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biopet.biopet
Commits
4d81e180
Commit
4d81e180
authored
Jul 25, 2017
by
pjvan_thof
Browse files
Adding merged file to summary
parent
ee4de907
Changes
1
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Inline
Side-by-side
gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/measures/Stringtie.scala
View file @
4d81e180
...
...
@@ -44,12 +44,15 @@ class Stringtie(val parent: Configurable) extends QScript with Measurement with
val
stringtieMerge
=
new
StringtieMerge
(
this
)
stringtieMerge
.
inputGtfs
=
sampleGtfFiles
stringtieMerge
.
referenceGtf
=
Some
(
annotationGtf
)
stringtieMerge
.
outputGtf
=
new
File
(
outputDir
,
"
stringtie
.m
erge
d.gtf"
)
stringtieMerge
.
outputGtf
=
stringtie
M
erge
Output
add
(
stringtieMerge
)
addSummaryJobs
()
}
def
stringtieMergeOutput
:
File
=
new
File
(
outputDir
,
"stringtie.merged.gtf"
)
override
def
summaryFiles
:
Map
[
String
,
File
]
=
super
.
summaryFiles
++
Map
(
"annotation_gtf"
->
annotationGtf
)
super
.
summaryFiles
++
Map
(
"annotation_gtf"
->
annotationGtf
,
"stringtie_merged"
->
stringtieMergeOutput
)
}
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