db/00001/AlterAlleleMode.pm

   1 #!/usr/bin/env perl
   2
   3
   4 =head1 NAME
   5
   6 AlterAlleleMode.pm
   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 Add null option for allele mode_of_inheritance field
  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
  24 =head1 COPYRIGHT & LICENSE
  25
  26 Copyright 2011 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 AlterAlleleMode;
  35
  36 use Moose;
  37 extends 'CXGN::Metadata::Dbpatch';
  38
  39
  40 sub init_patch {
  41     my $self=shift;
  42     my $name = __PACKAGE__;
  43     print "dbpatch name is ':" .  $name . "\n\n";
  44     my $description = 'Altering allele mode_of_inheritance check constraint';
  45     my @previous_requested_patches = (); #ADD HERE
  46
  47     $self->name($name);
  48     $self->description($description);
  49     $self->prereq(\@previous_requested_patches);
  50 }
  51
  52 sub patch {
  53     my $self=shift;
  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     $self->dbh->do(<<EOSQL);
  60 --do your SQL here
  61 --
  62 SET search_path TO phenome;
  63  alter table allele drop CONSTRAINT chk_allele_mode_of_inheritance;
  64
  65  alter table allele add CONSTRAINT chk_allele_mode_of_inheritance check (mode_of_inheritance::text = 'recessive'::text OR mode_of_inheritance::text = 'partially dominant'::text OR mode_of_inheritance::text = 'dominant'::text OR  mode_of_inheritance::text = '') ;
  66
  67 EOSQL
  68
  69 print "You're done!\n";
  70
  71 }
  72
  73
  74 ####
  75 1; #
  76 ####