Mercurial > repos > siwaa > azodyn
changeset 2:e6bbaf03133e draft
"planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/master/misc/galaxy_tools commit 187cf18876225903f7ab06915374a0277ad83130-dirty"
| author | siwaa |
|---|---|
| date | Wed, 17 Nov 2021 14:23:35 +0000 |
| parents | 97f5c404a9d6 |
| children | d1070fee9dc4 |
| files | tool_AZODYN.xml tool_AZODYN.xml.bak |
| diffstat | 2 files changed, 59 insertions(+), 1 deletions(-) [+] |
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--- a/tool_AZODYN.xml Wed Nov 17 14:00:22 2021 +0000 +++ b/tool_AZODYN.xml Wed Nov 17 14:23:35 2021 +0000 @@ -1,7 +1,7 @@ <tool id="AZODYN" name="AZODYN crop models simulations" version="1.0.0"> <description></description> <requirements> - <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:latest</container> + <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:187cf18876225903f7ab06915374a0277ad83130</container> </requirements> <command detect_errors="aggressive"> unzip ${input_meteo};
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_AZODYN.xml.bak Wed Nov 17 14:23:35 2021 +0000 @@ -0,0 +1,58 @@ +<tool id="AZODYN" name="AZODYN crop models simulations" version="1.0.0"> + <description></description> + <requirements> + <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:latest</container> + </requirements> + <command detect_errors="aggressive"> + unzip ${input_meteo}; + /bin/bash -c "Rscript --verbose /data/RECORD/misc/docker/rAzodynSunflo.R ${crop_type} AZODYN ${file_input} ${file_outputs} \${GALAXY_SLOTS:-2}"; + zip temp_results.zip simresults_*.txt; + cp temp_results.zip ${simresults}; + </command> + <inputs> + <param name="crop_type" type="select" label="Select crop to simulate"> + <option value="AzodynPea.vpz">Pea</option> + <option value="AzodynWheat.vpz">Wheat</option> + <option value="AzodynBarley.vpz">Barley</option> + </param> + <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> + <help><![CDATA[ +AZODYN crop models 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: +-------- + +- Select 'Pea' as the crop model to use +- Copy to your history files 'AzodynPea_meteo.zip', 'AzodynPea_input.csv' and 'AzodynPea_output.csv' from the AZODYN 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> +