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comparison 7_smp_matrix.xml @ 9:41bd2a5793ee

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planemo upload commit 7f6183b769772449fbcee903686b8d5ec5b7439f-dirty
author jpayne
date Tue, 30 Jan 2018 15:55:32 -0500
parents 360e1c2bf24d
children 25b858c2f21d
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8:360e1c2bf24d 9:41bd2a5793ee
1 <tool id="snp_matrix" name="7. Create a SNP matrix" version="1.0.1" profile="16.10"> 1 <tool id="snp_matrix" name="7. Create a SNP matrix" version="1.0.1" profile="16.10">
2 <description>and associated distance metrics</description> 2 <description>and associated distance metrics</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.0.1">snp-pipeline</requirement> 4 <requirement type="package" version="1.0.1">snp-pipeline</requirement>
5 <requirement type="package">tabix</requirement> 5 <requirement type="package">tabix</requirement>
6 <requirement type="package" version="3.5">python</requirement> 6 <requirement type="package" version="3.4">python</requirement>
7 </requirements> 7 </requirements>
8 <command detect_errors="exit_code"><![CDATA[ 8 <command detect_errors="exit_code"><![CDATA[
9 $__tool_directory__/snp-wind.py ./ -p "consensus.fasta" 9 python $__tool_directory__/snp-wind.py ./ -p "consensus.fasta"
10 #for $fa in sorted($cons, key=lambda f: f.element_identifier) 10 #for $fa in sorted($cons, key=lambda f: f.element_identifier)
11 -n $fa.element_identifier -f $fa 11 -n $fa.element_identifier -f $fa
12 #end for 12 #end for
13 > ./file && 13 > ./file &&
14 cat ./file && 14 cat ./file &&