Commit f26c4004 authored by bow's avatar bow

Merge branch 'fix-varscan_threads' into 'develop'

Reduce threads for varscan

Reduce over scheduling of threads for varscan

See merge request !446
parents 9ed130e8 ca53b210
......@@ -60,7 +60,9 @@ class VarscanCnsSingleSample(val root: Configurable) extends Variantcaller {
val varscan = new VarscanMpileup2cns(this)
varscan.vcfSampleList = Some(sampleFile)
add(mpileup | new FixMpileup(this) | varscan | new Bgzip(this) > sampleVcf)
val variantcallingJob = mpileup | new FixMpileup(this) | varscan | new Bgzip(this) > sampleVcf
variantcallingJob.threadsCorrection = -2
add(variantcallingJob)
add(Tabix(this, sampleVcf))
sampleVcf
......
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