Mercurial > repos > patrick_chabrier > carboseq_s

changeset 2:bf6c51b72a10 draft

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Uploaded
author siwaa
date Tue, 25 Jun 2024 14:02:45 +0000
parents 8e2dd4aec727
children 40f76111ab6c
files carboseqSimulator.xml
diffstat 1 files changed, 3 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/carboseqSimulator.xml	Tue Jun 25 10:36:43 2024 +0000
+++ b/carboseqSimulator.xml	Tue Jun 25 14:02:45 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="CarboSeqSimulator" name="CarboSeqSimulator" version="1.0.1">
+<tool id="CarboSeqSimulator" name="CarboSeqSimulator" version="1.0.2">
   <description>To run the CarboSeq simulator</description>
   <requirements>
     <container type="singularity">docker://registry.forgemia.inra.fr/csopra/csopralibs:develop-695457e0</container>
@@ -8,6 +8,8 @@
   mkdir output &&
   unzip -d input ${input} &&
   set -a ;source /usr/local/src/myscripts/.env &&
+  mkdir tmp &&
+  export TMP=$(pwd)/tmp &&
   Rscript /usr/local/src/myscripts/scenarios/run-sim-perf/run.r --url=https://coby.infosol.inrae.fr:7777/semantify --srcDir=\$(realpath -s input) --srcOut=\$(realpath -s output) --NBCores=\${GALAXY_SLOTS:-4}&&
   mv output/* ${output}"
     ]]>