Skip to content
GitLab
Projects
Groups
Snippets
/
Help
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
Menu
Open sidebar
Mirrors
biopet.biopet
Commits
f547c7f2
Commit
f547c7f2
authored
Jun 25, 2015
by
Peter van 't Hof
Browse files
Code style
parent
16f4925a
Changes
2
Hide whitespace changes
Inline
Side-by-side
public/bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BamMetrics.scala
View file @
f547c7f2
...
...
@@ -63,7 +63,7 @@ class BamMetrics(val root: Configurable) extends QScript with SummaryQScript wit
bammetricsReport
.
args
=
if
(
libId
.
isDefined
)
Map
(
"sampleId"
->
sampleId
.
getOrElse
(
"."
),
"libId"
->
libId
.
getOrElse
(
"."
))
else
Map
(
"sampleId"
->
sampleId
.
getOrElse
(
"."
))
else
Map
(
"sampleId"
->
sampleId
.
getOrElse
(
"."
))
Some
(
bammetricsReport
)
}
...
...
public/bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala
View file @
f547c7f2
...
...
@@ -3,7 +3,7 @@ package nl.lumc.sasc.biopet.pipelines.bammetrics
import
java.io.
{
PrintWriter
,
File
}
import
nl.lumc.sasc.biopet.core.config.Configurable
import
nl.lumc.sasc.biopet.core.report.
{
ReportBuilderExtension
,
ReportBuilder
,
ReportPage
,
ReportSection
}
import
nl.lumc.sasc.biopet.core.report.
{
ReportBuilderExtension
,
ReportBuilder
,
ReportPage
,
ReportSection
}
import
nl.lumc.sasc.biopet.core.summary.
{
SummaryValue
,
Summary
}
import
nl.lumc.sasc.biopet.extensions.rscript.
{
XYPlot
,
StackedBarPlot
}
...
...
@@ -25,7 +25,7 @@ object BammetricsReport extends ReportBuilder {
ReportPage
(
bamMetricsPage
.
subPages
:::
List
(
"Versions"
->
ReportPage
(
List
(),
List
((
"Executables"
->
ReportSection
(
"/nl/lumc/sasc/biopet/core/report/executables.ssp"
))),
Map
()),
))),
Map
()),
"Files"
->
ReportPage
(
List
(),
List
(
"Input fastq files"
->
ReportSection
(
"/nl/lumc/sasc/biopet/pipelines/bammetrics/bammetricsInputFile.ssp"
)
),
Map
())
...
...
Write
Preview
Supports
Markdown
0%
Try again
or
attach a new 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