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biopet.biopet
Commits
22201b39
Commit
22201b39
authored
Dec 29, 2015
by
Peter van 't Hof
Browse files
Fix createFile method
parent
b9f9c369
Changes
1
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Inline
Side-by-side
public/biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/MultiSampleQScript.scala
View file @
22201b39
...
...
@@ -64,12 +64,12 @@ trait MultiSampleQScript extends SummaryQScript { qscript: QScript =>
}
/** Creates a library file with given suffix */
def
createFile
(
suffix
:
String
)
:
File
=
new
File
(
libDir
,
sampleId
+
"-"
+
libId
+
suffix
)
def
createFile
(
suffix
:
String
)
:
File
=
new
File
(
libDir
,
s
"$
sampleId
-$
libId
.$
suffix
"
)
/** Returns library directory */
def
libDir
=
new
File
(
sampleDir
,
"lib_"
+
libId
)
lazy
val
g
roups
:
List
[
String
]
=
config
(
"groups"
,
sample
=
sampleId
,
library
=
libId
)
lazy
val
libG
roups
:
List
[
String
]
=
config
(
"groups"
,
sample
=
sampleId
,
library
=
libId
)
/** Function that add library jobs */
protected
def
addJobs
()
...
...
@@ -115,7 +115,7 @@ trait MultiSampleQScript extends SummaryQScript { qscript: QScript =>
g
}
lazy
val
g
roups
:
List
[
String
]
=
config
(
"groups"
,
sample
=
sampleId
,
library
=
null
)
lazy
val
sampleG
roups
:
List
[
String
]
=
config
(
"groups"
,
sample
=
sampleId
,
library
=
null
)
/**
* Factory method for Library class
...
...
@@ -155,7 +155,7 @@ trait MultiSampleQScript extends SummaryQScript { qscript: QScript =>
}
/** Creates a sample file with given suffix */
def
createFile
(
suffix
:
String
)
=
new
File
(
sampleDir
,
sampleId
+
suffix
)
def
createFile
(
suffix
:
String
)
=
new
File
(
sampleDir
,
s
"$
sampleId
.$
suffix
"
)
/** Returns sample directory */
def
sampleDir
=
new
File
(
outputDir
,
"samples"
+
File
.
separator
+
sampleId
)
...
...
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