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comparison variant_effect_predictor/Bio/Factory/ObjectBuilderI.pm @ 0:1f6dce3d34e0
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| author | mahtabm |
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| date | Thu, 11 Apr 2013 02:01:53 -0400 |
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| -1:000000000000 | 0:1f6dce3d34e0 |
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| 1 # $Id: ObjectBuilderI.pm,v 1.2 2002/10/22 07:45:14 lapp Exp $ | |
| 2 # | |
| 3 # BioPerl module for Bio::Factory::ObjectBuilderI | |
| 4 # | |
| 5 # Cared for by Hilmar Lapp <hlapp at gmx.net> | |
| 6 # | |
| 7 # Copyright Hilmar Lapp | |
| 8 # | |
| 9 # You may distribute this module under the same terms as perl itself | |
| 10 | |
| 11 # | |
| 12 # (c) Hilmar Lapp, hlapp at gmx.net, 2002. | |
| 13 # (c) GNF, Genomics Institute of the Novartis Research Foundation, 2002. | |
| 14 # | |
| 15 # You may distribute this module under the same terms as perl itself. | |
| 16 # Refer to the Perl Artistic License (see the license accompanying this | |
| 17 # software package, or see http://www.perl.com/language/misc/Artistic.html) | |
| 18 # for the terms under which you may use, modify, and redistribute this module. | |
| 19 # | |
| 20 # THIS PACKAGE IS PROVIDED "AS IS" AND WITHOUT ANY EXPRESS OR IMPLIED | |
| 21 # WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF | |
| 22 # MERCHANTIBILITY AND FITNESS FOR A PARTICULAR PURPOSE. | |
| 23 # | |
| 24 | |
| 25 # POD documentation - main docs before the code | |
| 26 | |
| 27 =head1 NAME | |
| 28 | |
| 29 Bio::Factory::ObjectBuilderI - Interface for an object builder | |
| 30 | |
| 31 =head1 SYNOPSIS | |
| 32 | |
| 33 Give standard usage here | |
| 34 | |
| 35 =head1 DESCRIPTION | |
| 36 | |
| 37 An object builder is different from an object factory in that it | |
| 38 accumulates information for the object and finally, or constantly, | |
| 39 depending on the implementation, builds the object. It also allows for | |
| 40 implementations that can tell the information feed in which kind of | |
| 41 information the builder is interested in which not. In addition, the | |
| 42 implementation may choose to filter, transform, or completely ignore | |
| 43 certain content it is fed for certain slots. | |
| 44 | |
| 45 Implementations will hence be mostly used by stream-based parsers to | |
| 46 parse only desired content, and/or skip over undesired entries. | |
| 47 | |
| 48 =head1 FEEDBACK | |
| 49 | |
| 50 =head2 Mailing Lists | |
| 51 | |
| 52 User feedback is an integral part of the evolution of this and other | |
| 53 Bioperl modules. Send your comments and suggestions preferably to | |
| 54 the Bioperl mailing list. Your participation is much appreciated. | |
| 55 | |
| 56 bioperl-l@bioperl.org - General discussion | |
| 57 http://bioperl.org/MailList.shtml - About the mailing lists | |
| 58 | |
| 59 =head2 Reporting Bugs | |
| 60 | |
| 61 Report bugs to the Bioperl bug tracking system to help us keep track | |
| 62 of the bugs and their resolution. Bug reports can be submitted via | |
| 63 email or the web: | |
| 64 | |
| 65 bioperl-bugs@bioperl.org | |
| 66 http://bugzilla.bioperl.org/ | |
| 67 | |
| 68 =head1 AUTHOR - Hilmar Lapp | |
| 69 | |
| 70 Email hlapp at gmx.net | |
| 71 | |
| 72 Describe contact details here | |
| 73 | |
| 74 =head1 CONTRIBUTORS | |
| 75 | |
| 76 Additional contributors names and emails here | |
| 77 | |
| 78 =head1 APPENDIX | |
| 79 | |
| 80 The rest of the documentation details each of the object methods. | |
| 81 Internal methods are usually preceded with a _ | |
| 82 | |
| 83 =cut | |
