#include "bamtools_count.h"
+#include <api/BamAlgorithms.h>
#include <api/BamMultiReader.h>
#include <utils/bamtools_options.h>
#include <utils/bamtools_utilities.h>
reader.LocateIndexes();
// if index data available for all BAM files, we can use SetRegion
- if ( reader.IsIndexLoaded() ) {
+ if ( reader.HasIndexes() ) {
// attempt to set region on reader
if ( !reader.SetRegion(region.LeftRefID, region.LeftPosition, region.RightRefID, region.RightPosition) ) {