db/00144/AddAnalyticsProtocolCvterms.pm

   1 #!/usr/bin/env perl
   2
   3
   4 =head1 NAME
   5
   6 AddAnalyticsProtocolCvterms
   7
   8 =head1 SYNOPSIS
   9
  10 mx-run AddAnalyticsProtocolCvterms [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 This patch adds cvterms for analytics protocols. These protocols are for saving results/graphs/files from analytics processes
  17 This subclass uses L<Moose>. The parent class uses L<MooseX::Runnable>
  18
  19 =head1 AUTHOR
  20
  21 =head1 COPYRIGHT & LICENSE
  22
  23 Copyright 2010 Boyce Thompson Institute for Plant Research
  24
  25 This program is free software; you can redistribute it and/or modify
  26 it under the same terms as Perl itself.
  27
  28 =cut
  29
  30
  31 package AddAnalyticsProtocolCvterms;
  32
  33 use Moose;
  34 use Bio::Chado::Schema;
  35 use Try::Tiny;
  36 extends 'CXGN::Metadata::Dbpatch';
  37
  38
  39 has '+description' => ( default => <<'' );
  40 This patch adds cvterms for analytics protocols. These protocols are for saving results/graphs/files from analytics processes
  41
  42 has '+prereq' => (
  43         default => sub {
  44         [],
  45     },
  46
  47 );
  48
  49 sub patch {
  50     my $self=shift;
  51
  52     print STDOUT "Executing the patch:\n " .   $self->name . ".\n\nDescription:\n  ".  $self->description . ".\n\nExecuted by:\n " .  $self->username . " .";
  53
  54     print STDOUT "\nChecking if this db_patch was executed before or if previous db_patches have been executed.\n";
  55
  56     print STDOUT "\nExecuting the SQL commands.\n";
  57     my $schema = Bio::Chado::Schema->connect( sub { $self->dbh->clone } );
  58
  59     print STDERR "INSERTING CV TERMS...\n";
  60
  61     my $terms = {
  62         'protocol_type' => [
  63             'drone_imagery_analytics_env_simulation_protocol'
  64         ],
  65         'protocol_property' => [
  66             'analytics_protocol_properties',
  67             'analytics_protocol_result_summary',
  68         ],
  69         'experiment_type' => [
  70             'analytics_protocol_experiment'
  71         ]
  72     };
  73
  74     foreach my $t (keys %$terms){
  75         foreach (@{$terms->{$t}}){
  76             $schema->resultset("Cv::Cvterm")->create_with({
  77                 name => $_,
  78                 cv => $t
  79             });
  80         }
  81     }
  82
  83     print "You're done!\n";
  84 }
  85
  86
  87 ####
  88 1; #
  89 ####