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Package Bio :: Package config :: Module SeqDBRegistry |
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This module handles seqdatabase.INI file.
Classes: SeqDBRegistry Holds databases from seqdatabase.INI.Classes | |
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SeqDBRegistry |
This object implements a dictionary-like interface to sequence databases. |
Function Summary | |
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_list_ini_files(filename) -> list of files to search (in order) | |
_list_ini_paths() -> list of URL's or paths to search for files. | |
_load_registry_objects(ini_file)
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_make_biofetch_db(name,
tagvalue_dict)
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Register a BioSQL database defined in the registry. | |
Register a Berkeley or Flat indexed file defined in the registry. | |
Guess whether this is a file or url and open it. | |
_warn(message)
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Function Details |
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_list_ini_files(filename, also_search=[])_list_ini_files(filename) -> list of files to search (in order) |
_list_ini_paths()_list_ini_paths() -> list of URL's or paths to search for files. The default places to look for registry files are: - ${HOME}/.bioinformatics - /etc/bioinformatics - http://www.open-bio.org/registry The OBDA_SEARCH_PATH environment variable, if specified, overrides the default. This should be a "+" separated list of paths or URL's. |
_make_biosql_db(name, tagvalue_dict)Register a BioSQL database defined in the registry. |
_make_flat_db(name, tagvalue_dict)Register a Berkeley or Flat indexed file defined in the registry. |
_openfu(file_or_url)Guess whether this is a file or url and open it. |
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