Skip to content
GitLab
Projects
Groups
Snippets
Help
Loading...
Help
What's new
10
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
Open sidebar
Mirrors
biopet.biopet
Commits
492dd1a0
Commit
492dd1a0
authored
Nov 29, 2016
by
Peter van 't Hof
Browse files
Options
Browse Files
Download
Email Patches
Plain Diff
Style fixes
parent
ffaadd57
Changes
1
Hide whitespace changes
Inline
Side-by-side
Showing
1 changed file
with
2 additions
and
2 deletions
+2
-2
biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/MpileupToVcf.scala
...c/main/scala/nl/lumc/sasc/biopet/tools/MpileupToVcf.scala
+2
-2
No files found.
biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/MpileupToVcf.scala
View file @
492dd1a0
...
@@ -191,11 +191,11 @@ object MpileupToVcf extends ToolCommand {
...
@@ -191,11 +191,11 @@ object MpileupToVcf extends ToolCommand {
}
}
left
-=
ad
(
max
)
left
-=
ad
(
max
)
}
}
writer
.
println
(
Array
(
chr
,
pos
,
"."
,
ref
.
toUpperCase
,
(
if
(
alt
.
nonEmpty
)
alt
.
mkString
(
","
)
else
"<REF>"
)
,
"."
,
"."
,
info
.
mkString
(
";"
),
writer
.
println
(
Array
(
chr
,
pos
,
"."
,
ref
.
toUpperCase
,
if
(
alt
.
nonEmpty
)
alt
.
mkString
(
","
)
else
"<REF>"
,
"."
,
"."
,
info
.
mkString
(
";"
),
"GT:"
+
format
.
keys
.
mkString
(
":"
),
gt
.
sortWith
(
_
<
_
).
mkString
(
"/"
)
+
":"
+
format
.
values
.
mkString
(
":"
)
"GT:"
+
format
.
keys
.
mkString
(
":"
),
gt
.
sortWith
(
_
<
_
).
mkString
(
"/"
)
+
":"
+
format
.
values
.
mkString
(
":"
)
).
mkString
(
"\t"
))
).
mkString
(
"\t"
))
}
}
}
}
writer
.
close
()
writer
.
close
()
}
}
}
}
\ No newline at end of file
Write
Preview
Markdown
is supported
0%
Try again
or
attach a new file
.
Attach a file
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment