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biopet.biopet
Commits
9d0abb92
Commit
9d0abb92
authored
Jun 23, 2015
by
Peter van 't Hof
Browse files
Fix mpileup
parent
818741d1
Changes
1
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public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/MpileupToVcf.scala
View file @
9d0abb92
...
...
@@ -72,6 +72,7 @@ class MpileupToVcf(val root: Configurable) extends ToolCommandFuntion with Refer
override
def
commandLine
=
{
(
if
(
inputMpileup
==
null
)
{
val
samtoolsMpileup
=
new
SamtoolsMpileup
(
this
)
samtoolsMpileup
.
reference
=
referenceFasta
()
samtoolsMpileup
.
input
=
List
(
inputBam
)
samtoolsMpileup
.
cmdPipe
+
" | "
}
else
""
)
+
...
...
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