Provided by: libbio-perl-perl_1.7.6-3_all bug

NAME

       Bio::SeqIO::tinyseq::tinyseqHandler - XML event handlers to support NCBI TinySeq XML
       parsing

SYNOPSIS

       Do not use this module directly; use the SeqIO handler system:

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

         while ( my $seq = $stream->next_seq ) {
           ....
         }

DESCRIPTION

       This object provides event handler methods for parsing sequence files in the NCBI TinySeq
       XML format.  A TinySeq is a lightweight XML file of sequence information on one or more
       sequences, analgous to FASTA format.

       See <https://www.ncbi.nlm.nih.gov/dtd/NCBI_TSeq.mod.dtd> for the DTD.

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 the Bioperl mailing list.  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 of the bugs and their
       resolution. Bug reports can be submitted via the web:

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

SEE ALSO

       Bio::SeqIO, Bio::Seq.

AUTHOR

       Donald Jackson, <donald.jackson@bms.com>

APPENDIX

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

   new
         Title         : new
         Usage         : $handler = Bio::SeqIO::tinyseq::tinyseqHandler->new()
         Function      : instantiates a tinyseqHandler for use by
                         XML::Parser::PerlSAX
         Returns       : Bio::SeqIO::tinyseq::tinyseqHandler object
         Args          : NONE

   start_document
         Title         : start_document
         Usage         : NONE
         Function      : start_document handler for use by XML::Parser::PerlSAX
         Returns       : NONE
         Args          : NONE

   end_document
         Title         : end_document
         Usage         : NONE
         Function      : end_document handler for use by XML::Parser::PerlSAX
         Returns       : NONE
         Args          : NONE

   start_element
         Title         : start_element
         Usage         : NONE
         Function      : start_element handler for use by XML::Parser::PerlSAX
         Returns       : NONE
         Args          : NONE

   end_element
         Title         : end_element
         Usage         : NONE
         Function      : end_element handler for use by XML::Parser::PerlSAX
         Returns       : NONE
         Args          : NONE

   characters
         Title         : characters
         Usage         : NONE
         Function      : characters handler for use by XML::Parser::PerlSAX
         Returns       : NONE
         Args          : NONE

   TSeq
         Title         : TSeq
         Usage         : NONE
         Function      : event handler for END of a TSeq element
         Returns       : loh of parsed sequence atts for Bio::SeqIO::tinyseq
         Args          : NONE

   _current_element
         Title         : _current_element
         Usage         : Internal method
         Function      : Utility method to return current element info
         Returns       : XML::Parser::PerlSAX hash for current element
         Args          : NONE