Mercurial > repos > drosofff > msp_sr_bowtie_parser

comparison sRbowtieParser.xml @ 17:7b5e0fba8e74 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_sr_bowtie_parser commit 30a73e24eabb05f9d46150fd03471ff853579ad2-dirty
author mvdbeek
date Mon, 18 Apr 2016 09:52:54 -0400
parents bfeaf4415eba
children
comparison
equal deleted inserted replaced
16:bfeaf4415eba 17:7b5e0fba8e74
4 <requirement type="package" version="0.12.7">bowtie</requirement> 4 <requirement type="package" version="0.12.7">bowtie</requirement>
5 <requirement type="package" version="0.7.7">pysam</requirement> 5 <requirement type="package" version="0.7.7">pysam</requirement>
6 <requirement type="package" version="1.9">numpy</requirement> 6 <requirement type="package" version="1.9">numpy</requirement>
7 </requirements> 7 </requirements>
8 <command> 8 <command>
9 python sRbowtieParser.py 9 python $__tool_directory__/sRbowtieParser.py
10 #if $refGenomeSource.genomeSource == "history": 10 #if $refGenomeSource.genomeSource == "history":
11 --IndexSource $refGenomeSource.ownFile 11 --IndexSource $refGenomeSource.ownFile
12 --ExtractDirective fastaSource 12 --ExtractDirective fastaSource
13 #else: 13 #else:
14 #silent reference= filter( lambda x: str( x[0] ) == str( $input_list.dbkey ), $__app__.tool_data_tables[ 'bowtie_indexes' ].get_fields() )[0][-1] 14 #silent reference= filter( lambda x: str( x[0] ) == str( $input_list.dbkey ), $__app__.tool_data_tables[ 'bowtie_indexes' ].get_fields() )[0][-1]