debian man page for bio::seqio::bsml_sax

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

NAME
       Bio::SeqIO::bsml_sax - BSML sequence input/output stream using SAX

SYNOPSIS
	It is probably best not to use this object directly, but rather go
	through the SeqIO handler system. To read a BSML file:

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

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

	To write a Seq object to the current file handle in BSML XML format:

	   $stream->write_seq( -seq => $seqObj);

	If instead you would like a XML::DOM object containing the BSML, use:

	   my $newXmlObject = $stream->to_bsml( -seq => $seqObj);

DEPENDENCIES
	In addition to parts of the Bio:: hierarchy, this module uses:

	XML::SAX

DESCRIPTION
	This object can transform Bio::Seq objects to and from BSML (XML)
	flatfiles.

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 - Jason Stajich
       Email jason-at-bioperl-dot-org

METHODS
   next_seq
	Title	: next_seq
	Usage	: my $bioSeqObj = $stream->next_seq
	Function: Retrieves the next sequence from a SeqIO::bsml stream.
	Returns : A reference to a Bio::Seq::RichSeq object
	Args	:

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