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comparison carboseqSimulator.xml @ 0:fb1b9308807f draft

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author siwaa
date Tue, 25 Jun 2024 10:21:58 +0000
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1 <tool id="CarboSeqSimulator" name="CarboSeqSimulator" version="1.0.1">
2 <description>To run the CarboSeq simulator</description>
3 <requirements>
4 <container type="singularity">docker://registry.forgemia.inra.fr/csopra/csopralibs:develop-695457e0</container>
5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[
7 bash -e -c "mkdir inputs &&
8 mkdir output &&
9 unzip -d input ${input} &&
10 set -a ;source /usr/local/src/myscripts/.env &&
11 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}&&
12 mv output/* ${output}"
13 ]]>
14 </command>
15 <inputs>
16 <param name="input" type="data" format="zip" label="CarboSeq input (zip)"/>
17 </inputs>
18 <outputs>
19 <data format='rdata' name="output" label="CarboSeq output (rdata)"/>
20 </outputs>
21 <tests>
22 </tests>
23 <help>
24 the CarboSeq CarboseqSimulator tool
25 ===================================
26
27 credits
28 -------
29 - Wrapper Maintainer: Patrick Chabrier patrick.chabrier@inrae.fr
30 - Tool Site: https://forgemia.inra.fr/carboseq/record-projet-carboseq
31 - Copyright: INRAE
32 </help>
33 </tool>