Provided by: libbio-perl-perl_1.7.2-3_all bug

NAME

       Bio::SeqIO::gcg - GCG sequence input/output stream

SYNOPSIS

       Do not use this module directly.  Use it via the Bio::SeqIO class.

DESCRIPTION

       This object can transform Bio::Seq objects to and from GCG flat file databases.

FEEDBACK

   Mailing Lists
       User feedback is an integral part of the evolution of this and other Bioperl modules. Send
       your comments and suggestions preferably to one of the Bioperl mailing lists.  Your
       participation is much appreciated.

         bioperl-l@bioperl.org                  - General discussion
         http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

   Support
       Please direct usage questions or support issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and reponsive experts will
       be able look at the problem and quickly address it. Please include a thorough description
       of the problem with code and data examples if at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their
       resolution.  Bug reports can be submitted via the web:

         https://github.com/bioperl/bioperl-live/issues

AUTHORS - Ewan Birney & Lincoln Stein

       Email: <birney@ebi.ac.uk>
              <lstein@cshl.org>

CONTRIBUTORS

       Jason Stajich, jason@bioperl.org

APPENDIX

       The rest of the documentation details each of the object methods. Internal methods are
       usually preceded with a _

   next_seq
        Title   : next_seq
        Usage   : $seq = $stream->next_seq()
        Function: returns the next sequence in the stream
        Returns : Bio::Seq object
        Args    :

   write_seq
        Title   : write_seq
        Usage   : $stream->write_seq(@seq)
        Function: writes the formatted $seq object into the stream
        Returns : 1 for success and 0 for error
        Args    : array of Bio::PrimarySeqI object

   GCG_checksum
        Title     : GCG_checksum
        Usage     : $cksum = $gcgio->GCG_checksum($seq);
        Function  : returns a gcg checksum for the sequence specified

                    This method can also be called as a class method.
        Example   :
        Returns   : a GCG checksum string
        Argument  : a Bio::PrimarySeqI implementing object

   _validate_checksum
        Title   : _validate_checksum
        Usage   : n/a - internal method
        Function: if parsed gcg sequence contains a checksum field
                : we compare it to a value computed here on the parsed
                : sequence. A checksum mismatch would indicate some
                : type of parsing failure occurred.
                :
        Returns : 1 for success, 0 for failure
        Args    : string containing parsed seq, value of parsed checksum