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biopet.biopet
Commits
339c0413
Commit
339c0413
authored
Nov 27, 2015
by
Peter van 't Hof
Browse files
Fix bcftools executeables
parent
7aeda35f
Changes
3
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public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Tabix.scala
View file @
339c0413
...
...
@@ -56,7 +56,7 @@ class Tabix(val root: Configurable) extends BiopetCommandLineFunction with Versi
var
l
:
Boolean
=
config
(
"l"
,
default
=
false
)
var
f
:
Boolean
=
config
(
"f"
,
default
=
false
)
executable
=
config
(
"exe"
,
default
=
"tabix"
)
executable
=
config
(
"exe"
,
default
=
"tabix"
,
freeVar
=
false
)
def
versionCommand
=
executable
def
versionRegex
=
"""Version: (.*)"""
.
r
...
...
public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/bcftools/Bcftools.scala
View file @
339c0413
...
...
@@ -19,7 +19,7 @@ import nl.lumc.sasc.biopet.core.{ Version, BiopetCommandLineFunction }
abstract
class
Bcftools
extends
BiopetCommandLineFunction
with
Version
{
override
def
subPath
=
"bcftools"
::
super
.
subPath
executable
=
config
(
"exe"
,
default
=
"bcftools"
)
executable
=
config
(
"exe"
,
default
=
"bcftools"
,
submodule
=
"bcftools"
,
freeVar
=
false
)
def
versionCommand
=
executable
def
versionRegex
=
"""Version: (.*)"""
.
r
override
def
versionExitcode
=
List
(
0
,
1
)
...
...
public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/samtools/Samtools.scala
View file @
339c0413
...
...
@@ -20,7 +20,7 @@ import nl.lumc.sasc.biopet.core.{ Version, BiopetCommandLineFunction }
/** General class for samtools extensions */
abstract
class
Samtools
extends
BiopetCommandLineFunction
with
Version
{
override
def
subPath
=
"samtools"
::
super
.
subPath
executable
=
config
(
"exe"
,
default
=
"samtools"
)
executable
=
config
(
"exe"
,
default
=
"samtools"
,
submodule
=
"samtools"
,
freeVar
=
false
)
def
versionCommand
=
executable
def
versionRegex
=
"""Version: (.*)"""
.
r
override
def
versionExitcode
=
List
(
0
,
1
)
...
...
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