Mercurial > repos > jpayne > snp_pipeline

comparison 1_map_reads.xml @ 58:d53281e6edae

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload
author jpayne
date Mon, 17 Jun 2024 02:57:10 -0400
parents e90a783a4e8b
children 49d672730d3e
comparison
equal deleted inserted replaced
57:d3095ad12f24 58:d53281e6edae
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 <container type="docker">quay.io/biocontainers/mulled-v2-d736175c8392ecaa2a26c372df9ad15b78f8d5b8:d59a38d618c862df52cf9dae223ed9d93ed7225b-0</container>
5 <requirement type="package" version="2.3.5">bowtie2</requirement> 5 <requirement type="package" version="1.0.8">bzip2</requirement>
6 <requirement type="package" version="2.4.5">bowtie2</requirement>
6 <requirement type="package" version="1.9.134">boto3</requirement> 7 <requirement type="package" version="1.9.134">boto3</requirement>
7 <requirement type="package" version="3.6.8">python</requirement> 8 <!-- <requirement type="package" version="3.6.8">python</requirement> -->
8 </requirements> 9 </requirements>
9 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
10 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" && 11 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" &&
11 #if $reads.reads_select == 'collection' 12 #if $reads.reads_select == 'collection'
12 #set forward=$reads.coll.forward 13 #set forward=$reads.coll.forward