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biopet.biopet
Commits
290f37f6
Commit
290f37f6
authored
Oct 05, 2016
by
Peter van 't Hof
Browse files
Fix gzip
parent
a6f403df
Changes
2
Hide whitespace changes
Inline
Side-by-side
biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Gzip.scala
View file @
290f37f6
...
...
@@ -40,6 +40,8 @@ class Gzip(val root: Configurable) extends BiopetCommandLineFunction with Versio
object
Gzip
{
def
apply
(
root
:
Configurable
)
:
Gzip
=
new
Gzip
(
root
)
def
apply
(
root
:
Configurable
,
input
:
File
,
output
:
File
)
:
Gzip
=
Gzip
(
root
,
List
(
input
),
output
)
def
apply
(
root
:
Configurable
,
input
:
List
[
File
],
output
:
File
)
:
Gzip
=
{
val
gzip
=
new
Gzip
(
root
)
gzip
.
input
=
input
...
...
gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsCentrifuge.scala
View file @
290f37f6
...
...
@@ -37,7 +37,7 @@ class GearsCentrifuge(val root: Configurable) extends QScript with SummaryQScrip
centrifuge
.
isIntermediate
=
true
add
(
centrifuge
)
add
(
centrifuge
.
output
:<:
new
Gzip
(
this
)
>
centrifugeOutput
)
add
(
Gzip
(
this
,
centrifuge
.
output
,
centrifugeOutput
)
)
makeKreport
(
List
(
centrifuge
.
output
),
"centrifuge"
,
unique
=
false
)
makeKreport
(
List
(
centrifuge
.
output
),
"centrifuge_unique"
,
unique
=
true
)
...
...
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