Mercurial > repos > mheinzl > variant_analyzer2

comparison read2mut.xml @ 73:3e3136368e0d draft

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planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8
author mheinzl
date Fri, 19 Mar 2021 14:08:51 +0000
parents 3691922baa08
children 6ccff403db8a
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72:3691922baa08 73:3e3136368e0d
5 <import>va_macros.xml</import> 5 <import>va_macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"> 7 <expand macro="requirements">
8 <requirement type="package" version="1.1.0">xlsxwriter</requirement> 8 <requirement type="package" version="1.1.0">xlsxwriter</requirement>
9 </expand> 9 </expand>
10 </requirements>
11 <command><![CDATA[ 10 <command><![CDATA[
12 ln -s '$file2' bam_input.bam && 11 ln -s '$file2' bam_input.bam &&
13 ln -s '${file2.metadata.bam_index}' bam_input.bam.bai && 12 ln -s '${file2.metadata.bam_index}' bam_input.bam.bai &&
14 python '$__tool_directory__/read2mut.py' 13 python '$__tool_directory__/read2mut.py'
15 --mutFile '$file1' 14 --mutFile '$file1'