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biopet.biopet
Commits
29b937d4
Commit
29b937d4
authored
Jul 18, 2017
by
Peter van 't Hof
Browse files
Fix style
parent
c1c70187
Changes
1
Hide whitespace changes
Inline
Side-by-side
biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/vcfstats/VcfStatsSpark.scala
View file @
29b937d4
...
...
@@ -151,12 +151,13 @@ object VcfStatsSpark extends ToolCommand {
val
chrStats
=
regionStats
.
combineByKey
(
createCombiner
=
(
x
:
(
Stats
,
BedRecord
))
=>
x
.
_1
,
mergeValue
=
(
x
:
Stats
,
b
:
(
Stats
,
BedRecord
))
=>
x
+=
b
.
_1
,
mergeCombiners
=
(
x
:
Stats
,
y
:
Stats
)
=>
x
+=
y
,
mergeValue
=
(
x
:
Stats
,
b
:
(
Stats
,
BedRecord
))
=>
x
+=
b
.
_1
,
mergeCombiners
=
(
x
:
Stats
,
y
:
Stats
)
=>
x
+=
y
,
partitioner
=
new
HashPartitioner
(
contigs
.
size
),
mapSideCombine
=
true
)
mapSideCombine
=
true
)
val
totalStats
=
chrStats
.
aggregate
(
Stats
.
emptyStats
(
samples
))
(
_
+=
_
.
_2
,
_
+=
_
)
val
totalStats
=
chrStats
.
aggregate
(
Stats
.
emptyStats
(
samples
))(
_
+=
_
.
_2
,
_
+=
_
)
val
allWriter
=
new
PrintWriter
(
new
File
(
cmdArgs
.
outputDir
,
"stats.json"
))
val
json
=
ConfigUtils
.
mapToJson
(
...
...
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