Mercurial > repos > iuc > mothur_filter_seqs

comparison filter.seqs.xml @ 5:ff039df26c3f draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 38a2bbee32eaaceeb22d7549b13dbc0c613ee173
author iuc
date Tue, 20 Mar 2018 13:42:43 -0400
parents 3ced7f00e40b
children f93cee78b339
comparison
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4:f3946e07e9bd 5:ff039df26c3f
54 </param> 54 </param>
55 <param name="soft" type="integer" value="0" min="0" max="100" label="soft - percentage required to retain column. (0-100)" 55 <param name="soft" type="integer" value="0" min="0" max="100" label="soft - percentage required to retain column. (0-100)"
56 help="Removes any column where the dominant base (i.e. A, T, G, C, or U) does not occur in at least a designated percentage of sequences"/> 56 help="Removes any column where the dominant base (i.e. A, T, G, C, or U) does not occur in at least a designated percentage of sequences"/>
57 <param name="hard" type="data" format="mothur.filter" optional="True" label="hard - Hard Column Filter" 57 <param name="hard" type="data" format="mothur.filter" optional="True" label="hard - Hard Column Filter"
58 help="A file should only contain one line consisting of 0's and 1's"/> 58 help="A file should only contain one line consisting of 0's and 1's"/>
59 <expand macro="param-savelog"/>
59 </inputs> 60 </inputs>
60 <outputs> 61 <outputs>
61 <expand macro="logfile-output"/> 62 <expand macro="logfile-output"/>
62 <data name="out_filter" format="mothur.filter" from_work_dir="fasta*.filter" label="${tool.name} on ${on_string}: filter"/> 63 <data name="out_filter" format="mothur.filter" from_work_dir="fasta*.filter" label="${tool.name} on ${on_string}: filter"/>
63 <collection name="filteredfastas" type="list" label="${tool.name} on ${on_string}: filtered fastas"> 64 <collection name="filteredfastas" type="list" label="${tool.name} on ${on_string}: filtered fastas">
76 </repeat> 77 </repeat>
77 <output name="out_filter" md5="3e6c2cfef46baf35d2a8b5cafe53e3a4"/> 78 <output name="out_filter" md5="3e6c2cfef46baf35d2a8b5cafe53e3a4"/>
78 <output_collection name="filteredfastas" count="2"> 79 <output_collection name="filteredfastas" count="2">
79 <element name="HMP_MOCK.v35.align" md5="ef4c6c2d9a882f7a22e5fa3c814af7cc" ftype="fasta"/> 80 <element name="HMP_MOCK.v35.align" md5="ef4c6c2d9a882f7a22e5fa3c814af7cc" ftype="fasta"/>
80 </output_collection> 81 </output_collection>
82 <param name="savelog" value="true"/>
81 <expand macro="logfile-test"/> 83 <expand macro="logfile-test"/>
82 </test> 84 </test>
83 <test><!-- test with single input and non-collection output --> 85 <test><!-- test with single input and non-collection output -->
84 <param name="fasta" value="HMP_MOCK.v35.align" ftype="mothur.align"/> 86 <param name="fasta" value="HMP_MOCK.v35.align" ftype="mothur.align"/>
85 <output name="out_filter" md5="3e6c2cfef46baf35d2a8b5cafe53e3a4"/> 87 <output name="out_filter" md5="3e6c2cfef46baf35d2a8b5cafe53e3a4"/>
86 <output name="filteredfasta" md5="ef4c6c2d9a882f7a22e5fa3c814af7cc"/> 88 <output name="filteredfasta" md5="ef4c6c2d9a882f7a22e5fa3c814af7cc"/>
89 <param name="savelog" value="true"/>
87 <expand macro="logfile-test"/> 90 <expand macro="logfile-test"/>
88 </test> 91 </test>
89 </tests> 92 </tests>
90 <help><![CDATA[ 93 <help><![CDATA[
91 94