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comparison carboseqSimulator.xml @ 12:7e43dc776bda draft

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"planemo upload for repository https://forgemia.inra.fr/carboseq/record-projet-carboseq/-/tree/6d8408bc51a9a3e037181e8ca08212a5c96f2321/toos/CarboSeqSimulator commit 6d8408bc51a9a3e037181e8ca08212a5c96f2321-dirty"
author siwaa
date Thu, 19 Sep 2024 15:58:11 +0000
parents 097985b1b7c6
children 9ad79c2d8e0b
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11:097985b1b7c6 12:7e43dc776bda
7 <container type="singularity">docker://registry.forgemia.inra.fr/csopra/csopralibs:main</container> 7 <container type="singularity">docker://registry.forgemia.inra.fr/csopra/csopralibs:main</container>
8 </requirements> 8 </requirements>
9 <command detect_errors="exit_code"><![CDATA[ 9 <command detect_errors="exit_code"><![CDATA[
10 (env | grep DOCKER_IMAGE) && 10 (env | grep DOCKER_IMAGE) &&
11 printf " Image Reg : \$s\n" \$(env | grep DOCKER_IMAGE) && 11 printf " Image Reg : \$s\n" \$(env | grep DOCKER_IMAGE) &&
12 bash -e -c "mkdir output && 12 bash -e -c "mkdir tmp &&
13 mkdir output &&
13 unzip -d input ${input} && 14 unzip -d input ${input} &&
14 cp /usr/local/src/myscripts/semantifier.jar . && 15 cp /usr/local/src/myscripts/semantifier.jar . &&
15 cp /usr/local/src/myscripts/start_server.sh . && 16 cp /usr/local/src/myscripts/start_server.sh . &&
16 cp -r /usr/local/src/myscripts/config_mappers . && 17 cp -r /usr/local/src/myscripts/config_mappers . &&
17 cp -r /usr/local/src/myscripts/data . && 18 cp -r /usr/local/src/myscripts/data . &&