Mercurial > repos > siwaa > sms
comparison SMSticsTool-9.2.xml @ 0:ab62b4ecd5b9 draft default tip
"planemo upload for repository https://forgemia.inra.fr/quaysofthestics/sticsquays/-/tree/master/tools commit 5e434da355bade7d12364ccbd84b53848e6fa4c5"
| author | siwaa |
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| date | Mon, 18 Jul 2022 10:54:39 +0000 |
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| -1:000000000000 | 0:ab62b4ecd5b9 |
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| 1 <tool id="SMSticsTool-9.2" name="sms_stics-9.2" version="1.0.0"> | |
| 2 <description>to run the Stics simulator on the SMS DB [Stics-9.2]</description> | |
| 3 <requirements> | |
| 4 <container type="singularity">docker://registry.forgemia.inra.fr/quaysofthestics/sticsquays/rstudio_stics_sms:9.2</container> | |
| 5 </requirements> | |
| 6 <command detect_errors="aggressive"> | |
| 7 <![CDATA[ | |
| 8 cp -r /home/rstudio/JavaSTICS-1.41-stics-9.2/ . && | |
| 9 cp -R /home/rstudio/EvaluationReports . && | |
| 10 unzip ${SMSdb} && | |
| 11 cp ${plan} USMlist.csv && | |
| 12 Rscript --verbose $__tool_directory__/eval_only_stics_on_sms.R && | |
| 13 zip -r eval.zip work/eval_* && | |
| 14 cp eval.zip ${evalFolder} | |
| 15 ]]> | |
| 16 </command> | |
| 17 <inputs> | |
| 18 <param name="SMSdb" type="data" format="zip" label="Select a stics SMS DB (zip file)"/> | |
| 19 <param name="plan" type="data" format="csv" label="Select a plan (csv file)"/> | |
| 20 </inputs> | |
| 21 <outputs> | |
| 22 <data format="zip" name="evalFolder" | |
| 23 label="Stics SMS Evaluation Folder"> | |
| 24 </data> | |
| 25 </outputs> | |
| 26 <tests> | |
| 27 </tests> | |
| 28 <help> | |
| 29 *The usage of this tool is restricted to the user of the stics_authorized group.* | |
| 30 | |
| 31 *To be granted, apply to the Project Stics Team and then request to SIWAA* | |
| 32 | |
| 33 Documentation | |
| 34 ------------- | |
| 35 A tool to run the Stics simulator on a Stics SMS database. | |
| 36 | |
| 37 Credits | |
| 38 ------- | |
| 39 - Wrapped Tool Author: https://www6.paca.inrae.fr/stics_eng/About-us/Project-Stics-Team | |
| 40 - Stics Site: https://www6.paca.inra.fr/stics_eng | |
| 41 - Galaxy Tool Maintainer: Patrick Chabrier patrick.chabrier@inrae.fr | |
| 42 - Copyright: INRAE | |
| 43 </help> | |
| 44 </tool> |