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biopet.biopet
Commits
e0ed3259
Commit
e0ed3259
authored
Mar 12, 2015
by
Sander Bollen
Browse files
Set default h_vmem to 6GB for bedtools coverage (used ~3.5GB in test run)
parent
9d86b1ed
Changes
1
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public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/bedtools/BedtoolsCoverage.scala
View file @
e0ed3259
...
...
@@ -46,6 +46,8 @@ class BedtoolsCoverage(val root: Configurable) extends Bedtools {
if
(
input
.
getName
.
endsWith
(
".bam"
))
inputTag
=
"-abam"
}
override
val
defaultVmem
=
"6G"
/** Returns command to execute */
def
cmdLine
=
required
(
executable
)
+
required
(
"coverage"
)
+
required
(
inputTag
,
input
)
+
...
...
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