Commit 74efe128 authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Unmask pipelines and tools

parent 1572cb02
......@@ -7,7 +7,7 @@ package nl.lumc.sasc.biopet.core
object BiopetExecutableProtected extends BiopetExecutable {
def pipelines: List[MainCommand] = BiopetExecutablePublic.pipelines ::: List(
//nl.lumc.sasc.biopet.pipelines.gatk.GatkBenchmarkGenotyping,
nl.lumc.sasc.biopet.pipelines.gatk.GatkBenchmarkGenotyping,
nl.lumc.sasc.biopet.pipelines.gatk.GatkGenotyping,
nl.lumc.sasc.biopet.pipelines.gatk.GatkVariantcalling,
nl.lumc.sasc.biopet.pipelines.gatk.GatkPipeline,
......
......@@ -19,9 +19,9 @@ object BiopetExecutablePublic extends BiopetExecutable {
def pipelines: List[MainCommand] = List(
nl.lumc.sasc.biopet.pipelines.flexiprep.Flexiprep,
nl.lumc.sasc.biopet.pipelines.mapping.Mapping,
//nl.lumc.sasc.biopet.pipelines.gentrap.Gentrap,
nl.lumc.sasc.biopet.pipelines.gentrap.Gentrap,
nl.lumc.sasc.biopet.pipelines.bammetrics.BamMetrics,
//nl.lumc.sasc.biopet.pipelines.yamsvp.Yamsvp,
nl.lumc.sasc.biopet.pipelines.yamsvp.Yamsvp,
nl.lumc.sasc.biopet.pipelines.sage.Sage
)
......@@ -41,6 +41,6 @@ object BiopetExecutablePublic extends BiopetExecutable {
nl.lumc.sasc.biopet.tools.SageCreateLibrary,
nl.lumc.sasc.biopet.tools.SageCreateTagCounts,
nl.lumc.sasc.biopet.tools.BastyGenerateFasta,
//nl.lumc.sasc.biopet.tools.MergeAlleles,
nl.lumc.sasc.biopet.tools.MergeAlleles,
nl.lumc.sasc.biopet.tools.SamplesTsvToJson)
}
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