Mercurial > repos > siwaa > azodyn

annotate tool_defaults_AZODYN.xml @ 8:b72b6d36bf94 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/6309b0ebe4ac2f7b979d28fb46f90c7719beb87b commit 6309b0ebe4ac2f7b979d28fb46f90c7719beb87b-dirty"
author siwaa
date Tue, 17 Jan 2023 09:28:15 +0000
parents 420fa749a5f9
children ead8d0406cdb
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
8
b72b6d36bf94 "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/6309b0ebe4ac2f7b979d28fb46f90c7719beb87b commit 6309b0ebe4ac2f7b979d28fb46f90c7719beb87b-dirty"
siwaa
parents: 7
diff changeset
1 <tool id="AZODYNdefaults" name="AZODYN crop models default inputs and outputs" version="1.3.0">
5
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
2 <description></description>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
3 <requirements>
8
b72b6d36bf94 "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/6309b0ebe4ac2f7b979d28fb46f90c7719beb87b commit 6309b0ebe4ac2f7b979d28fb46f90c7719beb87b-dirty"
siwaa
parents: 7
diff changeset
4 <container type="singularity">docker://registry.forgemia.inra.fr/record/record/azodyn_sunflo:image-azodynsunflo-1.3</container>
5
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
5 </requirements>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
6 <command detect_errors="aggressive">
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
7 /bin/bash -c "Rscript --verbose /data/rDefaultAzodynSunflo.R ${crop_type} AZODYN";
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
8 cp file_default_input.csv ${inputs};
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
9 cp file_default_output.csv ${outputs};
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
10 </command>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
11 <inputs>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
12 <param name="crop_type" type="select" label="Select crop">
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
13 <option value="AzodynPea.vpz">Pea</option>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
14 <option value="AzodynWheat.vpz">Wheat</option>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
15 <option value="AzodynBarley.vpz">Barley</option>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
16 </param>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
17 </inputs>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
18 <outputs>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
19 <data format="csv" name="inputs" label="Azodyn default inputs"/>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
20 <data format="csv" name="outputs" label="Azodyn default outputs"/>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
21 </outputs>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
22 <tests>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
23 <test>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
24 <param name="crop_type" value="AzodynPea.vpz" />
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
25 <output name="inputs">
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
26 <assert_contents>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
27 <has_text text="simulation_engine.duration;simulation_engine.begin" />
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
28 <has_text text="Breteniere_1991_2018.csv;AZODYN" />
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
29 </assert_contents>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
30 </output>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
31 <output name="outputs">
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
32 <assert_contents>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
33 <has_text text="id;path;integration" />
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
34 <has_text text="Des_cumul;view/AzodynPea:Frost.Des_cumul;all" />
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
35 </assert_contents>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
36 </output>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
37 </test>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
38 </tests>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
39 <help><![CDATA[
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
40 Azodyn crop models default inputs and outputs provider
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
41
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
42 Full documentation is available here : https://siwaa.toulouse.inrae.fr/ in section "Tool Tuto > Azodyn tool"
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
43 ]]>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
44 </help>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
45 </tool>
49c988e63e6b "planemo upload for repository https://forgemia.inra.fr/record/RECORD/-/tree/3a14800d8c700f5acdf49d564adc9fe820aa1c25 commit 3a14800d8c700f5acdf49d564adc9fe820aa1c25-dirty"
siwaa
parents:
diff changeset
46