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Commit 1eb69dfa authored by Peter van 't Hof's avatar Peter van 't Hof Committed by GitHub
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Merge branch 'develop' into fix-BIOPET-641

parents 58575df3 261ebe2a
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flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/Flexiprep.scala
View file @ 1eb69dfa
...@@ -230,6 +230,7 @@ class Flexiprep(val parent: Configurable) extends QScript with SummaryQScript wi ...@@ -230,6 +230,7 @@ class Flexiprep(val parent: Configurable) extends QScript with SummaryQScript wi
pipe.deps ::= fastqcR2.output pipe.deps ::= fastqcR2.output
pipe.deps ::= R1_in pipe.deps ::= R1_in
pipe.deps ::= R2_in.get pipe.deps ::= R2_in.get
pipe.nCoresRequest = Some(4)
pipe.isIntermediate = !keepQcFastqFiles pipe.isIntermediate = !keepQcFastqFiles
addSummarizable(pipe, "qc_cmd") addSummarizable(pipe, "qc_cmd")
add(pipe) add(pipe)
...@@ -239,6 +240,7 @@ class Flexiprep(val parent: Configurable) extends QScript with SummaryQScript wi ...@@ -239,6 +240,7 @@ class Flexiprep(val parent: Configurable) extends QScript with SummaryQScript wi
R1 = fqSync.outputFastq1 R1 = fqSync.outputFastq1
R2 = Some(fqSync.outputFastq2) R2 = Some(fqSync.outputFastq2)
} else { } else {
qcCmdR1.nCoresRequest = Some(2)
add(qcCmdR1) add(qcCmdR1)
R1 = qcCmdR1.output R1 = qcCmdR1.output
} }
......
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