Mercurial > repos > jpayne > snp_pipeline

comparison 6_merge_vcfs.xml @ 33:b6bc9158666c

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planemo upload commit 7f6183b769772449fbcee903686b8d5ec5b7439f-dirty
author jpayne
date Thu, 01 Feb 2018 17:46:04 -0500
parents e8b3f4f646b1
children 87f53c4a13df
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32:e8b3f4f646b1 33:b6bc9158666c
9 <requirement type="package" version="1.6">htslib</requirement> 9 <requirement type="package" version="1.6">htslib</requirement>
10 </requirements> 10 </requirements>
11 <command detect_errors="exit_code"><![CDATA[ 11 <command detect_errors="exit_code"><![CDATA[
12 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" && 12 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" &&
13 env && 13 env &&
14 ls -lah \$CONDA_DEFAULT_ENV && 14 ls -lah \$CONDA_DEFAULT_ENV/bin &&
15 ls -lah \$CONDA_DEFAULT_ENV/lib && 15 ls -lah \$CONDA_DEFAULT_ENV/lib &&
16 python $__tool_directory__/snp-wind.py ./ -p "consensus.vcf" 16 python $__tool_directory__/snp-wind.py ./ -p "consensus.vcf"
17 #for $vcf in $vcfs 17 #for $vcf in $vcfs
18 -n $vcf.element_identifier -f $vcf 18 -n $vcf.element_identifier -f $vcf
19 #end for 19 #end for