From: Derek Barnett <derekwbarnett@gmail.com>
Date: Wed, 24 Jul 2013 18:37:50 +0000 (-0400)
Subject: Fixed: bamtools coverage not flushing at end (issue #64)
X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=1b6d41db1d2f66680620c1af78581f3b1d2a0d6e;p=bamtools.git

Fixed: bamtools coverage not flushing at end (issue #64)
---

diff --git a/src/toolkit/bamtools_coverage.cpp b/src/toolkit/bamtools_coverage.cpp
index c0ecd8f..6a4493d 100644
--- a/src/toolkit/bamtools_coverage.cpp
+++ b/src/toolkit/bamtools_coverage.cpp
@@ -2,7 +2,7 @@
 // bamtools_coverage.cpp (c) 2010 Derek Barnett, Erik Garrison
 // Marth Lab, Department of Biology, Boston College
 // ---------------------------------------------------------------------------
-// Last modified: 7 April 2011
+// Last modified: 24 July 2013
 // ---------------------------------------------------------------------------
 // Prints coverage data for a single BAM file 
 // ***************************************************************************
@@ -137,6 +137,7 @@ bool CoverageTool::CoverageToolPrivate::Run(void) {
     BamAlignment al;    
     while ( reader.GetNextAlignment(al) ) 
         pileup.AddAlignment(al);
+    pileup.Flush();
     
     // clean up 
     reader.Close();