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biopet.biopet
Commits
6f07dcdc
Commit
6f07dcdc
authored
Mar 14, 2015
by
Peter van 't Hof
Browse files
Fix args in queue extension
parent
c5e27ef2
Changes
1
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Inline
Side-by-side
public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/SageCreateLibrary.scala
View file @
6f07dcdc
...
...
@@ -56,8 +56,8 @@ class SageCreateLibrary(val root: Configurable) extends BiopetJavaCommandLineFun
required
(
"-I"
,
input
)
+
optional
(
"--tag"
,
tag
)
+
optional
(
"--length"
,
length
)
+
optional
(
"--no
t
ag"
,
noTagsOutput
)
+
optional
(
"--no
a
nti
t
ag"
,
noAntiTagsOutput
)
+
optional
(
"--no
T
ag
sOutput
"
,
noTagsOutput
)
+
optional
(
"--no
A
nti
T
ag
sOutput
"
,
noAntiTagsOutput
)
+
required
(
"-o"
,
output
)
}
...
...
@@ -84,7 +84,7 @@ object SageCreateLibrary extends ToolCommand {
opt
[
File
](
"noAntiTagsOutput"
)
required
()
unbounded
()
valueName
(
"<file>"
)
action
{
(
x
,
c
)
=>
c
.
copy
(
noAntiTagsOutput
=
x
)
}
opt
[
File
](
"allGenesOutput"
)
required
()
unbounded
()
valueName
(
"<file>"
)
action
{
(
x
,
c
)
=>
opt
[
File
](
"allGenesOutput"
)
unbounded
()
valueName
(
"<file>"
)
action
{
(
x
,
c
)
=>
c
.
copy
(
allGenesOutput
=
x
)
}
}
...
...
@@ -207,4 +207,4 @@ object SageCreateLibrary extends ToolCommand {
return
result
}
}
}
\ No newline at end of file
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