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biopet.biopet
Commits
b14d290d
Commit
b14d290d
authored
Jun 16, 2015
by
Wai Yi Leung
Browse files
Add mergejob
parent
07c70b86
Changes
1
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Inline
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public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsTrait.scala
View file @
b14d290d
...
@@ -251,11 +251,12 @@ trait GearsTrait extends MultiSampleQScript with SummaryQScript { qscript =>
...
@@ -251,11 +251,12 @@ trait GearsTrait extends MultiSampleQScript with SummaryQScript { qscript =>
if
(
inFiles
.
size
==
1
)
inFiles
.
head
if
(
inFiles
.
size
==
1
)
inFiles
.
head
else
{
else
{
val
mergedBam
=
createFile
(
".merged.bam"
)
val
mergedBam
=
createFile
(
".merged.bam"
)
val
job
=
new
MergeSamFiles
(
qscript
)
val
mergejob
=
new
MergeSamFiles
(
qscript
)
job
.
input
=
inFiles
mergejob
.
input
=
inFiles
job
.
output
=
mergedBam
mergejob
.
output
=
mergedBam
job
.
sortOrder
=
mergeSortOrder
mergejob
.
sortOrder
=
mergeSortOrder
job
.
output
add
(
mergejob
)
mergejob
.
output
}
}
}
}
...
...
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