Bio::Search::Result WABAResult
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Summary
Bio::Search::Result::WABAResult - Result object for WABA alignment output
Package variables
No package variables defined.
Inherit
Bio::Search::Result::GenericResult
Synopsis
# use this object exactly as you would a GenericResult
# the only extra method is query_database which is the
# name of the file where the query sequence came from
Description
This object is for WABA result output, there is little difference
between this object and a GenericResult save the addition of one
method query_database. Expect many of the fields for GenericResult to
be empty however as WABA was not intended to provide a lot of extra
information other than the alignment.
Methods
newDescriptionCode
query_databaseDescriptionCode
Methods description
newcode    nextTop
 Title   : new
Usage : my $obj = Bio::Search::Result::WABAResult->new();
Function: Builds a new Bio::Search::Result::WABAResult object
Returns : Bio::Search::Result::WABAResult
Args : -query_database => "name of the database where the query came from"
query_databasecodeprevnextTop
 Title   : query_database
Usage : $obj->query_database($newval)
Function: Data field for the database filename where the
query sequence came from
Returns : value of query_database
Args : newvalue (optional)
Methods code
newdescriptionprevnextTop
sub new {
  my($class,@args) = @_;

  my $self = $class->SUPER::new(@args);
  my ($db) = $self->_rearrange([qw(QUERY_DATABASE)], @args);
  defined $db && $self->query_database($db);
  return $self;
}
query_databasedescriptionprevnextTop
sub query_database {
    my ($self,$value) = @_;
    if( defined $value) {
	$self->{'query_database'} = $value;
    }
    return $self->{'query_database'};
}
General documentation
FEEDBACKTop
Mailing ListsTop
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 Top
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 BugsTop
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 StajichTop
Email jason@bioperl.org
APPENDIXTop
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
All other methods are inherited from Bio::Search::Result::GenericResultTop
See the Bio::Search::Result::GenericResult for complete
documentation of the rest of the methods that are available for this
module.