Mercurial > repos > genouest > peptimapper_clustqualify

changeset 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
files clust_qualify.xml
diffstat 1 files changed, 3 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/clust_qualify.xml	Fri Dec 10 10:36:29 2021 +0000
+++ b/clust_qualify.xml	Mon Dec 13 14:13:08 2021 +0000
@@ -4,10 +4,11 @@
         <container type="docker">dockerprotim/peptimapper</container>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
+ln -s '$clustersfile' 'in.clusters' &&
 mkdir 'repo' &&
 unzip '${gffdir}' -d repo &&
-LXQualify '$clustersfile' repo &&
-mv '${clustersfile}.txt' '$clustersQualifResults'
+LXQualify 'in.clusters' repo &&
+mv 'in.clusters.txt' '$clustersQualifResults'
     ]]></command>
     <inputs>
       <param name="clustersfile" type="data" format="txt" label="Clusters file" help="Clusters file generated by PepMatch" />