Mercurial > repos > jpayne > snp_pipeline

comparison 7_smp_matrix.xml @ 45:f58616a4b2f3

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planemo upload commit 2107f35724b3f897c9414be40a9d14663cba9f4d-dirty
author jpayne
date Tue, 07 May 2019 11:44:12 -0400
parents 02733e77f84f
children d273453b30bb
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44:e7cac7790476 45:f58616a4b2f3
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.6">bcftools</requirement> 4 <requirement type="package" version="1.6">bcftools</requirement>
5 <requirement type="package" version="1.0.6">bzip2</requirement> 5 <requirement type="package" version="1.0.6">bzip2</requirement>
6 <requirement type="package" version="1.0.1">snp-pipeline</requirement> 6 <requirement type="package" version="1.0.1">snp-pipeline</requirement>
7 <requirement type="package" version="0.2.5">tabix</requirement> 7 <requirement type="package" version="0.2.5">tabix</requirement>
8 <!-- <requirement type="package" version="3.5">python</requirement> --> 8 <requirement type="package" version="3.6">python</requirement>
9 </requirements> 9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
11 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" && 11 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" &&
12 env && 12 # env &&
13 python $__tool_directory__/snp-wind.py ./ -p "consensus.fasta" 13 python $__tool_directory__/snp-wind.py ./ -p "consensus.fasta"
14 #for $fa in sorted($cons, key=lambda f: f.element_identifier) 14 #for $fa in sorted($cons, key=lambda f: f.element_identifier)
15 -n $fa.element_identifier -f $fa 15 -n $fa.element_identifier -f $fa
16 #end for 16 #end for
17 > ./file && 17 > ./file &&