lib/SGN/Schema/Est.pm

   1 package SGN::Schema::Est;
   2
   3 # Created by DBIx::Class::Schema::Loader
   4 # DO NOT MODIFY THE FIRST PART OF THIS FILE
   5
   6 use strict;
   7 use warnings;
   8
   9 use base 'DBIx::Class::Core';
  10
  11
  12 =head1 NAME
  13
  14 SGN::Schema::Est
  15
  16 =cut
  17
  18 __PACKAGE__->table("est");
  19
  20 =head1 ACCESSORS
  21
  22 =head2 est_id
  23
  24   data_type: 'integer'
  25   is_auto_increment: 1
  26   is_nullable: 0
  27   sequence: 'est_est_id_seq'
  28
  29 =head2 read_id
  30
  31   data_type: 'integer'
  32   is_foreign_key: 1
  33   is_nullable: 1
  34
  35 =head2 version
  36
  37   data_type: 'integer'
  38   is_nullable: 1
  39
  40 =head2 basecaller
  41
  42   data_type: 'varchar'
  43   is_nullable: 1
  44   size: 40
  45
  46 =head2 seq
  47
  48   data_type: 'text'
  49   is_nullable: 1
  50
  51 =head2 qscore
  52
  53   data_type: 'text'
  54   is_nullable: 1
  55
  56 =head2 call_positions
  57
  58   data_type: 'text'
  59   is_nullable: 1
  60
  61 =head2 status
  62
  63   data_type: 'integer'
  64   is_nullable: 1
  65
  66 =head2 flags
  67
  68   data_type: 'bigint'
  69   is_nullable: 1
  70
  71 =head2 date
  72
  73   data_type: 'date'
  74   is_nullable: 1
  75
  76 =head2 genbank_submission_date
  77
  78   data_type: 'date'
  79   is_nullable: 1
  80
  81 =head2 genbank_confirmed
  82
  83   data_type: 'boolean'
  84   is_nullable: 1
  85
  86 =cut
  87
  88 __PACKAGE__->add_columns(
  89   "est_id",
  90   {
  91     data_type         => "integer",
  92     is_auto_increment => 1,
  93     is_nullable       => 0,
  94     sequence          => "est_est_id_seq",
  95   },
  96   "read_id",
  97   { data_type => "integer", is_foreign_key => 1, is_nullable => 1 },
  98   "version",
  99   { data_type => "integer", is_nullable => 1 },
 100   "basecaller",
 101   { data_type => "varchar", is_nullable => 1, size => 40 },
 102   "seq",
 103   { data_type => "text", is_nullable => 1 },
 104   "qscore",
 105   { data_type => "text", is_nullable => 1 },
 106   "call_positions",
 107   { data_type => "text", is_nullable => 1 },
 108   "status",
 109   { data_type => "integer", is_nullable => 1 },
 110   "flags",
 111   { data_type => "bigint", is_nullable => 1 },
 112   "date",
 113   { data_type => "date", is_nullable => 1 },
 114   "genbank_submission_date",
 115   { data_type => "date", is_nullable => 1 },
 116   "genbank_confirmed",
 117   { data_type => "boolean", is_nullable => 1 },
 118 );
 119 __PACKAGE__->set_primary_key("est_id");
 120
 121 =head1 RELATIONS
 122
 123 =head2 read
 124
 125 Type: belongs_to
 126
 127 Related object: L<SGN::Schema::Seqread>
 128
 129 =cut
 130
 131 __PACKAGE__->belongs_to(
 132   "read",
 133   "SGN::Schema::Seqread",
 134   { read_id => "read_id" },
 135   {
 136     is_deferrable => 1,
 137     join_type     => "LEFT",
 138     on_delete     => "CASCADE",
 139     on_update     => "CASCADE",
 140   },
 141 );
 142
 143 =head2 est_dbxrefs
 144
 145 Type: has_many
 146
 147 Related object: L<SGN::Schema::EstDbxref>
 148
 149 =cut
 150
 151 __PACKAGE__->has_many(
 152   "est_dbxrefs",
 153   "SGN::Schema::EstDbxref",
 154   { "foreign.est_id" => "self.est_id" },
 155   { cascade_copy => 0, cascade_delete => 0 },
 156 );
 157
 158 =head2 qc_report
 159
 160 Type: might_have
 161
 162 Related object: L<SGN::Schema::QcReport>
 163
 164 =cut
 165
 166 __PACKAGE__->might_have(
 167   "qc_report",
 168   "SGN::Schema::QcReport",
 169   { "foreign.est_id" => "self.est_id" },
 170   { cascade_copy => 0, cascade_delete => 0 },
 171 );
 172
 173 =head2 unigene_members
 174
 175 Type: has_many
 176
 177 Related object: L<SGN::Schema::UnigeneMember>
 178
 179 =cut
 180
 181 __PACKAGE__->has_many(
 182   "unigene_members",
 183   "SGN::Schema::UnigeneMember",
 184   { "foreign.est_id" => "self.est_id" },
 185   { cascade_copy => 0, cascade_delete => 0 },
 186 );
 187
 188
 189 # Created by DBIx::Class::Schema::Loader v0.07002 @ 2012-03-03 12:35:39
 190 # DO NOT MODIFY THIS OR ANYTHING ABOVE! md5sum:DeimiLHdVqQ+IoBlB+xxog
 191
 192 sub hqi_seq {
 193     my ( $self ) = @_;
 194
 195     if( my $qc = $self->qc_report ) {
 196         return substr( $self->seq, $qc->hqi_start, $qc->hqi_length );
 197     } else {
 198         return $self->seq;
 199     }
 200 }
 201
 202
 203 # You can replace this text with custom content, and it will be preserved on regeneration
 204 1;