<tool id="SUNFLO" name="SUNFLO crop model simulations" version="1.3.0">
  <description></description>
  <requirements>
    <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:image-azodynsunflo-1.3</container>
  </requirements>
  <command detect_errors="aggressive">
    unzip ${input_meteo};
    dos2unix -n ${file_input} internal_inputSUNFLO.csv;
    dos2unix -n ${file_outputs} internal_outputSUNFLO.csv; 
    /bin/bash -c "Rscript --verbose /data/rAzodynSunflo.R sunflo_simple.vpz sunflo internal_inputSUNFLO.csv internal_outputSUNFLO.csv \${GALAXY_SLOTS:-2}";
    zip temp_results.zip  simresults_*.txt;
    cp temp_results.zip ${simresults};
  </command>
  <inputs>
    <param name="input_meteo" type="data" format="zip" label="Wheater serie input files (zip file)"/>
    <param name="file_input" type="data" format="csv" label="Crop model input values"/>
    <param name="file_outputs" type="data" format="csv" label="Outputs to simulate"/>
  </inputs>
  <outputs>
    <data format="zip" name="simresults" />
  </outputs>
  <tests>
    <test>
    <param name="input_meteo" value="inputs/sunflo_meteo.zip" ftype="zip" />
    <param name="file_input" value="inputs/sunflo_input.csv" ftype="csv" />
    <param name="file_outputs" value="inputs/sunflo_output.csv" ftype="csv" />
    <output name="simresults">
    <assert_contents>
      <has_archive_member path="simresults_LAI.txt">
	<has_text text="0;0;0;0" />
	<has_text text="0.007303977383" />
      </has_archive_member>
      <has_archive_member path="simresults_RDT.txt">
	<has_text text="25.004733605" />
	<has_text text="25.084471273" />
      </has_archive_member>
    </assert_contents>
    </output>
  </test>
</tests>

  <help><![CDATA[
SUNFLO crop model simulations
=============================

Inputs:
-------

- Zip file of wheather series
- Input values of the crop model (1 simulation per row)
- Identification of the crop model output to simulate.

Outputs:
--------

- Zip file of the crop model simulation values (1 file per output)

Example:
--------

- Copy to your history files 'sunflo_meteo.zip', 'sunflo_input.csv' and 'sunflo_output.csv' from the SUNFLO shared dataset.
- Fill file names and choose the adequate number of cores.
- And then execute 

Credits:
--------

-  Author: Ronan Trépos ronan.trepos@inrae.fr
-  Wrapper Maintainer: Ronan Trépos ronan.trepos@inrae.fr
-  Tool Maintainer: Ronan Trépos ronan.trepos@inrae.fr
-  Copyright: INRAE]]>
  </help>
</tool>