Uses of Class
com.genologics.ri.artifact.Artifact

Packages that use Artifact

Package	Description
com.genologics.ri.artifact	Provides JAXB bindings for artifacts in the Genologics REST API.
com.genologics.ri.container	Container entity and support classes for the Clarity REST API.
com.genologics.ri.process	Entities for processes executed in the Clarity system.
com.genologics.ri.processexecution	Entities for process execution in the Clarity system.
com.genologics.ri.queue	Entities for work queues in the Clarity system.
com.genologics.ri.routing	Provides JAXB binding classes for the Clarity REST API routing entity and its related components.
com.genologics.ri.sample	Provides classes for sample entities in the Clarity LIMS API.
com.genologics.ri.step	Entities for workflow steps in the Clarity system.
org.cruk.clarity.api	The main public package of the Clarity API.
org.cruk.clarity.api.impl	Concrete implementation classes of the Clarity API.

Uses of Artifact in com.genologics.ri.artifact

Fields in com.genologics.ri.artifact with type parameters of type Artifact

Modifier and Type	Field	Description
protected List<Artifact>	ArtifactBatchFetchResult.artifacts	The list of artifacts in this batch.

Methods in com.genologics.ri.artifact that return Artifact

Modifier and Type	Method	Description
Artifact	ObjectFactory.createArtifact()	Creates a new Artifact instance.

Methods in com.genologics.ri.artifact that return types with arguments of type Artifact

Modifier and Type	Method	Description
JAXBElement<Artifact>	ObjectFactory.createArtifact(Artifact value)	Creates a JAXBElement for Artifact.
List<Artifact>	ArtifactBatchFetchResult.getArtifacts()	Gets the list of artifacts in this batch.
Class<Artifact>	ArtifactLink.getEntityClass()	Gets the entity class.
Class<Artifact>	DemuxArtifact.getEntityClass()	Gets the entity class.
Class<Artifact>	DemuxSourceArtifact.getEntityClass()	Gets the entity class.
LimsEntityLink<Artifact>	Artifact.getLink()	Get a concrete link object to this LimsEntityLinkable entity.
List<Artifact>	ArtifactBatchFetchResult.getList()	Gets the list of artifacts in this batch.

Methods in com.genologics.ri.artifact with parameters of type Artifact

Modifier and Type	Method	Description
JAXBElement<Artifact>	ObjectFactory.createArtifact(Artifact value)	Creates a JAXBElement for Artifact.

Method parameters in com.genologics.ri.artifact with type arguments of type Artifact

Modifier and Type	Method	Description
void	ArtifactBatchFetchResult.addForCreate(Collection<Artifact> entities)	Adds artifacts to be created.
void	ArtifactBatchFetchResult.addForUpdate(Collection<Artifact> entities)	Adds artifacts to be updated.
void	DemuxSourceArtifact.setArtifact(Linkable<Artifact> artifact)	Sets the artifact from a Linkable.

Constructors in com.genologics.ri.artifact with parameters of type Artifact

Modifier	Constructor	Description
	DemuxSourceArtifact(Artifact artifact)	Constructor from an Artifact.

Constructor parameters in com.genologics.ri.artifact with type arguments of type Artifact

Modifier	Constructor	Description
	ArtifactBatchFetchResult(Collection<Artifact> artifacts)	Constructor taking a collection of artifacts.
	ArtifactLink(LimsEntityLinkable<Artifact> link)	Constructor from a LimsEntityLinkable.
	ArtifactLink(Linkable<Artifact> link)	Constructor from a Linkable.
	DemuxSourceArtifact(Linkable<Artifact> link)	Constructor from a Linkable.

Uses of Artifact in com.genologics.ri.container

Methods in com.genologics.ri.container that return types with arguments of type Artifact

Modifier and Type	Method	Description
Class<Artifact>	Placement.getEntityClass()	Gets the entity class for this placement.

Method parameters in com.genologics.ri.container with type arguments of type Artifact

Modifier and Type	Method	Description
Placement	Container.addPlacement(LimsEntityLinkable<Artifact> artifact, String wellPosition)	Adds a placement to the container with an artifact and well position.
void	Container.setPlacements(Collection<? extends LimsEntityLinkable<Artifact>> links)	Sets the placements from a collection of artifact links.

Constructors in com.genologics.ri.container with parameters of type Artifact

Modifier	Constructor	Description
	Placement(Artifact artifact)	Constructor from an artifact.

