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biopet.biopet
Commits
2c8b6f02
Commit
2c8b6f02
authored
Nov 23, 2015
by
Peter van 't Hof
Browse files
Added module to config value
parent
04f343cb
Changes
1
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public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaVariantcallingTrait.scala
View file @
2c8b6f02
...
...
@@ -88,8 +88,8 @@ trait ShivaVariantcallingTrait extends SummaryQScript
caller
.
inputBams
=
inputBams
add
(
caller
)
addStats
(
caller
.
outputFile
,
caller
.
name
)
val
normalize
:
Boolean
=
config
(
"execute_vt_normalize"
,
default
=
false
)
val
decompose
:
Boolean
=
config
(
"execute_vt_decompose"
,
default
=
false
)
val
normalize
:
Boolean
=
config
(
"execute_vt_normalize"
,
default
=
false
,
submodule
=
caller
.
configName
)
val
decompose
:
Boolean
=
config
(
"execute_vt_decompose"
,
default
=
false
,
submodule
=
caller
.
configName
)
val
vtNormalize
=
new
VtNormalize
(
this
)
vtNormalize
.
inputVcf
=
caller
.
outputFile
...
...
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