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biopet.biopet
Commits
7be30c47
Commit
7be30c47
authored
Sep 26, 2016
by
Sander Bollen
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this is in vep_normalizer
parent
2c1fb614
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toucan/src/main/scala/nl/lumc/sasc/biopet/pipelines/toucan/Toucan.scala
...n/scala/nl/lumc/sasc/biopet/pipelines/toucan/Toucan.scala
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toucan/src/main/scala/nl/lumc/sasc/biopet/pipelines/toucan/Toucan.scala
View file @
7be30c47
...
...
@@ -92,7 +92,7 @@ class Toucan(val root: Configurable) extends QScript with BiopetQScript with Sum
}
else
inputVcf
if
(
enableScatter
)
{
val
doNotRemove
:
Boolean
=
config
(
"do_not_remove"
,
namespace
=
"variant_effect_predictor"
,
default
=
false
)
val
doNotRemove
:
Boolean
=
config
(
"do_not_remove"
,
default
=
false
)
if
(
doNotRemove
)
{
logger
.
warn
(
"Chunking combined with do_not_remove possibly leads to mangled CSQ fields"
)
}
...
...
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