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OntologyResponderV2.scala
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OntologyResponderV2.scala
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/*
* Copyright © 2021 - 2023 Swiss National Data and Service Center for the Humanities and/or DaSCH Service Platform contributors.
* SPDX-License-Identifier: Apache-2.0
*/
package org.knora.webapi.responders.v2
import com.typesafe.scalalogging.LazyLogging
import zio.Task
import zio.URLayer
import zio.ZIO
import zio.ZLayer
import java.time.Instant
import dsp.constants.SalsahGui
import dsp.errors._
import org.knora.webapi._
import org.knora.webapi.config.AppConfig
import org.knora.webapi.core.MessageHandler
import org.knora.webapi.core.MessageRelay
import org.knora.webapi.messages.IriConversions._
import org.knora.webapi.messages._
import org.knora.webapi.messages.admin.responder.projectsmessages.ProjectIdentifierADM._
import org.knora.webapi.messages.admin.responder.usersmessages.UserADM
import org.knora.webapi.messages.store.triplestoremessages.SmartIriLiteralV2
import org.knora.webapi.messages.store.triplestoremessages.StringLiteralV2
import org.knora.webapi.messages.twirl.queries.sparql
import org.knora.webapi.messages.util.ErrorHandlingMap
import org.knora.webapi.messages.v2.responder.CanDoResponseV2
import org.knora.webapi.messages.v2.responder.SuccessResponseV2
import org.knora.webapi.messages.v2.responder.ontologymessages.OwlCardinality.KnoraCardinalityInfo
import org.knora.webapi.messages.v2.responder.ontologymessages._
import org.knora.webapi.responders.IriLocker
import org.knora.webapi.responders.IriService
import org.knora.webapi.responders.Responder
import org.knora.webapi.responders.v2.ontology.CardinalityHandler
import org.knora.webapi.responders.v2.ontology.OntologyHelpers
import org.knora.webapi.slice.admin.domain.service.KnoraProjectRepo
import org.knora.webapi.slice.ontology.domain.service.CardinalityService
import org.knora.webapi.slice.ontology.domain.service.OntologyRepo
import org.knora.webapi.slice.ontology.repo.service.OntologyCache
import org.knora.webapi.slice.ontology.repo.service.OntologyCache.ONTOLOGY_CACHE_LOCK_IRI
import org.knora.webapi.store.triplestore.api.TriplestoreService
import org.knora.webapi.store.triplestore.api.TriplestoreService.Queries.Update
/**
* Responds to requests dealing with ontologies.
*
* The API v2 ontology responder reads ontologies from two sources:
*
* - The triplestore.
* - The constant knora-api v2 ontologies that are defined in Scala rather than in the triplestore, [[KnoraBaseToApiV2SimpleTransformationRules]] and [[KnoraBaseToApiV2ComplexTransformationRules]].
*
* It maintains an in-memory cache of all ontology data. This cache can be refreshed by using [[OntologyCache.loadOntologies]].
*
* Read requests to the ontology responder may contain internal or external IRIs as needed. Response messages from the
* ontology responder will contain internal IRIs and definitions, unless a constant API v2 ontology was requested,
* in which case the response will be in the requested API v2 schema.
*
* In API v2, the ontology responder can also create and update ontologies. Update requests must contain
* [[ApiV2Complex]] IRIs and definitions.
*
* The API v1 ontology responder, which is read-only, delegates most of its work to this responder.
*/
trait OntologyResponderV2
final case class OntologyResponderV2Live(
appConfig: AppConfig,
cardinalityHandler: CardinalityHandler,
cardinalityService: CardinalityService,
iriService: IriService,
ontologyCache: OntologyCache,
ontologyHelpers: OntologyHelpers,
ontologyRepo: OntologyRepo,
projectRepo: KnoraProjectRepo,
triplestoreService: TriplestoreService,
implicit val stringFormatter: StringFormatter
) extends OntologyResponderV2
with MessageHandler
with LazyLogging {
override def isResponsibleFor(message: ResponderRequest): Boolean = message.isInstanceOf[OntologiesResponderRequestV2]
override def handle(msg: ResponderRequest): Task[Any] = msg match {
case EntityInfoGetRequestV2(classIris, propertyIris, requestingUser) =>
getEntityInfoResponseV2(classIris, propertyIris, requestingUser)
case StandoffEntityInfoGetRequestV2(standoffClassIris, standoffPropertyIris, _) =>
getStandoffEntityInfoResponseV2(standoffClassIris, standoffPropertyIris)
case StandoffClassesWithDataTypeGetRequestV2(_) =>
getStandoffStandoffClassesWithDataTypeV2
case StandoffAllPropertyEntitiesGetRequestV2(_) => getAllStandoffPropertyEntitiesV2
