Commit 18936b56 authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Mask oncompleted pipelines

parent 203b60cc
...@@ -2,7 +2,7 @@ package nl.lumc.sasc.biopet.core ...@@ -2,7 +2,7 @@ package nl.lumc.sasc.biopet.core
object BiopetExecutableProtected extends BiopetExecutable { object BiopetExecutableProtected extends BiopetExecutable {
def pipelines: List[MainCommand] = BiopetExecutablePublic.pipelines ::: List( 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.GatkGenotyping,
nl.lumc.sasc.biopet.pipelines.gatk.GatkVariantcalling, nl.lumc.sasc.biopet.pipelines.gatk.GatkVariantcalling,
nl.lumc.sasc.biopet.pipelines.gatk.GatkPipeline, nl.lumc.sasc.biopet.pipelines.gatk.GatkPipeline,
......
...@@ -4,10 +4,11 @@ object BiopetExecutablePublic extends BiopetExecutable { ...@@ -4,10 +4,11 @@ object BiopetExecutablePublic extends BiopetExecutable {
def pipelines: List[MainCommand] = List( def pipelines: List[MainCommand] = List(
nl.lumc.sasc.biopet.pipelines.flexiprep.Flexiprep, nl.lumc.sasc.biopet.pipelines.flexiprep.Flexiprep,
nl.lumc.sasc.biopet.pipelines.mapping.Mapping, 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.bammetrics.BamMetrics,
nl.lumc.sasc.biopet.pipelines.sage.Sage, nl.lumc.sasc.biopet.pipelines.sage.Sage,
nl.lumc.sasc.biopet.pipelines.yamsvp.Yamsvp) //nl.lumc.sasc.biopet.pipelines.yamsvp.Yamsvp
)
def tools: List[MainCommand] = List( def tools: List[MainCommand] = List(
nl.lumc.sasc.biopet.tools.WipeReads, nl.lumc.sasc.biopet.tools.WipeReads,
......
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