Mercurial > repos > p.lucas > clermontyping

annotate ClermonTyping_wrapper.xml @ 4:740ac08da2a1 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Delete one output, put standard output name on html file
author p.lucas
date Mon, 14 Feb 2022 15:29:35 +0000
parents 01234c8a9353
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
1 <tool id="ClermonTyping" name="ClermonTyping" version="1">
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
2 <description>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
3 ClermonTyping: an easy-to-use and accurate in silico method for Escherichia genus strain phylotyping
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
4 </description>
2
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
5 <requirements>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
6 <requirement type="package" version="0.1">_libgcc_mutex</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
7 <requirement type="package" version="4.5">_openmp_mutex</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
8 <requirement type="package" version="1.0.1">_r-mutex</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
9 <requirement type="package" version="2.35.1">binutils_impl_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
10 <requirement type="package" version="2.35.1">binutils_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
11 <requirement type="package" version="1.79">biopython</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
12 <requirement type="package" version="2.12.0">blast</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
13 <requirement type="package" version="1.9.14">bwidget</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
14 <requirement type="package" version="1.0.8">bzip2</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
15 <requirement type="package" version="1.18.1">c-ares</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
16 <requirement type="package" version="2021.10.8">ca-certificates</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
17 <requirement type="package" version="1.16.0">cairo</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
18 <requirement type="package" version="7.81.0">curl</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
19 <requirement type="package" version="16.2">entrez-direct</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
20 <requirement type="package" version="2.37">font-ttf-dejavu-sans-mono</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
21 <requirement type="package" version="3.000">font-ttf-inconsolata</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
22 <requirement type="package" version="2.038">font-ttf-source-code-pro</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
23 <requirement type="package" version="0.83">font-ttf-ubuntu</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
24 <requirement type="package" version="2.13.96">fontconfig</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
25 <requirement type="package" version="1">fonts-conda-ecosystem</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
26 <requirement type="package" version="1">fonts-conda-forge</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
27 <requirement type="package" version="2.10.4">freetype</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
28 <requirement type="package" version="1.0.10">fribidi</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
29 <requirement type="package" version="9.3.0">gcc_impl_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
30 <requirement type="package" version="9.3.0">gcc_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
31 <requirement type="package" version="0.19.8.1">gettext</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
32 <requirement type="package" version="9.3.0">gfortran_impl_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
33 <requirement type="package" version="9.3.0">gfortran_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
34 <requirement type="package" version="1.3.13">graphite2</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
35 <requirement type="package" version="2.6">gsl</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
36 <requirement type="package" version="9.3.0">gxx_impl_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
37 <requirement type="package" version="9.3.0">gxx_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
38 <requirement type="package" version="2.9.1">harfbuzz</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
39 <requirement type="package" version="68.2">icu</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
40 <requirement type="package" version="2.1">jbig</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
41 <requirement type="package" version="9e">jpeg</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
42 <requirement type="package" version="2.6.32">kernel-headers_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
43 <requirement type="package" version="1.19.2">krb5</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
44 <requirement type="package" version="2.35.1">ld_impl_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
45 <requirement type="package" version="3.0">lerc</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
46 <requirement type="package" version="3.9.0">libblas</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
47 <requirement type="package" version="3.9.0">libcblas</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
48 <requirement type="package" version="7.81.0">libcurl</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
49 <requirement type="package" version="1.8">libdeflate</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
50 <requirement type="package" version="3.1.20191231">libedit</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
51 <requirement type="package" version="4.33">libev</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
52 <requirement type="package" version="3.4.2">libffi</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
53 <requirement type="package" version="9.3.0">libgcc-devel_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
54 <requirement type="package" version="11.2.0">libgcc-ng</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
55 <requirement type="package" version="9.3.0">libgfortran-ng</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
56 <requirement type="package" version="9.3.0">libgfortran5</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
57 <requirement type="package" version="2.70.2">libglib</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
58 <requirement type="package" version="11.2.0">libgomp</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
59 <requirement type="package" version="1.16">libiconv</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
60 <requirement type="package" version="3.9.0">liblapack</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
61 <requirement type="package" version="1.46.0">libnghttp2</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
62 <requirement type="package" version="2.0.0">libnsl</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
63 <requirement type="package" version="0.3.17">libopenblas</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
64 <requirement type="package" version="1.6.37">libpng</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
