Mercurial > repos > siwaa > azodyn

comparison tool_AZODYN.xml.bak @ 3:d1070fee9dc4 draft

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"planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/master/misc/galaxy_tools commit 4861ee70e49274ed88d2b7ca37f02178ed6da471"
author siwaa
date Wed, 27 Apr 2022 09:59:49 +0000
parents e6bbaf03133e
children 5deede146fb6
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2:e6bbaf03133e 3:d1070fee9dc4
1 <tool id="AZODYN" name="AZODYN crop models simulations" version="1.0.0"> 1 <tool id="AZODYN" name="AZODYN crop models simulations" version="1.0.0">
2 <description></description> 2 <description></description>
3 <requirements> 3 <requirements>
4 <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:latest</container> 4 <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:ub2004_vle21</container>
5 </requirements> 5 </requirements>
6 <command detect_errors="aggressive"> 6 <command detect_errors="aggressive">
7 unzip ${input_meteo}; 7 unzip ${input_meteo};
8 /bin/bash -c "Rscript --verbose /data/RECORD/misc/docker/rAzodynSunflo.R ${crop_type} AZODYN ${file_input} ${file_outputs} \${GALAXY_SLOTS:-2}"; 8 dos2unix -n ${file_input} internal_inputAZODYN.csv
9 dos2unix -n ${file_outputs} internal_outputAZODYN.csv
10
11 /bin/bash -c "Rscript --verbose /data/rAzodynSunflo.R ${crop_type} AZODYN internal_inputAZODYN.csv internal_outputAZODYN.csv \${GALAXY_SLOTS:-2}";
9 zip temp_results.zip simresults_*.txt; 12 zip temp_results.zip simresults_*.txt;
10 cp temp_results.zip ${simresults}; 13 cp temp_results.zip ${simresults};
11 </command> 14 </command>
12 <inputs> 15 <inputs>
13 <param name="crop_type" type="select" label="Select crop to simulate"> 16 <param name="crop_type" type="select" label="Select crop to simulate">