Uses of Interface
com.genologics.ri.LimsLink
Packages that use LimsLink
Package
Description
The root package of the classes generated (originally) from the
Clarity schemas.
Illumina have said that the types in this package are not actually released, and there's
nothing in Clarity that uses them.
The main public package of the Clarity API.
Concrete implementation classes of the Clarity API.
The classes necessary to replay server calls from entity XML files on disk.
The classes necessary to record entities returned from a Clarity server to XML files on disk.
Classes supporting the recording of searches for record and playback.
Internal classes for the implementation of storing and retrieving searches.
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Uses of LimsLink in com.genologics.ri
Subinterfaces of LimsLink in com.genologics.riModifier and TypeInterfaceDescriptioninterfaceLimsEntityLink<E extends LimsEntity<E>>Interface for links to LimsEntity objects.Classes in com.genologics.ri that implement LimsLinkModifier and TypeClassDescriptionclassContainer is a child element of location and provides a URI linking to the detailed representation of the Container for the location.classLocation provides a URI linking to the detailed representation of a Container along with the well location within that Container.Methods in com.genologics.ri that return LimsLink -
Uses of LimsLink in com.genologics.ri.artifact
Classes in com.genologics.ri.artifact that implement LimsLinkModifier and TypeClassDescriptionclassArtifact group is a child element of Artifact and provides a URI linking to the detailed representation of the artifact group that the Artifact belongs to.classArtifact-link is a child element type of artifacts and provides a URI linking to the detailed representation of an artifact.classProvide a URI linking to the control type if this artifact is a control sample.classDetails of an individual artifact that is part of a pooled artifact.classThe details of a sample that is part of a pooled artifact.classIdentifies the resource that will demultiplex this artifact.classclassParent-process is a child element of Artifact and provides a URI linking to the detailed representation of the process that produced the Artifact.classThe details of the pooling step that created the pooled sample(s).classSample is a child element of Artifact and provides a URI linking to the detailed representation of a submitted Sample for the Artifact.classProvides links to workflow stages, stage names and their respective statuses. -
Uses of LimsLink in com.genologics.ri.artifactgroup
Classes in com.genologics.ri.artifactgroup that implement LimsLinkModifier and TypeClassDescriptionclassartifactGroup-link is a child element type of artifactGroup and provides a URI linking to the detailed representation of a artifactGroup. -
Uses of LimsLink in com.genologics.ri.automation
Classes in com.genologics.ri.automation that implement LimsLinkModifier and TypeClassDescriptionclassclassProvides links to process types the automation is enabled on.Methods in com.genologics.ri.automation that return LimsLink -
Uses of LimsLink in com.genologics.ri.configuration
Classes in com.genologics.ri.configuration that implement LimsLinkModifier and TypeClassDescriptionclassField definition represents a user-defined field configured in the parent entity.classType-definition provides a URI linking to the user defined type associated with the user-defined field, if applicable.classUdfconfig-link is a child element type of udfs and provides a URI linking to the detailed representation of the configuration for a user defined field.classUdtconfig-link is a child element type of udts and provides a URI linking to the detailed representation of the configuration for a user defined type.Methods in com.genologics.ri.configuration that return LimsLink -
Uses of LimsLink in com.genologics.ri.container
Classes in com.genologics.ri.container that implement LimsLinkModifier and TypeClassDescriptionclassContainer-link is a child element type of containers and provides a URI linking to the detailed representation of a container.classContainer-type is a child element of container and provides a URI linking to the detailed representation of the container type that the container is associated with.classPlacement is a child element of container and provides a URI linking to the detailed representation of the artifact that is located in a specific well of the container. -
Uses of LimsLink in com.genologics.ri.containertype
Classes in com.genologics.ri.containertype that implement LimsLinkModifier and TypeClassDescriptionclassContainer-type-link is a child element type of containers and provides a URI linking to the detailed representation of a container type.Methods in com.genologics.ri.containertype that return LimsLinkModifier and TypeMethodDescriptionContainerType.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.controltype
Classes in com.genologics.ri.controltype that implement LimsLinkModifier and TypeClassDescriptionclassControl-type-link is a child element type of controlTypes and provides a URI linking to the detailed representation of a ControlType.Methods in com.genologics.ri.controltype that return LimsLinkModifier and TypeMethodDescriptionControlType.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.file
Classes in com.genologics.ri.file that implement LimsLinkModifier and TypeClassDescriptionclassThe file element contains information about a file in the system.classThe file-link type provides a URI that links to information about a file in the system. -