case CheckSubClassRequestV2(subClassIri, superClassIri, _) =>
checkSubClassV2(subClassIri, superClassIri)
case SubClassesGetRequestV2(resourceClassIri, requestingUser) => getSubClassesV2(resourceClassIri, requestingUser)
case OntologyKnoraEntityIrisGetRequestV2(namedGraphIri, _) =>
getKnoraEntityIrisInNamedGraphV2(namedGraphIri)
case OntologyEntitiesGetRequestV2(ontologyIri, allLanguages, requestingUser) =>
getOntologyEntitiesV2(ontologyIri, allLanguages, requestingUser)
case ClassesGetRequestV2(resourceClassIris, allLanguages, requestingUser) =>
ontologyHelpers.getClassDefinitionsFromOntologyV2(resourceClassIris, allLanguages, requestingUser)
case PropertiesGetRequestV2(propertyIris, allLanguages, requestingUser) =>
getPropertyDefinitionsFromOntologyV2(propertyIris, allLanguages, requestingUser)
case OntologyMetadataGetByProjectRequestV2(projectIris, _) =>
getOntologyMetadataForProjectsV2(projectIris)
case OntologyMetadataGetByIriRequestV2(ontologyIris, _) =>
getOntologyMetadataByIriV2(ontologyIris)
case createOntologyRequest: CreateOntologyRequestV2 => createOntology(createOntologyRequest)
case changeOntologyMetadataRequest: ChangeOntologyMetadataRequestV2 =>
changeOntologyMetadata(changeOntologyMetadataRequest)
case deleteOntologyCommentRequest: DeleteOntologyCommentRequestV2 =>
deleteOntologyComment(deleteOntologyCommentRequest)
case createClassRequest: CreateClassRequestV2 => createClass(createClassRequest)
case changeClassLabelsOrCommentsRequest: ChangeClassLabelsOrCommentsRequestV2 =>
changeClassLabelsOrComments(changeClassLabelsOrCommentsRequest)
case addCardinalitiesToClassRequest: AddCardinalitiesToClassRequestV2 =>
addCardinalitiesToClass(addCardinalitiesToClassRequest)
case r: ReplaceClassCardinalitiesRequestV2 => replaceClassCardinalities(r)
case canDeleteCardinalitiesFromClassRequestV2: CanDeleteCardinalitiesFromClassRequestV2 =>
canDeleteCardinalitiesFromClass(canDeleteCardinalitiesFromClassRequestV2)
case deleteCardinalitiesFromClassRequest: DeleteCardinalitiesFromClassRequestV2 =>
deleteCardinalitiesFromClass(deleteCardinalitiesFromClassRequest)
case changeGuiOrderRequest: ChangeGuiOrderRequestV2 => changeGuiOrder(changeGuiOrderRequest)
case canDeleteClassRequest: CanDeleteClassRequestV2 => canDeleteClass(canDeleteClassRequest)
case deleteClassRequest: DeleteClassRequestV2 => deleteClass(deleteClassRequest)
case createPropertyRequest: CreatePropertyRequestV2 => createProperty(createPropertyRequest)
case changePropertyLabelsOrCommentsRequest: ChangePropertyLabelsOrCommentsRequestV2 =>
changePropertyLabelsOrComments(changePropertyLabelsOrCommentsRequest)
case deletePropertyCommentRequest: DeletePropertyCommentRequestV2 =>
deletePropertyComment(deletePropertyCommentRequest)
case deleteClassCommentRequest: DeleteClassCommentRequestV2 =>
deleteClassComment(deleteClassCommentRequest)
case changePropertyGuiElementRequest: ChangePropertyGuiElementRequest =>
changePropertyGuiElement(changePropertyGuiElementRequest)
case canDeletePropertyRequest: CanDeletePropertyRequestV2 => canDeleteProperty(canDeletePropertyRequest)
case deletePropertyRequest: DeletePropertyRequestV2 => deleteProperty(deletePropertyRequest)
case canDeleteOntologyRequest: CanDeleteOntologyRequestV2 => canDeleteOntology(canDeleteOntologyRequest)
case deleteOntologyRequest: DeleteOntologyRequestV2 => deleteOntology(deleteOntologyRequest)
case other => Responder.handleUnexpectedMessage(other, this.getClass.getName)
}
/**
* Given a list of resource IRIs and a list of property IRIs (ontology entities), returns an [[EntityInfoGetResponseV2]] describing both resource and property entities.
*
* @param classIris the IRIs of the resource entities to be queried.
* @param propertyIris the IRIs of the property entities to be queried.
* @param requestingUser the user making the request.
* @return an [[EntityInfoGetResponseV2]].
*/
private def getEntityInfoResponseV2(
classIris: Set[SmartIri] = Set.empty[SmartIri],
propertyIris: Set[SmartIri],
requestingUser: UserADM
): Task[EntityInfoGetResponseV2] = ontologyHelpers.getEntityInfoResponseV2(classIris, propertyIris, requestingUser)
/**
* Given a list of standoff class IRIs and a list of property IRIs (ontology entities), returns an [[StandoffEntityInfoGetResponseV2]] describing both resource and property entities.
*
* @param standoffClassIris the IRIs of the resource entities to be queried.
* @param standoffPropertyIris the IRIs of the property entities to be queried.
* @return a [[StandoffEntityInfoGetResponseV2]].