Constructor parameters in com.genologics.ri.container with type arguments of type Artifact

Modifier	Constructor	Description
	Placement(LimsEntityLinkable<Artifact> artifact)	Constructor from a LIMS entity linkable artifact.
	Placement(LimsEntityLinkable<Artifact> artifact, String wellPosition)	Constructor from a LIMS entity linkable artifact with well position.

Uses of Artifact in com.genologics.ri.process

Methods in com.genologics.ri.process that return types with arguments of type Artifact

Modifier and Type	Method	Description
Class<Artifact>	ArtifactLink.getEntityClass()	Gets the entity class.

Method parameters in com.genologics.ri.process with type arguments of type Artifact

Modifier and Type	Method	Description
void	InputOutputMap.setInput(LimsEntityLinkable<Artifact> link)	Sets the input from a LIMS entity linkable artifact.
void	InputOutputMap.setInput(Linkable<Artifact> link)	Sets the input from a linkable artifact.
void	InputOutputMap.setOutput(LimsEntityLinkable<Artifact> link)	Sets the output from a LIMS entity linkable artifact.
void	InputOutputMap.setOutput(Linkable<Artifact> link)	Sets the output from a linkable artifact.

Constructors in com.genologics.ri.process with parameters of type Artifact

Modifier	Constructor	Description
	ArtifactLink(Artifact artifact)	Constructor from an artifact.

Constructor parameters in com.genologics.ri.process with type arguments of type Artifact

Modifier	Constructor	Description
	ArtifactLink(LimsEntityLinkable<Artifact> link)	Constructor from a LIMS entity linkable object.
	ArtifactLink(Linkable<Artifact> link)	Constructor from a linkable object.
	InputOutputMap(LimsEntityLinkable<Artifact> input, LimsEntityLinkable<Artifact> output)	Constructor with input and output LIMS entity linkable artifacts.
	InputOutputMap(Linkable<Artifact> input, Linkable<Artifact> output)	Constructor with input and output linkable artifacts.

Uses of Artifact in com.genologics.ri.processexecution

Methods in com.genologics.ri.processexecution that return types with arguments of type Artifact

Modifier and Type	Method	Description
Class<Artifact>	Input.getEntityClass()	Gets the entity class.

Method parameters in com.genologics.ri.processexecution with type arguments of type Artifact

Modifier and Type	Method	Description
Input	ExecutableInputOutputMap.addInput(Linkable<Artifact> link, QCFlag qc)	Adds an input with a QC flag to the input list.
void	ExecutableInputOutputMap.setInputs(Collection<? extends Linkable<Artifact>> links)	Sets the inputs from a collection of artifact links.
protected void	ArtifactBase.updateQCFlag(Linkable<Artifact> link)	Updates the QC flag from a linkable artifact.

Constructor parameters in com.genologics.ri.processexecution with type arguments of type Artifact

Modifier	Constructor	Description
	Input(Linkable<Artifact> link)	Constructor from a linkable artifact.

Uses of Artifact in com.genologics.ri.queue

Methods in com.genologics.ri.queue that return types with arguments of type Artifact

Modifier and Type	Method	Description
Class<Artifact>	ArtifactLink.getEntityClass()	Get the class of the true, full LIMS entity this object links to.

Constructors in com.genologics.ri.queue with parameters of type Artifact

Modifier	Constructor	Description
	ArtifactLink(Artifact artifact)	Constructor from an Artifact.

Constructor parameters in com.genologics.ri.queue with type arguments of type Artifact

Modifier	Constructor	Description
	ArtifactLink(LimsEntityLinkable<Artifact> link)	Constructor from a LimsEntityLinkable.
	ArtifactLink(Linkable<Artifact> link)	Constructor from a Linkable.

Uses of Artifact in com.genologics.ri.routing

Methods in com.genologics.ri.routing that return types with arguments of type Artifact

Modifier and Type	Method	Description
Class<Artifact>	ArtifactLink.getEntityClass()	Gets the entity class for this link.

Method parameters in com.genologics.ri.routing with type arguments of type Artifact

Modifier and Type	Method	Description
void	ExtArtifactAssignments.addAll(Collection<? extends Linkable<Artifact>> links)	Adds all artifacts from a collection to the list.
void	ExtArtifactAssignments.addArtifact(Linkable<Artifact> artifact)	Adds an artifact to the list.

