- bool CreateIndexes(bool useStandardIndex = true);
- void SetIndexCacheMode(const BamIndex::BamIndexCacheMode mode);
+ bool CreateIndexes(const BamIndex::IndexType& type = BamIndex::STANDARD);
+ bool HasIndexes(void) const;
+ bool LocateIndexes(const BamIndex::IndexType& preferredType = BamIndex::STANDARD);
+ bool OpenIndexes(const std::vector<std::string>& indexFilenames);
+ void SetIndexCacheMode(const BamIndex::IndexCacheMode mode);