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biopet.biopet
Commits
cd66d051
Commit
cd66d051
authored
Aug 26, 2014
by
Peter van 't Hof
Browse files
Fix deps for prefix Job
parent
d1991c9e
Changes
1
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biopet-framework/src/main/scala/nl/lumc/sasc/biopet/pipelines/sage/Sage.scala
View file @
cd66d051
...
...
@@ -89,6 +89,7 @@ class Sage(val root: Configurable) extends QScript with MultiSampleQScript {
val
flexiprepOutput
=
for
((
key
,
file
)
<-
flexiprep
.
outputFiles
if
key
.
endsWith
(
"output_R1"
))
yield
file
val
prefixFastq
=
PrefixFastq
.
apply
(
this
,
flexiprepOutput
.
head
,
runDir
)
prefixFastq
.
prefix
=
config
(
"sage_tag"
,
default
=
"CATG"
)
prefixFastq
.
deps
+:=
flexiprep
.
outputFiles
(
"fastq_input_R1"
)
add
(
prefixFastq
)
outputFiles
+=
(
"prefix_fastq"
->
prefixFastq
.
output
)
...
...
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