From fb27385e47b6ed4d70a751dc5f1ea3c99fc5c3fe Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Tue, 19 Jul 2016 16:07:39 +0200
Subject: [PATCH] Convert vars to vals
---
.../scala/nl/lumc/sasc/biopet/tools/bamstats/BamStats.scala | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/bamstats/BamStats.scala b/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/bamstats/BamStats.scala
index 5143c9e0c..db9164bb5 100644
--- a/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/bamstats/BamStats.scala
+++ b/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/bamstats/BamStats.scala
@@ -155,7 +155,7 @@ object BamStats extends ToolCommand {
* @return Output stats
*/
def processThread(scatters: List[BedRecord], bamFile: File): Stats = {
- var totalStats = Stats()
+ val totalStats = Stats()
val sortedScatters = scatters.sortBy(_.start)
val samReader = SamReaderFactory.makeDefault().open(bamFile)
val threadChr = sortedScatters.head.chr
@@ -206,7 +206,7 @@ object BamStats extends ToolCommand {
* @return Output stats
*/
def processUnmappedReads(bamFile: File): Stats = {
- var stats = Stats()
+ val stats = Stats()
val samReader = SamReaderFactory.makeDefault().open(bamFile)
var size = samReader.queryUnmapped().size
stats.totalReads += size
--
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