Constructor parameters in com.genologics.ri.routing with type arguments of type Artifact

Modifier	Constructor	Description
	ArtifactLink(Linkable<Artifact> link)	Constructor from a Linkable.

Uses of Artifact in com.genologics.ri.sample

Methods in com.genologics.ri.sample that return types with arguments of type Artifact

Modifier and Type	Method	Description
Class<Artifact>	ArtifactLink.getEntityClass()	Gets the entity class for this link.

Method parameters in com.genologics.ri.sample with type arguments of type Artifact

Modifier and Type	Method	Description
void	SampleBase.setArtifact(LimsEntityLinkable<Artifact> artifact)	Sets the artifact for this sample.

Constructor parameters in com.genologics.ri.sample with type arguments of type Artifact

Modifier	Constructor	Description
	ArtifactLink(LimsEntityLinkable<Artifact> link)	Constructor for an artifact link from a LIMS entity linkable artifact.
	ArtifactLink(Linkable<Artifact> link)	Constructor for an artifact link from a linkable artifact.

Uses of Artifact in com.genologics.ri.step

Methods in com.genologics.ri.step that return types with arguments of type Artifact

Modifier and Type	Method	Description
Class<Artifact>	ArtifactLink.getEntityClass()	Gets the entity class.
Class<Artifact>	CreationInput.getEntityClass()	Gets the entity class.
Class<Artifact>	EscalatedArtifact.getEntityClass()	Gets the entity class.
Class<Artifact>	Input.getEntityClass()	Gets the entity class.
Class<Artifact>	NextAction.getEntityClass()	Gets the entity class.
Class<Artifact>	Output.getEntityClass()	Gets the entity class.
Class<Artifact>	OutputPlacement.getEntityClass()	Gets the entity class for this link.
Class<Artifact>	SharedResultFile.getEntityClass()	Get the class of the true, full LIMS entity this object links to.

Method parameters in com.genologics.ri.step with type arguments of type Artifact

Modifier and Type	Method	Description
Input	Pools.addAvailableInput(Linkable<Artifact> artifact)	Creates and adds an available input from an artifact.
EscalatedArtifact	Escalation.addEscalatedArtifact(Linkable<Artifact> link)	Adds an escalated artifact to the list from a linkable artifact.
Input	PooledInputs.addInput(Linkable<Artifact> artifact)	Creates and adds an input from an artifact.
CreationInput	StepCreation.addInput(Linkable<Artifact> artifact, Linkable<ControlType> controlType, Long replicates)	Creates and adds an input to the step.
InputOutputMap	StepDetails.addInputOutputMap(LimsEntityLinkable<Artifact> input, LimsEntityLinkable<Artifact> output)	Creates and adds an input/output mapping to the step.
OutputPlacement	Placements.addOutputPlacement(Linkable<Artifact> artifact, Linkable<Container> container, String wellPosition)	Creates and adds an output placement.
PooledInputs	Pools.addPooledInputs(Collection<? extends Linkable<Artifact>> inputArtifacts, String poolName, Linkable<Artifact> outputArtifact)	Creates and adds a pooled input group.
PooledInputs	Pools.addPooledInputs(Collection<? extends Linkable<Artifact>> inputArtifacts, String poolName, Linkable<Artifact> outputArtifact)	Creates and adds a pooled input group.
void	CreationInput.setArtifact(Linkable<Artifact> a)	Sets the artifact.
void	NextAction.setArtifact(Linkable<Artifact> link)	Sets the artifact.
void	Output.setArtifact(Linkable<Artifact> artifact)	Sets the artifact.
void	OutputPlacement.setArtifact(Linkable<Artifact> artifact)	Sets the artifact for this output placement.
void	InputOutputMap.setInput(LimsEntityLinkable<Artifact> link)	Sets the input from a LIMS entity linkable artifact.
void	InputOutputMap.setInput(Linkable<Artifact> link)	Sets the input from a linkable artifact.
void	PooledInputs.setInputArtifacts(Collection<? extends Linkable<Artifact>> artifacts)	Sets the input artifacts, replacing any existing inputs.
void	InputOutputMap.setOutput(LimsEntityLinkable<Artifact> link)	Sets the output from a LIMS entity linkable artifact.
void	InputOutputMap.setOutput(Linkable<Artifact> link)	Sets the output from a linkable artifact.
void	PooledInputs.setOutputArtifact(Linkable<Artifact> artifact)	Sets the output artifact.

