Raw content of Bio::Search::Hit::Fasta # # 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__