// 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
// ***************************************************************************
BamAlignment al;
while ( reader.GetNextAlignment(al) )
pileup.AddAlignment(al);
+ pileup.Flush();
// clean up
reader.Close();