Mercurial > repos > siwaa > carboseq_s

diff carboseqSimulator.xml @ 16:5ed871d666b4 draft

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"planemo upload for repository https://forgemia.inra.fr/carboseq/record-projet-carboseq/-/tree/be8c2ab794a3722ee6edc3c9f7e73ccc45806f31/toos/CarboSeqSimulator commit be8c2ab794a3722ee6edc3c9f7e73ccc45806f31-dirty"
author siwaa
date Thu, 12 Dec 2024 14:38:52 +0000
parents de71663fbce4
children 56b0bf51585a
line wrap: on
line diff
--- a/carboseqSimulator.xml	Tue Dec 10 09:14:52 2024 +0000
+++ b/carboseqSimulator.xml	Thu Dec 12 14:38:52 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="CarboSeqSimulator" name="CarboSeqSimulator" version="1.0.17">
+<tool id="CarboSeqSimulator" name="CarboSeqSimulator" version="1.0.18">
   <description>To run the CarboSeq simulator</description>
   <requirements>
     <container type="singularity">docker://registry.forgemia.inra.fr/csopra/csopralibs:main</container>
@@ -16,7 +16,8 @@
   cp /usr/local/src/myscripts/start_server.sh . &&
   cp -r /usr/local/src/myscripts/config_mappers . &&
   cp -r /usr/local/src/myscripts/data . &&
-  Rscript $__tool_directory__/run.r --srcDir=\$(realpath -s input) --srcOut=\$(realpath -s output) --semPath=\$(realpath -s .) --part=${semantifier} --NBCores=\${GALAXY_SLOTS:-4}&&
+  cp /usr/local/src/myscripts/scenarios/run-sim-perf/run.r . &&
+  Rscript ./run.r --srcDir=\$(realpath -s input) --srcOut=\$(realpath -s output) --semPath=\$(realpath -s .) --part=${semantifier} --NBCores=\${GALAXY_SLOTS:-4}&&
   cp output/* ${output}"
     ]]>
   </command>