Bio::DB::Flat::BDB embl
SummaryIncluded librariesPackage variablesSynopsisDescriptionGeneral documentationMethods
Toolbar
WebCvs
Summary
Bio::DB::Flat::BDB::embl - embl adaptor for Open-bio standard BDB-indexed flat file
Package variables
No package variables defined.
Inherit
Bio::DB::Flat::BDB
Synopsis
See Bio::DB::Flat.
Description
This module allows embl files to be stored in Berkeley DB flat files
using the Open-Bio standard BDB-indexed flat file scheme. You should
not be using this directly, but instead use it via Bio::DB::Flat.
Methods
seq_to_ids
No description
Code
default_primary_namespace
No description
Code
default_secondary_namespaces
No description
Code
Methods description
None available.
Methods code
seq_to_idsdescriptionprevnextTop
sub seq_to_ids {
  my $self = shift;
  my $seq  = shift;

  my $display_id = $seq->display_id;
  my $accession  = $seq->accession_number;
  my $version    = $seq->seq_version;

  my %ids;
  $ids{ID}       = $display_id;
  $ids{ACC}      = $accession             if defined $accession;
  $ids{VERSION}  = "$accession.$version"  if defined $accession && defined $version;
  return\% ids;
}
default_primary_namespacedescriptionprevnextTop
sub default_primary_namespace {
  return "ID";
}
default_secondary_namespacesdescriptionprevnextTop
sub default_secondary_namespaces {
  return qw(ACC VERSION);
}
General documentation
FEEDBACKTop
Mailing ListsTop
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to one
of the Bioperl mailing lists. Your participation is much appreciated.
  bioperl-l@bioperl.org                  - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Support Top
Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and
reponsive experts will be able look at the problem and quickly
address it. Please include a thorough description of the problem
with code and data examples if at all possible.
Reporting BugsTop
Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
  https://redmine.open-bio.org/projects/bioperl/
AUTHOR - Lincoln SteinTop
Email - lstein@cshl.org
SEE ALSOTop
Bio::DB::Flat,