "583e03b410a3a90a", "uuid": "10f34357-ee4b-40e7-b505-bc143ee08ddf"}, "__new_primary_file_jclass.unique.cons|jclass.0.11.ave__": {"src": "hda", "id": "dd278f0ade637866", "uuid": "1c31c901-a39a-48f0-be29-65d0d7569071"}, "__new_primary_file_jclass.unique.cons|jclass.0.32.all__": {"src": "hda", "id": "90768a1b9728ba37", "uuid": "8b50ad5a-d301-4e58-8a01-77f6580dbe9e"}, "__new_primary_file_jclass.unique.cons|jclass.0.19.ave__": {"src": "hda", "id": "15e4d725538ff507", "uuid": "2dd16816-6d80-4dba-83f5-b379d52adb8e"}, "__new_primary_file_jclass.unique.cons|jclass.0.07.cons__": {"src": "hda", "id": "78a5ef7657ea1833", "uuid": "22407272-1b16-44aa-be16-25e717daf1b7"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > tree.shared(shared=input_dist.dat,subsample=T,calc=jclass,processors=1) \r\u001b[A\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[C\u001b[K)\n\nUsing 1 processors.\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_dist.jclass.unique.ave.tre\ninput_dist.jclass.unique.all.tre\ninput_dist.jclass.unique.cons.tre\ninput_dist.jclass.0.01.ave.tre\ninput_dist.jclass.0.01.all.tre\ninput_dist.jclass.0.01.cons.tre\ninput_dist.jclass.0.02.ave.tre\ninput_dist.jclass.0.02.all.tre\ninput_dist.jclass.0.02.cons.tre\ninput_dist.jclass.0.03.ave.tre\ninput_dist.jclass.0.03.all.tre\ninput_dist.jclass.0.03.cons.tre\ninput_dist.jclass.0.04.ave.tre\ninput_dist.jclass.0.04.all.tre\ninput_dist.jclass.0.04.cons.tre\ninput_dist.jclass.0.05.ave.tre\ninput_dist.jclass.0.05.all.tre\ninput_dist.jclass.0.05.cons.tre\ninput_dist.jclass.0.06.ave.tre\ninput_dist.jclass.0.06.all.tre\ninput_dist.jclass.0.06.cons.tre\ninput_dist.jclass.0.07.ave.tre\ninput_dist.jclass.0.07.all.tre\ninput_dist.jclass.0.07.cons.tre\ninput_dist.jclass.0.08.ave.tre\ninput_dist.jclass.0.08.all.tre\ninput_dist.jclass.0.08.cons.tre\ninput_dist.jclass.0.09.ave.tre\ninput_dist.jclass.0.09.all.tre\ninput_dist.jclass.0.09.cons.tre\ninput_dist.jclass.0.10.ave.tre\ninput_dist.jclass.0.10.all.tre\ninput_dist.jclass.0.10.cons.tre\ninput_dist.jclass.0.11.ave.tre\ninput_dist.jclass.0.11.all.tre\ninput_dist.jclass.0.11.cons.tre\ninput_dist.jclass.0.12.ave.tre\ninput_dist.jclass.0.12.all.tre\ninput_dist.jclass.0.12.cons.tre\ninput_dist.jclass.0.13.ave.tre\ninput_dist.jclass.0.13.all.tre\ninput_dist.jclass.0.13.cons.tre\ninput_dist.jclass.0.14.ave.tre\ninput_dist.jclass.0.14.all.tre\ninput_dist.jclass.0.14.cons.tre\ninput_dist.jclass.0.15.ave.tre\ninput_dist.jclass.0.15.all.tre\ninput_dist.jclass.0.15.cons.tre\ninput_dist.jclass.0.16.ave.tre\ninput_dist.jclass.0.16.all.tre\ninput_dist.jclass.0.16.cons.tre\ninput_dist.jclass.0.17.ave.tre\ninput_dist.jclass.0.17.all.tre\ninput_dist.jclass.0.17.cons.tre\ninput_dist.jclass.0.18.ave.tre\ninput_dist.jclass.0.18.all.tre\ninput_dist.jclass.0.18.cons.tre\ninput_dist.jclass.0.19.ave.tre\ninput_dist.jclass.0.19.all.tre\ninput_dist.jclass.0.19.cons.tre\ninput_dist.jclass.0.20.ave.tre\ninput_dist.jclass.0.20.all.tre\ninput_dist.jclass.0.20.cons.tre\ninput_dist.jclass.0.21.ave.tre\ninput_dist.jclass.0.21.all.tre\ninput_dist.jclass.0.21.cons.tre\ninput_dist.jclass.0.22.ave.tre\ninput_dist.jclass.0.22.all.tre\ninput_dist.jclass.0.22.cons.tre\ninput_dist.jclass.0.23.ave.tre\ninput_dist.jclass.0.23.all.tre\ninput_dist.jclass.0.23.cons.tre\ninput_dist.jclass.0.24.ave.tre\ninput_dist.jclass.0.24.all.tre\ninput_dist.jclass.0.24.cons.tre\ninput_dist.jclass.0.25.ave.tre\ninput_dist.jclass.0.25.all.tre\ninput_dist.jclass.0.25.cons.tre\ninput_dist.jclass.0.26.ave.tre\ninput_dist.jclass.0.26.all.tre\ninput_dist.jclass.0.26.cons.tre\ninput_dist.jclass.0.27.ave.tre\ninput_dist.jclass.0.27.all.tre\ninput_dist.jclass.0.27.cons.tre\ninput_dist.jclass.0.29.ave.tre\ninput_dist.jclass.0.29.all.tre\ninput_dist.jclass.0.29.cons.tre\ninput_dist.jclass.0.32.ave.tre\ninput_dist.jclass.0.32.all.tre\ninput_dist.jclass.0.32.cons.tre\ninput_dist.jclass.0.33.ave.tre\ninput_dist.jclass.0.33.all.tre\ninput_dist.jclass.0.33.cons.tre\ninput_dist.jclass.0.36.ave.tre\ninput_dist.jclass.0.36.all.tre\ninput_dist.jclass.0.36.cons.tre\ninput_dist.jclass.0.38.ave.tre\ninput_dist.jclass.0.38.all.tre\ninput_dist.jclass.0.38.cons.tre\ninput_dist.jclass.0.41.ave.tre\ninput_dist.jclass.0.41.all.tre\ninput_dist.jclass.0.41.cons.tre\ninput_dist.jclass.0.45.ave.tre\ninput_dist.jclass.0.45.all.tre\ninput_dist.jclass.0.45.cons.tre\ninput_dist.jclass.0.55.ave.tre\ninput_dist.jclass.0.55.all.tre\ninput_dist.jclass.0.55.cons.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3457.dat' input_dist.dat && echo 'tree.shared( shared=input_dist.dat, subsample=T, calc=jclass, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:42:51.798862", "params": {"input": "{\"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 3457}]}, \"__current_case__\": 2, \"label\": null, \"source\": \"shared\", \"groups\": null, \"subsampling\": {\"iters\": \"\", \"subsample\": \"\", \"use\": \"yes\", \"__current_case__\": 0}}", "calc": "\"jclass\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6867", "id": "1380d0b9d445228e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_tree_shared.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"input|label": ["0.05", "0.22", "0.32"], "input|dist": {"src": "hda", "id": "30d3d99850e82b58"}, "input|source": "shared", "input|groups": ["forest", "pasture"], "calc": ["sharedsobs", "sharedchao", "sharedace", "anderberg", "jclass", "jest", "kulczynski", "kulczynskicody", "kstest", "lennon", "ochiai", "sorclass", "sorest", "whittaker", "hamming", "memchi2", "memchord", "memeuclidean", "mempearson", "braycurtis", "jabund", "morisitahorn", "sorabund", "thetan", "thetayc", "canberra", "gower", "hellinger", "manhattan", "odum", "soergel", "spearman", "speciesprofile", "structchi2", "structchord", "structeuclidean", "structkulczynski", "structpearson", "sharednseqs", "sharedobserved"]}, "job": {"inputs": {"dist": {"src": "hda", "id": "30d3d99850e82b58", "uuid": "75f4f2c7-ca6d-431e-a9b6-3652d9ddd8ae"}}, "update_time": "2018-02-08T18:43:28.932146", "tool_id": "mothur_tree_shared", "outputs": {"__new_primary_file_whittaker.0.32|braycurtis.0.05__": {"src": "hda", "id": "f5c8edf7ea899d07", "uuid": "946d10eb-38e7-44b7-a284-894af3e25fb0"}, "__new_primary_file_whittaker.0.32|thetayc.0.22__": {"src": "hda", "id": "b656ae90b2cc3b3b", "uuid": "1c4770ab-337d-4d13-bc26-8c03bf370b90"}, "__new_primary_file_whittaker.0.32|gower.0.32__": {"src": "hda", "id": "bb96abb027ec297a", "uuid": "a6d77bad-7d0a-40be-b67c-06edc5739644"}, "__new_primary_file_whittaker.0.32|structchord.0.32__": {"src": "hda", "id": "52ceb6a28b4743d1", "uuid": "0ea6c2c2-0072-45bf-9876-0fd6323c67ee"}, "__new_primary_file_whittaker.0.32|morisitahorn.0.22__": {"src": "hda", "id": "d070fa739a200f7f", "uuid": "efac5fc5-75d5-487f-ac55-6bc8e60bee75"}, "__new_primary_file_whittaker.0.32|mempearson.0.05__": {"src": "hda", "id": "a39840c3d5fdcd17", "uuid": "8b8e42b4-cab9-4aea-b42a-39539618ae95"}, "__new_primary_file_whittaker.0.32|speciesprofile.0.05__": {"src": "hda", "id": "a2c1e7c72f78aab9", "uuid": "c5f7ae6e-8484-428f-8504-3a946c2cd05f"}, "__new_primary_file_whittaker.0.32|memchi2.0.32__": {"src": "hda", "id": "9773b7fb5a2f5eb8", "uuid": "5385dd29-0582-4e11-87b5-ac57103f8217"}, "__new_primary_file_whittaker.0.32|morisitahorn.0.05__": {"src": "hda", "id": "9cf8321eb12911f1", "uuid": "bab50228-fbc5-4c70-b94b-7bc2043bbac4"}, "__new_primary_file_whittaker.0.32|structpearson.0.05__": {"src": "hda", "id": "f45b4ae8fcf0f254", "uuid": "764b35ff-06e1-4a67-a4c9-c34f4fe6db14"}, "__new_primary_file_whittaker.0.32|ochiai.0.05__": {"src": "hda", "id": "9faf6d7eda7b953b", "uuid": "246f5755-ad6a-4a5f-bfab-1270fbf22cce"}, "__new_primary_file_whittaker.0.32|manhattan.0.22__": {"src": "hda", "id": "367575d16b20f757", "uuid": "a81d6eb3-42db-4644-bb77-0ff6d019f207"}, "__new_primary_file_whittaker.0.32|sorabund.0.22__": {"src": "hda", "id": "f03bc7662fa4a8ad", "uuid": "ec19fff5-17b8-4b6f-9c18-89cc6ab57479"}, "__new_primary_file_whittaker.0.32|braycurtis.0.32__": {"src": "hda", "id": "0f65a7757e5d4964", "uuid": "3d9b0b12-3a07-428e-98ab-be284f25689d"}, "__new_primary_file_whittaker.0.32|structkulczynski.0.05__": {"src": "hda", "id": "c3ccde424ca8d8c2", "uuid": "1624d1ea-260b-43bb-8296-0c598d769a78"}, "__new_primary_file_whittaker.0.32|canberra.0.32__": {"src": "hda", "id": "54b3aaaa41866e51", "uuid": "b6ac1611-bb5b-438b-a6e4-a1f5ee6dcc04"}, "__new_primary_file_whittaker.0.32|ochiai.0.32__": {"src": "hda", "id": "04735db079539b41", "uuid": "7ee44b75-7a2f-4244-bc1e-7a407346fa95"}, "__new_primary_file_whittaker.0.32|manhattan.0.32__": {"src": "hda", "id": "f1fc9eb7b5ef3401", "uuid": "94b3c6ee-5ec5-4602-8ac0-d4bb5a5b8bd8"}, "__new_primary_file_whittaker.0.32|memchi2.0.22__": {"src": "hda", "id": "0bd658c6199729cd", "uuid": "ebe47900-2979-4e68-8614-901f2d38a63c"}, "__new_primary_file_whittaker.0.32|structeuclidean.0.05__": {"src": "hda", "id": "f43c33a99f81b47a", "uuid": "afe77b76-2fad-4f31-bd01-769cc11a7677"}, "__new_primary_file_whittaker.0.32|anderberg.0.22__": {"src": "hda", "id": "f5fa2d3e7014cae4", "uuid": "b4785cec-6292-4c71-94b7-bf5411ec5b17"}, "__new_primary_file_whittaker.0.32|structeuclidean.0.22__": {"src": "hda", "id": "4177cda8e987061d", "uuid": "77fbe377-292b-4bc2-acb7-6bd7f3b0b02d"}, "__new_primary_file_whittaker.0.32|structkulczynski.0.32__": {"src": "hda", "id": "1a4916a3eb37a08f", "uuid": "1dd87cfd-8109-4b06-9f78-1fbe512a19ff"}, "logfile": {"src": "hda", "id": "d10a4fd51a453068", "uuid": "93e383fd-65d3-4f73-a416-0b95d7517032"}, "__new_primary_file_whittaker.0.32|jest.0.22__": {"src": "hda", "id": "526209a9876cbc7b", "uuid": "c4937ba1-4c9e-4247-b498-33eccfbf9489"}, "__new_primary_file_whittaker.0.32|mempearson.0.32__": {"src": "hda", "id": "ee378f118918161d", "uuid": "b9a4dda4-39d5-4093-b4fe-44ac8e5fd592"}, "__new_primary_file_whittaker.0.32|sharedace.0.05__": {"src": "hda", "id": "1a11aef850c74e02", "uuid": "08d021d7-7dbc-4f18-88af-6ff64d9497f2"}, "__new_primary_file_whittaker.0.32|structkulczynski.0.22__": {"src": "hda", "id": "58b50a10dc677aee", "uuid": "272e5e61-96c6-4311-8566-dd392af9d510"}, "__new_primary_file_whittaker.0.32|structeuclidean.0.32__": {"src": "hda", "id": "d7bac6c2bd97ca0d", "uuid": "24bae9a3-86a4-477b-a4be-00010c6bfe79"}, "__new_primary_file_whittaker.0.32|odum.0.05__": {"src": "hda", "id": "26130f091ff248d8", "uuid": "b7c69c6d-eb61-43b4-9a12-86d99eb82b42"}, "__new_primary_file_whittaker.0.32|kulczynski.0.32__": {"src": "hda", "id": "4067282e76de5b4e", "uuid": "118f4afd-4eb5-4cbd-85e9-8c46803628ef"}, "__new_primary_file_whittaker.0.32|thetan.0.32__": {"src": "hda", "id": "c5796693e44ce943", "uuid": "0676defa-10de-42dd-83fa-e39cdb2fbfdd"}, "__new_primary_file_whittaker.0.32|thetan.0.22__": {"src": "hda", "id": "44538a60a774d48e", "uuid": "f22d9437-b168-41cd-82dc-c1360b3d8af2"}, "__new_primary_file_whittaker.0.32|sorest.0.05__": {"src": "hda", "id": "baebb6cdbc55cc5e", "uuid": "31c6d465-52ad-4918-9f0f-a23d8c85801d"}, "__new_primary_file_whittaker.0.32|jabund.0.05__": {"src": "hda", "id": "eecc9d14570ddd5b", "uuid": "e84e2a9d-8c9b-4c74-b78c-1166ba12cf52"}, "__new_primary_file_whittaker.0.32|jclass.0.32__": {"src": "hda", "id": "d4410f7741a3a450", "uuid": "def3e124-6840-45d8-a7f4-66e42c6d1546"}, "__new_primary_file_whittaker.0.32|jclass.0.22__": {"src": "hda", "id": "b25d2e136fb4e818", "uuid": "70d5d219-85a4-49e5-a0be-66aa7e22f93b"}, "__new_primary_file_whittaker.0.32|structchi2.0.05__": {"src": "hda", "id": "bd89d7d6e757bcef", "uuid": "a44ea03a-7ac1-41fe-b519-b9596263d280"}, "__new_primary_file_whittaker.0.32|structpearson.0.22__": {"src": "hda", "id": "6f7e91c0cadb9dce", "uuid": "da771cf1-9c2a-4cd1-8886-abc2b07bd98e"}, "__new_primary_file_whittaker.0.32|anderberg.0.32__": {"src": "hda", "id": "4cc74240ad26f02d", "uuid": "f249a435-ea29-4f28-aae0-08e63b5618ce"}, "__new_primary_file_whittaker.0.32|morisitahorn.0.32__": {"src": "hda", "id": "ad9809cd7ad72e30", "uuid": "e00af8d7-335e-42c6-98db-64f018ba4cb3"}, "__new_primary_file_whittaker.0.32|hellinger.0.05__": {"src": "hda", "id": "7ec47d0b0222d24c", "uuid": "47eb7c4c-ee39-4aa7-a819-8f7b83e51cd1"}, "__new_primary_file_whittaker.0.32|kstest.0.32__": {"src": "hda", "id": "323a0cf49c17614f", "uuid": "8f3e40e0-2bb8-4ff4-a195-3f880520c70b"}, "__new_primary_file_whittaker.0.32|kstest.0.22__": {"src": "hda", "id": "0868c2da79f6c4bd", "uuid": "40a7046b-b82c-4497-a62b-174d7169bb81"}, "__new_primary_file_whittaker.0.32|sharedace.0.32__": {"src": "hda", "id": "9cd576eccc63f673", "uuid": "44cd0741-007b-4222-9ad6-c044e90bba3b"}, "__new_primary_file_whittaker.0.32|soergel.0.32__": {"src": "hda", "id": "4b696ec7686fcd52", "uuid": "334fbe8f-9bf2-4fec-b009-abebc04cc157"}, "__new_primary_file_whittaker.0.32|sorest.0.22__": {"src": "hda", "id": "6f863bff8f3bbf29", "uuid": "3e54b4b9-84a2-4462-94a3-eab625dbf08c"}, "__new_primary_file_whittaker.0.32|kulczynski.0.22__": {"src": "hda", "id": "a179e673d379760c", "uuid": "f6b7322d-43c3-422c-8245-fa869721b3b7"}, "__new_primary_file_whittaker.0.32|braycurtis.0.22__": {"src": "hda", "id": "0eac80b9b104b0b4", "uuid": "b2495369-e436-4af4-a061-16dbc3560be2"}, "__new_primary_file_whittaker.0.32|lennon.0.32__": {"src": "hda", "id": "14f270aaa855767b", "uuid": "7e31f87f-f4e1-401c-be1a-31e875dcbf6f"}, "__new_primary_file_whittaker.0.32|lennon.0.22__": {"src": "hda", "id": "9c4dcf933677c7a2", "uuid": "b6f03647-1b76-4df7-a7b8-abfad45a36f6"}, "__new_primary_file_whittaker.0.32|memeuclidean.0.22__": {"src": "hda", "id": "aced72fa0486eb63", "uuid": "b9c63d2f-7f6d-4267-a99a-02129e003604"}, "__new_primary_file_whittaker.0.32|sorabund.0.32__": {"src": "hda", "id": "161a5fc708eca74c", "uuid": "71f581f3-75f1-4dd9-bd17-08b11e9d6ddf"}, "__new_primary_file_whittaker.0.32|sharedchao.0.22__": {"src": "hda", "id": "8564343f2971f247", "uuid": "028bdf91-88f8-41ed-b9cf-11d09d88cd05"}, "__new_primary_file_whittaker.0.32|sharednseqs.0.22__": {"src": "hda", "id": "98a16851fc011927", "uuid": "477624c7-6cf0-45b3-9142-fd03ca741efd"}, "__new_primary_file_whittaker.0.32|manhattan.0.05__": {"src": "hda", "id": "2453feddd2be09dd", "uuid": "afe7a4ec-51df-4a5b-a116-60f61d9b6cf8"}, "__new_primary_file_whittaker.0.32|jabund.0.32__": {"src": "hda", "id": "fa47235564e5fb96", "uuid": "3f39f85e-53d5-4ab7-838d-787d9b6f9188"}, "__new_primary_file_whittaker.0.32|hamming.0.22__": {"src": "hda", "id": "24254dd040cac7c2", "uuid": "400c36d2-4bd8-410a-a259-6c53ccd11ea1"}, "__new_primary_file_whittaker.0.32|spearman.0.05__": {"src": "hda", "id": "93cfb88a9888291b", "uuid": "62421f55-71f0-4b7e-a4ff-50afec0a3004"}, "__new_primary_file_whittaker.0.32|sharedsobs.0.05__": {"src": "hda", "id": "129483b0d2905e7a", "uuid": "5ab786ae-a670-4d88-8f43-4f16f1c55c9e"}, "__new_primary_file_whittaker.0.32|whittaker.0.05__": {"src": "hda", "id": "67555352