Mercurial > repos > siwaa > redelac_stics_g
diff redelacSticsInputGenerator.xml @ 5:4f8d87b9c246 draft
"planemo upload for repository https://forgemia.inra.fr/redelac commit b3a95e69b8c2496ff3ec12c854404798d8bc55b1"
| author | siwaa |
|---|---|
| date | Tue, 04 Jul 2023 16:37:44 +0000 |
| parents | af7d9ca55205 |
| children | fb6f7d60508d |
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--- a/redelacSticsInputGenerator.xml Thu Jun 29 11:03:20 2023 +0000 +++ b/redelacSticsInputGenerator.xml Tue Jul 04 16:37:44 2023 +0000 @@ -4,27 +4,8 @@ <container type="singularity">docker://registry.forgemia.inra.fr/quaysofthestics/sticsquays/rstudio_stics_test:10.0.0</container> </requirements> <command detect_errors="aggressive"> - <![CDATA[ - cp -r /home/rstudio/JavaSTICS-1.5.1-STICS-10.0.0/JavaSTICS-1.5.1-STICS-10.0.0 . && - rm -rf JavaSTICS-1.5.1-STICS-10.0.0/config && - cp -r $__tool_directory__/config JavaSTICS-1.5.1-STICS-10.0.0 && - unzip ${Workspace} -d TMP && - export WSname=\$(ls TMP) && - mv TMP/* JavaSTICS-1.5.1-STICS-10.0.0/WS && - cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_gen.xml JavaSTICS-1.5.1-STICS-10.0.0/WS && - cp JavaSTICS-1.5.1-STICS-10.0.0/config/param_newform.xml JavaSTICS-1.5.1-STICS-10.0.0/WS && - unzip ${Climat} -d TMPbis && - mv TMPbis/*/* JavaSTICS-1.5.1-STICS-10.0.0/WS && - cp ${USMs} JavaSTICS-1.5.1-STICS-10.0.0/WS/USMs.csv && - cp ${Tec} JavaSTICS-1.5.1-STICS-10.0.0/WS/Tec.csv && - cp ${Ini} JavaSTICS-1.5.1-STICS-10.0.0/WS/Ini.csv && - cp ${Station} JavaSTICS-1.5.1-STICS-10.0.0/WS/Station.csv && - cd JavaSTICS-1.5.1-STICS-10.0.0 && - Rscript --verbose $__tool_directory__/redelacSticsInputGenerator.R && - rm WS/1* && - mv WS \$WSname && - zip -r \$WSname \$WSname && - cp \$WSname.zip ${GeneratedWorkspace} + <![CDATA[ + bash $__tool_directory__/redelacSticsInputGenerator.bash $__tool_directory__ ${Workspace} ${Climat} ${USMs} ${Tec} ${Ini} ${Station} ${GeneratedWorkspace} ]]> </command> <inputs>