Commit c5669b7b authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Fixed wrong job

parent 6e2abf91
......@@ -2,7 +2,7 @@ package nl.lumc.sasc.biopet.pipelines.gears
import nl.lumc.sasc.biopet.core.{ PipelineCommand, MultiSampleQScript }
import nl.lumc.sasc.biopet.extensions.Ln
import nl.lumc.sasc.biopet.extensions.qiime.MergeOtuTables
import nl.lumc.sasc.biopet.extensions.qiime.{MergeOtuMaps, MergeOtuTables}
import nl.lumc.sasc.biopet.utils.Logging
import nl.lumc.sasc.biopet.utils.config.Configurable
import org.broadinstitute.gatk.queue.QScript
......@@ -51,7 +51,7 @@ class Gears(val root: Configurable) extends QScript with MultiSampleQScript { qs
mergeTables.outputFile = closedOtuTable
add(mergeTables)
val mergeMaps = new MergeOtuTables(qscript)
val mergeMaps = new MergeOtuMaps(qscript)
mergeMaps.input = closedOtuMaps
mergeMaps.outputFile = closedOtuMap
add(mergeMaps)
......@@ -126,7 +126,7 @@ class Gears(val root: Configurable) extends QScript with MultiSampleQScript { qs
mergeTables.outputFile = _closedOtuTable.get
add(mergeTables)
val mergeMaps = new MergeOtuTables(qscript)
val mergeMaps = new MergeOtuMaps(qscript)
mergeMaps.input = qiimeClosed.map(_.otuMap).toList
mergeMaps.outputFile = _closedOtuMap.get
add(mergeMaps)
......
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