Mercurial > repos > jpayne > snp_pipeline

comparison 7_smp_matrix.xml @ 40:02733e77f84f

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planemo upload commit 7f6183b769772449fbcee903686b8d5ec5b7439f-dirty
author jpayne
date Wed, 14 Feb 2018 13:10:23 -0500
parents a057e69d13a7
children f58616a4b2f3
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39:1fe3b14f7f1b 40:02733e77f84f
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="3.5">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" &&
12 env &&
11 python $__tool_directory__/snp-wind.py ./ -p "consensus.fasta" 13 python $__tool_directory__/snp-wind.py ./ -p "consensus.fasta"
12 #for $fa in sorted($cons, key=lambda f: f.element_identifier) 14 #for $fa in sorted($cons, key=lambda f: f.element_identifier)
13 -n $fa.element_identifier -f $fa 15 -n $fa.element_identifier -f $fa
14 #end for 16 #end for
15 > ./file && 17 > ./file &&