Mercurial > repos > jpayne > snp_pipeline

comparison 1_map_reads.xml @ 47:1667e4c08344

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planemo upload commit 2107f35724b3f897c9414be40a9d14663cba9f4d-dirty
author jpayne
date Tue, 07 May 2019 16:12:09 -0400
parents d273453b30bb
children e90a783a4e8b
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46:d273453b30bb 47:1667e4c08344
1 <tool id="map_reads" name="1. Map Reads" version="1.0.1" profile="16.10"> 1 <tool id="map_reads" name="1. Map Reads" version="1.0.1" profile="16.10">
2 <description>to index, or lookup cached alignment</description> 2 <description>to index, or lookup cached alignment</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.0.6">bzip2</requirement> 4 <requirement type="package" version="1.0.6">bzip2</requirement>
5 <requirement type="package" version="2.3.4">bowtie2</requirement> 5 <requirement type="package" version="2.3.4">bowtie2</requirement>
6 <requirement type="package" version="1.5.11">boto3</requirement> 6 <requirement type="package" version="1.9.134">boto3</requirement>
7 <requirement type="package" version="3.6.0">python</requirement> 7 <requirement type="package" version="3.7.3">python</requirement>
8 </requirements> 8 </requirements>
9 <command detect_errors="exit_code"><![CDATA[ 9 <command detect_errors="exit_code"><![CDATA[
10 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" && 10 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" &&
11 #if $reads.reads_select == 'collection' 11 #if $reads.reads_select == 'collection'
12 #set forward=$reads.coll.forward 12 #set forward=$reads.coll.forward