Commit b605f886 authored by Sander van der Zeeuw's avatar Sander van der Zeeuw
Browse files

fix for checking if fai is present if not stop running

parent 9277fce1
......@@ -16,6 +16,7 @@ trait GatkGeneral extends CommandLineGATK with BiopetJavaCommandLineFunction wit
jarFile = config("gatk_jar")
override def defaultCoreMemory = 4.0
override def faiRequired = true
if (config.contains("intervals")) intervals = config("intervals").asFileList
if (config.contains("exclude_intervals")) excludeIntervals = config("exclude_intervals").asFileList
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