From 1fdc69246912dfaf105190a599d741763bb1583e Mon Sep 17 00:00:00 2001
From: tfenne <tfenne@tfenne.com>
Date: Sun, 11 Jun 2017 12:17:29 -0400
Subject: [PATCH] Fixed MergeBamAlignment/AbstractAlignmentMerger to use actual
 max records in ram instead of hard-coded constant.

---
 src/main/java/picard/sam/AbstractAlignmentMerger.java | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/main/java/picard/sam/AbstractAlignmentMerger.java b/src/main/java/picard/sam/AbstractAlignmentMerger.java
index 6b4e0ac43..4183a548f 100644
--- a/src/main/java/picard/sam/AbstractAlignmentMerger.java
+++ b/src/main/java/picard/sam/AbstractAlignmentMerger.java
@@ -365,7 +365,7 @@ public void mergeAlignment(final File referenceFasta) {
         if (this.sortOrder == SortOrder.coordinate) {
             final SortingCollection<SAMRecord> sorted1 = SortingCollection.newInstance(
                     SAMRecord.class, new BAMRecordCodec(header), new SAMRecordCoordinateComparator(),
-                    MAX_RECORDS_IN_RAM);
+                    this.maxRecordsInRam);
             sink = new Sink(sorted1);
         }
         else { // catches queryname and unsorted