Mercurial > repos > jpayne > snp_pipeline

comparison 6_merge_vcfs.xml @ 25:f986ff235d69

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planemo upload commit 7f6183b769772449fbcee903686b8d5ec5b7439f-dirty
author jpayne
date Wed, 31 Jan 2018 13:13:17 -0500
parents cf6f7548f15a
children 05f2f9e58b3f
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24:cf6f7548f15a 25:f986ff235d69
7 <requirement type="package">tabix</requirement> 7 <requirement type="package">tabix</requirement>
8 <requirement type="package" version="3.4">python3</requirement> 8 <requirement type="package" version="3.4">python3</requirement>
9 </requirements> 9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
11 env && 11 env &&
12 export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$CONDA_DEFAULT/lib" && 12 export LD_LIBRARY_PATH="\$LD_LIBRARY_PATH:\$CONDA_DEFAULT/lib" &&
13 python $__tool_directory__/snp-wind.py ./ -p "consensus.vcf" 13 python $__tool_directory__/snp-wind.py ./ -p "consensus.vcf"
14 #for $vcf in $vcfs 14 #for $vcf in $vcfs
15 -n $vcf.element_identifier -f $vcf 15 -n $vcf.element_identifier -f $vcf
16 #end for 16 #end for
17 > ./file 17 > ./file