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scripts/Bio-DB-SeqFeature-Store/bp_seqfeature_gff3.pl  view on Meta::CPAN

          -p --password   Password to use to connect to database
          -g --gff3opt    flag options to gff3_string (i.e.: pass -gffopt 1 to recurse)

         WHICH FEATURES: any remaining options after '--' will select
         a subset of features. The arguments are identical to those
         accepted by Bio::DB::SeqFeature::Store->features().

END

$ADAPTOR     ||= 'DBI::mysql';
$DSN         ||= $ADAPTOR eq 'DBI::mysql' ? "mysql_read_default_file=$ENV{HOME}/.my.cnf" : '';

my $store = Bio::DB::SeqFeature::Store->new(
					    -dsn     => $DSN,
					    -adaptor => $ADAPTOR,
					    -user    => $USER,
					    -pass    => $PASS,
					   )
  or die "Couldn't create connection to the database";

# on signals, give objects a chance to call their DESTROY methods