<tool id="nc2Stics" name="nc2Stics" version="1.0.0">
  <description>to convert netcdf files to climat files of Stics</description>
  <requirements>
    <container type="singularity">docker://registry.forge.inrae.fr/dairyfit/lot1/chaine_traitement_indicateur:latest
    </container>
  </requirements>
  <command detect_errors="aggressive">
    <![CDATA[
	     mkdir climateInputFolder meshFolder SticsClimateOutputFolder;
	     cd climateInputFolder;
	     tar -xvpf $climateModelVariables;
	     cd ../meshFolder;
	     tar -xvpf $DRIASmesh;
	     cd ..;
	     conda run --no-capture-output -n dairyfit
	     python -u /data/3_transformation_to_stics_format.py
	     --path_model climateInputFolder
	     --path_maille \$(find meshFolder -name *.shp)
	     --epsg 'EPSG:27572'
	     --output_dir SticsClimateOutputFolder
	     --path_to_co2 $yearlyCO2;
	     cd SticsClimateOutputFolder;
	     tar -cvzf $SticsClimate *
     ]]>
  </command>
  <inputs>
    <param name="climateModelVariables" type="data" format="tgz" label="Select a  flat archive of a list of climate model variables (tgz file)"/>
    <param name="DRIASmesh" type="data" format="tgz" label="Select a flat archive of a mesh shapeFile folder (tgz file)"/>    
    <param name="yearlyCO2" type="data" format="csv" label="Select the yearly CO2 data sheet (csv)"/>
  </inputs>
  <outputs>
    <data format="tgz" name="SticsClimate"
          label="SticsClimateFiles">
    </data>
  </outputs>
    <help>
Documentation
-------------
A tool to convert climate netcdf files to Stics

Credits
-------
-  Wrapped Tool Author: 
-  Site: 
-  Galaxy Tool Maintainer: Patrick Chabrier patrick.chabrier@inrae.fr
-  Copyright: INRAE
  </help>
</tool>