db/00164/AddVectorStockProps.pm

   1 #!/usr/bin/env perl
   2
   3
   4 =head1 NAME
   5
   6  AddVectorStockProps.pm
   7
   8 =head1 SYNOPSIS
   9
  10 mx-run AddVectorStockProps [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 is a test dummy patch.
  18 This subclass uses L<Moose>. The parent class uses L<MooseX::Runnable>
  19
  20 =head1 AUTHOR
  21
  22  Mirella Flores <mrf252@cornell.edu>
  23
  24 =head1 COPYRIGHT & LICENSE
  25
  26 Copyright 2010 Boyce Thompson Institute for Plant Research
  27
  28 This program is free software; you can redistribute it and/or modify
  29 it under the same terms as Perl itself.
  30
  31 =cut
  32
  33
  34 package AddVectorStockProps;
  35
  36 use Moose;
  37 use Bio::Chado::Schema;
  38 use Try::Tiny;
  39 extends 'CXGN::Metadata::Dbpatch';
  40
  41
  42 has '+description' => ( default => <<'' );
  43 This patch will find_or_create a cvterm for vectors
  44
  45 has '+prereq' => (
  46     default => sub {
  47         [],
  48     },
  49   );
  50
  51 sub patch {
  52     my $self=shift;
  53
  54     print STDOUT "Executing the patch:\n " .   $self->name . ".\n\nDescription:\n  ".  $self->description . ".\n\nExecuted by:\n " .  $self->username . " .";
  55
  56     print STDOUT "\nChecking if this db_patch was executed before or if previous db_patches have been executed.\n";
  57
  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 $vector_stockprop_SelectionMarker_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  65             name => 'SelectionMarker',
  66             cv   => 'stock_property',
  67         });
  68         my $vector_stockprop_CloningOrganism_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  69             name => 'CloningOrganism',
  70             cv   => 'stock_property',
  71         });
  72         my $vector_stockprop_CassetteName_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  73             name => 'CassetteName',
  74             cv   => 'stock_property',
  75         });
  76
  77     my $vector_stockprop_InherentMarker_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  78         name => 'InherentMarker',
  79         cv   => 'stock_property',
  80     });
  81     my $vector_stockprop_Strain_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  82         name => 'Strain',
  83         cv   => 'stock_property',
  84     });
  85     my $vector_stockprop_Backbone_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  86         name => 'Backbone',
  87         cv   => 'stock_property',
  88     });
  89
  90     my $vector_stockprop_Gene_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  91         name => 'Gene',
  92         cv   => 'stock_property',
  93     });
  94     my $vector_stockprop_Promotors_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  95         name => 'Promotors',
  96         cv   => 'stock_property',
  97     });
  98     my $vector_stockprop_Terminators_cvterm = $schema->resultset("Cv::Cvterm")->create_with({
  99         name => 'Terminators',
 100         cv   => 'stock_property',
 101     });
 102
 103
 104     };
 105
 106     try {
 107         $schema->txn_do($coderef);
 108
 109     } catch {
 110         die "Load failed! " . $_ .  "\n" ;
 111     };
 112
 113     print "You're done!\n";
 114 }
 115
 116
 117 ####
 118 1; #
 119 ####