*/
private def getStandoffEntityInfoResponseV2(
standoffClassIris: Set[SmartIri],
standoffPropertyIris: Set[SmartIri]
): Task[StandoffEntityInfoGetResponseV2] =
for {
cacheData <- ontologyCache.getCacheData
entitiesInWrongSchema =
(standoffClassIris ++ standoffPropertyIris).filter(_.getOntologySchema.contains(ApiV2Simple))
_ <- ZIO.fail {
NotFoundException(
s"Some requested standoff classes were not found: ${entitiesInWrongSchema.mkString(", ")}"
)
}.when(entitiesInWrongSchema.nonEmpty)
classIrisForCache = standoffClassIris.map(_.toOntologySchema(InternalSchema))
propertyIrisForCache = standoffPropertyIris.map(_.toOntologySchema(InternalSchema))
classOntologies =
cacheData.ontologies.view.filterKeys(classIrisForCache.map(_.getOntologyFromEntity)).values
propertyOntologies =
cacheData.ontologies.view.filterKeys(propertyIrisForCache.map(_.getOntologyFromEntity)).values
classDefsAvailable = classOntologies.flatMap { ontology =>
ontology.classes.filter { case (classIri, classDef) =>
classDef.isStandoffClass && standoffClassIris.contains(classIri)
}
}.toMap
propertyDefsAvailable = propertyOntologies.flatMap { ontology =>
ontology.properties.filter { case (propertyIri, _) =>
standoffPropertyIris.contains(propertyIri) && cacheData.standoffProperties.contains(
propertyIri
)
}
}.toMap
missingClassDefs = classIrisForCache -- classDefsAvailable.keySet
missingPropertyDefs = propertyIrisForCache -- propertyDefsAvailable.keySet
_ <- ZIO.fail {
NotFoundException(s"Some requested standoff classes were not found: ${missingClassDefs.mkString(", ")}")
}.when(missingClassDefs.nonEmpty)
_ <- ZIO.fail {
NotFoundException(
s"Some requested standoff properties were not found: ${missingPropertyDefs.mkString(", ")}"
)
}.when(missingPropertyDefs.nonEmpty)
response =
StandoffEntityInfoGetResponseV2(
standoffClassInfoMap = new ErrorHandlingMap(classDefsAvailable, key => s"Resource class $key not found"),
standoffPropertyInfoMap = new ErrorHandlingMap(propertyDefsAvailable, key => s"Property $key not found")
)
} yield response
/**
* Gets information about all standoff classes that are a subclass of a data type standoff class.
*
* @return a [[StandoffClassesWithDataTypeGetResponseV2]]
*/
private def getStandoffStandoffClassesWithDataTypeV2: Task[StandoffClassesWithDataTypeGetResponseV2] =
for {
cacheData <- ontologyCache.getCacheData
} yield StandoffClassesWithDataTypeGetResponseV2(
standoffClassInfoMap = cacheData.ontologies.values.flatMap { ontology =>
ontology.classes.filter { case (_, classDef) =>
classDef.isStandoffClass && classDef.standoffDataType.isDefined
}
}.toMap
)
/**
* Gets all standoff property entities.
*
* @return a [[StandoffAllPropertyEntitiesGetResponseV2]].
*/
private def getAllStandoffPropertyEntitiesV2: Task[StandoffAllPropertyEntitiesGetResponseV2] =
ontologyCache.getCacheData.map { data =>
val ontologies: Iterable[ReadOntologyV2] = data.ontologies.values
ontologies.flatMap(_.properties.view.filterKeys(data.standoffProperties)).toMap
}.map(StandoffAllPropertyEntitiesGetResponseV2)
/**
* Checks whether a certain Knora resource or value class is a subclass of another class.
*
* @param subClassIri the IRI of the resource or value class whose subclassOf relations have to be checked.
* @param superClassIri the IRI of the resource or value class to check for (whether it is a a super class of `subClassIri` or not).
* @return a [[CheckSubClassResponseV2]].
*/
private def checkSubClassV2(subClassIri: SmartIri, superClassIri: SmartIri): Task[CheckSubClassResponseV2] =
for {
cacheData <- ontologyCache.getCacheData
isSubClass <- ZIO
.fromOption(cacheData.classToSuperClassLookup.get(subClassIri))
.map(_.contains(superClassIri))
.orElseFail(BadRequestException(s"Class $subClassIri not found"))
} yield CheckSubClassResponseV2(isSubClass)
/**
* Gets the IRIs of the subclasses of a class.
*
* @param classIri the IRI of the class whose subclasses should be returned.
* @return a [[SubClassesGetResponseV2]].
*/
private def getSubClassesV2(classIri: SmartIri, requestingUser: UserADM): Task[SubClassesGetResponseV2] =
for {
cacheData <- ontologyCache.getCacheData
subClasses <-
ZIO.foreach(cacheData.classToSubclassLookup(classIri).toVector.sorted) { subClassIri =>
val labelValueMaybe = cacheData
.ontologies(subClassIri.getOntologyFromEntity)
.classes(subClassIri)
.entityInfoContent
.getPredicateStringLiteralObject(
OntologyConstants.Rdfs.Label.toSmartIri,
Some(requestingUser.lang, appConfig.fallbackLanguage)
)
ZIO
.fromOption(labelValueMaybe)
.orElseFail(InconsistentRepositoryDataException(s"Resource class $subClassIri has no rdfs:label"))
.map(SubClassInfoV2(subClassIri, _))
}
} yield SubClassesGetResponseV2(subClasses)
/**
* Gets the [[OntologyKnoraEntitiesIriInfoV2]] for an ontology.
*
* @param ontologyIri the IRI of the ontology to query
* @return an [[OntologyKnoraEntitiesIriInfoV2]].
*/
private def getKnoraEntityIrisInNamedGraphV2(ontologyIri: SmartIri): Task[OntologyKnoraEntitiesIriInfoV2] =
for {
cacheData <- ontologyCache.getCacheData
ontology = cacheData.ontologies(ontologyIri)
} yield OntologyKnoraEntitiesIriInfoV2(
ontologyIri = ontologyIri,
propertyIris = ontology.properties.keySet.filter { propertyIri =>
OntologyHelpers.isKnoraResourceProperty(propertyIri, cacheData)
},
classIris = ontology.classes.filter { case (_, classDef) =>
classDef.isResourceClass
}.keySet,
standoffClassIris = ontology.classes.filter { case (_, classDef) =>
classDef.isStandoffClass
}.keySet,
standoffPropertyIris = ontology.properties.keySet.filter(cacheData.standoffProperties)
)
/**
* Gets the metadata describing the ontologies that belong to selected projects, or to all projects.
*
* @param projectIris the IRIs of the projects selected, or an empty set if all projects are selected.
* @return a [[ReadOntologyMetadataV2]].