a487c6e0", "uuid": "62dd53b6-88cc-45e4-bf20-b5f98b92db9a"}, "__new_primary_file_whittaker.0.32|whittaker.0.32__": {"src": "hda", "id": "9859983ddc84a0ef", "uuid": "6e44401e-8bec-4322-bb70-c80f9efd893c"}, "__new_primary_file_whittaker.0.32|spearman.0.32__": {"src": "hda", "id": "bfefc8e344044b96", "uuid": "121c0c82-a697-418a-9739-96d3fc8d8cd6"}, "__new_primary_file_whittaker.0.32|structpearson.0.32__": {"src": "hda", "id": "98cd2ce0d92abd47", "uuid": "6fa62723-b5a8-40be-89e7-7d4e1607f931"}, "__new_primary_file_whittaker.0.32|kulczynskicody.0.05__": {"src": "hda", "id": "38466957626584a8", "uuid": "ebe302b9-dfb0-4b4e-8e5a-c76a460cb497"}, "__new_primary_file_whittaker.0.32|sharednseqs.0.05__": {"src": "hda", "id": "1ed708179129513e", "uuid": "eb389c9b-7020-4f1e-9613-8258d83b15a5"}, "__new_primary_file_whittaker.0.32|memchord.0.05__": {"src": "hda", "id": "3f7ecf4bd9d25eaf", "uuid": "193002b1-93ec-4eba-aa7e-0037ecfb18ce"}, "__new_primary_file_whittaker.0.32|sharedchao.0.32__": {"src": "hda", "id": "2259e4c5fcb124e4", "uuid": "ae99c8db-b779-40c8-9718-f572ecebd098"}, "__new_primary_file_whittaker.0.32|hamming.0.32__": {"src": "hda", "id": "fc7f8e5e95729017", "uuid": "d82b2146-0f42-42bb-9048-d5b7aec5c326"}, "__new_primary_file_whittaker.0.32|jest.0.32__": {"src": "hda", "id": "257b528a9004bf33", "uuid": "2c020a50-f517-4023-9b3c-f37ce07b735a"}, "__new_primary_file_whittaker.0.32|sorclass.0.22__": {"src": "hda", "id": "f41ff28cdca51cc5", "uuid": "02ad0d41-9278-4f40-92cc-e9a6b2d8fc3f"}, "__new_primary_file_whittaker.0.32|thetan.0.05__": {"src": "hda", "id": "a04666f93041bb22", "uuid": "befc432e-486c-4f10-92be-3a8e75241f4d"}, "__new_primary_file_whittaker.0.32|jest.0.05__": {"src": "hda", "id": "1de8fee34c92b9f7", "uuid": "55e010c2-67cd-4776-b513-2d9cce626a14"}, "__new_primary_file_whittaker.0.32|sharedsobs.0.32__": {"src": "hda", "id": "1cf165a71a38b96d", "uuid": "03372b4b-061e-4bea-85de-a426950fe3e4"}, "__new_primary_file_whittaker.0.32|structchord.0.05__": {"src": "hda", "id": "fa5974273b4c036d", "uuid": "706c80a7-c391-446f-a40a-ac1ebad6e483"}, "__new_primary_file_whittaker.0.32|kstest.0.05__": {"src": "hda", "id": "746af4df7658d26f", "uuid": "af1f78d5-bd21-4ca7-8629-44c5f9f277ab"}, "__new_primary_file_whittaker.0.32|gower.0.22__": {"src": "hda", "id": "054d19ae7ebf9a71", "uuid": "1b0ef515-e815-4f6b-9639-e036cbd44b08"}, "__new_primary_file_whittaker.0.32|anderberg.0.05__": {"src": "hda", "id": "a585ee93888269e3", "uuid": "7383ef9d-26ce-49a9-b384-3dfe0823c6e8"}, "__new_primary_file_whittaker.0.32|kulczynskicody.0.32__": {"src": "hda", "id": "19530a023d4885d3", "uuid": "deaa8d66-9c14-422a-8674-d7b95216ae19"}, "__new_primary_file_whittaker.0.32|lennon.0.05__": {"src": "hda", "id": "86956dbeed371495", "uuid": "fdffe8a0-5888-488f-b956-c9cdf4303ae8"}, "__new_primary_file_whittaker.0.32|sorclass.0.05__": {"src": "hda", "id": "e8b34563b6161675", "uuid": "103f76ee-f5bc-4b76-839b-96a9334f85b9"}, "__new_primary_file_whittaker.0.32|sorclass.0.32__": {"src": "hda", "id": "9c5e0e495fefb70e", "uuid": "7344200b-9e7d-4c04-91b5-43ec440ba0b4"}, "__new_primary_file_whittaker.0.32|spearman.0.22__": {"src": "hda", "id": "4823e580cf67ad3d", "uuid": "36c775c9-a419-44bc-a31c-af953953a45a"}, "__new_primary_file_whittaker.0.32|whittaker.0.22__": {"src": "hda", "id": "b3a74934f64e8236", "uuid": "e5ba4ca5-3fc9-4354-84fb-f6ef54bf5c5e"}, "__new_primary_file_whittaker.0.32|structchord.0.22__": {"src": "hda", "id": "8d820ac940b3f112", "uuid": "bf3b44a5-e787-4a87-a253-b337d72a6aba"}, "__new_primary_file_whittaker.0.32|sharedace.0.22__": {"src": "hda", "id": "f1f24dd507bbaa40", "uuid": "b6d7e3d1-fc2c-4716-bc47-042548b928f4"}, "__new_primary_file_whittaker.0.32|canberra.0.22__": {"src": "hda", "id": "a643c6453c9752b5", "uuid": "a3121f66-90bf-4fbb-b60b-afee921a3658"}, "__new_primary_file_whittaker.0.32|memeuclidean.0.05__": {"src": "hda", "id": "be6202b2a0cba938", "uuid": "72d7fe08-a8c9-4113-95e8-54373353a52c"}, "__new_primary_file_whittaker.0.32|odum.0.32__": {"src": "hda", "id": "cd65299cf7d36046", "uuid": "7397db1b-0525-4eb0-aadc-a81635961941"}, "__new_primary_file_whittaker.0.32|sharedchao.0.05__": {"src": "hda", "id": "e2f5ec5c8fe5ecc4", "uuid": "5fb0c9d9-6e5f-409c-8c24-62de3742f494"}, "__new_primary_file_whittaker.0.32|sorabund.0.05__": {"src": "hda", "id": "dc4f616c25800a99", "uuid": "30e007a9-1476-446b-8092-9b3320086e8a"}, "__new_primary_file_whittaker.0.32|kulczynskicody.0.22__": {"src": "hda", "id": "736165c3506de345", "uuid": "018e892c-c717-4273-993d-dbae1fc0b089"}, "__new_primary_file_whittaker.0.32|sharednseqs.0.32__": {"src": "hda", "id": "64c5961ea1b9cb82", "uuid": "c6867f1a-8982-40e7-8e1a-fb098cf94908"}, "__new_primary_file_whittaker.0.32|ochiai.0.22__": {"src": "hda", "id": "8e83a8c13a9257e6", "uuid": "c77a4417-1d16-412e-b61c-7fd174421227"}, "__new_primary_file_whittaker.0.32|memeuclidean.0.32__": {"src": "hda", "id": "c1a67a704bfb3860", "uuid": "7b4cd6c7-9ce3-4b47-90c7-13b9a6fa65ec"}, "__new_primary_file_whittaker.0.32|memchord.0.22__": {"src": "hda", "id": "b0427ae83e1248d4", "uuid": "b69839e2-85c7-421c-9652-b118d3d8962b"}, "__new_primary_file_whittaker.0.32|structchi2.0.32__": {"src": "hda", "id": "a2242194d5e425b1", "uuid": "461e0f72-d40b-41ec-8585-186c5002ffcf"}, "__new_primary_file_whittaker.0.32|canberra.0.05__": {"src": "hda", "id": "f3f9bfe6fdab356b", "uuid": "21e50eab-10bf-4f9b-b0f7-4055e91eef07"}, "__new_primary_file_whittaker.0.32|mempearson.0.22__": {"src": "hda", "id": "54fae2c807b48770", "uuid": "526e8e45-7f8c-4536-bb35-19b1c2c95869"}, "__new_primary_file_whittaker.0.32|speciesprofile.0.32__": {"src": "hda", "id": "f50a00f8ed6bd0a3", "uuid": "9aaa5e0b-1f5c-4306-a5f3-ec10d41a04ed"}, "__new_primary_file_whittaker.0.32|jabund.0.22__": {"src": "hda", "id": "44266e3275225d0f", "uuid": "c7212309-3124-44eb-b5c9-57310160f93b"}, "__new_primary_file_whittaker.0.32|thetayc.0.32__": {"src": "hda", "id": "d1445ecd5410041e", "uuid": "9159e8ff-0cd1-43ae-9972-d4a1049942a8"}, "__new_primary_file_whittaker.0.32|sharedsobs.0.22__": {"src": "hda", "id": "c9da000ecda07245", "uuid": "30f528df-ae4c-4d66-adb6-498a60e6e525"}, "__new_primary_file_whittaker.0.32|odum.0.22__": {"src": "hda", "id": "d018ac0d94e012e8", "uuid": "7b13e8fd-df14-4be5-a637-f14b98e467b2"}, "__new_primary_file_whittaker.0.32|sorest.0.32__": {"src": "hda", "id": "e746dd872753a042", "uuid": "3533d097-f86e-4f80-bab4-0612e4278c8b"}, "__new_primary_file_whittaker.0.32|memchord.0.32__": {"src": "hda", "id": "735efd674719e24f", "uuid": "5469f970-b958-4b90-9d86-8c9a36f7b790"}, "__new_primary_file_whittaker.0.32|hellinger.0.22__": {"src": "hda", "id": "0a8b6862ab30b456", "uuid": "d4170f76-cc41-4a80-937e-d4ea5bf479a1"}, "__new_primary_file_whittaker.0.32|gower.0.05__": {"src": "hda", "id": "4903012a42643751", "uuid": "e8191da1-6091-473a-8708-ade1fb227c27"}, "__new_primary_file_whittaker.0.32|structchi2.0.22__": {"src": "hda", "id": "4396493fbfdb6ad4", "uuid": "3b7e4011-fdb8-484a-a21e-f908efa2acd5"}, "__new_primary_file_whittaker.0.32|hellinger.0.32__": {"src": "hda", "id": "baadb50d03c0b826", "uuid": "b3c0803f-91a9-44eb-8db5-0baba4aa198a"}, "__new_primary_file_whittaker.0.32|hamming.0.05__": {"src": "hda", "id": "6dd4d5ec7dea33a8", "uuid": "511e6489-e5d0-4de6-bb53-87987add5d12"}, "__new_primary_file_whittaker.0.32|kulczynski.0.05__": {"src": "hda", "id": "cd687c1796d12cc6", "uuid": "d1af4501-b106-4652-8931-fc7694dbb0d8"}, "__new_primary_file_whittaker.0.32|jclass.0.05__": {"src": "hda", "id": "a7a6eb5dd94f4973", "uuid": "943c4406-a903-4000-8924-e8680ca58d6a"}, "__new_primary_file_whittaker.0.32|thetayc.0.05__": {"src": "hda", "id": "cd1051f5597a9f45", "uuid": "cc6a47f8-4f98-4a6a-a8ac-c29b7de64308"}, "__new_primary_file_whittaker.0.32|speciesprofile.0.22__": {"src": "hda", "id": "0b9b6fba2374f3e4", "uuid": "3333c796-64f4-4ac5-8b6d-d559be3ede6c"}, "__new_primary_file_whittaker.0.32|soergel.0.22__": {"src": "hda", "id": "d398ff86b62273ad", "uuid": "07795010-5665-45ad-8658-2b809e99f259"}, "__new_primary_file_whittaker.0.32|memchi2.0.05__": {"src": "hda", "id": "a6cfc510c05ff9d2", "uuid": "a923406d-adac-4875-aa54-92355c3da3ff"}, "__new_primary_file_whittaker.0.32|soergel.0.05__": {"src": "hda", "id": "5668ef31ed2adf25", "uuid": "fb53a96f-159d-4383-a215-1500951f3df8"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > tree.shared(shared=input_dist.dat,groups=forest-pasture,label=0.05-0.22 \r-0.32,calc=sharedsobs-sharedchao-sharedace-anderberg-jclass-jest-kulczynski-kulc \rzynskicody-kstest-lennon-ochiai-sorclass-sorest-whittaker-hamming-memchi2-memcho \rrd-memeuclidean-mempearson-braycurtis-jabund-morisitahorn-sorabund-thetan-thetay \rc-canberra-gower-hellinger-manhattan-odum-soergel-spearman-speciesprofile-struct \rchi2-structchord-structeuclidean-structkulczynski-structpearson-sharednseqs-shar \redobserved,processors=1)\n\nUsing 1 processors.\nsharedobserved is not a valid estimator for the tree.shared command and will be disregarded. Valid estimators are anderberg, braycurtis, canberra, gower, hamming, hellinger, jabund, jclass, jest, jsd, kstest, kulczynski, kulczynskicody, lennon, manhattan, memchi2, memchord, memeuclidean, mempearson, morisitahorn, ochiai, odum, rjsd, sharedace, sharedchao, sharednseqs, sharedsobs, soergel, sorabund, sorclass, sorest, spearman, speciesprofile, structchi2, structchord, structeuclidean, structkulczynski, structpearson, thetan, thetayc, whittaker, \n0.05\n0.22\n0.32\n\nOutput File Names: \ninput_dist.sharedsobs.0.05.tre\ninput_dist.sharedchao.0.05.tre\ninput_dist.sharedace.0.05.tre\ninput_dist.anderberg.0.05.tre\ninput_dist.jclass.0.05.tre\ninput_dist.jest.0.05.tre\ninput_dist.kulczynski.0.05.tre\ninput_dist.kulczynskicody.0.05.tre\ninput_dist.kstest.0.05.tre\ninput_dist.lennon.0.05.tre\ninput_dist.ochiai.0.05.tre\ninput_dist.sorclass.0.05.tre\ninput_dist.sorest.0.05.tre\ninput_dist.whittaker.0.05.tre\ninput_dist.hamming.0.05.tre\ninput_dist.memchi2.0.05.tre\ninput_dist.memchord.0.05.tre\ninput_dist.memeuclidean.0.05.tre\ninput_dist.mempearson.0.05.tre\ninput_dist.braycurtis.0.05.tre\ninput_dist.jabund.0.05.tre\ninput_dist.morisitahorn.0.05.tre\ninput_dist.sorabund.0.05.tre\ninput_dist.thetan.0.05.tre\ninput_dist.thetayc.0.05.tre\ninput_dist.canberra.0.05.tre\ninput_dist.gower.0.05.tre\ninput_dist.hellinger.0.05.tre\ninput_dist.manhattan.0.05.tre\ninput_dist.odum.0.05.tre\ninput_dist.soergel.0.05.tre\ninput_dist.spearman.0.05.tre\ninput_dist.speciesprofile.0.05.tre\ninput_dist.structchi2.0.05.tre\ninput_dist.structchord.0.05.tre\ninput_dist.structeuclidean.0.05.tre\ninput_dist.structkulczynski.0.05.tre\ninput_dist.structpearson.0.05.tre\ninput_dist.sharednseqs.0.05.tre\ninput_dist.sharedsobs.0.22.tre\ninput_dist.sharedchao.0.22.tre\ninput_dist.sharedace.0.22.tre\ninput_dist.anderberg.0.22.tre\ninput_dist.jclass.0.22.tre\ninput_dist.jest.0.22.tre\ninput_dist.kulczynski.0.22.tre\ninput_dist.kulczynskicody.0.22.tre\ninput_dist.kstest.0.22.tre\ninput_dist.lennon.0.22.tre\ninput_dist.ochiai.0.22.tre\ninput_dist.sorclass.0.22.tre\ninput_dist.sorest.0.22.tre\ninput_dist.whittaker.0.22.tre\ninput_dist.hamming.0.22.tre\ninput_dist.memchi2.0.22.tre\ninput_dist.memchord.0.22.tre\ninput_dist.memeuclidean.0.22.tre\ninput_dist.mempearson.0.22.tre\ninput_dist.braycurtis.0.22.tre\ninput_dist.jabund.0.22.tre\ninput_dist.morisitahorn.0.22.tre\ninput_dist.sorabund.0.22.tre\ninput_dist.thetan.0.22.tre\ninput_dist.thetayc.0.22.tre\ninput_dist.canberra.0.22.tre\ninput_dist.gower.0.22.tre\ninput_dist.hellinger.0.22.tre\ninput_dist.manhattan.0.22.tre\ninput_dist.odum.0.22.tre\ninput_dist.soergel.0.22.tre\ninput_dist.spearman.0.22.tre\ninput_dist.speciesprofile.0.22.tre\ninput_dist.structchi2.0.22.tre\ninput_dist.structchord.0.22.tre\ninput_dist.structeuclidean.0.22.tre\ninput_dist.structkulczynski.0.22.tre\ninput_dist.structpearson.0.22.tre\ninput_dist.sharednseqs.0.22.tre\ninput_dist.sharedsobs.0.32.tre\ninput_dist.sharedchao.0.32.tre\ninput_dist.sharedace.0.32.tre\ninput_dist.anderberg.0.32.tre\ninput_dist.jclass.0.32.tre\ninput_dist.jest.0.32.tre\ninput_dist.kulczynski.0.32.tre\ninput_dist.kulczynskicody.0.32.tre\ninput_dist.kstest.0.32.tre\ninput_dist.lennon.0.32.tre\ninput_dist.ochiai.0.32.tre\ninput_dist.sorclass.0.32.tre\ninput_dist.sorest.0.32.tre\ninput_dist.whittaker.0.32.tre\ninput_dist.hamming.0.32.tre\ninput_dist.memchi2.0.32.tre\ninput_dist.memchord.0.32.tre\ninput_dist.memeuclidean.0.32.tre\ninput_dist.mempearson.0.32.tre\ninput_dist.braycurtis.0.32.tre\ninput_dist.jabund.0.32.tre\ninput_dist.morisitahorn.0.32.tre\ninput_dist.sorabund.0.32.tre\ninput_dist.thetan.0.32.tre\ninput_dist.thetayc.0.32.tre\ninput_dist.canberra.0.32.tre\ninput_dist.gower.0.32.tre\ninput_dist.hellinger.0.32.tre\ninput_dist.manhattan.0.32.tre\ninput_dist.odum.0.32.tre\ninput_dist.soergel.0.32.tre\ninput_dist.spearman.0.32.tre\ninput_dist.speciesprofile.0.32.tre\ninput_dist.structchi2.0.32.tre\ninput_dist.structchord.0.32.tre\ninput_dist.structeuclidean.0.32.tre\ninput_dist.structkulczynski.0.32.tre\ninput_dist.structpearson.0.32.tre\ninput_dist.sharednseqs.0.32.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3567.dat' input_dist.dat && echo 'tree.shared( shared=input_dist.dat, groups=forest-pasture, label=0.05-0.22-0.32, calc=sharedsobs-sharedchao-sharedace-anderberg-jclass-jest-kulczynski-kulczynskicody-kstest-lennon-ochiai-sorclass-sorest-whittaker-hamming-memchi2-memchord-memeuclidean-mempearson-braycurtis-jabund-morisitahorn-sorabund-thetan-thetayc-canberra-gower-hellinger-manhattan-odum-soergel-spearman-speciesprofile-structchi2-structchord-structeuclidean-structkulczynski-structpearson-sharednseqs-sharedobserved, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:43:20.325320", "params": {"input": "{\"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 3567}]}, \"__current_case__\": 2, \"label\": [\"0.05\", \"0.22\", \"0.32\"], \"source\": \"shared\", \"groups\": [\"forest\", \"pasture\"], \"subsampling\": {\"use\": \"no\", \"__current_case__\": 1}}", "calc": "[\"sharedsobs\", \"sharedchao\", \"sharedace\", \"anderberg\", \"jclass\", \"jest\", \"kulczynski\", \"kulczynskicody\", \"kstest\", \"lennon\", \"ochiai\", \"sorclass\", \"sorest\", \"whittaker\", \"hamming\", \"memchi2\", \"memchord\", \"memeuclidean\", \"mempearson\", \"braycurtis\", \"jabund\", \"morisitahorn\", \"sorabund\", \"thetan\", \"thetayc\", \"canberra\", \"gower\", \"hellinger\", \"manhattan\", \"odum\", \"soergel\", \"spearman\", \"speciesprofile\", \"structchi2\", \"structchord\", \"structeuclidean\", \"structkulczynski\", \"structpearson\", \"sharednseqs\", \"sharedobserved\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "6951", "id": "0127e3e8a6471eea", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_tree_shared.