db/00126/AddStandardProcessInteractiveCvterms.pm

   1 #!/usr/bin/env perl
   2
   3
   4 =head1 NAME
   5
   6  AddStandardProcessInteractiveCvterms
   7
   8 =head1 SYNOPSIS
   9
  10 mx-run AddStandardProcessInteractiveCvterms [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 standard process interactive drone imagery
  17 This subclass uses L<Moose>. The parent class uses L<MooseX::Runnable>
  18
  19 =head1 AUTHOR
  20
  21
  22 =head1 COPYRIGHT & LICENSE
  23
  24 Copyright 2010 Boyce Thompson Institute for Plant Research
  25
  26 This program is free software; you can redistribute it and/or modify
  27 it under the same terms as Perl itself.
  28
  29 =cut
  30
  31
  32 package AddStandardProcessInteractiveCvterms;
  33
  34 use Moose;
  35 use Bio::Chado::Schema;
  36 use Try::Tiny;
  37 extends 'CXGN::Metadata::Dbpatch';
  38
  39
  40 has '+description' => ( default => <<'' );
  41 This patch adds cvterms for standard process interactive drone imagery
  42
  43 has '+prereq' => (
  44         default => sub {
  45         [],
  46     },
  47
  48 );
  49
  50 sub patch {
  51     my $self=shift;
  52
  53     print STDOUT "Executing the patch:\n " .   $self->name . ".\n\nDescription:\n  ".  $self->description . ".\n\nExecuted by:\n " .  $self->username . " .";
  54
  55     print STDOUT "\nChecking if this db_patch was executed before or if previous db_patches have been executed.\n";
  56
  57     print STDOUT "\nExecuting the SQL commands.\n";
  58     my $schema = Bio::Chado::Schema->connect( sub { $self->dbh->clone } );
  59
  60
  61     print STDERR "INSERTING CV TERMS...\n";
  62
  63     my $terms = {
  64         'project_md_image' => [
  65             'standard_process_interactive_match_temporary_drone_imagery',
  66             'standard_process_interactive_align_temporary_drone_imagery'
  67         ],
  68         'project_property' => [
  69             'drone_run_raw_images_saved_gps_pixel_positions',
  70             'drone_run_raw_images_saved_micasense_stacks_rotated',
  71             'drone_run_is_raw_images',
  72             'drone_run_raw_images_rotation_occuring',
  73             'drone_run_raw_images_saved_micasense_stacks_separated',
  74             'drone_run_band_plot_polygons_separated'
  75         ],
  76         'protocol_type' => [
  77             'sommer_grm_temporal_random_regression_dap_genetic_blups',
  78             'sommer_grm_temporal_random_regression_gdd_genetic_blups'
  79         ],
  80         'experiment_type' => [
  81             'drone_run_experiment'
  82         ]
  83     };
  84
  85     foreach my $t (keys %$terms){
  86         foreach (@{$terms->{$t}}){
  87             $schema->resultset("Cv::Cvterm")->create_with({
  88                 name => $_,
  89                 cv => $t
  90             });
  91         }
  92     }
  93
  94     print "You're done!\n";
  95 }
  96
  97
  98 ####
  99 1; #
 100 ####