*/
private def getOntologyMetadataForProjectsV2(projectIris: Set[SmartIri]): Task[ReadOntologyMetadataV2] = {
val returnAllOntologies = projectIris.isEmpty
for {
allOntologies <- ontologyCache.getCacheData.map(_.ontologies.values.map(_.ontologyMetadata).toSet)
ontologies =
if (returnAllOntologies) { allOntologies }
else { allOntologies.filter(ontology => projectIris.contains(ontology.projectIri.orNull)) }
} yield ReadOntologyMetadataV2(ontologies)
}
/**
* Gets the metadata describing the specified ontologies, or all ontologies.
*
* @param ontologyIris the IRIs of the ontologies selected, or an empty set if all ontologies are selected.
* @return a [[ReadOntologyMetadataV2]].
*/
private def getOntologyMetadataByIriV2(ontologyIris: Set[SmartIri]): Task[ReadOntologyMetadataV2] =
for {
cacheData <- ontologyCache.getCacheData
returnAllOntologies = ontologyIris.isEmpty
ontologyMetadata <-
if (returnAllOntologies) { ZIO.succeed(cacheData.ontologies.values.map(_.ontologyMetadata).toSet) }
else {
val ontologyIrisForCache = ontologyIris.map(_.toOntologySchema(InternalSchema))
val missingOntologies = ontologyIrisForCache -- cacheData.ontologies.keySet
if (missingOntologies.nonEmpty) {
val msg = s"One or more requested ontologies were not found: ${missingOntologies.mkString(", ")}"
ZIO.fail(BadRequestException(msg))
} else {
ZIO.succeed(
cacheData.ontologies.view
.filterKeys(ontologyIrisForCache)
.values
.map(ontology => ontology.ontologyMetadata)
.toSet
)
}
}
} yield ReadOntologyMetadataV2(ontologyMetadata)
/**
* Requests the entities defined in the given ontology.
*
* @param ontologyIri the IRI (internal or external) of the ontology to be queried.
* @param requestingUser the user making the request.
* @return a [[ReadOntologyV2]].
*/
private def getOntologyEntitiesV2(
ontologyIri: SmartIri,
allLanguages: Boolean,
requestingUser: UserADM
): Task[ReadOntologyV2] =
for {
cacheData <- ontologyCache.getCacheData
_ <- ZIO.when(ontologyIri.getOntologyName == "standoff" && ontologyIri.getOntologySchema.contains(ApiV2Simple))(
ZIO.fail(BadRequestException(s"The standoff ontology is not available in the API v2 simple schema"))
)
ontology <- ZIO
.fromOption(cacheData.ontologies.get(ontologyIri.toOntologySchema(InternalSchema)))
.orElseFail(NotFoundException(s"Ontology not found: $ontologyIri"))
// Are we returning data in the user's preferred language, or in all available languages?
userLang =
if (!allLanguages) {
// Just the user's preferred language.
Some(requestingUser.lang)
} else {
// All available languages.
None
}
} yield ontology.copy(
userLang = userLang
)
/**
* Requests information about properties in a single ontology.
*
* @param propertyIris the IRIs (internal or external) of the properties to query for.
* @param requestingUser the user making the request.
* @return a [[ReadOntologyV2]].
*/
private def getPropertyDefinitionsFromOntologyV2(
propertyIris: Set[SmartIri],
allLanguages: Boolean,
requestingUser: UserADM
): Task[ReadOntologyV2] =
for {
cacheData <- ontologyCache.getCacheData
ontologyIris = propertyIris.map(_.getOntologyFromEntity)
_ <-
ZIO.when(ontologyIris.size != 1)(ZIO.fail(BadRequestException(s"Only one ontology may be queried per request")))
propertyInfoResponse <- getEntityInfoResponseV2(propertyIris = propertyIris, requestingUser = requestingUser)
internalOntologyIri = ontologyIris.head.toOntologySchema(InternalSchema)
// Are we returning data in the user's preferred language, or in all available languages?
userLang =
if (!allLanguages) {
// Just the user's preferred language.
Some(requestingUser.lang)
} else {
// All available languages.
None
}
} yield ReadOntologyV2(
ontologyMetadata = cacheData.ontologies(internalOntologyIri).ontologyMetadata,
properties = propertyInfoResponse.propertyInfoMap,
userLang = userLang
)
/**
* Creates a new, empty ontology.
*
* @param createOntologyRequest the request message.
* @return a [[SuccessResponseV2]].
*/
private def createOntology(createOntologyRequest: CreateOntologyRequestV2): Task[ReadOntologyMetadataV2] = {
def makeTaskFuture(internalOntologyIri: SmartIri): Task[ReadOntologyMetadataV2] =
for {
// Make sure the ontology doesn't already exist.
existingOntologyMetadata <- ontologyHelpers.loadOntologyMetadata(internalOntologyIri)
_ <- ZIO.when(existingOntologyMetadata.nonEmpty) {
val msg =
s"Ontology ${internalOntologyIri.toOntologySchema(ApiV2Complex)} cannot be created, because it already exists"
ZIO.fail(BadRequestException(msg))
}
// If this is a shared ontology, make sure it's in the default shared ontologies project.
_ <-
ZIO.when(
createOntologyRequest.isShared && createOntologyRequest.projectIri.toString != OntologyConstants.KnoraAdmin.DefaultSharedOntologiesProject
) {
val msg =
s"Shared ontologies must be created in project <${OntologyConstants.KnoraAdmin.DefaultSharedOntologiesProject}>"
ZIO.fail(BadRequestException(msg))
}
// If it's in the default shared ontologies project, make sure it's a shared ontology.
