Mercurial > repos > siwaa > redelac_stics_g

comparison redelacSticsInputGenerator.xml @ 13:3db1f57029a7 draft

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"planemo upload for repository https://forgemia.inra.fr/redelac commit 4a2264991516b494ed11d1a7d5260ba543696a04"
author siwaa
date Fri, 27 Oct 2023 09:17:06 +0000
parents 9f398c5117d2
children 812bb8097dac
comparison
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12:9f398c5117d2 13:3db1f57029a7
1 <tool id="redelacSticsInputGenerator" name="redelacSticsInputGenerator" version="1.0.6"> 1 <tool id="redelacSticsInputGenerator" name="redelacSticsInputGenerator" version="1.0.7">
2 <description>to run generate Stics Inputs for REDELAC</description> 2 <description>to run generate Stics Inputs for REDELAC</description>
3 <requirements> 3 <requirements>
4 <container type="singularity">docker://registry.forgemia.inra.fr/redelac/redelac-toolbox/sticsrpacks:b0f76897e1ece4a91ecfc71617fec5ebd04e2bd4</container> 4 <container type="singularity">docker://registry.forgemia.inra.fr/redelac/redelac-toolbox/sticsrpacks:0faa63e7838a2b86369026bf2e628842d7af9863</container>
5 </requirements> 5 </requirements>
6 <command detect_errors="aggressive"> 6 <command detect_errors="aggressive">
7 <![CDATA[ 7 <![CDATA[
8 #if $additional: 8 #if $additional:
9 additional=${additional} && 9 additional=${additional} &&
13 #if str( $IterUsmX.IterUsmX ) == 'usmx_one_after_other': 13 #if str( $IterUsmX.IterUsmX ) == 'usmx_one_after_other':
14 parallel=${$IterUsmX.parallel} && 14 parallel=${$IterUsmX.parallel} &&
15 #else 15 #else
16 parallel=parallel && 16 parallel=parallel &&
17 #end if 17 #end if
18 bash $__tool_directory__/redelacSticsInputGenerator.bash ${IterUsmX.IterUsmX} \${parallel} \${GALAXY_SLOTS:-4} $__tool_directory__ ${Workspace} ${Climat} ${USMs} ${Tec} ${Ini} ${Station} \${additional} ${GeneratedWorkspace} 18 bash $__tool_directory__/redelacSticsInputGenerator.bash ${IterUsmX.IterUsmX} \${parallel} \${GALAXY_SLOTS:-4} $__tool_directory__ ${Workspace} ${Climat} ${USMs} ${Tec} ${Ini} ${Station} \${additional} ${GeneratedWorkspace} ${compress}
19 ]]> 19 ]]>
20 </command> 20 </command>
21 <inputs> 21 <inputs>
22 <param name="Workspace" type="data" format="zip" label="Select a stics Workspace (zip file)"/> 22 <param name="Workspace" type="data" format="zip" label="Select a stics Workspace (zip file)"/>
23 <param name="Climat" type="data" format="zip" label="Select a climat scenario (zip file)"/> 23 <param name="Climat" type="data" format="zip" label="Select a climat scenario (zip file)"/>
32 <param name="parallel" type="boolean" checked="true" truevalue="parallel" falsevalue="sequential"/> 32 <param name="parallel" type="boolean" checked="true" truevalue="parallel" falsevalue="sequential"/>
33 </when> 33 </when>
34 <when value="usmx_at_once"> 34 <when value="usmx_at_once">
35 </when> 35 </when>
36 </conditional> 36 </conditional>
37 <param name="compress" type="boolean" checked="true" truevalue="-6" falsevalue="-0"/>
37 </inputs> 38 </inputs>
38 <outputs> 39 <outputs>
39 <data format="zip" name="GeneratedWorkspace" 40 <data format="zip" name="GeneratedWorkspace"
40 label="GeneratedWorkspace$"> 41 label="GeneratedWorkspace$">
41 </data> 42 </data>
125 <has_text text="806_1893-637_NPP1-8-2-PP-ref-2004-PP" /> 126 <has_text text="806_1893-637_NPP1-8-2-PP-ref-2004-PP" />
126 </has_archive_member> 127 </has_archive_member>
127 </assert_contents> 128 </assert_contents>
128 </output> 129 </output>
129 </test> 130 </test>
131 <test>
132 <param name="compress" value="false" ftype="boolean" />
133 <param name="parallel" value="true" ftype="boolean" />
134 <param name="Workspace" value="input/sticsBaseWs.zip" ftype="zip" />
135 <param name="Climat" value="input/flatMeteo.zip" ftype="zip" />
136 <param name="USMs" value="input/USMsSheet.csv" ftype="csv" />
137 <param name="Tec" value="input/TecSheet.csv" ftype="csv" />
138 <param name="Ini" value="input/IniSheet.csv" ftype="csv"/>
139 <param name="Station" value="input/StationsSheet.csv" ftype="csv"/>
140 <output name="GeneratedWorkspace" ftype="zip" >
141 <assert_contents>
142 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-NA-1973-PP\/new_travail.usm">
143 <has_text text="806_1893-637_NPP1-8-2-PP-NA-1973-PP" />
144 </has_archive_member>
145 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-NA-1974-PP\/new_travail.usm">
146 <has_text text="806_1893-637_NPP1-8-2-PP-NA-1974-PP" />
147 </has_archive_member>
148 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-NA-1975-PP\/new_travail.usm">
149 <has_text text="806_1893-637_NPP1-8-2-PP-NA-1975-PP" />
150 </has_archive_member>
151 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-ref-1976-PP\/new_travail.usm">
152 <has_text text="806_1893-637_NPP1-8-2-PP-ref-1976-PP" />
153 </has_archive_member>
154 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-ref-1977-PP\/new_travail.usm">
155 <has_text text="806_1893-637_NPP1-8-2-PP-ref-1977-PP" />
156 </has_archive_member>
157 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-ref-2000-PP\/new_travail.usm">
158 <has_text text="806_1893-637_NPP1-8-2-PP-ref-2000-PP" />
159 </has_archive_member>
160 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-ref-2001-PP\/new_travail.usm">
161 <has_text text="806_1893-637_NPP1-8-2-PP-ref-2001-PP" />
162 </has_archive_member>
163 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-ref-2002-PP\/new_travail.usm">
164 <has_text text="806_1893-637_NPP1-8-2-PP-ref-2002-PP" />
165 </has_archive_member>
166 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-ref-2003-PP\/new_travail.usm">
167 <has_text text="806_1893-637_NPP1-8-2-PP-ref-2003-PP" />
168 </has_archive_member>
169 <has_archive_member path="rot8_2\/txt_files\/806_1893-637_NPP1-8-2-PP-ref-2004-PP\/new_travail.usm">
170 <has_text text="806_1893-637_NPP1-8-2-PP-ref-2004-PP" />
171 </has_archive_member>
172 </assert_contents>
173 </output>
174 </test>
130 </tests> 175 </tests>
131 <help> 176 <help>
132 *The usage of this tool is restricted to the user of the stics_authorized group.* 177 *The usage of this tool is restricted to the user of the stics_authorized group.*
133 178
134 *To be granted, apply to the Project Stics Team and then request to SIWAA* 179 *To be granted, apply to the Project Stics Team and then request to SIWAA*