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"input|dist": {"src": "hda", "id": "961a47c559285244"}, "input|name": {"src": "hda", "id": "e579f508f7c68ef6"}, "input|source": "column"}, "job": {"inputs": {"dist": {"src": "hda", "id": "961a47c559285244", "uuid": "8963264e-8c2d-4832-9118-cc2c994c738d"}, "name": {"src": "hda", "id": "e579f508f7c68ef6", "uuid": "f87a42d3-ec48-433f-a653-b4dba9c5f380"}}, "update_time": "2018-02-08T18:43:56.010151", "tool_id": "mothur_tree_shared", "outputs": {"logfile": {"src": "hda", "id": "b96b0bc03c50c213", "uuid": "589355b7-6228-416e-b93d-65ca3f1de74b"}, "tre": {"src": "hda", "id": "1e52af9f521721f4", "uuid": "1e557f11-db81-450e-b091-beb0cf5e8852"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > tree.shared(column=input_dist.dat,name=input_name.dat,calc=jclass-theta \ryc,processors=1)\n\nUsing 1 processors.\n********************#****#****#****#****#****#****#****#****#****#****#\nReading matrix: ||||||||||||||||||||||||||||||||||||||||||||||||||||\n***********************************************************************\nTree complete. \n\nOutput File Names: \ninput_dist.tre\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3686.dat' input_dist.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3687.dat' input_name.dat && echo 'tree.shared( column=input_dist.dat, name=input_name.dat, calc=jclass-thetayc, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:43:52.868228", "params": {"input": "{\"source\": \"column\", \"dist\": {\"values\": [{\"src\": \"hda\", \"id\": 3686}]}, \"name\": {\"values\": [{\"src\": \"hda\", \"id\": 3687}]}, \"__current_case__\": 0}", "calc": "[\"jclass\", \"thetayc\"]", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7076", "id": "d2877f6f2610c2e2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_tree_shared.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"flow": {"src": "hda", "id": "113cebc66d7029f4"}}, "job": {"inputs": {"flow": {"src": "hda", "id": "113cebc66d7029f4", "uuid": "32937a76-7eb0-4ba2-bcf4-1501f91e7efa"}}, "update_time": "2018-02-08T18:44:13.674069", "tool_id": "mothur_trim_flows", "outputs": {"flow_files": {"src": "hda", "id": "656ec4006d660f1e", "uuid": "eb3a4ea6-f598-49c0-bf7d-cc8aa974ac37"}, "logfile": {"src": "hda", "id": "0586ab56d27d9ba2", "uuid": "1fa27a7f-c65a-4225-b91f-1713116e6299"}, "scrap_flow": {"src": "hda", "id": "ea6e776dce59738c", "uuid": "6b64a2db-fc47-4543-8e5a-a8a6129bfeb2"}, "trim_flow": {"src": "hda", "id": "2d34558476a1163b", "uuid": "82fba6fd-ea8d-404e-b6b2-af259e0287dc"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > trim.flows(flow=flow.dat,minflows=450,maxflows=450,order=A,signal=0.5,n \roise=0.7,fasta=false,processors=1)\n\nUsing 1 processors.\n107\n\nOutput File Names: \nflow.trim.flow\nflow.scrap.flow\nflow.flow.files\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3690.dat' flow.dat && echo 'trim.flows( flow=flow.dat, minflows=450, maxflows=450, order=A, signal=0.5, noise=0.7, fasta=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv flow.trim.flow flow.trim && mv flow.scrap.flow flow.scrap", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:44:10.318502", "params": {"maxflows": "\"450\"", "noise": "\"0.7\"", "oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "signal": "\"0.5\"", "maxhomop": "\"\"", "dbkey": "\"hg17\"", "minflows": "\"450\"", "fasta": "\"false\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "order": "\"A\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7167", "id": "8cd4beb5cf8a2f93", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_trim_flows.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"oligo|oligos": {"src": "hda", "id": "7435327024c6ed38"}, "oligo|add": "yes", "flow": {"src": "hda", "id": "52fb102da68a2516"}, "order": "I", "oligo|pdiffs": "10", "fasta": true, "oligo|bdiffs": "10"}, "job": {"inputs": {"oligos": {"src": "hda", "id": "7435327024c6ed38", "uuid": "b3794253-1136-4bc9-b98d-f61f8a8f4e68"}, "flow": {"src": "hda", "id": "52fb102da68a2516", "uuid": "f0a94d84-d7b8-463c-b0d4-1611c0a29b56"}}, "update_time": "2018-02-08T18:44:45.030422", "tool_id": "mothur_trim_flows", "outputs": {"flow_fasta": {"src": "hda", "id": "1702773de504f46c", "uuid": "4723a1d9-19fe-468b-8190-f08f237f591b"}, "__new_primary_file_F003D142|F003D142__": {"src": "hda", "id": "796a3be2ad26f064", "uuid": "49605ed7-4690-4303-9aee-95d244e32c93"}, "flow_files": {"src": "hda", "id": "ad3afa20e990c280", "uuid": "9180f164-b852-41fc-91c9-fbf5ca513c65"}, "scrap_flow": {"src": "hda", "id": "f30cdc880e9c60f1", "uuid": "7674ae26-298a-4877-afed-884feb505159"}, "__new_primary_file_F003D142|F003D006__": {"src": "hda", "id": "d5d52d49034f5895", "uuid": "fabe0c37-7373-4c45-91cd-9a0761242e9c"}, "logfile": {"src": "hda", "id": "25d2b0eb25240170", "uuid": "ada424ee-49fc-442d-9250-9544ffac7042"}, "trim_flow": {"src": "hda", "id": "d1dd3aa4c719e98f", "uuid": "e8f92f6e-4297-48b2-a305-ec469967806b"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > trim.flows(flow=flow.dat,minflows=450,maxflows=450,order=I,signal=0.5,n \roise=0.7,oligos=oligo.oligos.dat,bdiffs=10,pdiffs=10,tdiffs=0,ldiffs=0,sdiffs=0, \rfasta=true,processors=1)\n\nUsing 1 processors.\n2\n\nOutput File Names: \nflow.flow.fasta\nflow.trim.flow\nflow.scrap.flow\nflow.F003D142.flow\nflow.F003D006.flow\nflow.flow.files\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3695.dat' flow.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3696.dat' oligo.oligos.dat && echo 'trim.flows( flow=flow.dat, minflows=450, maxflows=450, order=I, signal=0.5, noise=0.7, oligos=oligo.oligos.dat, bdiffs=10, pdiffs=10, tdiffs=0, ldiffs=0, sdiffs=0, fasta=true, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv flow.trim.flow flow.trim && mv flow.scrap.flow flow.scrap", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:44:41.443491", "params": {"maxflows": "\"450\"", "noise": "\"0.7\"", "oligo": "{\"bdiffs\": \"10\", \"sdiffs\": \"0\", \"ldiffs\": \"0\", \"pdiffs\": \"10\", \"tdiffs\": \"0\", \"add\": \"yes\", \"__current_case__\": 1, \"oligos\": {\"values\": [{\"src\": \"hda\", \"id\": 3696}]}}", "signal": "\"0.5\"", "maxhomop": "\"\"", "dbkey": "\"hg17\"", "minflows": "\"450\"", "fasta": "\"true\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "order": "\"I\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7283", "id": "e400af07ae3fa77f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_trim_flows.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "a4a75edff1315423"}, "maxhomop": "4", "names": {"src": "hda", "id": "a19ac8ddc9ec0357"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "a4a75edff1315423", "uuid": "ca78d74b-119e-4138-8c09-5663b94e6bc0"}, "names": {"src": "hda", "id": "a19ac8ddc9ec0357", "uuid": "45c1b563-5ca5-4cf5-802c-c4387f6c28f8"}}, "update_time": "2018-02-08T18:45:30.049751", "tool_id": "mothur_trim_seqs", "outputs": {"trim_fasta": {"src": "hda", "id": "086eda3627b4c383", "uuid": "263d8389-3ec0-45e9-ab3d-6d8a8254cbf5"}, "logfile": {"src": "hda", "id": "4de4e57b6b68d2e8", "uuid": "d9665fcc-9bf4-475a-a4ba-d22174ec9158"}, "trim_names": {"src": "hda", "id": "9590c041f0c58cb5", "uuid": "a15a909d-8f7f-4af5-b173-bcfa30cd0d35"}, "scrap_names": {"src": "hda", "id": "0c5e32c449987b70", "uuid": "f132f816-1a4e-43df-b749-4b6331cb38bf"}, "scrap_fasta": {"src": "hda", "id": "c7132f326e1735c5", "uuid": "083cb5a8-083b-4990-9ecd-f9ad635bc74e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > trim.seqs(fasta=fasta.dat,minlength=0,maxlength=0,maxambig=-1,maxhomop= \r4,keepfirst=0,removelast=0,flip=false,name=names.dat,logtransform=false,checkori \rent=false,processors=1)\n\nUsing 1 processors.\n98\n\n\nOutput File Names: \nfasta.trim.fasta\nfasta.scrap.fasta\nnames.trim.names\nnames.scrap.names\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3704.dat' fasta.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3705.dat' names.dat && ln -s 'None' count.dat && echo 'trim.seqs( fasta=fasta.dat, minlength=0, maxlength=0, maxambig=-1, maxhomop=4, keepfirst=0, removelast=0, flip=false, name=names.dat, logtransform=false, checkorient=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fasta.trim.fasta fasta.trim && mv fasta.scrap.fasta fasta.scrap", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:45:26.324404", "params": {"count": "null", "oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "logtransform": "\"false\"", "checkorient": "\"false\"", "minlength": "\"0\"", "maxhomop": "\"4\"", "flip": "\"false\"", "dbkey": "\"hg17\"", "qual": "{\"add2\": \"no\", \"__current_case__\": 0}", "removelast": "\"0\"", "maxlength": "\"0\"", "maxambig": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "keepfirst": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7398", "id": "d9eeaf6b2b0ea17f", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_trim_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"count": {"src": "hda", "id": "643ecb59a2c3ee18"}, "fasta": {"src": "hda", "id": "411acc63c278eae0"}, "maxhomop": "4"}, "job": {"inputs": {"count": {"src": "hda", "id": "643ecb59a2c3ee18", "uuid": "c3b13bbf-04f4-43f2-87c3-258a8c2718cf"}, "fasta": {"src": "hda", "id": "411acc63c278eae0", "uuid": "3ac2bbb5-576b-4119-aa0e-b61708b757f4"}}, "update_time": "2018-02-08T18:46:09.845777", "tool_id": "mothur_trim_seqs", "outputs": {"trim_fasta": {"src": "hda", "id": "d18b75b0ada0b975", "uuid": "46585795-839f-49f6-9413-87cf07bc4dd8"}, "trim_count": {"src": "hda", "id": "b89907572eef89bb", "uuid": "6a33eeca-8a62-421f-9259-f5c9bb6d75cc"}, "logfile": {"src": "hda", "id": "4a2d02ae29134135", "uuid": "d82b14b6-7d65-4ed0-b8c7-43cab53059bc"}, "scrap_count": {"src": "hda", "id": "0eb01516e0bf5413", "uuid": "1f5a0f89-e35a-4281-9785-c973be1cd403"}, "scrap_fasta": {"src": "hda", "id": "0a20b5e39a223282", "uuid": "9fb65e6d-7f2a-47bb-9c71-a66ebbcc10dd"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > trim.seqs(fasta=fasta.dat,minlength=0,maxlength=0,maxambig=-1,maxhomop= \r4,keepfirst=0,removelast=0,flip=false,logtransform=false,checkorient=false,count \r=count.dat,processors=1)\n\nUsing 1 processors.\n98\n\n\nOutput File Names: \nfasta.trim.fasta\nfasta.scrap.fasta\ncount.trim.count_table\ncount.scrap.count_table\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3711.dat' fasta.dat && ln -s 'None' names.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3712.dat' count.dat && echo 'trim.seqs( fasta=fasta.dat, minlength=0, maxlength=0, maxambig=-1, maxhomop=4, keepfirst=0, removelast=0, flip=false, logtransform=false, checkorient=false, count=count.dat, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fasta.trim.fasta fasta.trim && mv fasta.scrap.fasta fasta.scrap", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:46:05.717799", "params": {"oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "logtransform": "\"false\"", "checkorient": "\"false\"", "minlength": "\"0\"", "maxhomop": "\"4\"", "flip": "\"false\"", "dbkey": "\"hg17\"", "qual": "{\"add2\": \"no\", \"__current_case__\": 0}", "removelast": "\"0\"", "names": "null", "maxlength": "\"0\"", "maxambig": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "keepfirst": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7519", "id": "92afd254baae3cac", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_trim_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"oligo|pdiffs": "100", "oligo|add": "yes", "fasta": {"src": "hda", "id": "e3535752753237cc"}, "oligo|oligos": {"src": "hda", "id": "449b1393f148b461"}, "oligo|bdiffs": "100"}, "job": {"inputs": {"oligos": {"src": "hda", "id": "449b1393f148b461", "uuid": "d3ecfbe3-82d7-4653-91b3-0dc533243380"}, "fasta": {"src": "hda", "id": "e3535752753237cc", "uuid": "038e784b-9ef9-41ca-be9c-3cd1ca3b8d1e"}}, "update_time": "2018-02-08T18:46:49.872573", "tool_id": "mothur_trim_seqs", "outputs": {"trim_fasta": {"src": "hda", "id": "58247062b75fcc28", "uuid": "7ed9fab5-b057-4f16-98d9-fcc76b26eaf7"}, "groups_file": {"src": "hda", "id": "51245ff49e713d95", "uuid": "f1155b05-066a-42b0-b884-3f16249b6e09"}, "logfile": {"src": "hda", "id": "72a0b075a3958e20", "uuid": "9c442237-3f36-4b3c-88fa-befa7ad3ccc2"}, "scrap_fasta": {"src": "hda", "id": "3aa93502f78ca78e", "uuid": "cc655219-5ebe-4c48-8b2a-5a3d198e6869"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > trim.seqs(fasta=fasta.dat,minlength=0,maxlength=0,maxambig=-1,maxhomop= \r0,keepfirst=0,removelast=0,oligos=oligo.oligos.dat,bdiffs=100,pdiffs=100,tdiffs= \r0,ldiffs=0,sdiffs=0,keepforward=false,allfiles=false,flip=false,logtransform=fal \rse,checkorient=false,processors=1)\n\nUsing 1 processors.\n98\n\nGroup count: \nF003D000\t32\nF003D006\t1\nF003D008\t3\nF003D142\t7\nF003D144\t8\nF003D146\t4\nF003D148\t33\nF003D150\t1\nMOCK.GQY1XT001\t2\nTotal of all groups is 91\n\nOutput File Names: \nfasta.trim.fasta\nfasta.scrap.fasta\nfasta.groups\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3718.dat' fasta.dat && ln -s 'None' names.