Change default threads to 1

biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/HaplotypeCaller.scala

@@ -11,7 +11,7 @@ class HaplotypeCaller(val root: Configurable) extends org.broadinstitute.gatk.qu
     if (config.contains("scattercount")) scatterCount = config("scattercount")
     if (config.contains("dbsnp")) this.dbsnp = config("dbsnp")
     this.sample_ploidy = config("ploidy")
-    nct = config("threads", default = 3)
+    nct = config("threads", default = 1)
     bamOutput = config("bamOutput")
     memoryLimit = Option(nct.getOrElse(1) * 2)
     if (config.contains("allSitePLs")) this.allSitePLs = config("allSitePLs")

biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/UnifiedGenotyper.scala

@@ -10,7 +10,7 @@ class UnifiedGenotyper(val root: Configurable) extends org.broadinstitute.gatk.q
     if (config.contains("scattercount")) scatterCount = config("scattercount")
     if (config.contains("dbsnp")) this.dbsnp = config("dbsnp")
     this.sample_ploidy = config("ploidy")
-    nct = config("threads", default = 3)
+    nct = config("threads", default = 1)
     memoryLimit = Option(nct.getOrElse(1) * 2)
     if (config.contains("allSitePLs")) this.allSitePLs = config("allSitePLs")
     if (config.contains("output_mode")) {