_ <-
ZIO.when(
createOntologyRequest.projectIri.toString == OntologyConstants.KnoraAdmin.DefaultSharedOntologiesProject && !createOntologyRequest.isShared
) {
val msg =
s"Ontologies created in project <${OntologyConstants.KnoraAdmin.DefaultSharedOntologiesProject}> must be shared"
ZIO.fail(BadRequestException(msg))
}
// Create the ontology.
currentTime: Instant = Instant.now
createOntologySparql = sparql.v2.txt
.createOntology(
ontologyNamedGraphIri = internalOntologyIri,
ontologyIri = internalOntologyIri,
projectIri = createOntologyRequest.projectIri,
isShared = createOntologyRequest.isShared,
ontologyLabel = createOntologyRequest.label,
ontologyComment = createOntologyRequest.comment,
currentTime = currentTime
)
_ <- triplestoreService.query(Update(createOntologySparql))
// Check that the update was successful. To do this, we have to undo the SPARQL-escaping of the input.
unescapedNewMetadata = OntologyMetadataV2(
ontologyIri = internalOntologyIri,
projectIri = Some(createOntologyRequest.projectIri),
label = Some(createOntologyRequest.label),
comment = createOntologyRequest.comment,
lastModificationDate = Some(currentTime)
).unescape
maybeLoadedOntologyMetadata <- ontologyHelpers.loadOntologyMetadata(internalOntologyIri)
_ <- maybeLoadedOntologyMetadata match {
case Some(loadedOntologyMetadata) =>
ZIO.unless(loadedOntologyMetadata == unescapedNewMetadata)(ZIO.fail(UpdateNotPerformedException()))
case None => ZIO.fail(UpdateNotPerformedException())
}
_ <- // Update the ontology cache with the unescaped metadata.
ontologyCache.cacheUpdatedOntologyWithoutUpdatingMaps(
internalOntologyIri,
ReadOntologyV2(ontologyMetadata = unescapedNewMetadata)
)
} yield ReadOntologyMetadataV2(ontologies = Set(unescapedNewMetadata))
for {
requestingUser <- ZIO.succeed(createOntologyRequest.requestingUser)
projectIri = createOntologyRequest.projectIri
// check if the requesting user is allowed to create an ontology
_ <-
ZIO.when(
!(requestingUser.permissions.isProjectAdmin(projectIri.toString) || requestingUser.permissions.isSystemAdmin)
) {
val msg =
s"A new ontology in the project ${createOntologyRequest.projectIri} can only be created by an admin of that project, or by a system admin."
ZIO.fail(ForbiddenException(msg))
}
// Check that the ontology name is valid.
validOntologyName <-
ZIO
.fromOption(ValuesValidator.validateProjectSpecificOntologyName(createOntologyRequest.ontologyName))
.orElseFail(
BadRequestException(s"Invalid project-specific ontology name: ${createOntologyRequest.ontologyName}")
)
// Make the internal ontology IRI.
projectId <- IriIdentifier.fromString(projectIri.toString).toZIO.mapError(e => BadRequestException(e.getMessage))
project <- projectRepo.findById(projectId).someOrFail(BadRequestException(s"Project not found: $projectIri"))
internalOntologyIri = stringFormatter.makeProjectSpecificInternalOntologyIri(
validOntologyName,
createOntologyRequest.isShared,
project.shortcode.value
)
// Do the remaining pre-update checks and the update while holding a global ontology cache lock.
taskResult <- IriLocker.runWithIriLock(
createOntologyRequest.apiRequestID,
ONTOLOGY_CACHE_LOCK_IRI,
makeTaskFuture(internalOntologyIri)
)
} yield taskResult
}
/**
* Changes ontology metadata.
*
* @param changeOntologyMetadataRequest the request to change the metadata.
* @return a [[ReadOntologyMetadataV2]] containing the new metadata.
*/
private def changeOntologyMetadata(
changeOntologyMetadataRequest: ChangeOntologyMetadataRequestV2
): Task[ReadOntologyMetadataV2] = {
def makeTaskFuture(internalOntologyIri: SmartIri): Task[ReadOntologyMetadataV2] =
for {
cacheData <- ontologyCache.getCacheData
// Check that the user has permission to update the ontology.
projectIri <-
ontologyHelpers.checkPermissionsForOntologyUpdate(
internalOntologyIri,
changeOntologyMetadataRequest.requestingUser
)
// Check that the ontology exists and has not been updated by another user since the client last read its metadata.
_ <- ontologyHelpers.checkOntologyLastModificationDateBeforeUpdate(
internalOntologyIri,
changeOntologyMetadataRequest.lastModificationDate
)
// get the metadata of the ontology.
oldMetadata = cacheData.ontologies(internalOntologyIri).ontologyMetadata
// Was there a comment in the ontology metadata?
ontologyHasComment = oldMetadata.comment.nonEmpty
// Update the metadata.
currentTime: Instant = Instant.now
updateSparql = sparql.v2.txt.changeOntologyMetadata(
ontologyNamedGraphIri = internalOntologyIri,
ontologyIri = internalOntologyIri,
newLabel = changeOntologyMetadataRequest.label,
hasOldComment = ontologyHasComment,
deleteOldComment = ontologyHasComment && changeOntologyMetadataRequest.comment.nonEmpty,
newComment = changeOntologyMetadataRequest.comment,
lastModificationDate = changeOntologyMetadataRequest.lastModificationDate,
currentTime = currentTime
)
_ <- triplestoreService.query(Update(updateSparql))
// Check that the update was successful. To do this, we have to undo the SPARQL-escaping of the input.
