Package org.biojava.bio.program.indexdb

A flat-file ascii index of ascii flat files as per the OBDA specification.

The OBDA flat file indexing specification adresses the need to provide a cross-platform indexing scheim for flat files that are reccord based. Typically these files have a primary ID per entry and potentially multiple secondary IDs in potentially multiple namespaces. Different entries will all have different primary IDs, but may shair seccondary IDs in a given namespace.

This package provides an API for managing these ID associations and retrieving blocks of files accordingly. Where ever possible, a sensible choice is made between linear scans and binary searches over ID. All index files use fixed-length reccords to make the binary searches as fast as is feasable.