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biopet.biopet
Commits
2ae8575e
Commit
2ae8575e
authored
Dec 13, 2015
by
Peter van 't Hof
Browse files
Fix scatter
parent
4a23415a
Changes
2
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protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/broad/HaplotypeCaller.scala
View file @
2ae8575e
...
...
@@ -8,11 +8,12 @@ package nl.lumc.sasc.biopet.extensions.gatk.broad
import
java.io.File
import
nl.lumc.sasc.biopet.utils.config.Configurable
import
org.broadinstitute.gatk.utils.commandline.Output
import
org.broadinstitute.gatk.utils.commandline.
{
Gather
,
Output
}
import
org.broadinstitute.gatk.utils.variant.GATKVCFIndexType
class
HaplotypeCaller
(
val
root
:
Configurable
)
extends
org
.
broadinstitute
.
gatk
.
queue
.
extensions
.
gatk
.
HaplotypeCaller
with
GatkGeneral
{
@Gather
(
enabled
=
false
)
@Output
(
required
=
false
)
protected
var
vcfIndex
:
File
=
_
...
...
protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/broad/UnifiedGenotyper.scala
View file @
2ae8575e
...
...
@@ -8,10 +8,11 @@ package nl.lumc.sasc.biopet.extensions.gatk.broad
import
java.io.File
import
nl.lumc.sasc.biopet.utils.config.Configurable
import
org.broadinstitute.gatk.utils.commandline.Output
import
org.broadinstitute.gatk.utils.commandline.
{
Gather
,
Output
}
class
UnifiedGenotyper
(
val
root
:
Configurable
)
extends
org
.
broadinstitute
.
gatk
.
queue
.
extensions
.
gatk
.
UnifiedGenotyper
with
GatkGeneral
{
@Gather
(
enabled
=
false
)
@Output
(
required
=
false
)
protected
var
vcfIndex
:
File
=
_
...
...
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