Package Bio :: Module StdHandler
[hide private]
[frames] | no frames]

Module StdHandler

source code

This module is DEPRECATED.

Andrew Dalke is no longer maintaining Martel or Bio.Mindy, and these modules and associate ones like Bio.StdHandler 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]
  ConvertHandler
Used to read records and produce output
  ConvertDispatchHandler
Used to read records and produce output through a Dispatcher
  RecognizeHandler
  Handle_dbid
  Handle_description
  Handle_dbxref
  Handle_sequence
  Feature
  Handle_feature_location
  Handle_feature_qualifier
  Handle_features
  Handle_hsp_seqalign
  Handle_hsp
  Handle_search_table
  Handle_search_header
  Handle_search_info
Functions [hide private]
 
add_int_handler(klass, tag, attrname) source code
 
add_text_handler(klass, tag, attrname) source code
 
add_text_dict_handler(klass, tag, attrname, key) source code
 
add_text_decode_handler(klass, tag, attrname) source code
 
add_first_text_handler(klass, tag, attrname) source code
 
add_text_block_handler(klass, tag, joinattr, defaultjoin, attrname) source code
 
add_value_handler(klass, tag, attrname) source code
 
_fixup_sp_pattern(exp) source code
 
_fast_dbxref_sp_general(s) source code
 
_fast_dbxref_sp_prosite(s) source code
 
_fast_dbxref_sp_embl(s) source code
Variables [hide private]
  _fast_dbxref_sp_general_data = None
  _fast_dbxref_sp_prosite_data = None
  _fast_dbxref_sp_embl_data = None
  _fast_dbxref_parser_table = {"sp-general": _fast_dbxref_sp_gen...
  __warningregistry__ = {('Martel and those parts of Biopython d...
Variables Details [hide private]

_fast_dbxref_parser_table

Value:
{"sp-general": _fast_dbxref_sp_general, "sp-prosite": _fast_dbxref_sp_\
prosite, "sp-embl": _fast_dbxref_sp_embl,}

__warningregistry__

Value:
{('Martel and those parts of Biopython depending on it directly (such \
as Bio.Mindy and Bio.StdHandler) are now deprecated, and will be remov\
ed in a future release of Biopython.  If you want to continue to use t\
his code, please get in contact with the Biopython developers via the \
mailing lists to avoid its permanent removal from Biopython.',
  <type 'exceptions.DeprecationWarning'>,
  19): 1}