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comparison strelka.xml @ 16:024468e8638c

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environment variable
author mini
date Wed, 01 Oct 2014 12:33:46 +0200
parents ae516605f4a5
children 8260a4188b08
comparison
equal deleted inserted replaced
15:ae516605f4a5 16:024468e8638c
34 --maxInputDepth $configuration.maxInputDepth 34 --maxInputDepth $configuration.maxInputDepth
35 #if $configuration.extra_arguments.extra_arguments_switch == 'Yes': 35 #if $configuration.extra_arguments.extra_arguments_switch == 'Yes':
36 --extraStrelkaArguments $configuration.extra_arguments.extraStrelkaArguments 36 --extraStrelkaArguments $configuration.extra_arguments.extraStrelkaArguments
37 #end if 37 #end if
38 #end if 38 #end if
39 --scriptPath \$SCRIPT_PATH 39 --scriptPath \$SCRIPT_PATH_STRELKA
40 </command> 40 </command>
41 41
42 <inputs> 42 <inputs>
43 <param format="bam" name="tumorBam" type="data" label="Tumor bam file"/> 43 <param format="bam" name="tumorBam" type="data" label="Tumor bam file"/>
44 <param format="bam" name="normalBam" type="data" label="Normal bam file"/> 44 <param format="bam" name="normalBam" type="data" label="Normal bam file"/>