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biopet.biopet
Commits
261ebe2a
Commit
261ebe2a
authored
Apr 07, 2017
by
Peter van 't Hof
Committed by
GitHub
Apr 07, 2017
Browse files
Merge pull request #61 from biopet/fix-BIOPET-638
Set threads for QcCommand lower
parents
63c00a91
faf87971
Changes
1
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Inline
Side-by-side
flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/Flexiprep.scala
View file @
261ebe2a
...
...
@@ -230,6 +230,7 @@ class Flexiprep(val parent: Configurable) extends QScript with SummaryQScript wi
pipe
.
deps
::=
fastqcR2
.
output
pipe
.
deps
::=
R1_in
pipe
.
deps
::=
R2_in
.
get
pipe
.
nCoresRequest
=
Some
(
4
)
pipe
.
isIntermediate
=
!
keepQcFastqFiles
addSummarizable
(
pipe
,
"qc_cmd"
)
add
(
pipe
)
...
...
@@ -239,6 +240,7 @@ class Flexiprep(val parent: Configurable) extends QScript with SummaryQScript wi
R1
=
fqSync
.
outputFastq1
R2
=
Some
(
fqSync
.
outputFastq2
)
}
else
{
qcCmdR1
.
nCoresRequest
=
Some
(
2
)
add
(
qcCmdR1
)
R1
=
qcCmdR1
.
output
}
...
...
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