Mercurial > repos > siwaa > azodyn

comparison tool_AZODYN.xml @ 4:5deede146fb6 draft

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"planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/master/misc/galaxy_tools commit 20d254fb2cc23d54b65e95f59033d625bf053c83"
author siwaa
date Tue, 03 May 2022 10:17:50 +0000
parents d1070fee9dc4
children 49c988e63e6b
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3:d1070fee9dc4 4:5deede146fb6
3 <requirements> 3 <requirements>
4 <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:ub2004_vle21</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 dos2unix -n ${file_input} internal_inputAZODYN.csv 8 dos2unix -n ${file_input} internal_inputAZODYN.csv;
9 dos2unix -n ${file_outputs} internal_outputAZODYN.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}"; 10 /bin/bash -c "Rscript --verbose /data/rAzodynSunflo.R ${crop_type} AZODYN internal_inputAZODYN.csv internal_outputAZODYN.csv \${GALAXY_SLOTS:-2}";
12 zip temp_results.zip simresults_*.txt; 11 zip temp_results.zip simresults_*.txt;
13 cp temp_results.zip ${simresults}; 12 cp temp_results.zip ${simresults};
14 </command> 13 </command>
15 <inputs> 14 <inputs>