// creates index for BAM files which lack them, saves to files (default = bamFilename + ".bai")\r
bool CreateIndexes(bool useStandardIndex = true);\r
\r
+ // sets the index caching mode for the readers\r
+ void SetIndexCacheMode(const BamIndex::BamIndexCacheMode mode);\r
+\r
//const int GetReferenceID(const string& refName) const;\r
\r
// utility\r