Mercurial > repos > iuc > variant_analyzer

comparison mut2read.xml @ 1:833d9e71b864 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/variant_analyzer commit 60dc8db809909edf44d662683b1f392b9d5964bf"
author iuc
date Wed, 04 Dec 2019 21:20:55 +0000
parents 5441e79a30f2
children 18fcf8017300
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0:5441e79a30f2 1:833d9e71b864
1 <?xml version="1.0" encoding="UTF-8"?> 1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="mut2read" name="DCS mutations to tags/reads:" version="1.0.0" profile="19.01"> 2 <tool id="mut2read" name="DCS mutations to tags/reads:" version="1.0.1" profile="19.01">
3 <description>Extracts all tags that carry a mutation in the duplex consensus sequence (DCS)</description> 3 <description>Extracts all tags that carry a mutation in the duplex consensus sequence (DCS)</description>
4 <macros> 4 <macros>
5 <import>va_macros.xml</import> 5 <import>va_macros.xml</import>
6 </macros> 6 </macros>
7 <requirements> 7 <expand macro="requirements"/>
8 <requirement type="package" version="2.7">python</requirement>
9 <requirement type="package" version="1.4.0">matplotlib</requirement>
10 <requirement type="package" version="0.15">pysam</requirement>
11 </requirements>
12 <command><![CDATA[ 8 <command><![CDATA[
13 ln -s '$file2' bam_input.bam && 9 ln -s '$file2' bam_input.bam &&
14 ln -s '${file2.metadata.bam_index}' bam_input.bam.bai && 10 ln -s '${file2.metadata.bam_index}' bam_input.bam.bai &&
15 python '$__tool_directory__/mut2read.py' 11 python '$__tool_directory__/mut2read.py'
16 --mutFile '$file1' 12 --mutFile '$file1'