// Is there any new label given?
label =
if (changeOntologyMetadataRequest.label.isEmpty) {
// No. Consider the old label for checking the update.
oldMetadata.label
} else {
// Yes. Consider the new label for checking the update.
changeOntologyMetadataRequest.label
}
// Is there any new comment given?
comment =
if (changeOntologyMetadataRequest.comment.isEmpty) {
// No. Consider the old comment for checking the update.
oldMetadata.comment
} else {
// Yes. Consider the new comment for checking the update.
changeOntologyMetadataRequest.comment
}
unescapedNewMetadata = OntologyMetadataV2(
ontologyIri = internalOntologyIri,
projectIri = Some(projectIri),
label = label,
comment = comment,
lastModificationDate = Some(currentTime)
).unescape
maybeLoadedOntologyMetadata <- ontologyHelpers.loadOntologyMetadata(internalOntologyIri)
_ <- maybeLoadedOntologyMetadata match {
case Some(loadedOntologyMetadata) =>
ZIO.unless(loadedOntologyMetadata == unescapedNewMetadata)(ZIO.fail(UpdateNotPerformedException()))
case None => ZIO.fail(UpdateNotPerformedException())
}
// Update the ontology cache with the unescaped metadata.
updatedOntology = cacheData
.ontologies(internalOntologyIri)
.copy(ontologyMetadata = unescapedNewMetadata)
_ <- ontologyCache.cacheUpdatedOntologyWithoutUpdatingMaps(
internalOntologyIri,
updatedOntology
)
} yield ReadOntologyMetadataV2(ontologies = Set(unescapedNewMetadata))
for {
_ <- ontologyHelpers.checkExternalOntologyIriForUpdate(changeOntologyMetadataRequest.ontologyIri)
internalOntologyIri = changeOntologyMetadataRequest.ontologyIri.toOntologySchema(InternalSchema)
// Do the remaining pre-update checks and the update while holding a global ontology cache lock.
taskResult <- IriLocker.runWithIriLock(
changeOntologyMetadataRequest.apiRequestID,
ONTOLOGY_CACHE_LOCK_IRI,
makeTaskFuture(internalOntologyIri = internalOntologyIri)
)
} yield taskResult
}
def deleteOntologyComment(
deleteOntologyCommentRequestV2: DeleteOntologyCommentRequestV2
): Task[ReadOntologyMetadataV2] = {
def makeTaskFuture(internalOntologyIri: SmartIri): Task[ReadOntologyMetadataV2] =
for {
cacheData <- ontologyCache.getCacheData
// Check that the user has permission to update the ontology.
projectIri <- ontologyHelpers.checkPermissionsForOntologyUpdate(
internalOntologyIri,
deleteOntologyCommentRequestV2.requestingUser
)
// Check that the ontology exists and has not been updated by another user since the client last read its metadata.
_ <- ontologyHelpers.checkOntologyLastModificationDateBeforeUpdate(
internalOntologyIri,
deleteOntologyCommentRequestV2.lastModificationDate
)
// get the metadata of the ontology.
oldMetadata = cacheData.ontologies(internalOntologyIri).ontologyMetadata
// Was there a comment in the ontology metadata?
ontologyHasComment = oldMetadata.comment.nonEmpty
// Update the metadata.
currentTime: Instant = Instant.now
updateSparql = sparql.v2.txt.changeOntologyMetadata(
ontologyNamedGraphIri = internalOntologyIri,
ontologyIri = internalOntologyIri,
newLabel = None,
hasOldComment = ontologyHasComment,
deleteOldComment = true,
newComment = None,
lastModificationDate = deleteOntologyCommentRequestV2.lastModificationDate,
currentTime = currentTime
)
_ <- triplestoreService.query(Update(updateSparql))
// Check that the update was successful.
unescapedNewMetadata = OntologyMetadataV2(
ontologyIri = internalOntologyIri,
projectIri = Some(projectIri),
label = oldMetadata.label,
comment = None,
lastModificationDate = Some(currentTime)
).unescape
maybeLoadedOntologyMetadata <- ontologyHelpers.loadOntologyMetadata(internalOntologyIri)
_ <- maybeLoadedOntologyMetadata match {
case Some(loadedOntologyMetadata) =>
ZIO.unless(loadedOntologyMetadata == unescapedNewMetadata)(ZIO.fail(UpdateNotPerformedException()))
case None => ZIO.fail(UpdateNotPerformedException())
}
// Update the ontology cache with the unescaped metadata.
updatedOntology = cacheData
.ontologies(internalOntologyIri)
.copy(ontologyMetadata = unescapedNewMetadata)
_ <- ontologyCache.cacheUpdatedOntologyWithoutUpdatingMaps(internalOntologyIri, updatedOntology)
} yield ReadOntologyMetadataV2(ontologies = Set(unescapedNewMetadata))
for {
_ <- ontologyHelpers.checkExternalOntologyIriForUpdate(deleteOntologyCommentRequestV2.ontologyIri)
internalOntologyIri = deleteOntologyCommentRequestV2.ontologyIri.toOntologySchema(InternalSchema)
// Do the remaining pre-update checks and the update while holding a global ontology cache lock.
taskResult <- IriLocker.runWithIriLock(
deleteOntologyCommentRequestV2.apiRequestID,
ONTOLOGY_CACHE_LOCK_IRI,
makeTaskFuture(internalOntologyIri = internalOntologyIri)
)
} yield taskResult
}
/**
* Creates a class in an existing ontology.
*
* @param createClassRequest the request to create the class.
* @return a [[ReadOntologyV2]] in the internal schema, the containing the definition of the new class.
