Mercurial > repos > ebi-gxa > salmon_kallisto_mtx_to_10x

diff salmonKallistoMtxTo10x.xml @ 3:336ae8f0a0b2 draft

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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/salmon-kallisto-mtx-to-10x/.shed.yml commit 3fbbd818012005da4513271beda50df98d3c1cde-dirty
author ebi-gxa
date Fri, 08 Nov 2019 08:36:12 -0500
parents 40f7a3d18cf4
children 050b51d0f3c4
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--- a/salmonKallistoMtxTo10x.xml	Fri Nov 08 08:32:04 2019 -0500
+++ b/salmonKallistoMtxTo10x.xml	Fri Nov 08 08:36:12 2019 -0500
@@ -5,10 +5,9 @@
       <requirement type="package">pandas</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
-        file $mtx_file | grep 'gzip compressed';
+        file $mtx_file | grep 'gzip compressed' > /dev/null;
         if [ $? -eq 0 ]; then
             matrixfile=matrix.mtx.gz;
-            ln -s ${mtx_file} matrix.mtx.gz;
         else
             matrixfile=matrix.mtx;
         fi;