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3719.dat' oligo.oligos.dat && echo 'trim.seqs( fasta=fasta.dat, minlength=0, maxlength=0, maxambig=-1, maxhomop=0, keepfirst=0, removelast=0, oligos=oligo.oligos.dat, bdiffs=100, pdiffs=100, tdiffs=0, ldiffs=0, sdiffs=0, keepforward=false, allfiles=false, flip=false, logtransform=false, checkorient=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fasta.trim.fasta fasta.trim && mv fasta.scrap.fasta fasta.scrap", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:46:46.434270", "params": {"count": "null", "oligo": "{\"bdiffs\": \"100\", \"sdiffs\": \"0\", \"allfiles\": \"false\", \"ldiffs\": \"0\", \"pdiffs\": \"100\", \"tdiffs\": \"0\", \"keepforward\": \"false\", \"add\": \"yes\", \"__current_case__\": 1, \"oligos\": {\"values\": [{\"src\": \"hda\", \"id\": 3719}]}}", "logtransform": "\"false\"", "checkorient": "\"false\"", "minlength": "\"0\"", "maxhomop": "\"0\"", "flip": "\"false\"", "dbkey": "\"hg17\"", "qual": "{\"add2\": \"no\", \"__current_case__\": 0}", "removelast": "\"0\"", "names": "null", "maxlength": "\"0\"", "maxambig": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "keepfirst": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7643", "id": "ab005d4cdb71cef2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_trim_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"oligo|oligos": {"src": "hda", "id": "4fa21a2ab98d6a11"}, "oligo|add": "yes", "oligo|allfiles": true, "oligo|pdiffs": "100", "fasta": {"src": "hda", "id": "8f862e98c671efbc"}, "oligo|bdiffs": "100"}, "job": {"inputs": {"oligos": {"src": "hda", "id": "4fa21a2ab98d6a11", "uuid": "4f8eff6d-55e5-415a-bc0d-c2d29719aeba"}, "fasta": {"src": "hda", "id": "8f862e98c671efbc", "uuid": "4db73f9a-c8d2-4412-a03a-1e97a9d88de9"}}, "update_time": "2018-02-08T18:47:24.871409", "tool_id": "mothur_trim_seqs", "outputs": {"__new_primary_file_MOCK.GQY1XT001|F003D142__": {"src": "hda", "id": "e2a4c2b0e0ee29b7", "uuid": "a6fdc088-e73a-40f8-bf55-e4e6b05e6df6"}, "__new_primary_file_MOCK.GQY1XT001|F003D008__": {"src": "hda", "id": "d3e37e974b33cd78", "uuid": "326975c6-ec31-4566-bdf9-992bf271f3fb"}, "trim_fasta": {"src": "hda", "id": "d3b573d52d73e766", "uuid": "aac454ae-8526-4fd9-814b-a1fcd172b940"}, "__new_primary_file_MOCK.GQY1XT001|F003D006__": {"src": "hda", "id": "bc7fa00e824e36c4", "uuid": "60d14df6-432d-4d0f-8313-f0ae7c23a9fe"}, "__new_primary_file_MOCK.GQY1XT001|F003D144__": {"src": "hda", "id": "0476296d69f55ec7", "uuid": "800f3e5c-b564-4b05-8b4e-10393cf64eb5"}, "groups_file": {"src": "hda", "id": "521e581659a1db8a", "uuid": "7d8467df-a299-4ab5-981c-809d2c955ab8"}, "__new_primary_file_MOCK.GQY1XT001|MOCK.GQY1XT001__": {"src": "hda", "id": "6bedfbc6c2ea7489", "uuid": "e0de8a75-b145-4e48-8be9-bd44ba70fa91"}, "scrap_fasta": {"src": "hda", "id": "f5a3628d40cdc020", "uuid": "2daaa7dd-b657-4bab-9daf-774b27ed03d1"}, "__new_primary_file_MOCK.GQY1XT001|F003D000__": {"src": "hda", "id": "e55fe44fe41229c1", "uuid": "e20e9144-4c6b-4fc7-88ab-0c7752e46b6c"}, "__new_primary_file_MOCK.GQY1XT001|F003D150__": {"src": "hda", "id": "ea11db34dbe66961", "uuid": "0973157d-fa0f-4060-b1d7-9fbbcc01ee45"}, "logfile": {"src": "hda", "id": "227335580a9b176b", "uuid": "da08afb2-6cc3-4c9d-a89c-ac1d2243af70"}, "__new_primary_file_MOCK.GQY1XT001|F003D146__": {"src": "hda", "id": "2e2129d42462228f", "uuid": "617ed727-566c-4679-83a7-3c1e15e38d8f"}, "__new_primary_file_MOCK.GQY1XT001|F003D148__": {"src": "hda", "id": "b2e57fd9cecc5aab", "uuid": "5ebc12ad-7f12-47b2-871c-d84ee6e05504"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > trim.seqs(fasta=fasta.dat,minlength=0,maxlength=0,maxambig=-1,maxhomop= \r0,keepfirst=0,removelast=0,oligos=oligo.oligos.dat,bdiffs=100,pdiffs=100,tdiffs= \r0,ldiffs=0,sdiffs=0,keepforward=false,allfiles=true,flip=false,logtransform=fals \re,checkorient=false,processors=1)\n\nUsing 1 processors.\n98\n\nGroup count: \nF003D000\t32\nF003D006\t1\nF003D008\t3\nF003D142\t7\nF003D144\t8\nF003D146\t4\nF003D148\t33\nF003D150\t1\nMOCK.GQY1XT001\t2\nTotal of all groups is 91\n\nOutput File Names: \nfasta.trim.fasta\nfasta.scrap.fasta\nfasta.MOCK.GQY1XT001.fasta\nfasta.F003D144.fasta\nfasta.F003D000.fasta\nfasta.F003D148.fasta\nfasta.F003D142.fasta\nfasta.F003D146.fasta\nfasta.F003D150.fasta\nfasta.F003D008.fasta\nfasta.F003D006.fasta\nfasta.groups\nfasta.F003D000.groups\nfasta.F003D006.groups\nfasta.F003D008.groups\nfasta.F003D142.groups\nfasta.F003D144.groups\nfasta.F003D146.groups\nfasta.F003D148.groups\nfasta.F003D150.groups\nfasta.MOCK.GQY1XT001.groups\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3724.dat' fasta.dat && ln -s 'None' names.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3725.dat' oligo.oligos.dat && echo 'trim.seqs( fasta=fasta.dat, minlength=0, maxlength=0, maxambig=-1, maxhomop=0, keepfirst=0, removelast=0, oligos=oligo.oligos.dat, bdiffs=100, pdiffs=100, tdiffs=0, ldiffs=0, sdiffs=0, keepforward=false, allfiles=true, flip=false, logtransform=false, checkorient=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fasta.trim.fasta fasta.trim && mv fasta.scrap.fasta fasta.scrap", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:47:20.369148", "params": {"count": "null", "oligo": "{\"bdiffs\": \"100\", \"sdiffs\": \"0\", \"allfiles\": \"true\", \"ldiffs\": \"0\", \"pdiffs\": \"100\", \"tdiffs\": \"0\", \"keepforward\": \"false\", \"add\": \"yes\", \"__current_case__\": 1, \"oligos\": {\"values\": [{\"src\": \"hda\", \"id\": 3725}]}}", "logtransform": "\"false\"", "checkorient": "\"false\"", "minlength": "\"0\"", "maxhomop": "\"0\"", "flip": "\"false\"", "dbkey": "\"hg17\"", "qual": "{\"add2\": \"no\", \"__current_case__\": 0}", "removelast": "\"0\"", "names": "null", "maxlength": "\"0\"", "maxambig": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "keepfirst": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7764", "id": "093ebc9d412c603b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_trim_seqs.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"qual|qfile": {"src": "hda", "id": "7934594c89e91a33"}, "fasta": {"src": "hda", "id": "fc95eb28ec7fe06a"}, "maxhomop": "4", "qual|add2": "yes"}, "job": {"inputs": {"fasta": {"src": "hda", "id": "fc95eb28ec7fe06a", "uuid": "0211fde4-c693-40d3-9b5b-5912e37414d7"}, "qfile": {"src": "hda", "id": "7934594c89e91a33", "uuid": "8b3f866a-c0fe-4a8b-bfe7-af9154ac6314"}}, "update_time": "2018-02-08T18:48:03.759616", "tool_id": "mothur_trim_seqs", "outputs": {"trim_fasta": {"src": "hda", "id": "815697d3d9eb26cb", "uuid": "caf56444-922f-4eee-bc2a-ff2fa5851073"}, "logfile": {"src": "hda", "id": "44f0746e84939f78", "uuid": "34d43e05-0980-4046-97ba-0ed5252d8e66"}, "scrap_qual": {"src": "hda", "id": "7ddeb7c19c1d7c5a", "uuid": "da3e9833-2cb7-4b2d-a02b-2c6b2cec0918"}, "scrap_fasta": {"src": "hda", "id": "454e9e805ca4077a", "uuid": "d7dd29ef-d688-476f-b7a7-05bf9d8715e8"}, "trim_qual": {"src": "hda", "id": "676dc9710b90c439", "uuid": "7ca5b932-3be9-4b70-8274-32b64dc5e60e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > trim.seqs(fasta=fasta.dat,minlength=0,maxlength=0,maxambig=-1,maxhomop= \r4,keepfirst=0,removelast=0,qfile=qual.qfile.dat,qaverage=0,qthreshold=0,qwindowa \rverage=0,qwindowsize=50,rollaverage=0,qstepsize=1,qtrim=false,flip=false,logtran \rsform=false,checkorient=false,processors=1)\n\nUsing 1 processors.\n10\n\n\nOutput File Names: \nfasta.trim.fasta\nfasta.scrap.fasta\nfasta.trim.qual\nfasta.scrap.qual\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3748.dat' fasta.dat && ln -s 'None' names.dat && ln -s 'None' count.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3749.dat' qual.qfile.dat && echo 'trim.seqs( fasta=fasta.dat, minlength=0, maxlength=0, maxambig=-1, maxhomop=4, keepfirst=0, removelast=0, qfile=qual.qfile.dat, qaverage=0, qthreshold=0, qwindowaverage=0, qwindowsize=50, rollaverage=0, qstepsize=1, qtrim=false, flip=false, logtransform=false, checkorient=false, processors='${GALAXY_SLOTS:-8}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv fasta.trim.fasta fasta.trim && mv fasta.scrap.fasta fasta.scrap", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:48:00.227292", "params": {"count": "null", "oligo": "{\"add\": \"no\", \"__current_case__\": 0}", "logtransform": "\"false\"", "checkorient": "\"false\"", "minlength": "\"0\"", "maxhomop": "\"4\"", "flip": "\"false\"", "dbkey": "\"hg17\"", "qual": "{\"qaverage\": \"0\", \"add2\": \"yes\", \"rollaverage\": \"0\", \"qfile\": {\"values\": [{\"src\": \"hda\", \"id\": 3749}]}, \"qwindowaverage\": \"0\", \"qthreshold\": \"0\", \"__current_case__\": 1, \"qstepsize\": \"1\", \"qtrim\": \"false\", \"qwindowsize\": \"50\"}", "removelast": "\"0\"", "names": "null", "maxlength": "\"0\"", "maxambig": "\"-1\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "keepfirst": "\"0\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7890", "id": "ef11ae9dd5e1ab5d", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_trim_seqs.test_tool_000004", "has_data": true}, {"data": {"status": "success", "inputs": {"tree": {"src": "hda", "id": "6df0b8642431f7cc"}}, "job": {"inputs": {"tree": {"src": "hda", "id": "6df0b8642431f7cc", "uuid": "6b1c9231-0e1e-4386-a8c2-c68780fddaad"}}, "update_time": "2018-02-08T18:48:36.539810", "tool_id": "mothur_unifrac_unweighted", "outputs": {"logfile": {"src": "hda", "id": "4b2a9422f173d099", "uuid": "22237f41-b2fc-4fcc-9f91-ad1c58ef660d"}, "dist": {"src": "hda", "id": "8ade91c37a8a22e4", "uuid": "1521df49-9e17-4089-af80-1e8cde0e428c"}, "summary": {"src": "hda", "id": "369c1a55ae4ea50a", "uuid": "f5953986-44ae-4b23-8259-a72c04e04771"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.unweighted(tree=tree.dat,iters=1000,random=false,distance=lt,ro \rot=false,processors=1)\n\nUsing 1 processors.\nTree#\tGroups\tUWScore\t\n1\t\t1\nIt took 0 secs to run unifrac.unweighted.\n\nOutput File Names: \ntree.uwsummary\ntree.dat1.unweighted.phylip.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3755.dat' tree.dat && ln -s 'None' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.unweighted( tree=tree.dat, iters=1000, random=false, distance=lt, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:48:33.297630", "params": {"count": "null", "distance": "\"lt\"", "group": "null", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"false\"", "dbkey": "\"hg17\"", "groups": "null", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "7995", "id": "72b2b39740f9703c", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_unweighted.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"random": true, "tree": {"src": "hda", "id": "a42959d25b93204d"}}, "job": {"inputs": {"tree": {"src": "hda", "id": "a42959d25b93204d", "uuid": "cc159f63-71d4-43f6-bb06-ca3860641095"}}, "update_time": "2018-02-08T18:48:59.691564", "tool_id": "mothur_unifrac_unweighted", "outputs": {"unweighted": {"src": "hda", "id": "1afbdcbd8124b81c", "uuid": "bd550cfe-d7f3-4576-afbc-732ed1cd0ad1"}, "logfile": {"src": "hda", "id": "5882c2146ac78717", "uuid": "4d57d082-d71e-4cea-aced-050026f1cbb0"}, "dist": {"src": "hda", "id": "ebca56f6202f73d0", "uuid": "d80f9213-4452-4e9e-8cc3-89354629bf11"}, "summary": {"src": "hda", "id": "17941f39887c26fe", "uuid": "70d01ba9-c07d-42e9-93d0-36bfe05590eb"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.unweighted(tree=tree.dat,iters=1000,random=true,distance=lt,roo \rt=false,processors=1)\n\nUsing 1 processors.\nTree#\tGroups\tUWScore\tUWSig\n1\t\t1\t1\nIt took 0 secs to run unifrac.unweighted.\n\nOutput File Names: \ntree.uwsummary\ntree.dat1.unweighted\ntree.dat1.unweighted.phylip.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3759.dat' tree.dat && ln -s 'None' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.unweighted( tree=tree.dat, iters=1000, random=true, distance=lt, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:48:55.837836", "params": {"count": "null", "distance": "\"lt\"", "group": "null", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"true\"", "dbkey": "\"hg17\"", "groups": "null", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8087", "id": "957ab5f6bc45f41a", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_unweighted.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "216531b9838bcc19"}, "tree": {"src": "hda", "id": "13cac33be07cea40"}, "groups": ["A", "B"], "distance": "square"}, "job": {"inputs": {"group": {"src": "hda", "id": "216531b9838bcc19", "uuid": "8ec7f52a-4be6-4ffd-b896-9fdc0e76d0d5"}, "tree": {"src": "hda", "id": "13cac33be07cea40", "uuid": "7a20c32c-6646-4271-b2a1-f89e11ae55fa"}}, "update_time": "2018-02-08T18:49:28.670980", "tool_id": "mothur_unifrac_unweighted", "outputs": {"logfile": {"src": "hda", "id": "832ffb62535b10da", "uuid": "17c0f6f4-784c-44e5-8c94-f6f13fe4f737"}, "dist": {"src": "hda", "id": "91be6474cef830ab", "uuid": "95704f3c-80a0-4fbf-83c7-65d4cbabf9bf"}, "summary": {"src": "hda", "id": "28795f877f71134f", "uuid": "83719290-947c-48da-99fc-95049a661051"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.unweighted(tree=tree.dat,group=group.dat,groups=A-B,iters=1000, \rrandom=false,distance=square,root=false,processors=1)\n\nUsing 1 processors.\nTree#\tGroups\tUWScore\t\n1\tA-B\t0.697429\nIt took 0 secs to run unifrac.unweighted.\n\nOutput File Names: \ntree.uwsummary\ntree.dat1.unweighted.phylip.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3764.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3765.dat' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.unweighted( tree=tree.dat, group=group.dat, groups=A-B, iters=1000, random=false, distance=square, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:49:25.419654", "params": {"count": "null", "distance": "\"square\"", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"false\"", "dbkey": "\"hg17\"", "groups": "[\"A\", \"B\"]", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8200", "id": "dd4d919ea4ea0b29", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_unweighted.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"distance": "column", "group": {"src": "hda", "id": "5e10cd539f2a6619"}, "tree": {"src": "hda", "id": "9aac823dc8c01e16"}, "subsampling|subsample": "10", "groups": ["A", "B", "C"], "subsampling|consensus": true, "subsampling|use": "yes"}, "job": {"inputs": {"group": {"src": "hda", "id": "5e10cd539f2a6619", "uuid": "9afe7468-0185-4855-a9d4-68c0b8ebeb85"}, "tree": {"src": "hda", "id": "9aac823dc8c01e16", "uuid": "5b6b7751-6143-41bc-9921-39b157b4c9e2"}}, "update_time": "2018-02-08T18:49:55.348485", "tool_id": "mothur_unifrac_unweighted", "outputs": {"logfile": {"src": "hda", "id": "5c1603539e28a1c0", "uuid": "08ea5982-30fa-4993-8384-32ab676d85a2"}, "dist": {"src": "hda", "id": "fe4fbad99aec603a", "uuid": "662ee7f3-d3d3-47b0-ab8b-0e3bb348a1ec"}, "cons_tree": {"src": "hda", "id": "c0615e4cb678cabf", "uuid": "bf2192d8-30bc-410c-baca-9ca1823a491c"}, "all_tree": {"src": "hda", "id": "727b1362191da7aa", "uuid": "9a7fe375-9d3f-41dc-9620-cd3e0ac5daa9"}, "ave_dist": {"src": "hda", "id": "ac3107c78c55b210", "uuid": "e16d304c-a86d-4ca0-ab05-32078b53e0f2"}, "std_dist": {"src": "hda", "id": "a04ba41073d3fea6", "uuid": "2319c776-e083-4364-9b61-aba0a91cd913"}, "summary": {"src": "hda", "id": "1cc9930f120e2a4c", "uuid": "9077764c-0952-4a37-a295-7dff1491718f"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.unweighted(tree=tree.dat,group=group.dat,groups=A-B-C,iters=100 \r0,subsample=10,consensus=true,distance=column,root=false,processors=1)\n\nUsing 1 processors.\nTree#\tGroups\tUWScore\t\n100\n200\n300\n400\n500\n600\n700\n800\n900\n1000\nIt took 1 secs to run the subsampling.\n1\tA-B\t0.697429\n1\tA-C\t0.745247\n1\tB-C\t0.779964\nIt took 1 secs to run unifrac.unweighted.\n\nOutput File Names: \ntree.uwsummary\ntree.1.unweighted.ave.dist\ntree.1.unweighted.std.dist\ntree.1.unweighted.all.tre\ntree.1.unweighted.cons.tre\ntree.dat1.unweighted.column.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3769.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3770.dat' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.unweighted( tree=tree.dat, group=group.dat, groups=A-B-C, iters=1000, subsample=10, consensus=true, distance=column, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:49:51.083299", "params": {"count": "null", "distance": "\"column\"", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"false\"", "dbkey": "\"hg17\"", "groups": "[\"A\", \"B\", \"C\"]", "subsampling": "{\"consensus\": \"true\", \"subsample\": \"10\", \"use\": \"yes\", \"__current_case__\": 0}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8325", "id": "025a944d63daedd1", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_unweighted.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "0838a9bd40f5c4ce"}, "tree": {"src": "hda", "id": "b3462b19f4f15b33"}, "groups": ["A", "B", "C"]}, "job": {"inputs": {"group": {"src": "hda", "id": "0838a9bd40f5c4ce", "uuid": "8c75c923-d3db-4d38-9bb8-0bbfc949fa33"}, "tree": {"src": "hda", "id": "b3462b19f4f15b33", "uuid": "b462b4a8-88cf-41dc-bdb9-05a127fd8063"}}, "update_time": "2018-02-08T18:50:45.499239", "tool_id": "mothur_unifrac_weighted", "outputs": {"logfile": {"src": "hda", "id": "3fa7183d0a1b019b", "uuid": "08246390-a6be-4f84-ad75-9fa451c35c8a"}, "dist": {"src": "hda", "id": "79e7be5d12af6385", "uuid": "cfb6f0a5-f72a-4422-a72c-54e43dcbcd92"}, "summary": {"src": "hda", "id": "3a27c90fe001e6a6", "uuid": "002b5114-c0be-4d27-bf98-f2dd5c64f619"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.weighted(tree=tree.dat,group=group.dat,groups=A-B-C,iters=1000, \rrandom=false,distance=lt,root=false,processors=1)\n\nUsing 1 processors.\nTree#\tGroups\tWScore\t\n1\tA-B\t0.420804\n1\tA-C\t0.561036\n1\tB-C\t0.614747\nIt took 0 secs to run unifrac.weighted.\n\nOutput File Names: \ntree.datwsummary\ntree.dat1.weighted.phylip.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3778.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3779.dat' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.weighted( tree=tree.dat, group=group.dat, groups=A-B-C, iters=1000, random=false, distance=lt, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:50:41.538022", "params": {"count": "null", "distance": "\"lt\"", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"false\"", "dbkey": "\"hg17\"", "groups": "[\"A\", \"B\", \"C\"]", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8452", "id": "79a8c1c389391c2e", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_weighted.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "518ff5e2cb49d7bb"}, "random": true, "tree": {"src": "hda", "id": "fd6333f7835dfe44"}, "groups": ["A", "B", "C"]}, "job": {"inputs": {"group": {"src": "hda", "id": "518ff5e2cb49d7bb", "uuid": "c1210880-04ea-42f6-894f-4590ed23d2a4"}, "tree": {"src": "hda", "id": "fd6333f7835dfe44", "uuid": "7adf2d3b-f9f0-496f-a251-f63bb1005228"}}, "update_time": "2018-02-08T18:51:16.087597", "tool_id": "mothur_unifrac_weighted", "outputs": {"logfile": {"src": "hda", "id": "6c3534f8df79d924", "uuid": "dc7c40ce-158b-4448-b303-fe3039aedc6c"}, "dist": {"src": "hda", "id": "63d28ef2435a4446", "uuid": "d696ec13-f4b0-49be-bae0-ae193f12965d"}, "summary": {"src": "hda", "id": "160ab7f4e3f4c4c1", "uuid": "7723ec4a-7e76-4135-9a4e-bad716710dba"}, "weighted": {"src": "hda", "id": "bd78fbbdf8dac536", "uuid": "269c6665-e3c2-45b2-88a9-b6bc101436af"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.weighted(tree=tree.dat,group=group.dat,groups=A-B-C,iters=1000, \rrandom=true,distance=lt,root=false,processors=1)\n\nUsing 1 processors.\nTree#\tGroups\tWScore\tWSig\n1\tA-B\t0.420804\t<0.001\n1\tA-C\t0.561036\t<0.001\n1\tB-C\t0.614747\t<0.001\nIt took 3 secs to run unifrac.weighted.\n\nOutput File Names: \ntree.datwsummary\ntree.dat1.weighted\ntree.dat1.weighted.phylip.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3783.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3784.dat' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.weighted( tree=tree.dat, group=group.dat, groups=A-B-C, iters=1000, random=true, distance=lt, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:51:10.189404", "params": {"count": "null", "distance": "\"lt\"", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"true\"", "dbkey": "\"hg17\"", "groups": "[\"A\", \"B\", \"C\"]", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8562", "id": "9140d1ef204facd8", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_weighted.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"group": {"src": "hda", "id": "22fc2c025e64e76f"}, "tree": {"src": "hda", "id": "31e4d008821c6455"}, "groups": ["A", "B"], "distance": "square"}, "job": {"inputs": {"group": {"src": "hda", "id": "22fc2c025e64e76f", "uuid": "0b953332-ddcc-4b42-9fbd-df180e3a79af"}, "tree": {"src": "hda", "id": "31e4d008821c6455", "uuid": "ccae7e6c-1d7d-42b7-bb86-10ab235256ce"}}, "update_time": "2018-02-08T18:51:47.265203", "tool_id": "mothur_unifrac_weighted", "outputs": {"logfile": {"src": "hda", "id": "584bfbb334e631ee", "uuid": "b8815e25-4a19-41b2-b938-6d6b82239ec8"}, "dist": {"src": "hda", "id": "48f366354bcadc71", "uuid": "5d7c5c74-5472-4d42-b883-1e89e9f05a3a"}, "summary": {"src": "hda", "id": "d6c62cf9da0ecb9f", "uuid": "a001986d-fbef-433c-af54-230fd2fde10e"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.weighted(tree=tree.dat,group=group.dat,groups=A-B,iters=1000,ra \rndom=false,distance=square,root=false,processors=1)\n\nUsing 1 processors.\nTree#\tGroups\tWScore\t\n1\tA-B\t0.420804\nIt took 0 secs to run unifrac.weighted.\n\nOutput File Names: \ntree.datwsummary\ntree.dat1.weighted.phylip.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3789.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3790.dat' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.weighted( tree=tree.dat, group=group.dat, groups=A-B, iters=1000, random=false, distance=square, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:51:44.075183", "params": {"count": "null", "distance": "\"square\"", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"false\"", "dbkey": "\"hg17\"", "groups": "[\"A\", \"B\"]", "subsampling": "{\"use\": \"no\", \"__current_case__\": 1}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8690", "id": "fa032b562e153122", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_weighted.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"distance": "column", "group": {"src": "hda", "id": "794af97c9033590e"}, "tree": {"src": "hda", "id": "a21fe8ee9e63080c"}, "subsampling|subsample": "10", "groups": ["A", "B", "C"], "subsampling|consensus": true, "subsampling|use": "yes"}, "job": {"inputs": {"group": {"src": "hda", "id": "794af97c9033590e", "uuid": "e20175cd-14b3-49b4-bfce-0142810ff7f3"}, "tree": {"src": "hda", "id": "a21fe8ee9e63080c", "uuid": "fc7d7c2f-d877-492e-83b3-f66d55da81e0"}}, "update_time": "2018-02-08T18:52:14.538020", "tool_id": "mothur_unifrac_weighted", "outputs": {"logfile": {"src": "hda", "id": "5ba55d6a72b87324", "uuid": "f365a4ac-3eab-4c3f-8f34-05411cea8df0"}, "dist": {"src": "hda", "id": "60b877016be95026", "uuid": "f7db84a3-f1f3-4995-a595-b9b554cb6987"}, "cons_tree": {"src": "hda", "id": "c2e52dbcfe49c36d", "uuid": "9f1ef3be-aaff-4eb4-aa98-a5a58105c962"}, "all_tree": {"src": "hda", "id": "707ccea25fc9dd71", "uuid": "f59c4ad1-d5b9-4170-a839-eeb5cbf1e7bf"}, "ave_dist": {"src": "hda", "id": "24b1957315221820", "uuid": "384c63b7-3e46-4cfb-9d54-32a87a8cc979"}, "std_dist": {"src": "hda", "id": "e1f6007d0d1998af", "uuid": "55fe1249-c6a4-4367-b8b8-d0c128cb6473"}, "summary": {"src": "hda", "id": "f478481875067414", "uuid": "f03af451-dab2-4f4d-b556-0339cc0cce02"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unifrac.weighted(tree=tree.dat,group=group.dat,groups=A-B-C,iters=1000, \rsubsample=10,consensus=true,distance=column,root=false,processors=1)\n\nUsing 1 processors.\n100\n200\n300\n400\n500\n600\n700\n800\n900\n1000\nTree#\tGroups\tWScore\t\n1\tA-B\t0.420804\n1\tA-C\t0.561036\n1\tB-C\t0.614747\nIt took 1 secs to run unifrac.weighted.\n\nOutput File Names: \ntree.datwsummary\ntree.dat1.weighted.ave.dist\ntree.dat1.weighted.std.dist\ntree.1.weighted.all.tre\ntree.1.weighted.cons.tre\ntree.dat1.weighted.column.dist\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3794.dat' tree.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3795.dat' group.dat && ln -s 'None' name.dat && ln -s 'None' count.dat && echo 'unifrac.weighted( tree=tree.dat, group=group.dat, groups=A-B-C, iters=1000, subsample=10, consensus=true, distance=column, root=false, processors='${GALAXY_SLOTS:-1}' )' | sed 's/ //g' | mothur | tee mothur.out.log && mv tree.*.ave.dist tree.ave && mv tree.*.std.dist tree.std", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:52:09.934321", "params": {"count": "null", "distance": "\"column\"", "name": "null", "iters": "\"1000\"", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "random": "\"false\"", "dbkey": "\"hg17\"", "groups": "[\"A\", \"B\", \"C\"]", "subsampling": "{\"consensus\": \"true\", \"subsample\": \"10\", \"use\": \"yes\", \"__current_case__\": 0}", "root": "\"false\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8802", "id": "b1d26ebda0776d51", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unifrac_weighted.test_tool_000003", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "f8823dc7d466d97b"}, "names": {"src": "hda", "id": "8187faee9c922310"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "f8823dc7d466d97b", "uuid": "eb69bb90-2c63-414e-9416-14bac878965b"}, "names": {"src": "hda", "id": "8187faee9c922310", "uuid": "bc005bee-5b71-43d0-9208-591b7c0ccd59"}}, "update_time": "2018-02-08T18:53:02.690147", "tool_id": "mothur_unique_seqs", "outputs": {"out_names": {"src": "hda", "id": "8b0f9f257ede5df4", "uuid": "41b0e472-5881-44be-8df3-b79fe480143f"}, "logfile": {"src": "hda", "id": "f3df144761c5b956", "uuid": "5dc05b2e-6f8a-48b7-82ed-e1ff821dba29"}, "out_fasta": {"src": "hda", "id": "66d3fd607ddc158a", "uuid": "53038c6e-0d47-4faa-aa0d-e1db2f95bfc9"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unique.seqs(name=names.dat,fasta=fasta.dat)\n98\t96\n\nOutput File Names: \nfasta.names\nfasta.unique.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3804.dat' names.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3803.dat' fasta.dat && echo 'unique.seqs( name=names.dat, fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:52:59.577595", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "8930", "id": "c239c296c8b002ba", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unique_seqs.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "8aaa031deda3761e"}, "names": {"src": "hda", "id": "864bc422cb6c6663"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "8aaa031deda3761e", "uuid": "cbb5a981-dd46-4e6d-a26b-0f7397e76300"}, "names": {"src": "hda", "id": "864bc422cb6c6663", "uuid": "ca478712-7077-485d-bbf7-d6349244011d"}}, "update_time": "2018-02-08T18:53:28.461742", "tool_id": "mothur_unique_seqs", "outputs": {"out_count": {"src": "hda", "id": "b1b0e3e670e9fef5", "uuid": "b6579f3e-d17c-4ae3-9909-afe68c12e00d"}, "logfile": {"src": "hda", "id": "5cdc51911a37e673", "uuid": "08e8438b-a641-43e4-83f2-47bcb535c92e"}, "out_fasta": {"src": "hda", "id": "5fab573ff4009995", "uuid": "838a2f8a-9284-4d3e-a768-0a69cb33a7d4"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unique.seqs(count=names.dat,fasta=fasta.dat)\n96\t96\n\nOutput File Names: \nfasta.count_table\nfasta.unique.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3809.dat' names.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3808.dat' fasta.dat && echo 'unique.seqs( count=names.dat, fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:53:25.211028", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9040", "id": "5498b8b462f50992", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unique_seqs.test_tool_000001", "has_data": true}, {"data": {"status": "success", "inputs": {"fasta": {"src": "hda", "id": "7b00e7fa90e73a2c"}}, "job": {"inputs": {"fasta": {"src": "hda", "id": "7b00e7fa90e73a2c", "uuid": "8dbab685-56c7-4b8f-b547-9f2f9bfb7cf2"}}, "update_time": "2018-02-08T18:53:51.166544", "tool_id": "mothur_unique_seqs", "outputs": {"out_names": {"src": "hda", "id": "ddd777d89c6d8995", "uuid": "eb0f6782-ae6b-4df5-9e88-2eaca0da2a0c"}, "logfile": {"src": "hda", "id": "6e4eaae38f2fd10c", "uuid": "efec61f4-381e-4e05-ba55-0d10262d1963"}, "out_fasta": {"src": "hda", "id": "ea5794814dd23e3d", "uuid": "33dadcf5-75a9-4702-8a3a-745d0bf290a5"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > unique.seqs(fasta=fasta.dat)\n98\t96\n\nOutput File Names: \nfasta.names\nfasta.unique.dat\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s 'None' names.dat && ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3813.dat' fasta.dat && echo 'unique.seqs( fasta=fasta.dat )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:53:47.926817", "params": {"chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "names": "null", "dbkey": "\"hg17\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9135", "id": "af3fae2a84d45574", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_unique_seqs.test_tool_000002", "has_data": true}, {"data": {"status": "success", "inputs": {"input|source": "shared", "input|groups": ["forest", "pasture"], "input|calc": ["sharedsobs", "sharedchao"], "input|otu": {"src": "hda", "id": "55d76a6980ecb718"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "55d76a6980ecb718", "uuid": "33113dd2-1063-4523-a1f2-cfc9ba04cf55"}}, "update_time": "2018-02-08T18:54:19.954686", "tool_id": "mothur_venn", "outputs": {"__new_primary_file_unique.sharedsobs.forest-pasture|0.07.sharedchao.forest-pasture__": {"src": "hda", "id": "c306e715ccd40732", "uuid": "fa6ba2aa-af1b-4dfc-8926-db0f300de15b"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.07.sharedsobs.forest-pasture__": {"src": "hda", "id": "08f916effa074623", "uuid": "b8665eb1-b958-41c7-87d0-50597ecb2727"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.23.sharedchao.forest-pasture__": {"src": "hda", "id": "77cfdc5505f4d0df", "uuid": "357d9ce7-8bc6-4070-aafb-261fe7aabb06"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.10.sharedsobs.forest-pasture__": {"src": "hda", "id": "01b91c84f878a8a3", "uuid": "dd129a22-8873-4724-a260-c2aedce68903"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.26.sharedsobs.forest-pasture__": {"src": "hda", "id": "d35b70885c06631c", "uuid": "3f444a73-c012-42e1-b6fa-af1fe54c4277"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.06.sharedsobs.forest-pasture__": {"src": "hda", "id": "c690dd6a085605ea", "uuid": "96f6496f-9f8c-4dd3-89ee-2b7e22571162"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.13.sharedsobs.forest-pasture__": {"src": "hda", "id": "1fe0a7c632f57060", "uuid": "679228e1-25c0-4fa1-a1d7-d952b4e22669"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.20.sharedsobs.forest-pasture__": {"src": "hda", "id": "1523f6ea5a5d73b3", "uuid": "8dda66dd-d4ee-4d4f-a3d2-7a49863e6138"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.22.sharedsobs.forest-pasture__": {"src": "hda", "id": "2def870856cfe4c6", "uuid": "dc241149-1824-49bd-86e6-39bb7bf7e87d"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.24.sharedchao.forest-pasture__": {"src": "hda", "id": "18952bd2de03ae52", "uuid