From 9789e9e63c264f62877a0056807a835aa1422f97 Mon Sep 17 00:00:00 2001
From: bow <bow@bow.web.id>
Date: Sun, 8 Mar 2015 15:27:11 +0100
Subject: [PATCH] Add library pair information to sample metrics
---
.../nl/lumc/sasc/biopet/pipelines/gentrap/Gentrap.scala | 7 +++++--
1 file changed, 5 insertions(+), 2 deletions(-)
diff --git a/public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/Gentrap.scala b/public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/Gentrap.scala
index fa80426f2..739b80437 100644
--- a/public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/Gentrap.scala
+++ b/public/gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/Gentrap.scala
@@ -351,11 +351,14 @@ class Gentrap(val root: Configurable) extends QScript with MultiSampleQScript wi
override def sampleDir: File = new File(outputDir, "sample_" + sampleId)
/** Summary stats of the sample */
- def summaryStats: Map[String, Any] = Map()
+ def summaryStats: Map[String, Any] = Map(
+ "all_paired" -> allPaired,
+ "all_single" -> allSingle
+ )
/** Summary files of the sample */
def summaryFiles: Map[String, File] = Map(
- "alignment" -> alnFile,
+ "alignment" -> alnFile
) ++ Map(
"gene_fragments_count" -> geneFragmentsCount,
"exon_fragments_count" -> exonFragmentsCount,
--
GitLab