annotate variant_effect_predictor/Bio/Event/EventGeneratorI.pm @ 2:a5976b2dce6f

changing defualt values for ensembl database
author mahtabm
date Thu, 11 Apr 2013 17:15:42 +1000
parents 1f6dce3d34e0
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
1 # $Id: EventGeneratorI.pm,v 1.7 2002/10/22 07:45:14 lapp Exp $
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
2 #
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
3 # BioPerl module for Bio::Event::EventGeneratorI
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
4 #
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
5 # Cared for by Jason Stajich <jason@bioperl.org>
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
6 #
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
7 # Copyright Jason Stajich
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
8 #
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
9 # You may distribute this module under the same terms as perl itself
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
10
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
11 # POD documentation - main docs before the code
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
12
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
13 =head1 NAME
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
14
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
15 Bio::Event::EventGeneratorI - This interface describes the basic event generator class.
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
16
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
17 =head1 SYNOPSIS
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
18
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
19 # Do not use this object directly
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
20 # This object has the basic methods for describing an event generator
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
21
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
22 =head1 DESCRIPTION
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
23
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
24 This object describes the basic event generator system. It basically allows one to attach one or many event handlers.
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
25
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
26
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
27 =head1 FEEDBACK
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
28
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
29 =head2 Mailing Lists
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
30
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
31 User feedback is an integral part of the evolution of this and other
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
32 Bioperl modules. Send your comments and suggestions preferably to
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
33 the Bioperl mailing list. Your participation is much appreciated.
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
34
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
35 bioperl-l@bioperl.org - General discussion
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
36 http://bioperl.org/MailList.shtml - About the mailing lists
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
37
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
38 =head2 Reporting Bugs
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
39
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
40 Report bugs to the Bioperl bug tracking system to help us keep track
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
41 of the bugs and their resolution. Bug reports can be submitted via
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
42 email or the web:
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
43
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
44 bioperl-bugs@bioperl.org
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
45 http://bugzilla.bioperl.org/
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
46
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
47 =head1 AUTHOR - Jason Stajich
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
48
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
49 Email jason@bioperl.org
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
50
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
51 Describe contact details here
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
52
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
53 =head1 CONTRIBUTORS
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
54
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
55 Additional contributors names and emails here
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
56
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
57 =head1 APPENDIX
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
58
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
59 The rest of the documentation details each of the object methods.
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
60 Internal methods are usually preceded with a _
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
61
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
62 =cut
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
63
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
64
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
65 # Let the code begin...
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
66
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
67
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
68 package Bio::Event::EventGeneratorI;
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
69 use vars qw(@ISA);
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
70 use strict;
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
71
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
72 @ISA = qw( Bio::Root::RootI );
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
73
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
74 =head2 attach_EventHandler
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
75
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
76 Title : attach_EventHandler
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
77 Usage : $parser->attatch_EventHandler($handler)
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
78 Function: Adds an event handler to listen for events
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
79 Returns : none
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
80 Args : Bio::Event::EventHandlerI
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
81
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
82 =cut
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
83
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
84 sub attach_EventHandler{
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
85 my ($self) = @_;
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
86 $self->throw_not_implemented();
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
87 }
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
88
1f6dce3d34e0 Uploaded
mahtabm
parents:
diff changeset
89 1;