com.chemaxon.overlap.cli.util

Class DescriptorsWithMolsImpl<T extends Serializable>

java.lang.Object

com.chemaxon.overlap.cli.util.DescriptorsWithMolsImpl<T>

Type Parameters:

T - Unguarded type

All Implemented Interfaces:

DescriptorsWithMols<T>, Serializable

public class DescriptorsWithMolsImpl<T extends Serializable>
extends Object
implements DescriptorsWithMols<T>

Simple container implementation.

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor and Description
DescriptorsWithMolsImpl(MasterMoleculeStorage mms, MasterStringStorage idstorageOrNull, DescriptorContainer<T> descriptorContainer, Map<String,MolProp<?>> props) Construct.
DescriptorsWithMolsImpl(OverlapAnalysisContext<?,T> context, ParsedUnguardedWithMolResultHandler<T> parsedResults) Construct.

Method Summary

Modifier and Type	Method and Description
OverlapAnalysisContext<?,T>	getContext() Get represented OverlapAnalysisContext.
UnguardedPagedOverlap<T>	getDescriptors() Represented descriptors.
MasterStringStorage	getIds() Represented IDs.
IndexProjector	getIndexProjector() Get represented index projector.
MasterMoleculeStorage	getMolecules() Represented molecules.
Map<String,MolProp<?>>	getProperties() Additional stored property containers.
DescriptorsWithMols<T>	withAdditionalProperties(Map<String,MolProp> props) Represent additional properties.
DescriptorsWithMols<T>	withMetric(String metricOrNull) Use specified metric.

Methods inherited from class java.lang.Object

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

Methods inherited from interface com.chemaxon.overlap.cli.util.DescriptorsWithMols

getProperty, getUnguardedsAsFlatList, size, toMultilineString

Constructor Detail

DescriptorsWithMolsImpl

public DescriptorsWithMolsImpl(MasterMoleculeStorage mms,
                               MasterStringStorage idstorageOrNull,
                               DescriptorContainer<T> descriptorContainer,
                               Map<String,MolProp<?>> props)

Construct.

Parameters:

mms - Master Molecule store to expose

idstorageOrNull - IDs to expose or null for generated IDs

descriptorContainer - Descriptors to expose

props - Additional properties or null

DescriptorsWithMolsImpl

public DescriptorsWithMolsImpl(OverlapAnalysisContext<?,T> context,
                               ParsedUnguardedWithMolResultHandler<T> parsedResults)

Construct.

Parameters:

context - Context to use

parsedResults - Results from descriptor parsing

Method Detail

getIds

public MasterStringStorage getIds()

Description copied from interface: DescriptorsWithMols

Represented IDs. Storage is always returned, however some of the stored IDs might be missing.

Specified by:

getIds in interface DescriptorsWithMols<T extends Serializable>

Returns:

represented IDs.

getDescriptors

public UnguardedPagedOverlap<T> getDescriptors()

Description copied from interface: DescriptorsWithMols

Represented descriptors.

Specified by:

getDescriptors in interface DescriptorsWithMols<T extends Serializable>

Returns:

represented descriptors

getIndexProjector

public IndexProjector getIndexProjector()

Description copied from interface: DescriptorsWithMols

Get represented index projector.

Specified by:

getIndexProjector in interface DescriptorsWithMols<T extends Serializable>

Returns:

Index projector

getContext

public OverlapAnalysisContext<?,T> getContext()

Description copied from interface: DescriptorsWithMols

Get represented OverlapAnalysisContext.

Specified by:

getContext in interface DescriptorsWithMols<T extends Serializable>

Returns:

represented context

withMetric

public DescriptorsWithMols<T> withMetric(String metricOrNull)

Description copied from interface: DescriptorsWithMols

Use specified metric.

Specified by:

withMetric in interface DescriptorsWithMols<T extends Serializable>

Parameters:

metricOrNull - Metric to use or null to use default

Returns:

An instance exposing the specified metric

withAdditionalProperties

public DescriptorsWithMols<T> withAdditionalProperties(Map<String,MolProp> props)

Description copied from interface: DescriptorsWithMols

Represent additional properties.

Specified by:

withAdditionalProperties in interface DescriptorsWithMols<T extends Serializable>

Parameters:

props - Mapping of unique names to property containers

Returns:

An instance exposing the specified properties

getMolecules

public MasterMoleculeStorage getMolecules()

Description copied from interface: DescriptorsWithMols

Represented molecules.

Specified by:

getMolecules in interface DescriptorsWithMols<T extends Serializable>

Returns:

Represented Molecules.

getProperties

public Map<String,MolProp<?>> getProperties()

Description copied from interface: DescriptorsWithMols

Additional stored property containers.

Specified by:

getProperties in interface DescriptorsWithMols<T extends Serializable>

Returns:

Map of property name to property containers.