Mercurial > repos > drosofff > msp_cap3
comparison cap3.xml @ 7:858e4f25ec2d draft default tip
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_cap3 commit 91a0ccc6289f607b16e9ed2482e256c10704f034
author | drosofff |
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date | Wed, 28 Oct 2015 13:27:05 -0400 |
parents | e29f3d1124e4 |
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6:e29f3d1124e4 | 7:858e4f25ec2d |
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2 <description>Sequence Assembly tool</description> | 2 <description>Sequence Assembly tool</description> |
3 <requirements> | 3 <requirements> |
4 <requirement type="package" version="3">cap3</requirement> | 4 <requirement type="package" version="3">cap3</requirement> |
5 </requirements> | 5 </requirements> |
6 <command> | 6 <command> |
7 cap3 "$inputSequences" -o $overlaplength -p overlapidentity > "$cap3stdout"; | 7 cap3 "$inputSequences" -o $overlaplength -p $overlapidentity > "$cap3stdout"; |
8 mv "$inputSequences".cap.contigs $contigs; | 8 mv "$inputSequences".cap.contigs $contigs; |
9 mv "$inputSequences".cap.contigs.qual $contigsqual; | 9 mv "$inputSequences".cap.contigs.qual $contigsqual; |
10 mv "$inputSequences".cap.contigs.links $contigslink; | 10 mv "$inputSequences".cap.contigs.links $contigslink; |
11 mv "$inputSequences".cap.ace $ace; | 11 mv "$inputSequences".cap.ace $ace; |
12 mv "$inputSequences".cap.info $info; | 12 mv "$inputSequences".cap.info $info; |