": "fd336735-6fb2-4817-9ced-d495295b6db0"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.13.sharedsobs.forest-pasture__": {"src": "hda", "id": "c15f789a5ecae62b", "uuid": "3d29aaf9-2223-4d5a-9628-d58ea3127f32"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.10.sharedsobs.forest-pasture__": {"src": "hda", "id": "f465620be2f9d9b4", "uuid": "00a4d350-5a23-4021-ab12-68a929d77078"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.26.sharedsobs.forest-pasture__": {"src": "hda", "id": "e0de418b10ea8e9b", "uuid": "9039195a-804e-4bc1-a495-5d065103c3cf"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.21.sharedchao.forest-pasture__": {"src": "hda", "id": "87317e509263261f", "uuid": "ae109f3d-e5d0-4d91-aea1-04b68bc3192d"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.13.sharedchao.forest-pasture__": {"src": "hda", "id": "b88ed5c38daceca1", "uuid": "c3aa1049-3408-430d-93d7-769f74d2dc0f"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.09.sharedsobs.forest-pasture__": {"src": "hda", "id": "cb786d4b7cd4ec0b", "uuid": "bc8ba073-d6a5-41ec-9699-1991c06e05ad"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.11.sharedchao.forest-pasture__": {"src": "hda", "id": "fde1c673bcdd4bcc", "uuid": "7fec2e91-6656-4960-a862-216ebbbfc971"}, "logfile": {"src": "hda", "id": "4691a2fc08aa41ee", "uuid": "78e7cfb4-1c15-4209-ae02-acfbda8950cc"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.18.sharedsobs.forest-pasture__": {"src": "hda", "id": "d764b3660d65d21a", "uuid": "9b32b843-e544-44ae-a60e-0be988b32eea"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.19.sharedchao.forest-pasture__": {"src": "hda", "id": "386a33fc01e87d25", "uuid": "5b268487-d66a-4ce4-ac05-4b129bfe68e2"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.11.sharedsobs.forest-pasture__": {"src": "hda", "id": "245df92b01763c64", "uuid": "80b58a66-db1e-4601-b2f8-9fb5121b1a78"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.05.sharedchao.forest-pasture__": {"src": "hda", "id": "0de293c42c5aa2ac", "uuid": "1a4bddd0-6afe-4ecd-99af-c0f4c42f347a"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.25.sharedchao.forest-pasture__": {"src": "hda", "id": "c1667a5280afa4fe", "uuid": "7e00c743-c552-4ec5-bade-94a21201b7ee"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.24.sharedsobs.forest-pasture__": {"src": "hda", "id": "671c0ce33f5fbff0", "uuid": "2406af05-433b-47e3-b1d5-98f35075fcbb"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.15.sharedsobs.forest-pasture__": {"src": "hda", "id": "59be8bca74d4fe3a", "uuid": "6bde048b-6443-4676-8224-b203f9e90da2"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.17.sharedsobs.forest-pasture__": {"src": "hda", "id": "a9e62339c0cbf983", "uuid": "e66c2669-ba18-45b0-80d0-d45d003a15fe"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.32.sharedsobs.forest-pasture__": {"src": "hda", "id": "022b7273b36ec52a", "uuid": "a87b2dc9-ec38-464b-b7f0-9625bae9263c"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.22.sharedsobs.forest-pasture__": {"src": "hda", "id": "0570c6c81453125e", "uuid": "ddac6b3d-d931-47ce-a4c5-bc297cc0cd13"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.32.sharedchao.forest-pasture__": {"src": "hda", "id": "49597670bed1a628", "uuid": "41c53ac8-6b5d-4902-9b28-f42ae5c7e631"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.15.sharedsobs.forest-pasture__": {"src": "hda", "id": "6dfa622192ae02f4", "uuid": "09e8081d-6a2a-4b8d-8fed-1b30b08e65cf"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.22.sharedchao.forest-pasture__": {"src": "hda", "id": "1471b8638fb6e5fb", "uuid": "a8e70296-4f2f-4b32-8f1a-78fe2950641f"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.21.sharedsobs.forest-pasture__": {"src": "hda", "id": "687bbef05695a38c", "uuid": "ff676a57-b49b-41bc-a9b8-6fc50699de97"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.20.sharedchao.forest-pasture__": {"src": "hda", "id": "11c607da212e954c", "uuid": "c96ff0e2-0730-4a29-bd9b-0b92087fa00c"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.08.sharedsobs.forest-pasture__": {"src": "hda", "id": "247bb04886b18dba", "uuid": "9cff10f7-7bc1-45e8-a387-909958678461"}, "__new_primary_file_unique.sharedsobs.forest-pasture|unique.sharedsobs.forest-pasture__": {"src": "hda", "id": "ff9ced08eb7e9056", "uuid": "c43d227b-f342-49c8-80d3-a7dd6fd0a657"}, "__new_primary_file_unique.sharedsobs.forest-pasture|unique.sharedchao.forest-pasture__": {"src": "hda", "id": "c65952ec2fe675da", "uuid": "b67470df-d823-4261-91ff-3a58ad8b3881"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.08.sharedsobs.forest-pasture__": {"src": "hda", "id": "e975462f3ceabed3", "uuid": "991bbba7-e8bb-4890-be10-3babd001f4d2"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.04.sharedsobs.forest-pasture__": {"src": "hda", "id": "c394e125cab281fe", "uuid": "b364d3d9-9fd1-4df3-8f98-f59001b9011b"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.55.sharedsobs.forest-pasture__": {"src": "hda", "id": "dcb270e075240803", "uuid": "8b67a2cd-842f-406a-bb5d-7dcd1c473abc"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.16.sharedchao.forest-pasture__": {"src": "hda", "id": "8fa16fe08287c73c", "uuid": "ef37bea8-0e88-4be2-9ee9-ad98ddccff4b"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.38.sharedsobs.forest-pasture__": {"src": "hda", "id": "06bc507eac354624", "uuid": "86a4350c-14d8-4f0b-adf1-81e2e91f8c43"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.14.sharedsobs.forest-pasture__": {"src": "hda", "id": "da026caae99bed5f", "uuid": "e144b117-459a-43a7-b898-30e876d27ac7"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.18.sharedsobs.forest-pasture__": {"src": "hda", "id": "62cf76ebfbff77ea", "uuid": "265ad0e7-e43e-48bf-b051-8173e8f70bae"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.38.sharedsobs.forest-pasture__": {"src": "hda", "id": "b992a0e4fe0cccb9", "uuid": "ffa52754-feef-44f6-962d-07ccd24027b9"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.18.sharedchao.forest-pasture__": {"src": "hda", "id": "8b4adf604598b0bf", "uuid": "b8fd9549-9f0c-4080-97a4-f9eed508b5bd"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.04.sharedchao.forest-pasture__": {"src": "hda", "id": "e1d2554c2b2e0f07", "uuid": "5b7f7d8f-29fd-4e7e-9380-4fde8bfcbf8c"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.16.sharedsobs.forest-pasture__": {"src": "hda", "id": "9714d54dac509cd3", "uuid": "cb309df0-2adc-41b2-9e95-8ccf5283c1b9"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.45.sharedsobs.forest-pasture__": {"src": "hda", "id": "891c3d00f1f2064e", "uuid": "0d937583-0218-477d-b311-6490780b684d"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.08.sharedchao.forest-pasture__": {"src": "hda", "id": "5ccc3b02a33143f1", "uuid": "44ff7ab8-8bc5-422a-a8f1-1ef1ede69f0b"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.06.sharedchao.forest-pasture__": {"src": "hda", "id": "6d219e947dfa1c87", "uuid": "327bcba6-4e67-4954-851e-9f583216a057"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.11.sharedsobs.forest-pasture__": {"src": "hda", "id": "ec2074ebbf63f853", "uuid": "7235f46f-0c93-434e-864d-ad8bf34c3bca"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.41.sharedsobs.forest-pasture__": {"src": "hda", "id": "4da843ba89fde456", "uuid": "9fc6f608-0f22-4fe0-800d-be75429dbbde"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.14.sharedchao.forest-pasture__": {"src": "hda", "id": "962483b3ff3e150b", "uuid": "b4f6c14d-fedb-4d54-b96c-3a0066921be6"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.24.sharedsobs.forest-pasture__": {"src": "hda", "id": "270ce92bb2f4dcab", "uuid": "6b2c079e-ddbd-4f43-96d8-34b3825d096a"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.16.sharedsobs.forest-pasture__": {"src": "hda", "id": "80ade03bf4dad1de", "uuid": "0c3faed7-f613-4b73-b715-8ce8861bf2cd"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.38.sharedchao.forest-pasture__": {"src": "hda", "id": "2dd5ee26165803bb", "uuid": "81ce2617-e38d-4fc6-ae57-17d4d586739a"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.17.sharedchao.forest-pasture__": {"src": "hda", "id": "f55117de5e708de4", "uuid": "6f8580b0-f9cb-4a27-8c26-e25a7f5b8eed"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.55.sharedsobs.forest-pasture__": {"src": "hda", "id": "044a642386636336", "uuid": "f1f2f971-c5b8-4605-a59e-df5ac4e8e2b3"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.20.sharedsobs.forest-pasture__": {"src": "hda", "id": "b889b46e7dbd599e", "uuid": "a62e564c-c366-4b1c-ac4c-f62a9a5743ce"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.05.sharedsobs.forest-pasture__": {"src": "hda", "id": "874f52aca5b1a46b", "uuid": "b713ed6e-fbc9-44c1-8cec-8399988f9315"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.27.sharedchao.forest-pasture__": {"src": "hda", "id": "492bc3bc7f4d60b0", "uuid": "dfa4a378-9080-44f4-89a2-b74c863c340a"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.23.sharedsobs.forest-pasture__": {"src": "hda", "id": "a5f5fa5b5f11550a", "uuid": "a69d0e1f-453d-46d5-9134-3d3914fcb78d"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.03.sharedsobs.forest-pasture__": {"src": "hda", "id": "7dc3b3f5d97b5ab7", "uuid": "b2ed26b9-d7f6-4857-933d-2cec3030c2c1"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.10.sharedchao.forest-pasture__": {"src": "hda", "id": "c30c7843e897dc3d", "uuid": "44a131ba-b389-42a8-9043-2d977ea5009d"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.07.sharedsobs.forest-pasture__": {"src": "hda", "id": "c2cdc6a8206d9397", "uuid": "a5bc896a-d2d3-4065-b9d1-d0ec0f963eef"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.17.sharedsobs.forest-pasture__": {"src": "hda", "id": "1e48351de873bc1e", "uuid": "440d9ca9-62e0-4511-9de4-9a7b28e2023b"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.05.sharedsobs.forest-pasture__": {"src": "hda", "id": "c6d68d52e72c436a", "uuid": "941c9b2e-382a-4461-81b7-a39e79287262"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.02.sharedsobs.forest-pasture__": {"src": "hda", "id": "5865039f88f5eda6", "uuid": "e1fca256-1d40-417c-b731-c42e6f7d5427"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.25.sharedsobs.forest-pasture__": {"src": "hda", "id": "c2612d032c4568a1", "uuid": "c6df8086-e262-4fbf-b09b-d4d086db7aec"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.27.sharedsobs.forest-pasture__": {"src": "hda", "id": "161c583a884ffe70", "uuid": "5544a40f-2159-4166-be0b-bc589cde1c39"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.55.sharedchao.forest-pasture__": {"src": "hda", "id": "7ad21bd20a86fbf6", "uuid": "55dc1aca-bad5-4749-b0a3-f013c6c351af"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.45.sharedsobs.forest-pasture__": {"src": "hda", "id": "ed13f92e503181c1", "uuid": "28e90ac8-14b6-4ce8-9c23-9edff1e0d81f"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.29.sharedsobs.forest-pasture__": {"src": "hda", "id": "ff2b605985e5b37e", "uuid": "b0f5b97f-b3d3-4519-93de-91f189d0562d"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.33.sharedsobs.forest-pasture__": {"src": "hda", "id": "a8099d2409335c38", "uuid": "70407edc-f1e2-4892-a83b-4c3d6d52dcd9"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.02.sharedchao.forest-pasture__": {"src": "hda", "id": "99a1f27df53815fe", "uuid": "435d5f82-22de-40ae-9555-c6768884c47f"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.41.sharedsobs.forest-pasture__": {"src": "hda", "id": "5d31cbfd86ba9238", "uuid": "28267b93-9e64-4099-ab3d-9700057dace6"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.14.sharedsobs.forest-pasture__": {"src": "hda", "id": "3c13c8d3678bff11", "uuid": "71fa1471-af01-4a45-9cde-448c4f0ff9ae"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.29.sharedchao.forest-pasture__": {"src": "hda", "id": "b0979d3f12e2ca7c", "uuid": "c0cdaf63-9009-4bd1-b8bb-563612d52ead"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.29.sharedsobs.forest-pasture__": {"src": "hda", "id": "95ebc02141d52b2e", "uuid": "4c6c8f67-65f6-4309-9f9b-288fd4472965"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.12.sharedsobs.forest-pasture__": {"src": "hda", "id": "d44076581aae3b2d", "uuid": "8868b0f7-c31c-4d0e-9b62-a60beab07c48"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.26.sharedchao.forest-pasture__": {"src": "hda", "id": "3809f3db44f7f537", "uuid": "00971f04-a834-44c5-be7d-315e0a75b22c"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.27.sharedsobs.forest-pasture__": {"src": "hda", "id": "4726084e39a28c6b", "uuid": "7d8a5eee-c89e-4e14-a228-8c96a6f92e7a"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.41.sharedchao.forest-pasture__": {"src": "hda", "id": "5500dc8db971ab8a", "uuid": "2c1a6f1e-0b8f-47da-974d-383005e13016"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.36.sharedsobs.forest-pasture__": {"src": "hda", "id": "56a988c6136c7433", "uuid": "dd8cc604-6e02-4af2-8c28-06768011fa54"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.36.sharedsobs.forest-pasture__": {"src": "hda", "id": "8b0dcee2afd18683", "uuid": "c382feef-80f9-410d-9dcd-b22af6bd3fab"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.45.sharedchao.forest-pasture__": {"src": "hda", "id": "5c2b4bb7b7fc05df", "uuid": "6c9bd34c-e80b-4dde-bfee-7f97c9eb4bb5"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.12.sharedchao.forest-pasture__": {"src": "hda", "id": "53a005f8d9691e08", "uuid": "7395c9fd-4b1e-4c83-833d-8a0bb5fe3a53"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.36.sharedchao.forest-pasture__": {"src": "hda", "id": "7d5118fbc3106cab", "uuid": "1bc0f87f-f7ed-454d-b0b5-6d588555ece0"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.01.sharedchao.forest-pasture__": {"src": "hda", "id": "7a49ab297bab6207", "uuid": "21adb8e8-7fec-42fa-89f7-a4c809e65103"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.15.sharedchao.forest-pasture__": {"src": "hda", "id": "0bd3ae7c57261b58", "uuid": "44ffe1ec-9f86-4159-8976-38d9c96014a7"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.09.sharedchao.forest-pasture__": {"src": "hda", "id": "67a71e47792722f3", "uuid": "b3bdd0fd-2d4d-4b14-9860-ed10dca6779f"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.01.sharedsobs.forest-pasture__": {"src": "hda", "id": "b24813383c927074", "uuid": "315b8ad7-a808-4419-b27d-227aa4686931"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.02.sharedsobs.forest-pasture__": {"src": "hda", "id": "da17aca212b7e975", "uuid": "8a4464ba-7372-430c-a1d8-9f7e98aa6bc7"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.21.sharedsobs.forest-pasture__": {"src": "hda", "id": "0dd63dbbe68f15eb", "uuid": "002ea9f7-1a3e-44a5-820d-b2119ed98732"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.12.sharedsobs.forest-pasture__": {"src": "hda", "id": "af254de203595b9a", "uuid": "567e57f9-572f-4983-b64f-3074984a1c20"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.23.sharedsobs.forest-pasture__": {"src": "hda", "id": "28bfbd1f682a023c", "uuid": "891629f4-d2fc-481f-827c-39a6498153ed"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.06.sharedsobs.forest-pasture__": {"src": "hda", "id": "037eb00486bbcd0f", "uuid": "e6a36cd8-14e8-4f5e-99ec-97f1da77b706"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.09.sharedsobs.forest-pasture__": {"src": "hda", "id": "605eafdc6b29e694", "uuid": "a989c780-1391-4dfb-b4e2-fb12300181f1"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.25.sharedsobs.forest-pasture__": {"src": "hda", "id": "e2ffe484c9600cc9", "uuid": "a1e7f9f4-6eb2-4883-a3d0-5301f5e884ea"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.32.sharedsobs.forest-pasture__": {"src": "hda", "id": "2a3d51fcdfd2c354", "uuid": "4a3fa689-e8f7-4a62-99e5-0ad75b65dea8"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.33.sharedchao.forest-pasture__": {"src": "hda", "id": "f2fcc124cffbfab3", "uuid": "0ee6ba67-680c-424f-9e3b-0565209774b2"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.03.sharedchao.forest-pasture__": {"src": "hda", "id": "1df5bd22b3fa40b7", "uuid": "8c7d429a-c401-4b26-b18d-c829b3166bbf"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.01.sharedsobs.forest-pasture__": {"src": "hda", "id": "eaf5a18433a155d9", "uuid": "254f3491-597c-48b3-829b-83105582f8e5"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.03.sharedsobs.forest-pasture__": {"src": "hda", "id": "ae3e576e3ad064fc", "uuid": "dc1f0494-ef72-4e87-bf10-b6552fdb6e19"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.19.sharedsobs.forest-pasture__": {"src": "hda", "id": "c6fa67e3e6b69811", "uuid": "abc37e39-abf0-4b89-b866-a97bd798c274"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.04.sharedsobs.forest-pasture__": {"src": "hda", "id": "fb2aea7dd0de2197", "uuid": "64a2fc40-6296-4c89-be07-74d8dab70167"}, "__new_primary_file_unique.sharedsobs.forest-pasture|0.19.sharedsobs.forest-pasture__": {"src": "hda", "id": "16059f9897e605d5", "uuid": "6c898ee3-9fe8-4583-a149-835cef0d9dbe"}, "__new_primary_file_0.55.sharedsobs.forest-pasture|0.33.sharedsobs.forest-pasture__": {"src": "hda", "id": "74e0351813a079c6", "uuid": "84464478-e368-48a5-9e29-0cd01802d833"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > venn(shared=input_otu.dat,nseqs=false,permute=4,groups=forest-pasture,c \ralc=sharedsobs-sharedchao,fontsize=24,sharedotus=true)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu.unique.sharedsobs.forest-pasture.svg\ninput_otu.unique.sharedchao.forest-pasture.svg\ninput_otu.0.01.sharedsobs.forest-pasture.svg\ninput_otu.0.01.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.01.sharedchao.forest-pasture.svg\ninput_otu.0.02.sharedsobs.forest-pasture.svg\ninput_otu.0.02.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.02.sharedchao.forest-pasture.svg\ninput_otu.0.03.sharedsobs.forest-pasture.svg\ninput_otu.0.03.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.03.sharedchao.forest-pasture.svg\ninput_otu.0.04.sharedsobs.forest-pasture.svg\ninput_otu.0.04.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.04.sharedchao.forest-pasture.svg\ninput_otu.0.05.sharedsobs.forest-pasture.svg\ninput_otu.0.05.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.05.sharedchao.forest-pasture.svg\ninput_otu.0.06.sharedsobs.forest-pasture.svg\ninput_otu.0.06.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.06.sharedchao.forest-pasture.svg\ninput_otu.0.07.sharedsobs.forest-pasture.svg\ninput_otu.0.07.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.07.sharedchao.forest-pasture.svg\ninput_otu.0.08.sharedsobs.forest-pasture.svg\ninput_otu.0.08.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.08.sharedchao.forest-pasture.svg\ninput_otu.0.09.sharedsobs.forest-pasture.svg\ninput_otu.0.09.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.09.sharedchao.forest-pasture.svg\ninput_otu.0.10.sharedsobs.forest-pasture.svg\ninput_otu.0.10.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.10.sharedchao.forest-pasture.svg\ninput_otu.0.11.sharedsobs.forest-pasture.svg\ninput_otu.0.11.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.11.sharedchao.forest-pasture.svg\ninput_otu.0.12.sharedsobs.forest-pasture.svg\ninput_otu.0.12.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.12.sharedchao.forest-pasture.svg\ninput_otu.0.13.sharedsobs.forest-pasture.svg\ninput_otu.0.13.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.13.sharedchao.forest-pasture.svg\ninput_otu.0.14.sharedsobs.forest-pasture.svg\ninput_otu.0.14.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.14.sharedchao.forest-pasture.svg\ninput_otu.0.15.sharedsobs.forest-pasture.svg\ninput_otu.0.15.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.15.sharedchao.forest-pasture.svg\ninput_otu.0.16.sharedsobs.forest-pasture.svg\ninput_otu.0.16.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.16.sharedchao.forest-pasture.svg\ninput_otu.0.17.sharedsobs.forest-pasture.svg\ninput_otu.0.17.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.17.sharedchao.forest-pasture.svg\ninput_otu.0.18.sharedsobs.forest-pasture.svg\ninput_otu.0.18.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.18.sharedchao.forest-pasture.svg\ninput_otu.0.19.sharedsobs.forest-pasture.svg\ninput_otu.0.19.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.19.sharedchao.forest-pasture.svg\ninput_otu.0.20.sharedsobs.forest-pasture.svg\ninput_otu.0.20.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.20.sharedchao.forest-pasture.svg\ninput_otu.0.21.sharedsobs.forest-pasture.svg\ninput_otu.0.21.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.21.sharedchao.forest-pasture.svg\ninput_otu.0.22.sharedsobs.forest-pasture.svg\ninput_otu.0.22.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.22.sharedchao.forest-pasture.svg\ninput_otu.0.23.sharedsobs.forest-pasture.svg\ninput_otu.0.23.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.23.sharedchao.forest-pasture.svg\ninput_otu.0.24.sharedsobs.forest-pasture.svg\ninput_otu.0.24.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.24.sharedchao.forest-pasture.svg\ninput_otu.0.25.sharedsobs.forest-pasture.svg\ninput_otu.0.25.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.25.sharedchao.forest-pasture.svg\ninput_otu.0.26.sharedsobs.forest-pasture.svg\ninput_otu.0.26.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.26.sharedchao.forest-pasture.svg\ninput_otu.0.27.sharedsobs.forest-pasture.svg\ninput_otu.0.27.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.27.sharedchao.forest-pasture.svg\ninput_otu.0.29.sharedsobs.forest-pasture.svg\ninput_otu.0.29.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.29.sharedchao.forest-pasture.svg\ninput_otu.0.32.sharedsobs.forest-pasture.svg\ninput_otu.0.32.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.32.sharedchao.forest-pasture.svg\ninput_otu.0.33.sharedsobs.forest-pasture.svg\ninput_otu.0.33.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.33.sharedchao.forest-pasture.svg\ninput_otu.0.36.sharedsobs.forest-pasture.svg\ninput_otu.0.36.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.36.sharedchao.forest-pasture.svg\ninput_otu.0.38.sharedsobs.forest-pasture.svg\ninput_otu.0.38.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.38.sharedchao.forest-pasture.svg\ninput_otu.0.41.sharedsobs.forest-pasture.svg\ninput_otu.0.41.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.41.sharedchao.forest-pasture.svg\ninput_otu.0.45.sharedsobs.forest-pasture.svg\ninput_otu.0.45.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.45.sharedchao.forest-pasture.svg\ninput_otu.0.55.sharedsobs.forest-pasture.svg\ninput_otu.0.55.sharedsobs.forest-pasture.sharedotus\ninput_otu.0.55.sharedchao.forest-pasture.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3817.dat' input_otu.dat && echo 'venn( shared=input_otu.dat, nseqs=false, permute=4, groups=forest-pasture, calc=sharedsobs-sharedchao, fontsize=24, sharedotus=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:54:10.814484", "params": {"sharedotus": "\"true\"", "nseqs": "\"false\"", "dbkey": "\"hg17\"", "fontsize": "\"24\"", "input": "{\"__current_case__\": 0, \"label\": null, \"source\": \"shared\", \"groups\": [\"forest\", \"pasture\"], \"calc\": [\"sharedsobs\", \"sharedchao\"], \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3817}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "permute": "\"4\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9224", "id": "7bfed31e5ec18c3b", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_venn.test_tool_000000", "has_data": true}, {"data": {"status": "success", "inputs": {"input|source": "similarity", "input|calc": ["sobs", "chao", "ace"], "input|otu": {"src": "hda", "id": "426b55cb03c7b195"}}, "job": {"inputs": {"otu": {"src": "hda", "id": "426b55cb03c7b195", "uuid": "a8758507-33a6-457f-87de-03a26746e0f4"}}, "update_time": "2018-02-08T18:54:48.001732", "tool_id": "mothur_venn", "outputs": {"__new_primary_file_.unique.sobs|.0.27.sobs__": {"src": "hda", "id": "0a81a10ed68ef7e7", "uuid": "2df76274-b142-40fe-afd2-229ed1ec977c"}, "__new_primary_file_.unique.sobs|.0.22.chao__": {"src": "hda", "id": "3e13662e63ae064d", "uuid": "e910aea7-b161-4bea-a26b-bdd3e8a2d6f7"}, "__new_primary_file_.unique.sobs|.0.13.sobs__": {"src": "hda", "id": "783237b17e9c8b22", "uuid": "5ff7f173-1502-454c-b75a-6d45b1c56755"}, "__new_primary_file_.unique.sobs|.0.05.chao__": {"src": "hda", "id": "5c176041795d9dfe", "uuid": "d32e043d-6372-49aa-bb11-920a557bfaf9"}, "__new_primary_file_.unique.sobs|.0.09.ace__": {"src": "hda", "id": "e699ad0e67ac4180", "uuid": "b90c99d0-6ff4-40b2-9897-3e41b88d17c4"}, "__new_primary_file_.unique.sobs|.0.18.chao__": {"src": "hda", "id": "7fd8786b9bba1e47", "uuid": "f227775b-f814-4eea-bdef-e291848e02d0"}, "__new_primary_file_.unique.sobs|.0.24.chao__": {"src": "hda", "id": "9647bcba9797902b", "uuid": "88e31d8b-dd34-414b-b377-3ebf66421e34"}, "__new_primary_file_.unique.sobs|.0.20.ace__": {"src": "hda", "id": "8dd2e7c459f844e9", "uuid": "199a93d0-6467-4cdc-9446-c74aa447cd06"}, "__new_primary_file_.unique.sobs|.0.17.chao__": {"src": "hda", "id": "c0ebbe2cebef3184", "uuid": "70433a48-6115-4424-a997-6b0867a69310"}, "__new_primary_file_.unique.sobs|.0.24.ace__": {"src": "hda", "id": "c15c061118909605", "uuid": "45bf2a53-8bb7-42da-af13-ffbb54ab8080"}, "__new_primary_file_.unique.sobs|.0.13.chao__": {"src": "hda", "id": "68ca6e98eeb363b3", "uuid": "e6ac1590-48d8-43f2-b912-31178dd4b8db"}, "__new_primary_file_.unique.sobs|.0.01.sobs__": {"src": "hda", "id": "5ce419eeec7685da", "uuid": "6a841925-40a8-44dd-b419-45bee1578af5"}, "__new_primary_file_.unique.sobs|.0.33.sobs__": {"src": "hda", "id": "de97115890362530", "uuid": "469c5353-887a-42c9-bcce-64012aa5aa0a"}, "__new_primary_file_.unique.sobs|.0.41.sobs__": {"src": "hda", "id": "772cbc255f12b3f2", "uuid": "11c57f4e-51ee-4505-900a-625c162a5f2b"}, "__new_primary_file_.unique.sobs|.0.17.sobs__": {"src": "hda", "id": "ec53d74af3104a7a", "uuid": "98bb1b3c-7de5-454e-b3e3-271e32fd1af5"}, "__new_primary_file_.unique.sobs|.0.07.chao__": {"src": "hda", "id": "055d3a7e0caa0003", "uuid": "f372c547-b5a1-4978-9259-44b10655a01b"}, "__new_primary_file_.unique.sobs|.0.15.sobs__": {"src": "hda", "id": "7ae674dba2aeb00b", "uuid": "5ccb3ad3-954b-4bea-8760-80fe3516189d"}, "__new_primary_file_.unique.sobs|.0.02.ace__": {"src": "hda", "id": "fdd9a02b9776ba6d", "uuid": "a1765971-7d58-4a1a-b36e-4ad7343eb401"}, "__new_primary_file_.unique.sobs|.0.21.chao__": {"src": "hda", "id": "7ba5e028f5b46060", "uuid": "9f33d6e8-6e7a-477c-9054-eed399e9e1f1"}, "__new_primary_file_.unique.sobs|.0.33.chao__": {"src": "hda", "id": "67fca1129785a126", "uuid": "5f4b81cf-7f24-4efb-8e9b-69c6aa7e0fd3"}, "logfile": {"src": "hda", "id": "8ad2048099668eea", "uuid": "3b5f808f-3b19-43c4-9f5e-1ed8a5a0f08b"}, "__new_primary_file_.unique.sobs|.0.02.sobs__": {"src": "hda", "id": "ed97f68a53bd4e6b", "uuid": "d12f067e-4154-4b54-a417-eb7ce5df1775"}, "__new_primary_file_.unique.sobs|.0.01.ace__": {"src": "hda", "id": "fa45ee81407f5b49", "uuid": "56139fac-0e41-4dcc-890e-b4e17fdbec78"}, "__new_primary_file_.unique.sobs|.0.17.ace__": {"src": "hda", "id": "57fcf9697d7fc6e8", "uuid": "1defa030-822f-4240-b383-2926de64b060"}, "__new_primary_file_.unique.sobs|.0.25.sobs__": {"src": "hda", "id": "de16e728593a0004", "uuid": "f81037c4-a2f2-43b8-8f8f-35e85c980b11"}, "__new_primary_file_.unique.sobs|.0.22.sobs__": {"src": "hda", "id": "856cbf02894dbed6", "uuid": "263c8b08-b0f5-42f1-ab1d-ccbed5e90152"}, "__new_primary_file_.unique.sobs|.0.19.chao__": {"src": "hda", "id": "0cd5085411decc02", "uuid": "4fc95ec3-4be2-413a-95a4-8c57d0b4e77d"}, "__new_primary_file_.unique.sobs|.0.10.sobs__": {"src": "hda", "id": "2267e1f8fa40c5f7", "uuid": "e8f99a31-68a5-442c-ad8d-989a83c7544e"}, "__new_primary_file_.unique.sobs|.0.55.sobs__": {"src": "hda", "id": "8eef6641b24910b7", "uuid": "cafbb6c4-8608-4525-bac9-9a5bbe04cf48"}, "__new_primary_file_.unique.sobs|.0.15.chao__": {"src": "hda", "id": "46a8be85d80fe0e6", "uuid": "92a3fd32-f9a3-4ae9-86b5-eed89cc134c6"}, "__new_primary_file_.unique.sobs|.0.18.sobs__": {"src": "hda", "id": "63d84c9c504ffea4", "uuid": "5ae56f8b-d640-44ce-a21c-26d226334b65"}, "__new_primary_file_.unique.sobs|.0.38.ace__": {"src": "hda", "id": "3a03040bb1bc5513", "uuid": "b2fe3254-0b49-4362-9124-4e5bb21a4a28"}, "__new_primary_file_.unique.sobs|.0.08.chao__": {"src": "hda", "id": "b05cc3cac6178b74", "uuid": "ad0f37cd-fd1d-4f7e-a671-639205963cb9"}, "__new_primary_file_.unique.sobs|.0.11.ace__": {"src": "hda", "id": "747bcd4739031a84", "uuid": "47dd5cd1-5e8c-47ab-80a3-6984f395ccd2"}, "__new_primary_file_.unique.sobs|.0.23.ace__": {"src": "hda", "id": "52843884ed442067", "uuid": "49de9dcf-e388-4f21-ad2d-49f1684f8ec2"}, "__new_primary_file_.unique.sobs|.0.25.chao__": {"src": "hda", "id": "58e833a2c4d41dac", "uuid": "c1b84ce4-9a86-4c13-9ba1-cd8bc83899c3"}, "__new_primary_file_.unique.sobs|.0.05.sobs__": {"src": "hda", "id": "d1e8e1a25be6b4f7", "uuid": "621f2781-433c-45b8-b1dd-4cc03f5f3bdd"}, "__new_primary_file_.unique.sobs|.0.33.ace__": {"src": "hda", "id": "036b19801759c938", "uuid": "95dd54c8-b162-460c-9f17-691d71b8cde0"}, "__new_primary_file_.unique.sobs|.0.55.ace__": {"src": "hda", "id": "b384ceb9419ddb78", "uuid": "ea64a280-17fe-450b-815f-200bff9214a9"}, "__new_primary_file_.unique.sobs|.0.12.ace__": {"src": "hda", "id": "28412c5e45a90937", "uuid": "a5167c9b-70c9-41c3-8012-4a507c855e31"}, "__new_primary_file_.unique.sobs|.0.18.ace__": {"src": "hda", "id": "6af20cf64b1987ec", "uuid": "89d9714b-edd7-47a7-93f6-47ec425d03a0"}, "__new_primary_file_.unique.sobs|.0.13.ace__": {"src": "hda