Package Bio :: Module DBXRef
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Module DBXRef

source code

This module is DEPRECATED.

DBXref was used in building SeqRecords from Martel descriptions (see Bio.builders.SeqRecord.sequence for more details).

Andrew Dalke is no longer maintaining Martel or Bio.Mindy, and these modules and associate ones like Bio.DBXRef are now deprecated. They are no longer used in any of the current Biopython parsers, and are likely to be removed in a future release.

Classes [hide private]
  DBXRef
  BioformatDBName
  UnknownDBName
Functions [hide private]
 
from_parser(dbname_style, dbname, idtype, dbid, negate) source code
Variables [hide private]
  dbname_conversions = {"bioformat": BioformatDBName(), "unknown...
  __warningregistry__ = {('Martel and those parts of Biopython c...
Variables Details [hide private]

dbname_conversions

Value:
{'bioformat': <Bio.DBXRef.BioformatDBName instance at 0x821998c>,
 'genbank': {'ATCC': 'x-atcc',
             'ATCC(dna)': 'x-atcc-dna',
             'ATCC(in host)': 'x-atcc-host',
             'BDGP_EST': 'x-bdgp-est',
             'BDGP_INS': 'x-bdgp-ins',
             'ENSEMBL': 'ensembl',
             'ESTLIB': 'x-estlib',
...

__warningregistry__

Value:
{('Martel and those parts of Biopython closely linked to it (such as B\
io.DBXRef which is not used elsewhere) are now deprecated, and will be\
 removed in a future release of Biopython.  If you want to continue to\
 use this code, please get in contact with the Biopython developers vi\
a the mailing lists to avoid its permanent removal from Biopython.',
  <type 'exceptions.DeprecationWarning'>,
  21): 1}