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comparison strelka.xml @ 14:ca84a74ff567

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corriging bug in environment variable
author mini
date Wed, 01 Oct 2014 12:21:13 +0200
parents f66f23fcc83a
children ae516605f4a5
comparison
equal deleted inserted replaced
12:3421b0fbec61 14:ca84a74ff567
1 <tool id="strelka" name="Strelka"> 1 <tool id="strelka" name="Strelka">
2 <!-- Made by Gregoire Seguin-Henry for geviteam in 2014 --> 2 <!-- Made by Gregoire Seguin-Henry for geviteam in 2014 -->
3 <description>Strelka</description> 3 <description>Strelka</description>
4 <requirements> 4 <requirements>
5 <requirement type="set_environment">SCRIPT_PATH</requirement> 5 <requirement type="set_environment">SCRIPT_PATH_STRELKA</requirement>
6 <requirement type="package" version="0.1.18">samtools</requirement> 6 <requirement type="package" version="0.1.18">samtools</requirement>
7 <requirement type="package" version="0.1.11">vcftools</requirement> 7 <requirement type="package" version="0.1.11">vcftools</requirement>
8 </requirements> 8 </requirements>
9 <command interpreter="python">strelka_wrapper.py --tumorBam $tumorBam --normalBam $normalBam --refFile $refFile 9 <command interpreter="python">strelka_wrapper.py --tumorBam $tumorBam --normalBam $normalBam --refFile $refFile
10 #if $configuration.configuration_switch == 'Default': 10 #if $configuration.configuration_switch == 'Default':