65 <requirement type="package" version="1.10.0">libssh2</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
66 <requirement type="package" version="9.3.0">libstdcxx-devel_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
67 <requirement type="package" version="11.2.0">libstdcxx-ng</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
68 <requirement type="package" version="4.3.0">libtiff</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
69 <requirement type="package" version="2.32.1">libuuid</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
70 <requirement type="package" version="1.2.2">libwebp-base</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
71 <requirement type="package" version="1.13">libxcb</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
72 <requirement type="package" version="2.9.12">libxml2</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
73 <requirement type="package" version="1.2.11">libzlib</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
74 <requirement type="package" version="1.9.3">lz4-c</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
75 <requirement type="package" version="4.3">make</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
76 <requirement type="package" version="6.3">ncurses</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
77 <requirement type="package" version="1.22.2">numpy</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
78 <requirement type="package" version="3.0.0">openssl</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
79 <requirement type="package" version="2.17.1.1">pandoc</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
80 <requirement type="package" version="1.48.10">pango</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
81 <requirement type="package" version="8.45">pcre</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
82 <requirement type="package" version="10.37">pcre2</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
83 <requirement type="package" version="5.32.1">perl</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
84 <requirement type="package" version="2.40">perl-archive-tar</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
85 <requirement type="package" version="1.50">perl-carp</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
86 <requirement type="package" version="3.75">perl-common-sense</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
87 <requirement type="package" version="2.101">perl-compress-raw-bzip2</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
88 <requirement type="package" version="2.101">perl-compress-raw-zlib</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
89 <requirement type="package" version="5.74">perl-exporter</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
90 <requirement type="package" version="1.002002">perl-exporter-tiny</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
91 <requirement type="package" version="7.64">perl-extutils-makemaker</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
92 <requirement type="package" version="2.087">perl-io-compress</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
93 <requirement type="package" version="1.10">perl-io-zlib</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
94 <requirement type="package" version="4.05">perl-json</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
95 <requirement type="package" version="2.34">perl-json-xs</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
96 <requirement type="package" version="0.428">perl-list-moreutils</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
97 <requirement type="package" version="0.430">perl-list-moreutils-xs</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
98 <requirement type="package" version="3.75">perl-pathtools</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
99 <requirement type="package" version="1.60">perl-scalar-list-utils</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
100 <requirement type="package" version="1.01">perl-types-serialiser</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
101 <requirement type="package" version="22.0.3">pip</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
102 <requirement type="package" version="0.40.0">pixman</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
103 <requirement type="package" version="0.4">pthread-stubs</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
104 <requirement type="package" version="3.8.12">python</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
105 <requirement type="package" version="3.8">python_abi</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
106 <requirement type="package" version="0.2.1">r-assertthat</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
107 <requirement type="package" version="4.0.5">r-base</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
108 <requirement type="package" version="0.1_3">r-base64enc</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
109 <requirement type="package" version="4.0.4">r-bit</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
110 <requirement type="package" version="4.0.5">r-bit64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
111 <requirement type="package" version="3.1.1">r-cli</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
112 <requirement type="package" version="0.7.1">r-clipr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
113 <requirement type="package" version="0.4.2">r-cpp11</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
114 <requirement type="package" version="1.4.2">r-crayon</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
115 <requirement type="package" version="0.6.29">r-digest</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
116 <requirement type="package" version="1.0.7">r-dplyr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
117 <requirement type="package" version="0.3.2">r-ellipsis</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
118 <requirement type="package" version="0.14">r-evaluate</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
119 <requirement type="package" version="1.0.2">r-fansi</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
120 <requirement type="package" version="1.1.0">r-fastmap</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
121 <requirement type="package" version="0.1.2">r-generics</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
122 <requirement type="package" version="1.6.1">r-glue</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
123 <requirement type="package" version="0.9">r-highr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
124 <requirement type="package" version="1.1.1">r-hms</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
125 <requirement type="package" version="0.5.2">r-htmltools</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
126 <requirement type="package" version="0.1.4">r-jquerylib</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
127 <requirement type="package" version="1.7.3">r-jsonlite</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
128 <requirement type="package" version="1.37">r-knitr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
129 <requirement type="package" version="1.0.1">r-lifecycle</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
130 <requirement type="package" version="2.0.2">r-magrittr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
131 <requirement type="package" version="1.1">r-markdown</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
