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author Eric Badger <badger@msi.umn.edu>
date Tue, 08 Apr 2014 13:16:06 -0500
parents 6425d1da3746
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13:6425d1da3746 14:961b5bf3fcc8
1 <tool id="trinityrnaseq" name="Trinity" version="0.0.3"> 1 <tool id="trinityrnaseq-itasca" name="Trinity - Itasca BETA" version="0.0.3">
2 <!-- Written by Jeremy Goecks, now maintained here by bhaas --> 2 <!-- Written by Jeremy Goecks, now maintained here by bhaas -->
3 <description>De novo assembly of RNA-Seq data Using Trinity</description> 3 <description>De novo assembly of RNA-Seq data Using Trinity</description>
4 <requirements> 4 <requirements>
5 <requirement type="package">java</requirement> 5 <requirement type="package">java</requirement>
6 <requirement type="package" version="2013_08_14">trinityrnaseq</requirement> 6 <requirement type="package" version="2013_08_14">trinityrnaseq</requirement>
49 ## Print the stats to output to provide info on galaxy history item 49 ## Print the stats to output to provide info on galaxy history item
50 &amp;&amp; \$TRINITY_HOME/util/TrinityStats.pl trinity_out_dir/Trinity.fasta 50 &amp;&amp; \$TRINITY_HOME/util/TrinityStats.pl trinity_out_dir/Trinity.fasta
51 </command> 51 </command>
52 <inputs> 52 <inputs>
53 <param name="computenode" type="select" label="Compute node" help="Select the size of node needed"> 53 <param name="computenode" type="select" label="Compute node" help="Select the size of node needed">
54 <option value="22G">22GB - 8 cores</option> 54 <option value="21G">21GB - 8 cores</option>
55 <option value="62G">62GB - 16 cores</option> 55 <option value="58G">58GB - 16 cores</option>
56 <option value="126G">126GB - 16 cores</option> 56 <option value="125G">125GB - 16 cores</option>
57 <option value="256G">254GB - 16 cores</option> 57 <option value="253G">253GB - 16 cores</option>
58 </param> 58 </param>
59 59
60 <conditional name="inputs"> 60 <conditional name="inputs">
61 <param name="paired_or_single" type="select" label="Paired or Single-end data?"> 61 <param name="paired_or_single" type="select" label="Paired or Single-end data?">
62 <option value="paired">Paired</option> 62 <option value="paired">Paired</option>