Mercurial > repos > iuc > sarscov2summary
diff sarscov2summary.xml @ 0:4ad8b610ea41 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 05:42:35 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/sarscov2summary.xml Mon May 04 05:42:35 2020 -0400 @@ -0,0 +1,61 @@ +<tool id="sarscov2summary" name="sarscov2summary" version="0.1" profile="18.01"> + <requirements> + <requirement type="package" version="0.5">sarscov2summary</requirement> + </requirements> + <command><![CDATA[ +sarscov2summary +-s '$slac' +-f '$fel' +-m '$meme' +-p '$prime' +-P $pvalue +-c '$coords' +-D '$db' +-d '$dups' + ]]></command> + <inputs> + <param name ="slac" type="data" format="json" label="HyPhy SLAC Output" /> + <param name ="fel" type="data" format="json" label="HyPhy FEL Output" /> + <param name ="meme" type="data" format="json" label="HyPhy MEME Output" /> + <param name ="prime" type="data" format="json" label="HyPhy PRIME Output" /> + <param name="pvalue" type="float" value="0.1" label="P-value" /> + <param name="coords" type="data" format="fasta" label="Alignment With Reference" /> + <param name="db" type="data" format="json" label="Metadata" /> + <param name="dups" type="data" format="json" label="Duplicates" /> + </inputs> + <outputs> + <data name="summary" format="json" from_work_dir="summary.json" label="Summary" /> + </outputs> + <tests> + <test> + <param name="slac" ftype="json" value="slac.json" /> + <param name="fel" ftype="json" value="fel.json" /> + <param name="meme" ftype="json" value="meme.json" /> + <param name="prime" ftype="json" value="prime.json" /> + <param name="coords" ftype="fasta" value="align.fasta" /> + <param name="db" ftype="json" value="meta.json" /> + <param name="dups" ftype="json" value="dups.json" /> + <output name="summary" ftype="json" compare="diff" value="summary.json" /> + </test> + </tests> + <help><![CDATA[ +=============== +sarscov2summary +=============== + +Custom summary script for the SARS-CoV2 Selection Analysis workflow. Takes HyPhy outputs as well as metadata to create final summary output. + + + ]]></help> + <citations> + <citation type="bibtex"> + @misc{githubsarscov2summary, + author = {Sergei Pond}, + year = {2020}, + title = {sarscov2summary}, + publisher = {Github}, + journal = {Github repository}, + url = {https://github.com/nickeener/sarscov2summary}, + }</citation> + </citations> +</tool>