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biopet.biopet
Commits
5750c33e
Commit
5750c33e
authored
Dec 01, 2014
by
Peter van 't Hof
Browse files
Fix for #90
parent
016ba380
Changes
1
Hide whitespace changes
Inline
Side-by-side
public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/BiopetExecutable.scala
View file @
5750c33e
package
nl.lumc.sasc.biopet.core
import
java.io.
{
PrintWriter
,
StringWriter
}
import
java.util.Properties
import
nl.lumc.sasc.biopet.core.BiopetExecutable._
import
org.apache.log4j.Logger
...
...
@@ -70,15 +71,33 @@ trait BiopetExecutable extends Logging {
println
(
getLicense
)
}
case
Array
(
module
,
name
,
passArgs
@
_
*)
=>
{
getCommand
(
module
,
name
).
main
(
passArgs
.
toArray
)
try
{
getCommand
(
module
,
name
).
main
(
passArgs
.
toArray
)
}
catch
{
case
e
:
Exception
=>
{
val
sWriter
=
new
StringWriter
()
val
pWriter
=
new
PrintWriter
(
sWriter
)
e
.
printStackTrace
(
pWriter
)
pWriter
.
close
()
val
trace
=
(
sWriter
.
toString
.
split
(
"\n"
))
if
(!
logger
.
isDebugEnabled
)
{
logger
.
error
(
trace
.
head
)
logger
.
error
(
"For more info please run with -l debug"
)
}
else
{
trace
.
foreach
(
logger
.
debug
(
_
))
}
sys
.
exit
(
1
)
}
}
}
case
Array
(
module
)
=>
{
System
.
err
.
println
(
usage
(
module
))
S
ys
tem
.
exit
(
1
)
s
ys
.
exit
(
1
)
}
case
_
=>
{
System
.
err
.
println
(
usage
())
S
ys
tem
.
exit
(
1
)
s
ys
.
exit
(
1
)
}
}
}
...
...
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