Mercurial > repos > shellac > sam_consensus_v3
comparison sam-consensus-v3.xml @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
| author | shellac |
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| date | Mon, 22 Mar 2021 18:12:50 +0000 |
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| -1:000000000000 | 0:4f3585e2f14b |
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| 1 <tool id="sam-consensus-v3" name="Sam consensus V3" version="0.2.8" python_template_version="3.5"> | |
| 2 <requirements> | |
| 3 </requirements> | |
| 4 <command detect_errors="exit_code"><![CDATA[ | |
| 5 perl '$__tool_directory__/call_consensus_from_sam_3.pl' '$samfile' 'fastafile' $mapq | |
| 6 ]]></command> | |
| 7 <inputs> | |
| 8 <param name="samfile" type="data" format="sam" label="SAM file"/> | |
| 9 <param name="fastafile" type="data" format="fasta" label="FASTA file"/> | |
| 10 <param name="mapq" type="integer" label="MAPQ" value="0"/> | |
| 11 </inputs> | |
| 12 <outputs> | |
| 13 <data name="scv3res" format="txt"> | |
| 14 <discover_datasets pattern="__designation_and_ext__" directory="." visible="true"/> | |
| 15 </data> | |
| 16 </outputs> | |
| 17 <help><![CDATA[ | |
| 18 Sam consensus v3 takes a sam file and a fasta file with a mapq parameter | |
| 19 ]]></help> | |
| 20 </tool> |