Class CompactedDataStore

  • All Implemented Interfaces:

    public class CompactedDataStore
    extends Object
    implements DataStore
    An implementation of DataStore that will map onto a file using the NIO constructs. You should obtain one of these by using the methods in MappedDataStoreFactory.
    Matthew Pocock, Thomas Down
    • Method Detail

      • getAlphabet

        public FiniteAlphabet getAlphabet()
        Description copied from interface: DataStore
        The alphabet of symbol lists that can be searched against this DataStore.
        Specified by:
        getAlphabet in interface DataStore
        a FiniteAlphabet search types of SymbolList
      • search

        public void search​(String seqID,
                           SymbolList symList,
                           SearchListener listener)
        Description copied from interface: DataStore
        Search the DataStore with a symbol list.
        Specified by:
        search in interface DataStore
        seqID - the ID to report the symbol list by e.g. 'test' or 'foo1'
        symList - the symbol list to search with
        listener - the listener to inform of hits
      • seqNameForID

        public String seqNameForID​(int id)
        Description copied from interface: DataStore
        Resolve an ID to a sequence name.
        Specified by:
        seqNameForID in interface DataStore
        id - the int number of the sequence name to resolve
        the name of that sequence as a String