Mercurial > repos > iuc > sarscov2summary
comparison sarscov2summary.xml @ 0:aa242aee4266 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/sarscov2summary commit a9dbee25f6ad053c0c9b78f85276c7c839d2ab7a"
| author | iuc |
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| date | Mon, 04 May 2020 09:39:05 +0000 |
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| -1:000000000000 | 0:aa242aee4266 |
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| 1 <tool id="sarscov2summary" name="sarscov2summary" version="0.1" profile="18.01"> | |
| 2 <requirements> | |
| 3 <requirement type="package" version="0.5">sarscov2summary</requirement> | |
| 4 </requirements> | |
| 5 <command><![CDATA[ | |
| 6 sarscov2summary | |
| 7 -s '$slac' | |
| 8 -f '$fel' | |
| 9 -m '$meme' | |
| 10 -p '$prime' | |
| 11 -P $pvalue | |
| 12 -c '$coords' | |
| 13 -D '$db' | |
| 14 -d '$dups' | |
| 15 ]]></command> | |
| 16 <inputs> | |
| 17 <param name ="slac" type="data" format="json" label="HyPhy SLAC Output" /> | |
| 18 <param name ="fel" type="data" format="json" label="HyPhy FEL Output" /> | |
| 19 <param name ="meme" type="data" format="json" label="HyPhy MEME Output" /> | |
| 20 <param name ="prime" type="data" format="json" label="HyPhy PRIME Output" /> | |
| 21 <param name="pvalue" type="float" value="0.1" label="P-value" /> | |
| 22 <param name="coords" type="data" format="fasta" label="Alignment With Reference" /> | |
| 23 <param name="db" type="data" format="json" label="Metadata" /> | |
| 24 <param name="dups" type="data" format="json" label="Duplicates" /> | |
| 25 </inputs> | |
| 26 <outputs> | |
| 27 <data name="summary" format="json" from_work_dir="summary.json" label="Summary" /> | |
| 28 </outputs> | |
| 29 <tests> | |
| 30 <test> | |
| 31 <param name="slac" ftype="json" value="slac.json" /> | |
| 32 <param name="fel" ftype="json" value="fel.json" /> | |
| 33 <param name="meme" ftype="json" value="meme.json" /> | |
| 34 <param name="prime" ftype="json" value="prime.json" /> | |
| 35 <param name="coords" ftype="fasta" value="align.fasta" /> | |
| 36 <param name="db" ftype="json" value="meta.json" /> | |
| 37 <param name="dups" ftype="json" value="dups.json" /> | |
| 38 <output name="summary" ftype="json" compare="diff" value="summary.json" /> | |
| 39 </test> | |
| 40 </tests> | |
| 41 <help><![CDATA[ | |
| 42 =============== | |
| 43 sarscov2summary | |
| 44 =============== | |
| 45 | |
| 46 Custom summary script for the SARS-CoV2 Selection Analysis workflow. Takes HyPhy outputs as well as metadata to create final summary output. | |
| 47 | |
| 48 | |
| 49 ]]></help> | |
| 50 <citations> | |
| 51 <citation type="bibtex"> | |
| 52 @misc{githubsarscov2summary, | |
| 53 author = {Sergei Pond}, | |
| 54 year = {2020}, | |
| 55 title = {sarscov2summary}, | |
| 56 publisher = {Github}, | |
| 57 journal = {Github repository}, | |
| 58 url = {https://github.com/nickeener/sarscov2summary}, | |
| 59 }</citation> | |
| 60 </citations> | |
| 61 </tool> |