*/
private def createClass(createClassRequest: CreateClassRequestV2): Task[ReadOntologyV2] = {
def makeTaskFuture(internalClassIri: SmartIri, internalOntologyIri: SmartIri): Task[ReadOntologyV2] = {
for {
cacheData <- ontologyCache.getCacheData
internalClassDef: ClassInfoContentV2 = createClassRequest.classInfoContent.toOntologySchema(InternalSchema)
// Check that the ontology exists and has not been updated by another user since the client last read it.
_ <- ontologyHelpers.checkOntologyLastModificationDateBeforeUpdate(
internalOntologyIri,
createClassRequest.lastModificationDate
)
// Check that the class's rdf:type is owl:Class.
rdfType <- ZIO
.fromOption(internalClassDef.getIriObject(OntologyConstants.Rdf.Type.toSmartIri))
.orElseFail(BadRequestException(s"No rdf:type specified"))
_ <- ZIO.when(rdfType != OntologyConstants.Owl.Class.toSmartIri) {
ZIO.fail(BadRequestException(s"Invalid rdf:type for property: $rdfType"))
}
ontology = cacheData.ontologies(internalOntologyIri)
// Check that the class doesn't exist yet.
_ <- ZIO.when(ontology.classes.contains(internalClassIri)) {
ZIO.fail(BadRequestException(s"Class ${createClassRequest.classInfoContent.classIri} already exists"))
}
// Check that the class's IRI isn't already used for something else.
_ <-
ZIO.when(ontology.properties.contains(internalClassIri) || ontology.individuals.contains(internalClassIri)) {
ZIO.fail(BadRequestException(s"IRI ${createClassRequest.classInfoContent.classIri} is already used"))
}
// Check that the base classes that have Knora IRIs are defined as Knora resource classes.
missingBaseClasses =
internalClassDef.subClassOf
.filter(_.isKnoraInternalEntityIri)
.filter(baseClassIri => !OntologyHelpers.isKnoraInternalResourceClass(baseClassIri, cacheData))
_ <- ZIO.when(missingBaseClasses.nonEmpty) {
val msg = s"One or more specified base classes are invalid: ${missingBaseClasses.mkString(", ")}"
ZIO.fail(BadRequestException(msg))
}
// Check for rdfs:subClassOf cycles.
allBaseClassIrisWithoutSelf: Set[SmartIri] = internalClassDef.subClassOf.flatMap { baseClassIri =>
cacheData.classToSuperClassLookup
.getOrElse(baseClassIri, Set.empty[SmartIri])
.toSet
}
_ <- ZIO.when(allBaseClassIrisWithoutSelf.contains(internalClassIri)) {
val msg = s"Class ${createClassRequest.classInfoContent.classIri} would have a cyclical rdfs:subClassOf"
ZIO.fail(BadRequestException(msg))
}
// Check that the class is a subclass of knora-base:Resource.
allBaseClassIris: Seq[SmartIri] = internalClassIri +: allBaseClassIrisWithoutSelf.toSeq
_ <- ZIO.when(!allBaseClassIris.contains(OntologyConstants.KnoraBase.Resource.toSmartIri)) {
val msg =
s"Class ${createClassRequest.classInfoContent.classIri} would not be a subclass of knora-api:Resource"
ZIO.fail(BadRequestException(msg))
}
// Check that the cardinalities are valid, and add any inherited cardinalities.
cardinalitiesCheckResult <- OntologyHelpers
.checkCardinalitiesBeforeAddingAndIfNecessaryAddLinkValueProperties(
internalClassDef,
allBaseClassIris.toSet,
cacheData
)
.toZIO
(internalClassDefWithLinkValueProps, cardinalitiesForClassWithInheritance) = cardinalitiesCheckResult
// Check that the class definition doesn't refer to any non-shared ontologies in other projects.
_ <- ZIO.attempt(
OntologyCache.checkOntologyReferencesInClassDef(
cacheData,
internalClassDefWithLinkValueProps,
{ msg: String => throw BadRequestException(msg) }
)
)
// Prepare to update the ontology cache, undoing the SPARQL-escaping of the input.
propertyIrisOfAllCardinalitiesForClass = cardinalitiesForClassWithInheritance.keySet
inheritedCardinalities =
cardinalitiesForClassWithInheritance.filterNot { case (propertyIri, _) =>
internalClassDefWithLinkValueProps.directCardinalities.contains(propertyIri)
}
unescapedClassDefWithLinkValueProps = internalClassDefWithLinkValueProps.unescape
readClassInfo = ReadClassInfoV2(
entityInfoContent = unescapedClassDefWithLinkValueProps,
allBaseClasses = allBaseClassIris,
isResourceClass = true,
canBeInstantiated = true,
inheritedCardinalities = inheritedCardinalities,
knoraResourceProperties = propertyIrisOfAllCardinalitiesForClass.filter(propertyIri =>
OntologyHelpers.isKnoraResourceProperty(propertyIri, cacheData)
),
linkProperties = propertyIrisOfAllCardinalitiesForClass.filter(propertyIri =>
OntologyHelpers.isLinkProp(propertyIri, cacheData)
),
linkValueProperties = propertyIrisOfAllCardinalitiesForClass.filter(propertyIri =>
OntologyHelpers.isLinkValueProp(propertyIri, cacheData)
),
fileValueProperties = propertyIrisOfAllCardinalitiesForClass.filter(propertyIri =>
OntologyHelpers.isFileValueProp(propertyIri, cacheData)
)
)
// Add the SPARQL-escaped class to the triplestore.
currentTime: Instant = Instant.now
updateSparql = sparql.v2.txt.createClass(
ontologyNamedGraphIri = internalOntologyIri,
ontologyIri = internalOntologyIri,
classDef = internalClassDefWithLinkValueProps,
lastModificationDate = createClassRequest.lastModificationDate,
currentTime = currentTime
)
_ <- triplestoreService.query(Update(updateSparql))
// Check that the ontology's last modification date was updated.
