Mercurial > repos > siwaa > redelac_stics_s

annotate redelacSticsSimulator.xml @ 10:65c00476f417 draft default tip

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"planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4a2264991516b494ed11d1a7d5260ba543696a04/tools/REDELACSticsSimulator commit 4a2264991516b494ed11d1a7d5260ba543696a04-dirty"
author siwaa
date Fri, 27 Oct 2023 09:15:25 +0000
parents 52877f7c9d6b
children
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65c00476f417 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4a2264991516b494ed11d1a7d5260ba543696a04/tools/REDELACSticsSimulator commit 4a2264991516b494ed11d1a7d5260ba543696a04-dirty"
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1 <tool id="redelacSticsSimulator" name="redelacSticsSimulator" version="1.0.6">
2
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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2 <description>to run sequences paralelly [Stics-10.0.0]</description>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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3 <requirements>
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65c00476f417 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4a2264991516b494ed11d1a7d5260ba543696a04/tools/REDELACSticsSimulator commit 4a2264991516b494ed11d1a7d5260ba543696a04-dirty"
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4 <container type="singularity">docker://registry.forgemia.inra.fr/redelac/redelac-toolbox/sticsrpacks:0faa63e7838a2b86369026bf2e628842d7af9863</container>
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ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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5 </requirements>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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6 <command detect_errors="aggressive">
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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7 <![CDATA[
10
65c00476f417 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4a2264991516b494ed11d1a7d5260ba543696a04/tools/REDELACSticsSimulator commit 4a2264991516b494ed11d1a7d5260ba543696a04-dirty"
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8 bash $__tool_directory__/redelacSticsSimulator.bash ${parallel} \${GALAXY_SLOTS:-4} ${Scenario} $__tool_directory__ ${Workspace} ${SuccessionPlan} ${SimulatedWorkspace} ${SimulationResults} ${compress}
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ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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9 ]]>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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10 </command>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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11 <inputs>
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12 <param name="Workspace" type="data" format="zip" label="Select a stics Workspace(zip file)"/>
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13 <param name="SuccessionPlan" type="data" format="csv" label="Select a plan of succession (csv)"/>
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14 <param name="Scenario" type="text" value="scenarioName" label="Scenario Name"/>
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15 <param name="parallel" type="boolean" checked="true" truevalue="parallel" falsevalue="sequential"/>
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16 <param name="compress" type="boolean" checked="true" truevalue="-6" falsevalue="-0"/>
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ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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17 </inputs>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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18 <outputs>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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19 <data format="zip" name="SimulatedWorkspace"
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20 label="SticsSimulatedWorkspace">
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ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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21 </data>
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22 <data format="zip" name="SimulationResults"
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23 label="SticsOnResults">
2
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24 </data>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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25 </outputs>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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26 <tests>
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27 <test>
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28 <param name="parallel" value="true" ftype="boolean" />
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29 <param name="Workspace" value="input/rotx10.zip" ftype="zip" />
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30 <param name="SuccessionPlan" value="input/listeUSMsExp10.csv" ftype="csv" />
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31 <output name="SimulationResults" ftype="zip" >
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32 <assert_contents>
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33 <has_archive_member path="analyse_simulations_STICS\/1\/2\/report-2-806_1893-637_NGC1-scenarioName.csv">
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34 <has_text text="806_1893-637_NGC1-1-2-BT-NA-1973-BT" />
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35 </has_archive_member>
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36 </assert_contents>
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37 </output>
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38 </test>
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39 <test>
10
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40 <param name="compress" value="false" ftype="boolean" />
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41 <param name="parallel" value="true" ftype="boolean" />
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42 <param name="Workspace" value="input/rotx10.zip" ftype="zip" />
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43 <param name="SuccessionPlan" value="input/listeUSMsExp10.csv" ftype="csv" />
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44 <output name="SimulationResults" ftype="zip" >
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45 <assert_contents>
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46 <has_archive_member path="analyse_simulations_STICS\/1\/2\/report-2-806_1893-637_NGC1-scenarioName.csv">
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47 <has_text text="806_1893-637_NGC1-1-2-BT-NA-1973-BT" />
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48 </has_archive_member>
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49 </assert_contents>
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50 </output>
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51 </test>
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52 <test>
7
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53 <param name="parallel" value="false" ftype="boolean" />
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54 <param name="Workspace" value="input/rotx10.zip" ftype="zip" />
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55 <param name="SuccessionPlan" value="input/listeUSMsExp10.csv" ftype="csv" />
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56 <output name="SimulationResults" ftype="zip" >
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57 <assert_contents>
2586f7dbcde1 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e/tools/REDELACSticsSimulator commit af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e-dirty"
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58 <has_archive_member path="analyse_simulations_STICS\/1\/2\/report-2-806_1893-637_NGC1-scenarioName.csv">
2586f7dbcde1 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e/tools/REDELACSticsSimulator commit af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e-dirty"
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59 <has_text text="806_1893-637_NGC1-1-2-BT-NA-1973-BT" />
2586f7dbcde1 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e/tools/REDELACSticsSimulator commit af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e-dirty"
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60 </has_archive_member>
2586f7dbcde1 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e/tools/REDELACSticsSimulator commit af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e-dirty"
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61 </assert_contents>
2586f7dbcde1 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e/tools/REDELACSticsSimulator commit af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e-dirty"
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62 </output>
2586f7dbcde1 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e/tools/REDELACSticsSimulator commit af2d1fcb63a2ae897e02f11e82cc76c4f6e8ca5e-dirty"
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63 </test>
2
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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64 </tests>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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65 <help>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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66 *The usage of this tool is restricted to the user of the stics_authorized group.*
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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67
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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68 *To be granted, apply to the Project Stics Team and then request to SIWAA*
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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69
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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70 Documentation
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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71 -------------
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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72 A tool to simulate stics rotation paralelly
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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73
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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74 Credits
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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75 -------
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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76 - Wrapped Tool Author: https://www6.paca.inrae.fr/stics_eng/About-us/Project-Stics-Team
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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77 - Stics Site: https://www6.paca.inra.fr/stics_eng
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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78 - Galaxy Tool Maintainer: Patrick Chabrier patrick.chabrier@inrae.fr
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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79 - Copyright: INRAE
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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80 </help>
ea8e91473dc8 "planemo upload for repository https://forgemia.inra.fr/redelac/redelac-toolbox/-/tree/4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4/tools/REDELACSticsSimulator commit 4c3e6dc71284e3eecf1cfa8402aaf12dc49c1ee4-dirty"
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81 </tool>