Raw content of Bio::Search::Hit::Fasta
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#
# BioPerl module for Bio::Search::Hit::Fasta
#
# Cared for by Aaron Mackey <amackey@virginia.edu>
#
# Copyright Aaron Mackey
#
# You may distribute this module under the same terms as perl itself
# POD documentation - main docs before the code
=head1 NAME
Bio::Search::Hit::Fasta - Hit object specific for Fasta-generated hits
=head1 SYNOPSIS
These objects are generated automatically by Bio::Search::Processor::Fasta,
and shouldn't be used directly.
=head1 DESCRIPTION
Bio::Search::Hit::* objects are data structures that contain information
about specific hits obtained during a library search. Some information will
be algorithm-specific, but others will be generally defined, such as the
ability to obtain alignment objects corresponding to each hit.
=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://bio.perl.org/MailList.html - About the mailing lists
=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 email
or the web:
bioperl-bugs@bio.perl.org
http://bugzilla.bioperl.org/
=head1 AUTHOR - Aaron Mackey
Email amackey@virginia.edu
=head1 APPENDIX
The rest of the documentation details each of the object
methods. Internal methods are usually preceded with a _
=cut
#'
# Let the code begin...
package Bio::Search::Hit::Fasta;
use vars qw($AUTOLOAD @ISA);
use strict;
# Object preamble - inherits from Bio::Root::Object
use Bio::Search::Hit::HitI;
@ISA = qw(Bio::Search::Hit::HitI);
my @AUTOLOAD_OK = qw( _ID
_DESC
_SIZE
_INITN
_INIT1
_OPT
_ZSC
_E_VAL
);
my %AUTOLOAD_OK = ();
@AUTOLOAD_OK{@AUTOLOAD_OK} = (1) x @AUTOLOAD_OK;
# new() is inherited from Bio::Root::Object
# _initialize is where the heavy stuff will happen when new is called
sub _initialize {
my($self, %args) = @_;
my $make = $self->SUPER::_initialize(%args);
while (my ($key, $val) = each %args) {
$key = '_' . uc($key);
$self->$key($val);
}
return $make; # success - we hope!
}
sub AUTOLOAD {
my ($self, $val) = @_;
$AUTOLOAD =~ s/.*:://;
if ( $AUTOLOAD_OK{$AUTOLOAD} ) {
$self->{$AUTOLOAD} = $val if defined $val;
return $self->{$AUTOLOAD};
} else {
$self->throw("Unallowed accessor: $AUTOLOAD !");
}
}
1;
__END__
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