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comparison align_and_estimate_abundance.xml @ 8:28f6d3b8e931 draft

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Adjusting requirements.
author trinity_ctat
date Tue, 26 Sep 2017 14:54:33 -0400
parents 78d12a725443
children 2e0e45063fad
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7:78d12a725443 8:28f6d3b8e931
3 <description>run RSEM to estimate transcript abundances</description> 3 <description>run RSEM to estimate transcript abundances</description>
4 4
5 <requirements> 5 <requirements>
6 <requirement type="package" version="2.7">python</requirement> 6 <requirement type="package" version="2.7">python</requirement>
7 <requirement type="package" version="2.4.0">trinity</requirement> 7 <requirement type="package" version="2.4.0">trinity</requirement>
8 <requirement type="package" version="2">bowtie</requirement> 8 <requirement type="package">bowtie2</requirement>
9 <requirement type="package" >samtools</requirement> 9 <requirement type="package">samtools</requirement>
10 <!-- <requirement type="package" >express</requirement> --> 10 <requirement type="package">rsem</requirement>
11 <requirement type="package" >rsem</requirement>
12 </requirements> 11 </requirements>
13 12
14 <command interpreter="python"> 13 <command interpreter="python">
15 <![CDATA[ 14 <![CDATA[
16 trinityToolWrapper.py util/align_and_estimate_abundance.pl --transcripts $transcripts --est_method RSEM --aln_method bowtie --trinity_mode --prep_reference --output_dir "subdir" 15 trinityToolWrapper.py util/align_and_estimate_abundance.pl --transcripts $transcripts --est_method RSEM --aln_method bowtie --trinity_mode --prep_reference --output_dir "subdir"