db/00168/AddTransplantingDateCvterm.pm

   1 #!/usr/bin/env perl
   2
   3
   4 =head1 NAME
   5
   6 AddTransplantingDateCvterm.pm
   7
   8 head1 SYNOPSIS
   9
  10 mx-run AddTransplantingDateCvterm [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 transplanting date cvterm
  18 This subclass uses L<Moose>. The parent class uses L<MooseX::Runnable>
  19
  20 =head1 AUTHOR
  21
  22  Naama Menda<nm249@cornell.edu>
  23  Srikanth Kumar Karaikal <sk2783@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 AddTransplantingDateCvterm;
  36
  37 use Moose;
  38 use experimental 'declared_refs';
  39 use Try::Tiny;
  40 use Bio::Chado::Schema;
  41 extends 'CXGN::Metadata::Dbpatch';
  42
  43
  44 has '+description' => ( default => <<'' );
  45 Description of this patch goes here
  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
  58     print STDOUT "\nChecking if this db_patch was executed before or if previous db_patches have been executed.\n";
  59
  60     print STDOUT "\nExecuting the SQL commands.\n";
  61     my $schema = Bio::Chado::Schema->connect( sub { $self->dbh->clone } );
  62
  63     print STDERR "INSERTING CV TERMS...\n";
  64     my $terms = {
  65        'project_property' =>[
  66            'project_transplanting_date'],
  67     };
  68
  69     foreach my $t (keys %$terms){
  70         foreach(@{$terms->{$t}}){
  71             $schema->resultset("Cv::Cvterm")->create_with({
  72                 name => $_,
  73                 cv => $t,
  74             });
  75         }
  76     }
  77
  78     print "You're done!\n"
  79 }
  80
  81 ####
  82 1; #
  83 ####