_ <- ontologyHelpers.checkOntologyLastModificationDateAfterUpdate(internalOntologyIri, currentTime)
// Check that the data that was saved corresponds to the data that was submitted.
loadedClassDef <- ontologyHelpers.loadClassDefinition(internalClassIri)
_ <- ZIO.when(loadedClassDef != unescapedClassDefWithLinkValueProps) {
val msg =
s"Attempted to save class definition $unescapedClassDefWithLinkValueProps, but $loadedClassDef was saved"
ZIO.fail(InconsistentRepositoryDataException(msg))
}
// Update the cache.
updatedOntology = ontology.copy(
ontologyMetadata = ontology.ontologyMetadata.copy(
lastModificationDate = Some(currentTime)
),
classes = ontology.classes + (internalClassIri -> readClassInfo)
)
_ <- ontologyCache.cacheUpdatedOntologyWithClass(internalOntologyIri, updatedOntology, internalClassIri)
// Read the data back from the cache.
response <- ontologyHelpers.getClassDefinitionsFromOntologyV2(
classIris = Set(internalClassIri),
allLanguages = true,
requestingUser = createClassRequest.requestingUser
)
} yield response
}
for {
requestingUser <- ZIO.succeed(createClassRequest.requestingUser)
externalClassIri = createClassRequest.classInfoContent.classIri
externalOntologyIri = externalClassIri.getOntologyFromEntity
_ <- ontologyHelpers.checkOntologyAndEntityIrisForUpdate(externalOntologyIri, externalClassIri, requestingUser)
internalClassIri = externalClassIri.toOntologySchema(InternalSchema)
internalOntologyIri = externalOntologyIri.toOntologySchema(InternalSchema)
// Do the remaining pre-update checks and the update while holding a global ontology cache lock.
taskResult <- IriLocker.runWithIriLock(
createClassRequest.apiRequestID,
ONTOLOGY_CACHE_LOCK_IRI,
makeTaskFuture(internalClassIri, internalOntologyIri)
)
} yield taskResult
}
/**
* Changes GUI orders in cardinalities in a class definition.
*
* @param changeGuiOrderRequest the request message.
* @return the updated class definition.
*/
private def changeGuiOrder(changeGuiOrderRequest: ChangeGuiOrderRequestV2): Task[ReadOntologyV2] = {
def makeTaskFuture(internalClassIri: SmartIri, internalOntologyIri: SmartIri): Task[ReadOntologyV2] = {
for {
cacheData <- ontologyCache.getCacheData
internalClassDef: ClassInfoContentV2 = changeGuiOrderRequest.classInfoContent.toOntologySchema(InternalSchema)
// Check that the ontology exists and has not been updated by another user since the client last read it.
_ <- ontologyHelpers.checkOntologyLastModificationDateBeforeUpdate(
internalOntologyIri,
changeGuiOrderRequest.lastModificationDate
)
// Check that the class's rdf:type is owl:Class.
rdfType <- ZIO
.fromOption(internalClassDef.getIriObject(OntologyConstants.Rdf.Type.toSmartIri))
.orElseFail(BadRequestException(s"No rdf:type specified"))
_ <- ZIO.when(rdfType != OntologyConstants.Owl.Class.toSmartIri) {
ZIO.fail(BadRequestException(s"Invalid rdf:type for property: $rdfType"))
}
// Check that the class exists.
ontology = cacheData.ontologies(internalOntologyIri)
currentReadClassInfo <-
ZIO
.fromOption(ontology.classes.get(internalClassIri))
.orElseFail(BadRequestException(s"Class ${changeGuiOrderRequest.classInfoContent.classIri} does not exist"))
// Check that the properties submitted already have cardinalities.
wrongProperties: Set[SmartIri] =
internalClassDef.directCardinalities.keySet -- currentReadClassInfo.entityInfoContent.directCardinalities.keySet
_ <- ZIO.when(wrongProperties.nonEmpty) {
val msg =
s"One or more submitted properties do not have cardinalities in class ${changeGuiOrderRequest.classInfoContent.classIri}: ${wrongProperties
.map(_.toOntologySchema(ApiV2Complex))
.mkString(", ")}"
ZIO.fail(BadRequestException(msg))
}
linkValuePropCardinalities = internalClassDef.directCardinalities.filter {
case (propertyIri: SmartIri, _: KnoraCardinalityInfo) =>
val propertyDef = cacheData
.ontologies(propertyIri.getOntologyFromEntity)
.properties(propertyIri)
propertyDef.isLinkProp
}.map {
case (
propertyIri: SmartIri,
cardinalityWithCurrentGuiOrder: KnoraCardinalityInfo
) =>
propertyIri.fromLinkPropToLinkValueProp -> cardinalityWithCurrentGuiOrder
}
internalClassDefWithLinkValueProps = internalClassDef.directCardinalities ++ linkValuePropCardinalities
// Make an updated class definition.
newReadClassInfo =
currentReadClassInfo.copy(
entityInfoContent = currentReadClassInfo.entityInfoContent.copy(
directCardinalities = currentReadClassInfo.entityInfoContent.directCardinalities.map {
case (propertyIri: SmartIri, cardinalityWithCurrentGuiOrder: KnoraCardinalityInfo) =>
internalClassDefWithLinkValueProps.get(propertyIri) match {
case Some(cardinalityWithNewGuiOrder) =>
propertyIri -> cardinalityWithCurrentGuiOrder.copy(guiOrder = cardinalityWithNewGuiOrder.guiOrder)
case None => propertyIri -> cardinalityWithCurrentGuiOrder
}
}