Skip to content
Snippets Groups Projects
Commit dd9b9bb9 authored by bow's avatar bow
Browse files

Move custom RScript wrapper to Gentrap directory

parent 7dd62911
No related branches found
No related tags found
No related merge requests found
Hide whitespace changes
Inline Side-by-side
Showing
with 7 additions and 8 deletions
public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/RscriptCommandLineFunction.scala → public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/extensions/RscriptCommandLineFunction.scala
+ 4
− 5
View file @ dd9b9bb9
......@@ -4,13 +4,12 @@
* @author Wibowo Arindrarto
*/
package nl.lumc.sasc.biopet.extensions
package nl.lumc.sasc.biopet.pipelines.gentrap.extensions
import java.io.{File, FileOutputStream}
import java.io.FileOutputStream
import java.io.File
import org.broadinstitute.gatk.utils.commandline.{ Input }
import nl.lumc.sasc.biopet.core.BiopetCommandLineFunction
import scala.collection.JavaConversions._
import org.broadinstitute.gatk.utils.commandline.Input
/**
* Trait for RScript wrappers
......
public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/scripts/AggrBaseCount.scala
+ 1
− 1
View file @ dd9b9bb9
......@@ -9,7 +9,7 @@ package nl.lumc.sasc.biopet.pipelines.gentrap.scripts
import java.io.File
import nl.lumc.sasc.biopet.core.config.Configurable
import nl.lumc.sasc.biopet.extensions.RScriptCommandLineFunction
import nl.lumc.sasc.biopet.pipelines.gentrap.extensions.RScriptCommandLineFunction
import org.broadinstitute.gatk.utils.commandline.{ Input, Output }
/**
......
public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/scripts/PlotHeatmap.scala
+ 1
− 1
View file @ dd9b9bb9
......@@ -9,7 +9,7 @@ package nl.lumc.sasc.biopet.pipelines.gentrap.scripts
import java.io.File
import nl.lumc.sasc.biopet.core.config.Configurable
import nl.lumc.sasc.biopet.extensions.RScriptCommandLineFunction
import nl.lumc.sasc.biopet.pipelines.gentrap.extensions.RScriptCommandLineFunction
import org.broadinstitute.gatk.utils.commandline.{ Input, Output }
/**
......
public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/scripts/PlotPca.scala
+ 1
− 1
View file @ dd9b9bb9
......@@ -9,7 +9,7 @@ package nl.lumc.sasc.biopet.pipelines.gentrap.scripts
import java.io.File
import nl.lumc.sasc.biopet.core.config.Configurable
import nl.lumc.sasc.biopet.extensions.RScriptCommandLineFunction
import nl.lumc.sasc.biopet.pipelines.gentrap.extensions.RScriptCommandLineFunction
import org.broadinstitute.gatk.utils.commandline.{ Input, Output }
/**
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment