db/00171/AddCvtermAdditionalInfo.pm

   1 #!/usr/bin/env perl
   2
   3
   4 =head1 NAME
   5
   6  AddCvtermAdditionalInfo
   7
   8 =head1 SYNOPSIS
   9
  10 mx-run ThisPackageName [options] -H hostname -D dbname -u username [-F]
  11
  12 this is a subclass of L<CXGN::Metadata::Dbpatch>
  13 see the perldoc of parent class for more details.
  14
  15 =head1 DESCRIPTION
  16
  17 This patch adds a system cvterm that is used to store additional info for cvterms.
  18
  19 This subclass uses L<Moose>. The parent class uses L<MooseX::Runnable>
  20
  21 =head1 AUTHOR
  22
  23  Chris Tucker<ct447@cornell.edu>
  24
  25 =head1 COPYRIGHT & LICENSE
  26
  27 Copyright 2010 Boyce Thompson Institute for Plant Research
  28
  29 This program is free software; you can redistribute it and/or modify
  30 it under the same terms as Perl itself.
  31
  32 =cut
  33
  34
  35 package AddCvtermAdditionalInfo;
  36
  37 use Moose;
  38 use Try::Tiny;
  39 use Bio::Chado::Schema;
  40
  41 extends 'CXGN::Metadata::Dbpatch';
  42
  43
  44 has '+description' => ( default => <<'' );
  45 This patch adds a system cvterm that is used to store additional info for cvterms.
  46
  47 has '+prereq' => (
  48     default => sub {
  49         [],
  50     },
  51 );
  52
  53 sub patch {
  54     my $self=shift;
  55
  56     print STDOUT "Executing the patch:\n " .   $self->name . ".\n\nDescription:\n  ".  $self->description . ".\n\nExecuted by:\n " .  $self->username . " .";
  57     print STDOUT "\nChecking if this db_patch was executed before or if previous db_patches have been executed.\n";
  58     print STDOUT "\nExecuting the SQL commands.\n";
  59
  60     my $schema = Bio::Chado::Schema->connect( sub { $self->dbh->clone } );
  61
  62     my $coderef = sub {
  63
  64         my $new_stock_cvterm = $schema->resultset("Cv::Cvterm")->create_with(
  65             {
  66                 name => 'cvterm_additional_info',
  67                 definition => 'BrAPI Additional Info field',
  68                 cv   => 'trait_property',
  69             }
  70         );
  71     };
  72
  73     try {
  74         $schema->txn_do($coderef);
  75
  76     } catch {
  77         die "Load failed! " . $_ .  "\n" ;
  78     };
  79
  80     print "You're done!\n";
  81 }
  82
  83 ####
  84 1; #
  85 ####