Uses of LimsLink in com.genologics.ri.globaltoken
Classes in com.genologics.ri.globaltoken that implement LimsLinkModifier and TypeClassDescriptionclassglobal-token-link is a child element type of global tokens and provides a URI linking to the detailed representation of a global token.Methods in com.genologics.ri.globaltoken that return LimsLink -
Uses of LimsLink in com.genologics.ri.instrument
Classes in com.genologics.ri.instrument that implement LimsLinkModifier and TypeClassDescriptionclassInstrument-link is a child element type of instruments and provides a URI linking to the detailed representation of an instrument. -
Uses of LimsLink in com.genologics.ri.instrumenttype
Classes in com.genologics.ri.instrumenttype that implement LimsLinkMethods in com.genologics.ri.instrumenttype that return LimsLinkModifier and TypeMethodDescriptionInstrumentType.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.lab
Classes in com.genologics.ri.lab that implement LimsLinkModifier and TypeClassDescriptionclassLab-link is a child element type of labs and provides a URI linking to the detailed representation of a lab. -
Uses of LimsLink in com.genologics.ri.permission
Classes in com.genologics.ri.permission that implement LimsLinkMethods in com.genologics.ri.permission that return LimsLinkModifier and TypeMethodDescriptionPermission.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.process
Classes in com.genologics.ri.process that implement LimsLinkModifier and TypeClassDescriptionclassArtifact is a child element of input-output-map and provides a link to an Artifact that was either an input or output of the Process for the input-output-map.classThe instrument element provides a URI to the instrument that is responsible for running the process.classParent-process is a child element of Artifact and provides a URI linking to the Process that created the Artifact.classProcess-link is a child element type of process and provides a URI linking to the detailed representation of a process.classProcess-type is a child element of process that identifies and provides a URI linking to the detailed representation of the process type that the process is associated with.classTechnician is a child element of Process and provides a URI linking to the detailed representation of the technician that ran the Process. -
Uses of LimsLink in com.genologics.ri.processexecution
Classes in com.genologics.ri.processexecution that implement LimsLinkModifier and TypeClassDescriptionclassThe input element provides URIs to one or more Artifacts that will be used by the Process.classThe instrument element provides a URI to the instrument that is responsible for running the process.classThe technician element provides a URI to the user that is responsible for the Process. -
Uses of LimsLink in com.genologics.ri.processtemplate
Classes in com.genologics.ri.processtemplate that implement LimsLinkModifier and TypeClassDescriptionclassThe instrument is a child element of process-template that provides a URI to the instrument that is responsible for running a Process created using this Process Template.classprocess-template-link is a child element type of Process Templates and provides a URI linking to the detailed representation of a Process Template.classProcess-type is a child element of process-template that identifies and provides a URI linking to the detailed representation of the Process Type that the Process Template is associated with.classTechnician is a child element of process-template and provides a URI linking to the detailed representation of the technician that is configured to run a Process created using this Process Template.Methods in com.genologics.ri.processtemplate that return LimsLinkModifier and TypeMethodDescriptionProcessTemplate.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.processtype
Classes in com.genologics.ri.processtype that implement LimsLinkModifier and TypeClassDescriptionclassclassclassProcess-type-link is a child element type of process types and provides a URI linking to the detailed representation of a process type.classReagent-kit-link is a child element type of reagentKits and provides a URI linking to the detailed representation of a ReagentKit.classType-definition is a child element of process type providing a URI linking to the configuration of a user-defined type for the process type.Methods in com.genologics.ri.processtype that return LimsLinkModifier and TypeMethodDescriptionProcessType.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.project
Classes in com.genologics.ri.project that implement LimsLinkModifier and TypeClassDescriptionclassProject-link is a child element type of projects and provides a URI linking to the detailed representation of a project.classResearcher is a child element of Project and provides a URI linking to the detailed representation of the Researcher for the Project. -
Uses of LimsLink in com.genologics.ri.protocolconfiguration
Classes in com.genologics.ri.protocolconfiguration that implement LimsLinkMethods in com.genologics.ri.protocolconfiguration that return LimsLink -
Uses of LimsLink in com.genologics.ri.queue
Classes in com.genologics.ri.queue that implement LimsLink -
Uses of LimsLink in com.genologics.ri.reagentkit
Classes in com.genologics.ri.reagentkit that implement LimsLinkModifier and TypeClassDescriptionclassReagent-Kit-Link is a child element type of reagent kits and provides a URI linking to the detailed representation of a reagent kit.Methods in com.genologics.ri.reagentkit that return LimsLinkModifier and TypeMethodDescriptionReagentKit.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.reagentlot
