NAME

FAST::Bio::SearchIO::Writer::BSMLResultWriter - BSML output writer

SYNOPSIS

use FAST::Bio::SearchIO;
my $in = FAST::Bio::SearchIO->new(-file   => 'result.blast',
                           -format => 'blast');
my $out = FAST::Bio::SearchIO->new(-output_format  => 'BSMLResultWriter',
                            -file           => ">result.bsml");
while( my $r = $in->next_result ) {
  $out->write_result($r);
}

DESCRIPTION

This is a writer to produce BSML for a search result.

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

AUTHOR - Jason Stajich

Email jason-at-bioperl-dot-org

APPENDIX

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

new

Title   : new
Usage   : my $obj = FAST::Bio::SearchIO::Writer::BSMLResultWriter->new();
Function: Builds a new FAST::Bio::SearchIO::Writer::BSMLResultWriter object 
Returns : an instance of FAST::Bio::SearchIO::Writer::BSMLResultWriter
Args    :

to_string

Purpose   : Produces data for each Search::Result::ResultI in a string.
          : This is an abstract method. For some useful implementations,
          : see ResultTableWriter.pm, HitTableWriter.pm, 
          : and HSPTableWriter.pm.
Usage     : print $writer->to_string( $result_obj, @args );
Argument  : $result_obj = A FAST::Bio::Search::Result::ResultI object
          : @args = any additional arguments used by your implementation.
Returns   : String containing data for each search Result or any of its
          : sub-objects (Hits and HSPs).
Throws    : n/a