132 <requirement type="package" version="0.12">r-mime</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
133 <requirement type="package" version="1.7.0">r-pillar</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
134 <requirement type="package" version="2.0.3">r-pkgconfig</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
135 <requirement type="package" version="1.1.1">r-prettyunits</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
136 <requirement type="package" version="1.2.2">r-progress</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
137 <requirement type="package" version="0.3.4">r-purrr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
138 <requirement type="package" version="2.5.1">r-r6</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
139 <requirement type="package" version="2.1.2">r-readr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
140 <requirement type="package" version="0.4.12">r-rlang</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
141 <requirement type="package" version="2.11">r-rmarkdown</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
142 <requirement type="package" version="1.7.6">r-stringi</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
143 <requirement type="package" version="1.4.0">r-stringr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
144 <requirement type="package" version="3.1.6">r-tibble</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
145 <requirement type="package" version="1.2.0">r-tidyr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
146 <requirement type="package" version="1.1.1">r-tidyselect</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
147 <requirement type="package" version="0.36">r-tinytex</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
148 <requirement type="package" version="0.2.0">r-tzdb</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
149 <requirement type="package" version="1.2.2">r-utf8</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
150 <requirement type="package" version="0.3.8">r-vctrs</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
151 <requirement type="package" version="1.5.7">r-vroom</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
152 <requirement type="package" version="2.4.3">r-withr</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
153 <requirement type="package" version="0.29">r-xfun</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
154 <requirement type="package" version="2.2.2">r-yaml</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
155 <requirement type="package" version="8.1">readline</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
156 <requirement type="package" version="4.8">sed</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
157 <requirement type="package" version="60.8.1">setuptools</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
158 <requirement type="package" version="3.37.0">sqlite</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
159 <requirement type="package" version="2.12">sysroot_linux-64</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
160 <requirement type="package" version="8.6.11">tk</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
161 <requirement type="package" version="2.10">tktable</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
162 <requirement type="package" version="0.37.1">wheel</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
163 <requirement type="package" version="1.0.7">xorg-kbproto</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
164 <requirement type="package" version="1.0.10">xorg-libice</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
165 <requirement type="package" version="1.2.3">xorg-libsm</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
166 <requirement type="package" version="1.7.2">xorg-libx11</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
167 <requirement type="package" version="1.0.9">xorg-libxau</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
168 <requirement type="package" version="1.1.3">xorg-libxdmcp</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
169 <requirement type="package" version="1.3.4">xorg-libxext</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
170 <requirement type="package" version="0.9.10">xorg-libxrender</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
171 <requirement type="package" version="1.2.1">xorg-libxt</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
172 <requirement type="package" version="0.11.1">xorg-renderproto</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
173 <requirement type="package" version="7.3.0">xorg-xextproto</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
174 <requirement type="package" version="7.0.31">xorg-xproto</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
175 <requirement type="package" version="5.2.5">xz</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
176 <requirement type="package" version="1.2.11">zlib</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
177 <requirement type="package" version="1.5.2">zstd</requirement>
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
178 </requirements>
0
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
179 <command detect_errors="exit_code"><![CDATA[
2
07fe3c343426 wrapper with all packages
p.lucas
parents: 1
diff changeset
180 /home/galaxy/ClermonTyping/clermonTyping.sh --fasta ${input} --name Analyse
0
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
181 ]]></command>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
182 <inputs>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
183 <param name="input" format="fasta" type="data" label="Select contigs file in fasta format." help="Fasta format containing contigs."/>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
184 </inputs>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
185 <outputs>
4
740ac08da2a1 Delete one output, put standard output name on html file
p.lucas
parents: 3
diff changeset
186 <data name="html" format="html" from_work_dir="Analyse/Analyse.html"/>
0
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
187 </outputs>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
188 <help>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
189 Script usage :
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
190 -h : print this message and exit
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
191 -v : print the version and exit
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
192 --fasta : fasta contigs file(s). If multiple files, they must be separated by an arobase (@) value
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
193 --name : name for this analysis (optional)
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
194 --threshold : option for ClermontTyping, do not use contigs under this size (optional)
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
195 --minimal : output a minimal set of files (optional)
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
196 --fastafile : file with path of fasta contig file. One file by line (optional)
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
197 --summary : file with path of *_phylogroups.txt. One file by line (optional)
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
198 </help>
e93c20bad6b0 First upload wrapper
p.lucas
parents:
diff changeset
199 </tool>