Bio::DB::Flat::BDB - Interface for BioHackathon standard BDB-indexed flat file
#You should not be using this module directly.
This object provides the basic mechanism to associate positions in files with primary and secondary name spaces. Unlike Bio::Index::Abstract (see Bio::Index::Abstract), this is specialized to work with the BerkeleyDB-indexed "common" flat file format worked out at the 2002 BioHackathon.
This object is the guts to the mechanism, which will be used by the specific objects inheriting from it.
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with an "_" (underscore).
Title : get_PrimarySeq_stream
Usage : $stream = get_PrimarySeq_stream
Function: Makes a Bio::DB::SeqStreamI compliant object
which provides a single method, next_primary_seq
Returns : Bio::DB::SeqStreamI
Args : none
Title : get_all_primary_ids
Usage : @ids = $seqdb->get_all_primary_ids()
Function: gives an array of all the primary_ids of the
sequence objects in the database.
Returns : an array of strings
Args : none
The following methods MUST be implemented by subclasses.
The following methods MAY be overridden by subclasses.
To install BioPerl, copy and paste the appropriate command in to your terminal.
perl -MCPAN -e shell
For more information on module installation, please visit the detailed CPAN module installation guide.