Constructors in com.genologics.ri.step with parameters of type Artifact

Modifier	Constructor	Description
	ArtifactLink(Artifact artifact)	Constructor from an artifact.
	SharedResultFile(Artifact artifact)	Creates a shared result file from an artifact.

Constructor parameters in com.genologics.ri.step with type arguments of type Artifact

Modifier	Constructor	Description
	ArtifactLink(LimsEntityLinkable<Artifact> link)	Constructor from a LIMS entity linkable object.
	ArtifactLink(Linkable<Artifact> link)	Constructor from a linkable object.
	CreationInput(Linkable<Artifact> artifact)	Constructor from a linkable artifact.
	CreationInput(Linkable<Artifact> artifact, Linkable<ControlType> controlType)	Constructor from a linkable artifact and control type.
	CreationInput(Linkable<Artifact> artifact, Linkable<ControlType> controlType, Long replicates)	Constructor from a linkable artifact, control type, and replicates.
	EscalatedArtifact(Linkable<Artifact> link)	Constructor from a linkable object.
	Input(Linkable<Artifact> link)	Constructor from a linkable object.
	InputOutputMap(LimsEntityLinkable<Artifact> input, LimsEntityLinkable<Artifact> output)	Constructor with LIMS entity linkable input and output artifacts.
	InputOutputMap(Linkable<Artifact> input, Linkable<Artifact> output)	Constructor with linkable input and output artifacts.
	NextAction(Linkable<Artifact> link)	Constructor from a linkable artifact.
	NextAction(Linkable<Artifact> link, ActionType action)	Constructor from a linkable artifact and action.
	NextAction(Linkable<Artifact> link, ActionType action, Linkable<ProtocolStep> nextStep)	Constructor from a linkable artifact, action, and next step.
	Output(LimsLink<Artifact> link)	Constructor from a LIMS link.
	OutputPlacement(Linkable<Artifact> artifact)	Constructor with artifact.
	OutputPlacement(Linkable<Artifact> artifact, LimsEntityLinkable<Container> container, String wellPosition)	Constructor with artifact, container and well position.
	OutputPlacement(Linkable<Artifact> artifact, Linkable<Container> container, String wellPosition)	Constructor with artifact, container and well position.
	PooledInputs(Collection<? extends Linkable<Artifact>> inputArtifacts, String poolName)	Constructor with input artifacts and pool name.
	PooledInputs(Collection<? extends Linkable<Artifact>> inputArtifacts, String poolName, Linkable<Artifact> outputArtifact)	Constructor with input artifacts, pool name and output artifact.
	PooledInputs(Collection<? extends Linkable<Artifact>> inputArtifacts, String poolName, Linkable<Artifact> outputArtifact)	Constructor with input artifacts, pool name and output artifact.
	SharedResultFile(LimsEntityLinkable<Artifact> link)	Creates a shared result file from a LIMS entity linkable artifact.
	SharedResultFile(Linkable<Artifact> link)	Creates a shared result file from a linkable artifact.

Uses of Artifact in org.cruk.clarity.api

Methods in org.cruk.clarity.api that return types with arguments of type Artifact

Modifier and Type	Method	Description
List<LimsEntityLink<Artifact>>	ClarityAPI.listQueue(Linkable<ProtocolStep> protocolStep)	List the artifacts in the queue for the given protocol step.
List<LimsEntityLink<Artifact>>	ClarityAPI.listQueue(Linkable<ProtocolStep> protocolStep, Map<String,?> searchTerms)	List the artifacts in the queue for the given protocol step, additionally filtering using the parameters available for the "queues" end point.

Uses of Artifact in org.cruk.clarity.api.impl

Methods in org.cruk.clarity.api.impl that return types with arguments of type Artifact

Modifier and Type	Method	Description
List<LimsEntityLink<Artifact>>	ClarityAPIImpl.listQueue(Linkable<ProtocolStep> protocolStep)	List the artifacts in the queue for the given protocol step.
List<LimsEntityLink<Artifact>>	ClarityAPIImpl.listQueue(Linkable<ProtocolStep> protocolStep, Map<String,?> searchTerms)	List the artifacts in the queue for the given protocol step, additionally filtering using the parameters available for the "queues" end point.