Mercurial > repos > siwaa > carboseq_s
changeset 0:fb1b9308807f draft
Uploaded
| author | siwaa |
|---|---|
| date | Tue, 25 Jun 2024 10:21:58 +0000 |
| parents | |
| children | 89c69fcbf561 |
| files | carboseqSimulator.xml |
| diffstat | 1 files changed, 33 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/carboseqSimulator.xml Tue Jun 25 10:21:58 2024 +0000 @@ -0,0 +1,33 @@ +<tool id="CarboSeqSimulator" name="CarboSeqSimulator" version="1.0.1"> + <description>To run the CarboSeq simulator</description> + <requirements> + <container type="singularity">docker://registry.forgemia.inra.fr/csopra/csopralibs:develop-695457e0</container> + </requirements> + <command detect_errors="exit_code"><![CDATA[ + bash -e -c "mkdir inputs && + mkdir output && + unzip -d input ${input} && + set -a ;source /usr/local/src/myscripts/.env && + 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}" + ]]> + </command> + <inputs> + <param name="input" type="data" format="zip" label="CarboSeq input (zip)"/> + </inputs> +<outputs> + <data format='rdata' name="output" label="CarboSeq output (rdata)"/> +</outputs> +<tests> +</tests> +<help> +the CarboSeq CarboseqSimulator tool +=================================== + +credits +------- +- Wrapper Maintainer: Patrick Chabrier patrick.chabrier@inrae.fr +- Tool Site: https://forgemia.inra.fr/carboseq/record-projet-carboseq +- Copyright: INRAE +</help> +</tool>