NAME¶
Bio::SearchIO::Writer::BSMLResultWriter - BSML output writer
SYNOPSIS¶
use Bio::SearchIO;
my $in = Bio::SearchIO->new(-file => 'result.blast',
-format => 'blast');
my $out = 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://github.com/bioperl/bioperl-live/issues
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 = Bio::SearchIO::Writer::BSMLResultWriter->new();
Function: Builds a new Bio::SearchIO::Writer::BSMLResultWriter object
Returns : an instance of 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 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