Mercurial > repos > drosofff > msp_cap3

comparison cap3.xml @ 6:e29f3d1124e4 draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_cap3 commit 6e17dab36fc81430141c77506a94f5db4935c1b8
author drosofff
date Wed, 28 Oct 2015 13:21:15 -0400
parents dd02d02ca305
children 858e4f25ec2d
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5:dd02d02ca305 6:e29f3d1124e4
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 -o $overlaplength -p overlapidentity "$inputSequences" > "$cap3stdout"; 7 cap3 "$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;