/usr/share/perl5/Bio/Search/GenericDatabase.pm is in libbio-perl-perl 1.6.924-3.
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#
# BioPerl module Bio::Search::GenericDatabase
#
# Please direct questions and support issues to <bioperl-l@bioperl.org>
#
# Cared for by Steve Chervitz <sac@bioperl.org>
#
# You may distribute this module under the same terms as perl itself
#-----------------------------------------------------------------
# POD documentation - main docs before the code
=head1 NAME
Bio::Search::GenericDatabase - Generic implementation of Bio::Search::DatabaseI
=head1 SYNOPSIS
use Bio::Search::GenericDatabase;
$db = Bio::Search::GenericDatabase->new( -name => 'my Blast db',
-date => '2001-03-13',
-length => 2352511,
-entries => 250000 );
$name = $db->name();
$date = $db->date();
$num_letters = $db->letters();
$num_entries = $db->entries();
=head1 DESCRIPTION
This module provides a basic implementation of L<Bio::Search::DatabaseI>.
See documentation in that module for more information.
=head1 FEEDBACK
=head2 Mailing Lists
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to one
of the Bioperl mailing lists. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
=head2 Support
Please direct usage questions or support issues to the mailing list:
I<bioperl-l@bioperl.org>
rather than to the module maintainer directly. Many experienced and
reponsive experts will be able look at the problem and quickly
address it. Please include a thorough description of the problem
with code and data examples if at all possible.
=head2 Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
https://github.com/bioperl/bioperl-live/issues
=head1 AUTHOR
Steve Chervitz E<lt>sac@bioperl.orgE<gt>
See L<the FEEDBACK section | FEEDBACK> for where to send bug reports and comments.
=head1 COPYRIGHT
Copyright (c) 2001 Steve Chervitz. All Rights Reserved.
=head1 DISCLAIMER
This software is provided "as is" without warranty of any kind.
=cut
=head1 APPENDIX
The rest of the documentation details each of the object methods.
=cut
# Let the code begin...
package Bio::Search::GenericDatabase;
use strict;
use base qw(Bio::Root::Root Bio::Search::DatabaseI);
sub new {
my ($class, @args) = @_;
my $self = $class->SUPER::new(@args);
my ($name, $date, $length, $ents) =
$self->_rearrange( [qw(NAME DATE LENGTH ENTRIES)], @args);
$name && $self->name($name);
$date && $self->date($date);
$length && $self->letters($length);
$ents && $self->entries($ents);
return $self;
}
=head2 name
See L<Bio::Search::DatabaseI::name>() for documentation
This implementation is a combined set/get accessor.
=cut
#---------------
sub name {
#---------------
my $self = shift;
if(@_) {
my $name = shift;
$name =~ s/(^\s+|\s+$)//g;
$self->{'_db'} = $name;
}
$self->{'_db'};
}
=head2 date
See L<Bio::Search::DatabaseI::date>() for documentation
This implementation is a combined set/get accessor.
=cut
#-----------------------
sub date {
#-----------------------
my $self = shift;
if(@_) { $self->{'_dbDate'} = shift; }
$self->{'_dbDate'};
}
=head2 letters
See L<Bio::Search::DatabaseI::letters>() for documentation
This implementation is a combined set/get accessor.
=cut
#----------------------
sub letters {
#----------------------
my $self = shift;
if(@_) { $self->{'_dbLetters'} = shift; }
$self->{'_dbLetters'};
}
=head2 entries
See L<Bio::Search::DatabaseI::entries>() for documentation
This implementation is a combined set/get accessor.
=cut
#------------------
sub entries {
#------------------
my $self = shift;
if(@_) { $self->{'_dbEntries'} = shift; }
$self->{'_dbEntries'};
}
1;
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