Classes in com.genologics.ri.reagentlot that implement LimsLinkModifier and TypeClassDescriptionclassReagent-Kit-Link is an element providing a URI linking to the detailed representation of a reagent kit.classReagent-lot-link is a child element type of Reagent Lots and provides a URI linking to the detailed representation of a Reagent Lot.classResearcher is a child element of the reagent lot. -
Uses of LimsLink in com.genologics.ri.reagenttype
Classes in com.genologics.ri.reagenttype that implement LimsLinkModifier and TypeClassDescriptionclassReagent-type-link is a child element type of reagent types and provides a URI linking to the detailed representation of a reagent type. -
Uses of LimsLink in com.genologics.ri.researcher
Classes in com.genologics.ri.researcher that implement LimsLinkModifier and TypeClassDescriptionclassLab is a child element of researcher and provides a URI linking to the detailed representation of the lab for the researcher.classResearcher-link is a child element type of researchers and provides a URI linking to the detailed representation of a researcher.classThe role element defines a researcher's level of access in the system. -
Uses of LimsLink in com.genologics.ri.role
Classes in com.genologics.ri.role that implement LimsLinkModifier and TypeClassDescriptionclassPermission-link is a child element type of permissions and provides a URI linking to the detailed representation of a Permission.classResearcher-link is a child element type of researchers and provides a URI linking to the detailed representation of a researcher.classRole-link is a child element type of roles and provides a URI linking to the detailed representation of a Role.Methods in com.genologics.ri.role that return LimsLink -
Uses of LimsLink in com.genologics.ri.routing
Classes in com.genologics.ri.routing that implement LimsLink -
Uses of LimsLink in com.genologics.ri.sample
Classes in com.genologics.ri.sample that implement LimsLinkModifier and TypeClassDescriptionclassArtifact is a child element of Sample and provides a URI linking to the detailed representation of the artifact for the Sample.classControl Type provides a name and a URI linking to the detailed representation of the Control Type associated with the Sample.classProject is a child element of Sample and provides a URI linking to the detailed representation of the Project for the Sample.classSample-link is a child element type of samples and provides a URI linking to the detailed representation of a sample.classSubmitter is a child element of Sample and provides a URI linking to the detailed representation of the submitter for the Sample. -
Uses of LimsLink in com.genologics.ri.savedquery
Classes in com.genologics.ri.savedquery that implement LimsLinkMethods in com.genologics.ri.savedquery that return LimsLink -
Uses of LimsLink in com.genologics.ri.stage
Classes in com.genologics.ri.stage that implement LimsLinkModifier and TypeClassDescriptionclassProtocol link for the stage.classProtocol Step link for the stage.classWorkflow link for the stage.Methods in com.genologics.ri.stage that return LimsLink -
Uses of LimsLink in com.genologics.ri.step
Classes in com.genologics.ri.step that implement LimsLinkModifier and TypeClassDescriptionclassIdentifies the resource that represents the actions applied or to be applied by the step.classIdentifies the resource that represents the arrangements (if any) for the step.classArtifact is a child element of input-output-map and provides a link to an Artifact that was either an input or output of the Step for the input-output-map.classIdentifies the resource that represents the step that was automatically begun when the "Automatically start Next Step" option is enabled in a step's configuration.classProvides a URI linking to a selected container to be used for placement.classTypically, provides a URI linking to the input artifact.classSample next action or step.classProvides input URI links.classThe instrument element provides a URI to the selected instrument for the step.classSample next action or step.classProvides a URI linking to the output artifact and reagent label.classProvides a URI linking to the output container and Tube Rack arrangement.classProvides a URI linking to the output artifact and container placement.classIdentifies the resource that represents the output placements for the step.classIdentifies the resource that represents the pools added by the step.classIdentifies the resource that represents the program status for the step.classProvides a URI linking to the reagent lot details.classIdentifies the resource that represents the reagent lots for the step.classIdentifies the resource that represents the reagents added by the step.classThe file element describes a shared result file output that will be displayed in the step-setup view.classIdentifies the configuration information for the step run.classIdentifies the resource that represents the details for the step.classIdentifies the resource that represents the setup for the step.classTechnician is a child element of Step and provides a URI linking to the detailed representation of the technician that ran the Step.classDescribes a user as required in the context of step escalations.Methods in com.genologics.ri.step that return LimsLinkModifier and TypeMethodDescriptionActions.getLink()Get a concrete link object to thisLinkablething.Arrangements.getLink()Get a concrete link object to thisLinkablething.Placements.getLink()Get a concrete link object to thisLinkablething.Pools.getLink()Get a concrete link object to thisLinkablething.ProgramStatus.getLink()Get a concrete link object to thisLinkablething.ReagentLots.getLink()Get a concrete link object to thisLinkablething.Reagents.getLink()Get a concrete link object to thisLinkablething.StepDetails.getLink()Get a concrete link object to thisLinkablething.StepSetup.getLink()Get a concrete link object to thisLinkablething.Constructors in com.genologics.ri.step with parameters of type LimsLink -
