gov.usda.gdpc.axis
Class DBConnectionProxy

java.lang.Object
  gov.usda.gdpc.axis.DBConnectionProxy

All Implemented Interfaces:

DBConnection

public final class DBConnectionProxy

extends java.lang.Object

implements DBConnection

Author:

terryc

Constructor Summary

DBConnectionProxy(java.lang.String serviceName, java.lang.String endpoint)
DBConnectionProxy Constructor.

Method Summary

void	close() This method is used to tell the connection to close or generally release any resources and shutdown.
java.lang.String	getDataSource() Returns the data source of this connection.
java.lang.String	getDescription() Returns a description of this connection.
DistinctPropertyValues	getDistinctProperties(java.util.List properties) Returns list(s) of distinct property values for the given properties.
java.lang.String	getEndpoint()
EnvironmentExperimentGroup	getEnvironmentExperimentGroup(EnvironmentExperimentFilter filter) Gets an environment experiment group based on the given environment experiment filter.
GenotypeExperimentGroup	getGenotypeExperimentGroup(GenotypeExperimentFilter filter) Gets a genotype experiment group based on the given genotype experiment filter.
GenericTable	getGenotypeGenericTable(GenotypeExperimentGroup experimentGroup, TaxonGroup taxonGroup) Gets the genotypes for all combinations of genotype experiments and taxa defined by the respective groups.
GenotypeGroup	getGenotypeGroup(GenotypeExperimentGroup experimentGroup, TaxonGroup taxonGroup) Gets the genotypes for all combinations of genotype experiments and taxa defined by the respective groups.
LocalityGroup	getLocalityGroup(LocalityFilter filter) Gets a locality group based on the given locality filter.
LocusGroup	getLocusGroup(LocusFilter filter) Gets a locus group based on the given locus filter.
java.lang.String	getNamespace()
PhenotypeGroup	getPhenotypeGroup(EnvironmentExperimentGroup experimentGroup, TaxonGroup taxonGroup, PhenotypeOntologyGroup ontologyGroup) Gets the phenotypes for all combinations of environment experiments, taxa, and phenotype ontologys defined by the respective groups.
PhenotypeOntologyGroup	getPhenotypeOntologyGroup(PhenotypeOntologyFilter filter) Get a phenotype ontology group based on the given pheotype ontology filter.
java.lang.String	getServiceName()
java.lang.String	getStyle()
TaxonGroup	getTaxonGroup(TaxonFilter filter) Gets a taxon group based on the given taxon filter.
java.lang.String	getUse()
java.lang.String	toString()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

DBConnectionProxy

public DBConnectionProxy(java.lang.String serviceName,
                         java.lang.String endpoint)

DBConnectionProxy Constructor.

Method Detail

close

public void close()

This method is used to tell the connection to close or generally release any resources and shutdown. The connection may choose to not support this method if end users are not allowed to close the connection.

Specified by:

close in interface DBConnection

getDataSource

public java.lang.String getDataSource()

Returns the data source of this connection. Typically, a URI.

Specified by:

getDataSource in interface DBConnection

Returns:

data source

getDescription

public java.lang.String getDescription()

Returns a description of this connection.

Specified by:

getDescription in interface DBConnection

Returns:

description

getDistinctProperties

public DistinctPropertyValues getDistinctProperties(java.util.List properties)

Returns list(s) of distinct property values for the given properties. The list(s) are values retrieved from this database connection. If null returned, this connection does not support the properties or the values could not be retrieved.

Specified by:

getDistinctProperties in interface DBConnection

Parameters:

properties - list of properties

Returns:

list(s) of distinct property values

getEnvironmentExperimentGroup

public EnvironmentExperimentGroup getEnvironmentExperimentGroup(EnvironmentExperimentFilter filter)

Gets an environment experiment group based on the given environment experiment filter.

Specified by:

getEnvironmentExperimentGroup in interface DBConnection

Parameters:

filter - filter containing criteria.

Returns:

the environment experiment group

getGenotypeExperimentGroup

public GenotypeExperimentGroup getGenotypeExperimentGroup(GenotypeExperimentFilter filter)

Gets a genotype experiment group based on the given genotype experiment filter.

Specified by:

getGenotypeExperimentGroup in interface DBConnection

Parameters:

filter - filter containing criteria.

Returns:

the genotype experiment group

getGenotypeGenericTable

public GenericTable getGenotypeGenericTable(GenotypeExperimentGroup experimentGroup,
                                            TaxonGroup taxonGroup)

Gets the genotypes for all combinations of genotype experiments and taxa defined by the respective groups.

Specified by:

getGenotypeGenericTable in interface DBConnection

Parameters:

experimentGroup - genotype experiment group

taxonGroup - taxon group

Returns:

generic table

getGenotypeGroup

public GenotypeGroup getGenotypeGroup(GenotypeExperimentGroup experimentGroup,
                                      TaxonGroup taxonGroup)

Gets the genotypes for all combinations of genotype experiments and taxa defined by the respective groups.

Specified by:

getGenotypeGroup in interface DBConnection

Parameters:

experimentGroup - genotype experiment group

taxonGroup - taxon group

Returns:

genotype group

getLocalityGroup

public LocalityGroup getLocalityGroup(LocalityFilter filter)

Gets a locality group based on the given locality filter.

Specified by:

getLocalityGroup in interface DBConnection

Parameters:

filter - filter containing criteria.

Returns:

the locality group

getLocusGroup

public LocusGroup getLocusGroup(LocusFilter filter)

Gets a locus group based on the given locus filter.

Specified by:

getLocusGroup in interface DBConnection

Parameters:

filter - filter containing criteria to build locus group.

Returns:

the locus group

getPhenotypeGroup

public PhenotypeGroup getPhenotypeGroup(EnvironmentExperimentGroup experimentGroup,
                                        TaxonGroup taxonGroup,
                                        PhenotypeOntologyGroup ontologyGroup)

Gets the phenotypes for all combinations of environment experiments, taxa, and phenotype ontologys defined by the respective groups.

Specified by:

getPhenotypeGroup in interface DBConnection

Parameters:

experimentGroup - environment experiment group

taxonGroup - taxon group

ontologyGroup - phenotype ontology group

Returns:

phenotype group

getPhenotypeOntologyGroup

public PhenotypeOntologyGroup getPhenotypeOntologyGroup(PhenotypeOntologyFilter filter)

Get a phenotype ontology group based on the given pheotype ontology filter.

Specified by:

getPhenotypeOntologyGroup in interface DBConnection

Parameters:

filter - phenotype ontology filter

Returns:

phenotype ontology group

getTaxonGroup

public TaxonGroup getTaxonGroup(TaxonFilter filter)

Gets a taxon group based on the given taxon filter.

Specified by:

getTaxonGroup in interface DBConnection

Parameters:

filter - filter containing criteria.

Returns:

the taxon group

getNamespace

public java.lang.String getNamespace()

getStyle

public java.lang.String getStyle()

getUse

public java.lang.String getUse()

getServiceName

public java.lang.String getServiceName()

getEndpoint

public java.lang.String getEndpoint()

toString

public java.lang.String toString()