Bio::SeqIO::swissdriver(3pm)				User Contributed Perl Documentation			      Bio::SeqIO::swissdriver(3pm)

NAME

       Bio::SeqIO::swissdriver - SwissProt/UniProt handler-based push parser

SYNOPSIS

	 #It is probably best not to use this object directly, but
	 #rather go through the SeqIO handler:

	 $stream = Bio::SeqIO->new(-file => $filename,
				   -format => 'swissdriver');

	 while ( my $seq = $stream->next_seq() ) {
	     # do something with $seq
	 }

DESCRIPTION

       This object can transform Bio::Seq objects to and from UniProt flat file databases. The key difference between this parser and the tried-
       and-true Bio::SeqIO::swiss parser is this version separates the parsing and data manipulation into a 'driver' method (next_seq) and
       separate object handlers which deal with the data passed to it.

   The Driver
       The main purpose of the driver routine, in this case next_seq(), is to carve out the data into meaningful chunks which are passed along to
       relevant handlers (see below).

       Each chunk of data in the has a NAME tag attached to it, similar to that for XML parsing. This designates the type of data passed
       (annotation type or seqfeature) and the handler to be called for processing the data.

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://redmine.open-bio.org/projects/bioperl/

AUTHOR - Bioperl Project
       bioperl-l at 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	: none

   write_seq
	Title	: write_seq
	Usage	: $stream->write_seq($seq)
	Function: writes the $seq object (must be seq) to the stream
	Returns : 1 for success and 0 for error
	Args	: array of 1 to n Bio::SeqI objects

   seqhandler
	Title	: seqhandler
	Usage	: $stream->seqhandler($handler)
	Function: Get/Set teh Bio::Seq::HandlerBaseI object
	Returns : Bio::Seq::HandlerBaseI
	Args	: Bio::Seq::HandlerBaseI

perl v5.14.2							    2012-03-02					      Bio::SeqIO::swissdriver(3pm)