Mercurial > repos > drosofff > msp_cap3

comparison cap3.xml @ 3:83716d69ef81 draft

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planemo upload for repository https://bitbucket.org/drosofff/gedtools/
author drosofff
date Sat, 20 Jun 2015 05:55:37 -0400
parents d33e0baca778
children 4cf7201615f5
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2:d33e0baca778 3:83716d69ef81
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 "$inputSequences" > "$cap3stdout"; 7 cap3 "$inputSequences" > "$cap3stdout";
8 cat "$inputSequences".cap.contigs "$inputSequences".cap.singlets > $contigsandsinglets
9 mv "$inputSequences".cap.contigs $contigs; 8 mv "$inputSequences".cap.contigs $contigs;
10 mv "$inputSequences".cap.contigs.qual $contigsqual; 9 mv "$inputSequences".cap.contigs.qual $contigsqual;
11 mv "$inputSequences".cap.contigs.links $contigslink; 10 mv "$inputSequences".cap.contigs.links $contigslink;
12 mv "$inputSequences".cap.ace $ace; 11 mv "$inputSequences".cap.ace $ace;
13 mv "$inputSequences".cap.info $info; 12 mv "$inputSequences".cap.info $info;
14 mv "$inputSequences".cap.singlets $singlets; 13 mv "$inputSequences".cap.singlets $singlets;
14 cat $contigs $singlets > $contigsandsinglets
15 15
16 </command> 16 </command>
17 17
18 <inputs> 18 <inputs>
19 <param label="Input sequences to assemble" name="inputSequences" type="data" format="fasta" help="Input sequences to assemble" /> 19 <param label="Input sequences to assemble" name="inputSequences" type="data" format="fasta" help="Input sequences to assemble" />