Mercurial > repos > genouest > peptimapper_clustqualify

comparison clust_qualify.xml @ 1:d913a2af45dc draft

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"planemo upload commit bbcbc29ef60120ea945879874ca92fb098dda8bf"
author genouest
date Mon, 13 Dec 2021 14:13:08 +0000
parents 1a673951d076
children 52f3ceda99a4
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0:1a673951d076 1:d913a2af45dc
2 <description>annotates clusters according to gff annotation files</description> 2 <description>annotates clusters according to gff annotation files</description>
3 <requirements> 3 <requirements>
4 <container type="docker">dockerprotim/peptimapper</container> 4 <container type="docker">dockerprotim/peptimapper</container>
5 </requirements> 5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
7 ln -s '$clustersfile' 'in.clusters' &&
7 mkdir 'repo' && 8 mkdir 'repo' &&
8 unzip '${gffdir}' -d repo && 9 unzip '${gffdir}' -d repo &&
9 LXQualify '$clustersfile' repo && 10 LXQualify 'in.clusters' repo &&
10 mv '${clustersfile}.txt' '$clustersQualifResults' 11 mv 'in.clusters.txt' '$clustersQualifResults'
11 ]]></command> 12 ]]></command>
12 <inputs> 13 <inputs>
13 <param name="clustersfile" type="data" format="txt" label="Clusters file" help="Clusters file generated by PepMatch" /> 14 <param name="clustersfile" type="data" format="txt" label="Clusters file" help="Clusters file generated by PepMatch" />
14 <param name="gffdir" type="data" format="data" label="GFF files repository" help="zipped repository : for upload a zip repository into Galaxy, install before and use 'no_unzip.zip' datatype and select it into your upload form otherwise Galaxy decompress uploaded zip datatype file automatically"/> 15 <param name="gffdir" type="data" format="data" label="GFF files repository" help="zipped repository : for upload a zip repository into Galaxy, install before and use 'no_unzip.zip' datatype and select it into your upload form otherwise Galaxy decompress uploaded zip datatype file automatically"/>
15 </inputs> 16 </inputs>