", "id": "d4cfb639f0ab7bd5", "uuid": "4a4bfd92-9bcd-42cb-838f-a25f40d5b16f"}, "__new_primary_file_.unique.sobs|.0.25.ace__": {"src": "hda", "id": "79090a3ca2e70cd3", "uuid": "6a217dd4-046a-4abf-a15f-5daf4189e88f"}, "__new_primary_file_.unique.sobs|.0.29.sobs__": {"src": "hda", "id": "cf66099f93beb798", "uuid": "4b463a71-5756-44bb-b5b0-b6d847ffa282"}, "__new_primary_file_.unique.sobs|.0.06.ace__": {"src": "hda", "id": "616fff10a5998a64", "uuid": "6da11315-8b09-4a94-980a-b1d51833449b"}, "__new_primary_file_.unique.sobs|.0.21.sobs__": {"src": "hda", "id": "f1ebb4064eab95d0", "uuid": "aa359bb6-cb68-4f84-b7ba-d100403e6e13"}, "__new_primary_file_.unique.sobs|.0.05.ace__": {"src": "hda", "id": "3423f14007ae0339", "uuid": "299fd9eb-0fe2-4761-ab3b-39f50a0a5000"}, "__new_primary_file_.unique.sobs|.0.45.sobs__": {"src": "hda", "id": "7c4f6c0566761dd6", "uuid": "d143cfc9-e0bb-4ee4-9ac5-5029812c1fb9"}, "__new_primary_file_.unique.sobs|.0.08.ace__": {"src": "hda", "id": "73340c85a78d9d92", "uuid": "cf9b4b10-950a-4053-a84d-f1f8a8a6c6c4"}, "__new_primary_file_.unique.sobs|.0.32.chao__": {"src": "hda", "id": "6f4f1f7d57890b6a", "uuid": "d393e0e5-80e7-4df0-8582-5295089ad9cf"}, "__new_primary_file_.unique.sobs|.unique.chao__": {"src": "hda", "id": "636a8d34fb4d76a9", "uuid": "feb78072-6acd-4b76-9972-101b62a7f49f"}, "__new_primary_file_.unique.sobs|.0.45.ace__": {"src": "hda", "id": "f1adca8f4e70b625", "uuid": "bdbc9d68-2486-47c1-9361-0d28f079975d"}, "__new_primary_file_.unique.sobs|.0.27.chao__": {"src": "hda", "id": "33c4c300472cffaf", "uuid": "ac80879f-e3fa-4284-a9bb-31696ded2888"}, "__new_primary_file_.unique.sobs|.unique.ace__": {"src": "hda", "id": "5c1a6ce3e5b694db", "uuid": "d738ec0c-4fe3-442c-8268-bbcab3c59630"}, "__new_primary_file_.unique.sobs|.0.32.ace__": {"src": "hda", "id": "932a017a5c45b2b4", "uuid": "3cb9d1b8-65c8-4028-b10f-da2aa6cc5c9a"}, "__new_primary_file_.unique.sobs|.0.26.chao__": {"src": "hda", "id": "4dbf5c0b4ec4ac0b", "uuid": "6a894a97-fe6c-4f95-9639-b54a3a13c14f"}, "__new_primary_file_.unique.sobs|.0.07.ace__": {"src": "hda", "id": "99e46de1302e06fb", "uuid": "1e743455-a6fa-49a0-b1c7-88cda80ee6ab"}, "__new_primary_file_.unique.sobs|.0.04.chao__": {"src": "hda", "id": "5a4da543040491d2", "uuid": "15e83785-dc5a-48d5-b576-7b6a8e7badf9"}, "__new_primary_file_.unique.sobs|.0.41.ace__": {"src": "hda", "id": "b85561a799fa6f0a", "uuid": "e1b0f236-6e98-437b-91df-dde63e59829d"}, "__new_primary_file_.unique.sobs|.0.23.sobs__": {"src": "hda", "id": "e08151292626ffc0", "uuid": "4deb3082-28b8-48ae-9a19-a5ee45ec57dc"}, "__new_primary_file_.unique.sobs|.0.20.sobs__": {"src": "hda", "id": "e457ec67f2928423", "uuid": "7b5d532b-6e02-4169-8a61-22d501bc27c6"}, "__new_primary_file_.unique.sobs|.0.04.ace__": {"src": "hda", "id": "6c5350d9eef99890", "uuid": "74bdd63c-dbce-436f-816d-285e8eb2dece"}, "__new_primary_file_.unique.sobs|.0.36.ace__": {"src": "hda", "id": "898cf3c1bcebf14e", "uuid": "94e207e5-3fa1-44d6-a5ad-38a6a3ac9b90"}, "__new_primary_file_.unique.sobs|.0.45.chao__": {"src": "hda", "id": "682cf3d8cc2f000a", "uuid": "7c564198-8ee2-408b-8b60-da20abf32673"}, "__new_primary_file_.unique.sobs|.0.10.chao__": {"src": "hda", "id": "57ec0d40e528e849", "uuid": "e1adcf4d-bcda-40c7-beb9-9c5903f93607"}, "__new_primary_file_.unique.sobs|.0.23.chao__": {"src": "hda", "id": "182204c385d2bcf8", "uuid": "2e405a69-11dd-45ec-99d8-f5da2067c29e"}, "__new_primary_file_.unique.sobs|.0.06.chao__": {"src": "hda", "id": "fe525c7e5f514ae0", "uuid": "bc5d6202-ce1e-4949-bbfd-fee7487fa45e"}, "__new_primary_file_.unique.sobs|.0.03.ace__": {"src": "hda", "id": "ef2eb3673fdcdc06", "uuid": "469494c8-f07b-4339-ba88-1469146289c4"}, "__new_primary_file_.unique.sobs|.0.19.sobs__": {"src": "hda", "id": "a4573b8121fc4229", "uuid": "a30198ad-c0f3-47d4-ab8a-df36bb957c74"}, "__new_primary_file_.unique.sobs|.0.14.ace__": {"src": "hda", "id": "bc8f1134d2e01ae8", "uuid": "4f02f69d-dc8c-461b-b755-fdfdb9523d6a"}, "__new_primary_file_.unique.sobs|.0.22.ace__": {"src": "hda", "id": "2366eaf86ed984da", "uuid": "dab71b3b-be0e-4aca-bbf7-4a76280d5560"}, "__new_primary_file_.unique.sobs|.0.15.ace__": {"src": "hda", "id": "e838395a6ca0967b", "uuid": "f83be728-107c-4941-836d-f902f70929bc"}, "__new_primary_file_.unique.sobs|.0.38.sobs__": {"src": "hda", "id": "831a4e011d352b84", "uuid": "4d07d6b4-90f5-470b-ba82-1927ca2bb0b8"}, "__new_primary_file_.unique.sobs|.0.01.chao__": {"src": "hda", "id": "e0f587368360f1d8", "uuid": "3f86c622-8dd8-4b39-95e5-d0b45c20e299"}, "__new_primary_file_.unique.sobs|.0.03.sobs__": {"src": "hda", "id": "d63221206e1e8632", "uuid": "5091fcec-5496-41a5-88a9-4dffae64aa30"}, "__new_primary_file_.unique.sobs|.0.41.chao__": {"src": "hda", "id": "e7486930f06a3480", "uuid": "16e19931-a064-4c51-9d32-56aeda9ea28d"}, "__new_primary_file_.unique.sobs|.0.12.sobs__": {"src": "hda", "id": "3b744caed58d71bf", "uuid": "a4ce856f-02da-4f22-b513-3f99b7899ab5"}, "__new_primary_file_.unique.sobs|.0.29.chao__": {"src": "hda", "id": "e1a6805ab1960e3a", "uuid": "5911eebc-f3e3-41cc-875d-d93526beb2c3"}, "__new_primary_file_.unique.sobs|.0.10.ace__": {"src": "hda", "id": "c4d898a1aab23ca7", "uuid": "28e572ec-4448-4987-8844-f1af8dbd3f77"}, "__new_primary_file_.unique.sobs|.0.14.chao__": {"src": "hda", "id": "edd13881058bb0d1", "uuid": "e6df2573-3339-4f9c-ba9c-2c444ae23f0b"}, "__new_primary_file_.unique.sobs|.0.36.chao__": {"src": "hda", "id": "29393513a479acfe", "uuid": "bc137e80-c21d-4062-b5c6-9c71f7b0dc17"}, "__new_primary_file_.unique.sobs|.0.09.sobs__": {"src": "hda", "id": "3842a896445dfcba", "uuid": "4d21bb8b-45e5-42cd-9a8a-292154457d33"}, "__new_primary_file_.unique.sobs|.0.27.ace__": {"src": "hda", "id": "f95d0299dd78f414", "uuid": "356ca3d0-2cba-456d-9206-17b58665fcfc"}, "__new_primary_file_.unique.sobs|.0.02.chao__": {"src": "hda", "id": "fa5fab3ae92ae7dc", "uuid": "6f56b852-70e2-40bb-81b8-ded896459df3"}, "__new_primary_file_.unique.sobs|.0.12.chao__": {"src": "hda", "id": "f37ec432f7dd4279", "uuid": "3fc04b41-b9bd-4999-a2b3-0f75813af207"}, "__new_primary_file_.unique.sobs|.0.11.sobs__": {"src": "hda", "id": "800d9946d4a51e47", "uuid": "5f27644b-ed00-4edf-8b10-f6d1c4a64ac7"}, "__new_primary_file_.unique.sobs|.0.07.sobs__": {"src": "hda", "id": "c88b48a1000dc72b", "uuid": "323f3331-acbc-4116-915f-6f8ed921f847"}, "__new_primary_file_.unique.sobs|.0.24.sobs__": {"src": "hda", "id": "01b7cb566dce95ee", "uuid": "ceab803c-6291-4aba-9b02-6ba153e3f8f2"}, "__new_primary_file_.unique.sobs|.unique.sobs__": {"src": "hda", "id": "1fbbdaf34a2675fb", "uuid": "2c8acafd-8c01-4b85-aede-5b6d4e5b44a3"}, "__new_primary_file_.unique.sobs|.0.32.sobs__": {"src": "hda", "id": "f4196c5f68221e34", "uuid": "da9828e2-84a7-41c2-be90-ef786d16a096"}, "__new_primary_file_.unique.sobs|.0.06.sobs__": {"src": "hda", "id": "95dee6977842b5d6", "uuid": "36be0429-7c2f-4cc1-82ab-76d9b2cc675e"}, "__new_primary_file_.unique.sobs|.0.16.chao__": {"src": "hda", "id": "db7073a0c0dc1c25", "uuid": "2c945656-1eb3-4278-923b-13ff10c14217"}, "__new_primary_file_.unique.sobs|.0.08.sobs__": {"src": "hda", "id": "29acdc26d27f1179", "uuid": "08cf4b60-5b3b-4628-868c-eefebd6062f4"}, "__new_primary_file_.unique.sobs|.0.20.chao__": {"src": "hda", "id": "f567b5fa7e33c385", "uuid": "f05f67ea-c08b-4c91-8ad1-4db46430001e"}, "__new_primary_file_.unique.sobs|.0.09.chao__": {"src": "hda", "id": "774d911a4291c362", "uuid": "79ad528d-3430-485b-b441-1ccbe67f13ff"}, "__new_primary_file_.unique.sobs|.0.29.ace__": {"src": "hda", "id": "cda9c2e271f25da0", "uuid": "423ed2aa-7e0c-412c-9d89-61aee12fd311"}, "__new_primary_file_.unique.sobs|.0.38.chao__": {"src": "hda", "id": "f47dbe82a9c1d243", "uuid": "5b74d3ce-51b6-4bc3-be62-e4549f4ae924"}, "__new_primary_file_.unique.sobs|.0.55.chao__": {"src": "hda", "id": "9a3608f286980332", "uuid": "9d0dc56d-774e-40ea-97ea-6abac1658e6e"}, "__new_primary_file_.unique.sobs|.0.19.ace__": {"src": "hda", "id": "e5afad617f2f9681", "uuid": "b6ba39f6-d386-4241-8780-e28cdf08166d"}, "__new_primary_file_.unique.sobs|.0.16.sobs__": {"src": "hda", "id": "3503f527543e715b", "uuid": "a6716a86-0f30-4e82-b100-8c2f4b0384eb"}, "__new_primary_file_.unique.sobs|.0.11.chao__": {"src": "hda", "id": "840d1d536dc5951d", "uuid": "55dc794c-54eb-4c62-ab0d-43bf536c5432"}, "__new_primary_file_.unique.sobs|.0.14.sobs__": {"src": "hda", "id": "9ee84efd3affbb96", "uuid": "088e8b1a-5078-4b87-9a2b-585f245e3503"}, "__new_primary_file_.unique.sobs|.0.21.ace__": {"src": "hda", "id": "c1ce1aea53c870a5", "uuid": "18744990-c8c8-4f59-8dea-13daff6bfefa"}, "__new_primary_file_.unique.sobs|.0.26.ace__": {"src": "hda", "id": "d7a6f9718e34d695", "uuid": "da6e3460-1975-4c4a-9680-d9f71abab95e"}, "__new_primary_file_.unique.sobs|.0.03.chao__": {"src": "hda", "id": "fb58c2429dd855e4", "uuid": "853fbf45-a104-4ebc-b778-402e1f40f8b8"}, "__new_primary_file_.unique.sobs|.0.04.sobs__": {"src": "hda", "id": "27511ba1b880e8d6", "uuid": "e58a47fc-4d74-4cd6-86a8-9627c7625d51"}, "__new_primary_file_.unique.sobs|.0.26.sobs__": {"src": "hda", "id": "74be4bb4c8541607", "uuid": "e9a3f59c-0fdf-45ea-9c8a-6a0337bcdf98"}, "__new_primary_file_.unique.sobs|.0.36.sobs__": {"src": "hda", "id": "06f863c370e9a218", "uuid": "4e126c04-1424-4e31-9746-dbd4430506c4"}, "__new_primary_file_.unique.sobs|.0.16.ace__": {"src": "hda", "id": "7a12ab7b858daf17", "uuid": "507438b3-2a42-4d78-8804-cbf96a2e25a3"}}, "stdout": "\u001b[H\u001b[2J\n\n\n\n\n\nmothur v.1.39.5\nLast updated: 3/20/2017\n\nby\nPatrick D. Schloss\n\nDepartment of Microbiology & Immunology\nUniversity of Michigan\nhttp://www.mothur.org\n\nWhen using, please cite:\nSchloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.\n\nDistributed under the GNU General Public License\n\nType 'help()' for information on the commands that are available\n\nFor questions and analysis support, please visit our forum at https://www.mothur.org/forum\n\nType 'quit()' to exit program\n\n\n\nmothur > venn(list=input_otu.dat,abund=10,calc=sobs-chao-ace,fontsize=24,sharedo \rtus=true)\nunique\n0.01\n0.02\n0.03\n0.04\n0.05\n0.06\n0.07\n0.08\n0.09\n0.10\n0.11\n0.12\n0.13\n0.14\n0.15\n0.16\n0.17\n0.18\n0.19\n0.20\n0.21\n0.22\n0.23\n0.24\n0.25\n0.26\n0.27\n0.29\n0.32\n0.33\n0.36\n0.38\n0.41\n0.45\n0.55\n\nOutput File Names: \ninput_otu..unique.sobs.svg\ninput_otu..unique.chao.svg\ninput_otu..unique.ace.svg\ninput_otu..0.01.sobs.svg\ninput_otu..0.01.chao.svg\ninput_otu..0.01.ace.svg\ninput_otu..0.02.sobs.svg\ninput_otu..0.02.chao.svg\ninput_otu..0.02.ace.svg\ninput_otu..0.03.sobs.svg\ninput_otu..0.03.chao.svg\ninput_otu..0.03.ace.svg\ninput_otu..0.04.sobs.svg\ninput_otu..0.04.chao.svg\ninput_otu..0.04.ace.svg\ninput_otu..0.05.sobs.svg\ninput_otu..0.05.chao.svg\ninput_otu..0.05.ace.svg\ninput_otu..0.06.sobs.svg\ninput_otu..0.06.chao.svg\ninput_otu..0.06.ace.svg\ninput_otu..0.07.sobs.svg\ninput_otu..0.07.chao.svg\ninput_otu..0.07.ace.svg\ninput_otu..0.08.sobs.svg\ninput_otu..0.08.chao.svg\ninput_otu..0.08.ace.svg\ninput_otu..0.09.sobs.svg\ninput_otu..0.09.chao.svg\ninput_otu..0.09.ace.svg\ninput_otu..0.10.sobs.svg\ninput_otu..0.10.chao.svg\ninput_otu..0.10.ace.svg\ninput_otu..0.11.sobs.svg\ninput_otu..0.11.chao.svg\ninput_otu..0.11.ace.svg\ninput_otu..0.12.sobs.svg\ninput_otu..0.12.chao.svg\ninput_otu..0.12.ace.svg\ninput_otu..0.13.sobs.svg\ninput_otu..0.13.chao.svg\ninput_otu..0.13.ace.svg\ninput_otu..0.14.sobs.svg\ninput_otu..0.14.chao.svg\ninput_otu..0.14.ace.svg\ninput_otu..0.15.sobs.svg\ninput_otu..0.15.chao.svg\ninput_otu..0.15.ace.svg\ninput_otu..0.16.sobs.svg\ninput_otu..0.16.chao.svg\ninput_otu..0.16.ace.svg\ninput_otu..0.17.sobs.svg\ninput_otu..0.17.chao.svg\ninput_otu..0.17.ace.svg\ninput_otu..0.18.sobs.svg\ninput_otu..0.18.chao.svg\ninput_otu..0.18.ace.svg\ninput_otu..0.19.sobs.svg\ninput_otu..0.19.chao.svg\ninput_otu..0.19.ace.svg\ninput_otu..0.20.sobs.svg\ninput_otu..0.20.chao.svg\ninput_otu..0.20.ace.svg\ninput_otu..0.21.sobs.svg\ninput_otu..0.21.chao.svg\ninput_otu..0.21.ace.svg\ninput_otu..0.22.sobs.svg\ninput_otu..0.22.chao.svg\ninput_otu..0.22.ace.svg\ninput_otu..0.23.sobs.svg\ninput_otu..0.23.chao.svg\ninput_otu..0.23.ace.svg\ninput_otu..0.24.sobs.svg\ninput_otu..0.24.chao.svg\ninput_otu..0.24.ace.svg\ninput_otu..0.25.sobs.svg\ninput_otu..0.25.chao.svg\ninput_otu..0.25.ace.svg\ninput_otu..0.26.sobs.svg\ninput_otu..0.26.chao.svg\ninput_otu..0.26.ace.svg\ninput_otu..0.27.sobs.svg\ninput_otu..0.27.chao.svg\ninput_otu..0.27.ace.svg\ninput_otu..0.29.sobs.svg\ninput_otu..0.29.chao.svg\ninput_otu..0.29.ace.svg\ninput_otu..0.32.sobs.svg\ninput_otu..0.32.chao.svg\ninput_otu..0.32.ace.svg\ninput_otu..0.33.sobs.svg\ninput_otu..0.33.chao.svg\ninput_otu..0.33.ace.svg\ninput_otu..0.36.sobs.svg\ninput_otu..0.36.chao.svg\ninput_otu..0.36.ace.svg\ninput_otu..0.38.sobs.svg\ninput_otu..0.38.chao.svg\ninput_otu..0.38.ace.svg\ninput_otu..0.41.sobs.svg\ninput_otu..0.41.chao.svg\ninput_otu..0.41.ace.svg\ninput_otu..0.45.sobs.svg\ninput_otu..0.45.chao.svg\ninput_otu..0.45.ace.svg\ninput_otu..0.55.sobs.svg\ninput_otu..0.55.chao.svg\ninput_otu..0.55.ace.svg\n\n\nmothur > quit\n", "command_line": "set -o pipefail; ln -s '/tmp/saskia/tmpKSDp0p/files/003/dataset_3926.dat' input_otu.dat && echo 'venn( list=input_otu.dat, abund=10, calc=sobs-chao-ace, fontsize=24, sharedotus=true )' | sed 's/ //g' | mothur | tee mothur.out.log", "exit_code": 0, "state": "ok", "create_time": "2018-02-08T18:54:39.400697", "params": {"sharedotus": "\"true\"", "nseqs": "\"false\"", "dbkey": "\"hg17\"", "fontsize": "\"24\"", "input": "{\"abund\": \"10\", \"label\": null, \"source\": \"similarity\", \"__current_case__\": 1, \"calc\": [\"sobs\", \"chao\", \"ace\"], \"otu\": {\"values\": [{\"src\": \"hda\", \"id\": 3926}]}}", "chromInfo": "\"/tmp/saskia/tmpKSDp0p/galaxy-dev/tool-data/shared/ucsc/chrom/hg17.len\"", "permute": "\"4\""}, "stderr": "mothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\nmothur: /home/saskia/miniconda3/envs/__mothur@1.39.5/bin/../lib/libtinfo.so.5: no version information available (required by /lib/x86_64-linux-gnu/libreadline.so.6)\n", "job_metrics": [], "model_class": "Job", "external_id": "9316", "id": "ec7711f2346cbca2", "user_email": "test@bx.psu.edu"}}, "id": "functional.test_toolbox.TestForTool_mothur_venn.test_tool_000001", "has_data": true}], "version": "0.1", "exit_code": 1, "summary": {"num_skips": 0, "num_errors": 0, "num_failures": 1, "num_tests": 305}};
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
379 renderTestResults(test_data);
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
380 }
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
381 </script>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
382 </body>
899ef1660676 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 4648c7574a78601e03ae6a318cbcd5b492a8a9f4
iuc
parents:
diff changeset
383 </html>