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biopet.biopet
Commits
70dd869c
Commit
70dd869c
authored
Jul 31, 2017
by
rhpvorderman
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Untangling of write summaryplotinprogress
parent
ae8bf475
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3
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3 changed files
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199 additions
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152 deletions
+199
-152
bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/alignmentSummary.ssp
...umc/sasc/biopet/pipelines/bammetrics/alignmentSummary.ssp
+2
-2
bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala
...c/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala
+92
-47
mapping/src/main/scala/nl/lumc/sasc/biopet/pipelines/mapping/MultisampleMappingReport.scala
...c/biopet/pipelines/mapping/MultisampleMappingReport.scala
+105
-103
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bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/alignmentSummary.ssp
View file @
70dd869c
...
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@@ -20,7 +20,7 @@
<%@ var runId: Int %>
<%@ var allSamples: Seq[Sample] %>
<%@ var allLibraries: Seq[Library] %>
<%@ var alignmentSummaryPlotLines:
Seq[String
] %>
<%@ var alignmentSummaryPlotLines:
Option[Seq[String]
] %>
<%@ var alignmentSummaryResults: Map[(Int, Int), Map[String, Option[Any]]] %>
#{
val samples = sampleId match {
...
...
@@ -48,7 +48,7 @@
</div>
#end
#if (showPlot)
#{ BammetricsReport.alignmentSummaryPlot(outputDir, "alignmentSummary", alignmentSummaryPlotLines, !sampleLevel) }#
#{ BammetricsReport.alignmentSummaryPlot(outputDir, "alignmentSummary", alignmentSummaryPlotLines
.getOrElse(Seq(""))
, !sampleLevel) }#
<div class="panel-body">
<img src="alignmentSummary.png" class="img-responsive" />
...
...
bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BammetricsReport.scala
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70dd869c
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mapping/src/main/scala/nl/lumc/sasc/biopet/pipelines/mapping/MultisampleMappingReport.scala
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70dd869c
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