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biopet.biopet
Commits
4842dd5c
Commit
4842dd5c
authored
Feb 05, 2015
by
Peter van 't Hof
Browse files
output name is now config value
parent
fb215ab1
Changes
1
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protected/biopet-gatk-pipelines/src/main/scala/nl/lumc/sasc/biopet/pipelines/gatk/GatkVariantcalling.scala
View file @
4842dd5c
...
...
@@ -50,7 +50,7 @@ class GatkVariantcalling(val root: Configurable) extends QScript with BiopetQScr
def
init
()
{
if
(
outputName
==
null
&&
sampleID
!=
null
)
outputName
=
sampleID
else
if
(
outputName
==
null
)
outputName
=
"noname"
else
if
(
outputName
==
null
)
outputName
=
config
(
"output_name"
,
default
=
"noname"
)
if
(
outputDir
==
null
)
throw
new
IllegalStateException
(
"Missing Output directory on gatk module"
)
else
if
(!
outputDir
.
endsWith
(
"/"
))
outputDir
+=
"/"
...
...
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