Package org.biojava.directory

Open Bio Sequence Database Access (OBDA) registry support.

See:
          Description

Interface Summary
RegistryConfiguration The BioDirectory Registry is a simple system for specifying where to find services which provide sequence databases.
SequenceDBProvider Interfaces for named resources that can provide sequences via a database given some configuration information as defined by the OBDA standard.
 

Class Summary
OBDARegistryParser This class encapsulates all the parsing of the OBDA registry configuration file.
Registry Registry is a factory which gets implementations of the BioJava SequenceDBLite interface.
RegistryConfiguration.Composite A RegistryConfiguration that allows you to treat other configurations as providing important or default configuration information.
RegistryConfiguration.Impl A simple implementation of RegistryConfiguration backed by a Map.
SystemRegistry A registry that loads up the standard biodirectory files.
 

Exception Summary
ProviderNotFoundException ProviderNotFoundException is thrown when a sequence database provider can not be located.
RegistryException A RegistryException thrown when the registry cannot find an implementation of a requested SequenceDB.
 

Package org.biojava.directory Description

Open Bio Sequence Database Access (OBDA) registry support.