lib/Bio/DB/GFF/Aggregator/ucsc_softberry.pm

   1 =head1 NAME
   2
   3 Bio::DB::GFF::Aggregator::ucsc_softberry -- UCSC softberry aggregator
   4
   5 =head1 SYNOPSIS
   6
   7   use Bio::DB::GFF;
   8
   9   # Open the sequence database
  10   my $db      = Bio::DB::GFF->new( -adaptor => 'dbi:mysql',
  11                                    -dsn     => 'dbi:mysql:elegans42',
  12                                    -aggregator => ['transcript','clone'],
  13                                  );
  14
  15  -------------------------------------------------
  16  Aggregator method: softberry
  17  Main method:       transcript
  18  Sub methods:       softberryGene
  19  -------------------------------------------------
  20
  21 =head1 DESCRIPTION
  22
  23 L<Bio::DB::GFF::Aggregator::transcript>
  24
  25 =cut
  26
  27 package Bio::DB::GFF::Aggregator::ucsc_softberry;
  28
  29 use strict;
  30
  31 use base qw(Bio::DB::GFF::Aggregator);
  32
  33 =head2 method
  34
  35  Title   : method
  36  Usage   : $aggregator->method
  37  Function: return the method for the composite object
  38  Returns : the string "softberry"
  39  Args    : none
  40  Status  : Public
  41
  42 =cut
  43
  44 sub method { 'softberry' }
  45
  46 =head2 part_names
  47
  48  Title   : part_names
  49  Usage   : $aggregator->part_names
  50  Function: return the methods for the sub-parts
  51  Returns : empty list
  52  Args    : none
  53  Status  : Public
  54
  55 =cut
  56
  57 sub part_names {
  58   return ();
  59 }
  60
  61 =head2 main_name
  62
  63  Title   : main_name
  64  Usage   : $aggregator->main_name
  65  Function: return the method for the main component
  66  Returns : the string "transcript:softberryGene"
  67  Args    : none
  68  Status  : Public
  69
  70 =cut
  71
  72 sub main_name {
  73   return 'transcript:softberryGene';
  74 }
  75
  76 1;
  77 __END__
  78
  79 =head1 BUGS
  80
  81 None reported.
  82
  83
  84 =head1 SEE ALSO
  85
  86 L<Bio::DB::GFF>, L<Bio::DB::GFF::Aggregator>
  87
  88 =head1 AUTHOR
  89
  90 Allen Day E<lt>allenday@ucla.eduE<gt>.
  91
  92 Copyright (c) 2002 Allen Day, University of California, Los Angeles.
  93
  94 This library is free software; you can redistribute it and/or modify
  95 it under the same terms as Perl itself.
  96
  97 =cut
  98