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biopet.biopet
Commits
8b3579f3
Commit
8b3579f3
authored
Jan 06, 2017
by
Sander Bollen
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Merge branch 'fix-BIOPET-486' into 'develop'
Fixing fix-BIOPET-486 See merge request !507
parents
bae8c53d
2754750c
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shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/svcallers/Breakdancer.scala
...c/sasc/biopet/pipelines/shiva/svcallers/Breakdancer.scala
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shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/svcallers/Breakdancer.scala
View file @
8b3579f3
...
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@@ -31,6 +31,7 @@ class Breakdancer(val root: Configurable) extends SvCaller {
val
bdcfg
=
BreakdancerConfig
(
this
,
bamFile
,
new
File
(
breakdancerSampleDir
,
sample
+
".breakdancer.cfg"
))
val
breakdancer
=
BreakdancerCaller
(
this
,
bdcfg
.
output
,
new
File
(
breakdancerSampleDir
,
sample
+
".breakdancer.tsv"
))
breakdancer
.
deps
:+=
bamFile
val
bdvcf
=
BreakdancerVCF
(
this
,
breakdancer
.
output
,
new
File
(
breakdancerSampleDir
,
sample
+
".breakdancer.vcf"
),
sample
=
sample
+
sampleNameSuffix
)
...
...
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