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biopet.biopet
Commits
8d9d194b
Commit
8d9d194b
authored
Dec 18, 2015
by
Peter van 't Hof
Browse files
Simplify
parent
182c68fa
Changes
1
Hide whitespace changes
Inline
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public/mapping/src/main/scala/nl/lumc/sasc/biopet/pipelines/mapping/Mapping.scala
View file @
8d9d194b
...
...
@@ -447,7 +447,7 @@ class Mapping(val root: Configurable) extends QScript with SummaryQScript with S
bowtie2
.
rg
+:=
(
"PU:"
+
platformUnit
)
bowtie2
.
rg
+:=
(
"SM:"
+
sampleId
.
get
)
bowtie2
.
R1
=
R1
if
(
paired
)
bowtie2
.
R2
=
Some
(
R2
.
get
)
bowtie2
.
R2
=
R2
val
sortSam
=
new
SortSam
(
this
)
sortSam
.
output
=
output
val
pipe
=
bowtie2
|
sortSam
...
...
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