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comparison tool_SUNFLO.xml @ 1:935e06766216 draft

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"planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
author siwaa
date Thu, 25 Aug 2022 10:49:25 +0000
parents 53d753cb6b81
children a08cdfcedd4c
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0:53d753cb6b81 1:935e06766216
1 <tool id="SUNFLO" name="SUNFLO crop model simulations" version="1.0.0"> 1 <tool id="SUNFLO" name="SUNFLO crop model simulations" version="1.0.0">
2 <description></description> 2 <description></description>
3 <requirements> 3 <requirements>
4 <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:187cf18876225903f7ab06915374a0277ad83130</container> 4 <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:ub2004_vle21</container>
5 </requirements> 5 </requirements>
6 <command detect_errors="aggressive"> 6 <command detect_errors="aggressive">
7 unzip ${input_meteo}; 7 unzip ${input_meteo};
8 /bin/bash -c "Rscript --verbose /data/RECORD/misc/docker/rAzodynSunflo.R sunflo_web.vpz sunflo ${file_input} ${file_outputs} \${GALAXY_SLOTS:-2}"; 8 /bin/bash -c "Rscript --verbose /data/rAzodynSunflo.R sunflo_web.vpz sunflo ${file_input} ${file_outputs} \${GALAXY_SLOTS:-2}";
9 zip temp_results.zip simresults_*.txt; 9 zip temp_results.zip simresults_*.txt;
10 cp temp_results.zip ${simresults}; 10 cp temp_results.zip ${simresults};
11 </command> 11 </command>
12 <inputs> 12 <inputs>
13 <param name="input_meteo" type="data" format="zip" label="Wheater serie input files (zip file)"/> 13 <param name="input_meteo" type="data" format="zip" label="Wheater serie input files (zip file)"/>
15 <param name="file_outputs" type="data" format="csv" label="Outputs to simulate"/> 15 <param name="file_outputs" type="data" format="csv" label="Outputs to simulate"/>
16 </inputs> 16 </inputs>
17 <outputs> 17 <outputs>
18 <data format="zip" name="simresults" /> 18 <data format="zip" name="simresults" />
19 </outputs> 19 </outputs>
20 <tests>
21 <test>
22 <param name="input_meteo" value="inputs/sunflo_meteo.zip" ftype="zip" />
23 <param name="file_input" value="inputs/sunflo_input.csv" ftype="csv" />
24 <param name="file_outputs" value="inputs/sunflo_output.csv" ftype="csv" />
25 <output name="simresults">
26 <assert_contents>
27 <has_archive_member path="simresults_LAI.txt">
28 <has_text text="0;0;0;0" />
29 <has_text text="0.007252155941" />
30 </has_archive_member>
31 <has_archive_member path="simresults_RDT.txt">
32 <has_text text="29.639416530" />
33 <has_text text="29.411414411" />
34 </has_archive_member>
35 </assert_contents>
36 </output>
37 </test>
38 </tests>
39
20 <help><![CDATA[ 40 <help><![CDATA[
21 SUNFLO crop model simulations 41 SUNFLO crop model simulations
22 ============================= 42 =============================
23 43
24 Inputs: 44 Inputs: