Package org.biojava.directory

package org.biojava.directory

Open Bio Sequence Database Access (OBDA) registry support.

  • Class
    Description
    OBDARegistryParser
    This class encapsulates all the parsing of the OBDA registry configuration file.
    ProviderNotFoundException
    ProviderNotFoundException is thrown when a sequence database provider can not be located.
    Registry
    Registry is a factory which gets implementations of the BioJava SequenceDBLite interface.
    RegistryConfiguration
    The BioDirectory Registry is a simple system for specifying where to find services which provide sequence databases.
    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.
    RegistryException
    A RegistryException thrown when the registry cannot find an implementation of a requested SequenceDB.
    SequenceDBProvider
    Interfaces for named resources that can provide sequences via a database given some configuration information as defined by the OBDA standard.
    SystemRegistry
    A registry that loads up the standard biodirectory files.