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comparison tool_AZODYN.xml @ 0:7a2bd77a30bf draft

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"planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/master/misc/galaxy_tools commit 358a6e682f76859d7b54f359b1ab701b79e3791e-dirty"
author siwaa
date Tue, 26 Oct 2021 09:07:12 +0000
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1 <tool id="AZODYN" name="AZODYN crop models simulations" version="1.0.0">
2 <description></description>
3 <requirements>
4 <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:358a6e682f76859d7b54f359b1ab701b79e3791e</container>
5 </requirements>
6 <command detect_errors="aggressive">
7 unzip ${input_meteo};
8 /bin/bash -c "Rscript --verbose /data/RECORD/misc/docker/rAzodynSunflo.R ${crop_type} AZODYN ${file_input} ${file_outputs} 5";
9 zip temp_results.zip simresults_*.txt;
10 cp temp_results.zip ${simresults};
11 </command>
12 <inputs>
13 <param name="crop_type" type="select" label="Select crop to simulate">
14 <option value="AzodynPea.vpz">Pea</option>
15 <option value="AzodynWheat.vpz">Wheat</option>
16 <option value="AzodynBarley.vpz">Barley</option>
17 </param>
18 <param name="input_meteo" type="data" format="zip" label="Wheater serie input files (zip file)"/>
19 <param name="file_input" type="data" format="csv" label="Crop model input values"/>
20 <param name="file_outputs" type="data" format="csv" label="Outputs to simulate"/>
21 </inputs>
22 <outputs>
23 <data format="zip" name="simresults" />
24 </outputs>
25 <help><![CDATA[
26 AZODYN crop models simulations
27 ==============================
28
29 Inputs:
30 -------
31
32 - Zip file of wheather series
33 - Input values of the crop model (1 simulation per row)
34 - Identification of the crop model output to simulate.
35
36 Outputs:
37 --------
38
39 - Zip file of the crop model simulation values (1 file per output)
40
41 Example:
42 --------
43
44 - Select 'Pea' as the crop model to use
45 - Copy to your history files 'AzodynPea_meteo.zip', 'AzodynPea_input.csv' and 'AzodynPea_output.csv' from the AZODYN shared dataset.
46 - Fill file names and choose the adequate number of cores.
47 - And then execute
48
49 Credits:
50 --------
51
52 - Author: Ronan Trépos ronan.trepos@inrae.fr
53 - Wrapper Maintainer: Ronan Trépos ronan.trepos@inrae.fr
54 - Tool Maintainer: Ronan Trépos ronan.trepos@inrae.fr
55 - Copyright: INRAE]]>
56 </help>
57 </tool>
58