Commit 9d3bdc2a authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Fix gears in executables

parent e667ee49
......@@ -6,7 +6,7 @@
package nl.lumc.sasc.biopet.core
object BiopetExecutableProtected extends BiopetExecutable {
def pipelines: List[MainCommand] = BiopetExecutablePublic.protectedPipelines ::: List(
def pipelines: List[MainCommand] = BiopetExecutablePublic.pipelines ::: List(
nl.lumc.sasc.biopet.pipelines.gatk.Shiva,
nl.lumc.sasc.biopet.pipelines.gatk.ShivaVariantcalling,
nl.lumc.sasc.biopet.pipelines.gatk.Basty)
......
......@@ -16,7 +16,7 @@
package nl.lumc.sasc.biopet.core
object BiopetExecutablePublic extends BiopetExecutable {
def protectedPipelines: List[MainCommand] = List(
def publicPipelines: List[MainCommand] = List(
nl.lumc.sasc.biopet.pipelines.flexiprep.Flexiprep,
nl.lumc.sasc.biopet.pipelines.mapping.Mapping,
nl.lumc.sasc.biopet.pipelines.gentrap.Gentrap,
......@@ -25,15 +25,15 @@ object BiopetExecutablePublic extends BiopetExecutable {
nl.lumc.sasc.biopet.pipelines.bamtobigwig.Bam2Wig,
nl.lumc.sasc.biopet.pipelines.carp.Carp,
nl.lumc.sasc.biopet.pipelines.toucan.Toucan,
nl.lumc.sasc.biopet.pipelines.shiva.ShivaSvCalling
nl.lumc.sasc.biopet.pipelines.shiva.ShivaSvCalling,
nl.lumc.sasc.biopet.pipelines.gears.Gears
)
def pipelines: List[MainCommand] = List(
nl.lumc.sasc.biopet.pipelines.shiva.Shiva,
nl.lumc.sasc.biopet.pipelines.shiva.ShivaVariantcalling,
nl.lumc.sasc.biopet.pipelines.basty.Basty,
nl.lumc.sasc.biopet.pipelines.gears.Gears
) ::: protectedPipelines
nl.lumc.sasc.biopet.pipelines.basty.Basty
) ::: publicPipelines
def tools: List[MainCommand] = List(
nl.lumc.sasc.biopet.tools.MergeTables,
......
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