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biopet.biopet
Commits
6d672983
Commit
6d672983
authored
Apr 20, 2017
by
pjvan_thof
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Fixing temp files
parent
d2c7fc48
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shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/Shiva.scala
...ain/scala/nl/lumc/sasc/biopet/pipelines/shiva/Shiva.scala
+1
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shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/Shiva.scala
View file @
6d672983
...
...
@@ -187,7 +187,7 @@ class Shiva(val parent: Configurable) extends QScript with MultisampleMappingTra
Some
(
makeVariantcalling
(
multisample
=
false
,
sample
=
Some
(
sampleId
)))
}
else
None
override
def
keepMergedFiles
:
Boolean
=
config
(
"keep_merged_files"
,
default
=
!
useIndelRealigner
)
override
def
keepMergedFiles
:
Boolean
=
config
(
"keep_merged_files"
,
default
=
!
useIndelRealigner
||
(
libraries
.
size
==
1
)
)
lazy
val
useIndelRealigner
:
Boolean
=
config
(
"use_indel_realigner"
,
default
=
true
)
...
...
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