| 84 | |
| 85 | |
| 86 # Let the code begin... | |
| 87 | |
| 88 | |
| 89 package Bio::Factory::ObjectBuilderI; | |
| 90 use vars qw(@ISA); | |
| 91 use strict; | |
| 92 use Carp; | |
| 93 use Bio::Root::RootI; | |
| 94 | |
| 95 @ISA = qw( Bio::Root::RootI ); | |
| 96 | |
| 97 =head2 want_slot | |
| 98 | |
| 99 Title : want_slot | |
| 100 Usage : | |
| 101 Function: Whether or not the object builder wants to populate the | |
| 102 specified slot of the object to be built. | |
| 103 | |
| 104 The slot can be specified either as the name of the | |
| 105 respective method, or the initialization parameter that | |
| 106 would be otherwise passed to new() of the object to be | |
| 107 built. | |
| 108 | |
| 109 Example : | |
| 110 Returns : TRUE if the object builder wants to populate the slot, and | |
| 111 FALSE otherwise. | |
| 112 Args : the name of the slot (a string) | |
| 113 | |
| 114 | |
| 115 =cut | |
| 116 | |
| 117 sub want_slot{ | |
| 118 shift->throw_not_implemented(); | |
| 119 } | |
| 120 | |
| 121 =head2 add_slot_value | |
| 122 | |
| 123 Title : add_slot_value | |
| 124 Usage : | |
| 125 Function: Adds one or more values to the specified slot of the object | |
| 126 to be built. | |
| 127 | |
| 128 Naming the slot is the same as for want_slot(). | |
| 129 | |
| 130 The object builder may further filter the content to be | |
| 131 set, or even completely ignore the request. | |
| 132 | |
| 133 If this method reports failure, the caller should not add | |
| 134 more values to the same slot. In addition, the caller may | |
| 135 find it appropriate to abandon the object being built | |
| 136 altogether. | |
| 137 | |
| 138 Example : | |
| 139 Returns : TRUE on success, and FALSE otherwise | |
| 140 Args : the name of the slot (a string) | |
| 141 parameters determining the value to be set | |
| 142 | |
| 143 | |
| 144 =cut | |
| 145 | |
| 146 sub add_slot_value{ | |
| 147 shift->throw_not_implemented(); | |
| 148 } | |
| 149 | |
| 150 =head2 want_object | |
| 151 | |
| 152 Title : want_object | |
| 153 Usage : | |
| 154 Function: Whether or not the object builder is still interested in | |
| 155 continuing with the object being built. | |
| 156 | |
| 157 If this method returns FALSE, the caller should not add any | |
| 158 more values to slots, or otherwise risks that the builder | |
| 159 throws an exception. In addition, make_object() is likely | |
| 160 to return undef after this method returned FALSE. | |
| 161 | |
| 162 Example : | |
| 163 Returns : TRUE if the object builder wants to continue building | |
| 164 the present object, and FALSE otherwise. | |
| 165 Args : none | |
| 166 | |
| 167 | |
| 168 =cut | |
| 169 | |
| 170 sub want_object{ | |
| 171 shift->throw_not_implemented(); | |
| 172 } | |
| 173 | |
| 174 =head2 make_object | |
| 175 | |
| 176 Title : make_object | |
| 177 Usage : | |
| 178 Function: Get the built object. | |
| 179 | |
| 180 This method is allowed to return undef if no value has ever | |
| 181 been added since the last call to make_object(), or if | |
| 182 want_object() returned FALSE (or would have returned FALSE) | |
| 183 before calling this method. | |
| 184 | |
| 185 For an implementation that allows consecutive building of | |
| 186 objects, a caller must call this method once, and only | |
| 187 once, between subsequent objects to be built. I.e., a call | |
| 188 to make_object implies 'end_object.' | |
| 189 | |
| 190 Example : | |
| 191 Returns : the object that was built | |
| 192 Args : none | |
| 193 | |
| 194 | |
| 195 =cut | |
| 196 | |
| 197 sub make_object{ | |
| 198 shift->throw_not_implemented(); | |
| 199 } | |
| 200 | |
| 201 1; |