Uses of LimsLink in com.genologics.ri.stepconfiguration
Classes in com.genologics.ri.stepconfiguration that implement LimsLinkModifier and TypeClassDescriptionclassControl-type-link is a child element type of controlTypes and provides a URI linking to the detailed representation of a ControlType.classList of step transitions including the URI allowing access to the specific next stepclassProcess-type is a child element that provides a URI linking to the detailed representation of the process type that the step is associated with.classReagent-Kit-Link is an element providing a URI linking to the detailed representation of a reagent kit.Methods in com.genologics.ri.stepconfiguration that return LimsLinkModifier and TypeMethodDescriptionProtocolStep.getLink()Get a concrete link object to thisLinkablething. -
Uses of LimsLink in com.genologics.ri.workflowconfiguration
Classes in com.genologics.ri.workflowconfiguration that implement LimsLinkModifier and TypeClassDescriptionclassProtocol-link is a child element type of workflow and provides a URI linking to the detailed representation of a protocol.classThe detailed representation of a Stage (the portion of a workflow to which samples can be associated in order to be queued)classWorkflow-link is a child element type of workflows and provides a URI linking to the detailed representation of a workflow.Methods in com.genologics.ri.workflowconfiguration that return LimsLink -
Uses of LimsLink in org.cruk.clarity.api
Methods in org.cruk.clarity.api that return types with arguments of type LimsLinkModifier and TypeMethodDescriptionSearch for entities of the given type based on name value pairs.List all the objects of the given entity class.List an arbitrary number of objects of the given entity class.Methods in org.cruk.clarity.api with parameters of type LimsLinkModifier and TypeMethodDescription<E extends Locatable>
ELoad an entity using a link to that entity.Method parameters in org.cruk.clarity.api with type arguments of type LimsLinkModifier and TypeMethodDescriptionClarityAPI.loadAll(Collection<? extends LimsLink<E>> links) Fetch a collection of LIMS entities given in the collection. -
Uses of LimsLink in org.cruk.clarity.api.impl
Methods in org.cruk.clarity.api.impl with type parameters of type LimsLinkModifier and TypeMethodDescriptionClarityAPIImpl.checkLinkCollectionHomogeneousAndUnique(Collection<L> links) Check that the given collection of links contains no nulls, that each link has a URI, that all links in the collection are links to the same entity class, and that there are no repeated URIs in the collection (ignoring state).ClarityAPIImpl.getQueryResultsClassForEntity(Class<E> entityClass) Get the class that holds a list of links for the given entity when returned from a list or search operation.ClarityAPIInternal.getQueryResultsClassForEntity(Class<E> entityClass) Get the class that holds a list of links for the given entity when returned from a list or search operation.Methods in org.cruk.clarity.api.impl that return types with arguments of type LimsLinkModifier and TypeMethodDescriptionSearch for entities of the given type based on name value pairs.List all the objects of the given entity class.List an arbitrary number of objects of the given entity class.Methods in org.cruk.clarity.api.impl with parameters of type LimsLinkModifier and TypeMethodDescription<E extends Locatable>
ELoad an entity using a link to that entity.Method parameters in org.cruk.clarity.api.impl with type arguments of type LimsLinkModifier and TypeMethodDescriptionClarityAPIImpl.loadAll(Collection<? extends LimsLink<E>> links) Fetch a collection of LIMS entities given in the collection. -
Uses of LimsLink in org.cruk.clarity.api.playback
Methods in org.cruk.clarity.api.playback with type parameters of type LimsLinkModifier and TypeMethodDescriptionClarityAPIPlaybackAspect.doList(org.aspectj.lang.ProceedingJoinPoint pjp) Join point around thelistAllandlistSomemethods load the list of links from a serialisedBatchobject in XML file in the messages directory.Methods in org.cruk.clarity.api.playback that return types with arguments of type LimsLink -
Uses of LimsLink in org.cruk.clarity.api.record
Methods in org.cruk.clarity.api.record with type parameters of type LimsLinkModifier and TypeMethodDescriptionClarityAPIRecordingAspect.doList(org.aspectj.lang.ProceedingJoinPoint pjp) Join point around thelistAllandlistSomemethods that recreate theBatchobject that holds the list of links to the real things and writes that list to an XML file in the messages directory.Methods in org.cruk.clarity.api.record that return types with arguments of type LimsLink -
Uses of LimsLink in org.cruk.clarity.api.search
Methods in org.cruk.clarity.api.search that return types with arguments of type LimsLinkMethod parameters in org.cruk.clarity.api.search with type arguments of type LimsLinkModifier and TypeMethodDescriptionvoidSearch.setResults(List<LimsLink<E>> results) Set the results of the search. -
Uses of LimsLink in org.cruk.clarity.api.search.internal
Methods in org.cruk.clarity.api.search.internal that return LimsLinkMethods in org.cruk.clarity.api.search.internal with parameters of type LimsLink