This is an automated email from the ASF dual-hosted git repository.
yasith pushed a change to branch service-layer-improvements
in repository https://gitbox.apache.org/repos/asf/airavata.git
from 0b148a8bcf make every group credential-based to avoid confusions and
match usage
add 2d01fb85c0 Update dependencies in pom.xml, enhance .gitignore for
local environment, and improve README for clarity. Add .env.example for
configuration and streamline Docker Compose setup. Remove deprecated files and
refine Keycloak setup script for better initialization control.
No new revisions were added by this update.
Summary of changes:
.devcontainer/.env.example | 4 +
.devcontainer/Dockerfile | 75 ---
.devcontainer/authorized_keys | 1 -
.devcontainer/docker-compose.yml | 28 +-
.devcontainer/keycloak/keycloak.conf | 3 +-
.devcontainer/keycloak/setup-keycloak.sh | 131 ++++-
.devcontainer/sshd.sh | 36 --
.gitignore | 5 +
.vscode/launch.json | 56 ++-
README.md | 309 +++++++-----
RELEASE_NOTES | 22 +
.../airavata/model/data/movement/ttypes.py | 3 +-
.../airavata_experiments/airavata.py | 19 +-
.../airavata_experiments/base.py | 2 +-
.../airavata_jupyter_magic/__init__.py | 4 +-
dev-tools/deployment-scripts/README.md | 18 +-
.../deployment-scripts/distribution_backup.sh | 2 +-
.../deployment-scripts/distribution_update.sh | 10 +-
dev-tools/deployment-scripts/docker-startup.sh | 6 +-
dev-tools/deployment-scripts/services_down.sh | 5 +-
dev-tools/deployment-scripts/services_up.sh | 5 +-
.../apache/airavata/tools/load/StatusMonitor.java | 2 +-
.../org/apache/airavata/tools/load/UnitLoad.java | 2 +-
dev-tools/simstream/simstream/datacollector.py | 2 +-
dev-tools/simstream/simstream/datareporter.py | 4 +-
dev-tools/simstream/simstream/eventmonitor.py | 5 +-
dev-tools/simstream/simstream/simstream.py | 14 +-
docs/ARCHITECTURE.md | 529 ---------------------
docs/DAPR_WORKFLOW_STATE_MACHINE_SPEC.md | 388 ---------------
docs/ERD.md | 256 ++++++++++
docs/PLAN_REMOVE_PUBSUB_WORKFLOW_DRIVEN.md | 221 ---------
docs/README.md | 4 +
docs/RESOURCE_SCOPE_MODEL.md | 157 ------
docs/SCHEMA_MIGRATIONS.md | 115 -----
.../airavata/client/samples/CancelExperiments.java | 2 +-
.../client/samples/CreateLaunchExperiment.java | 2 +-
.../client/samples/CreateLaunchExperimentUS3.java | 2 +-
.../client/secure/client/SecureClient.java | 2 +-
.../client/tools/RegisterSampleApplications.java | 4 +-
.../profile/client/samples/UserProfileSample.java | 13 +-
.../service/handlers/AgentManagementHandler.java | 4 +-
.../airavata-fuse/src/grpcfs_server/main.go | 4 +-
modules/airavata-api/pom.xml | 16 +
.../AccountProvisioningExceptions.java | 71 +++
.../accountprovisioning/InvalidSetupException.java | 42 --
.../InvalidUsernameException.java | 43 --
.../accountprovisioning/SSHAccountManager.java | 7 +-
.../accountprovisioning/SSHAccountProvisioner.java | 20 +-
.../provisioner/IULdapSSHAccountProvisioner.java | 2 +-
.../cluster/ClusterStatusMonitorActivity.java | 4 +-
.../monitoring/compute/ComputeMonitorActivity.java | 4 +-
.../monitoring/data/DataAnalyzerActivity.java | 2 +-
.../cancel/WorkflowCancellationActivity.java | 2 +-
.../apache/airavata/agents/api/AdaptorSupport.java | 2 +-
.../apache/airavata/agents/api/AgentAdaptor.java | 2 +-
.../apache/airavata/agents/api/AgentException.java | 2 +-
.../apache/airavata/agents/api/CommandOutput.java | 2 +-
.../airavata/agents/ssh/SshAdaptorParams.java | 2 +-
.../airavata/agents/ssh/StandardOutReader.java | 2 +-
.../agents/support/AdaptorSupportImpl.java | 2 +-
.../apache/airavata/agents/support/AgentStore.java | 2 +-
.../common/exception/AiravataClientException.java | 65 ---
.../exception/AiravataConfigurationException.java | 34 --
.../common/exception/AiravataErrorType.java | 67 ---
.../common/exception/AiravataException.java | 35 --
.../common/exception/AiravataStartupException.java | 45 --
.../common/exception/AiravataSystemException.java | 55 ---
.../exception/ApplicationSettingsException.java | 33 --
.../airavata/common/exception/AuthExceptions.java | 67 +++
.../common/exception/AuthenticationException.java | 51 --
.../common/exception/AuthorizationException.java | 52 --
.../common/exception/CatalogExceptions.java | 85 ++++
.../airavata/common/exception/CoreExceptions.java | 185 +++++++
.../common/exception/DuplicateEntryException.java | 51 --
.../common/exception/ErrorCodeGenerator.java | 69 ---
.../common/exception/ExceptionHandlerUtil.java | 142 ------
.../exception/ExperimentNotFoundException.java | 51 --
.../common/exception/InvalidRequestException.java | 51 --
.../exception/LaunchValidationException.java | 65 ---
.../common/exception/ProjectNotFoundException.java | 52 --
.../common/exception/TimedOutException.java | 40 --
.../common/exception/ValidationExceptions.java | 177 +++++++
.../common/exception/ValidationResults.java | 67 ---
.../airavata/common/exception/ValidatorResult.java | 65 ---
.../apache/airavata/common/logging/Exception.java | 64 ---
.../airavata/common/logging/LoggingUtil.java | 19 +-
.../airavata/common/logging/MDCConstants.java | 28 --
.../airavata/common/model/AllocationPool.java | 113 +++++
.../apache/airavata/common/model/BatchQueue.java | 18 +-
.../apache/airavata/common/model/ClusterInfo.java | 90 ++++
.../common/model/ComputeResourceDescription.java | 62 ++-
...{EdgeModel.java => ComputeResourceProject.java} | 63 ++-
.../airavata/common/model/ComputeResourceType.java | 5 +-
.../airavata/common/model/CustomDashboard.java | 7 +-
.../airavata/common/model/DataProductModel.java | 193 +++++++-
.../org/apache/airavata/common/model/DataType.java | 5 +-
.../common/model/GroupResourceProfile.java | 26 +-
.../airavata/common/model/NSFDemographics.java | 7 +-
.../airavata/common/model/PartitionInfo.java | 114 +++++
.../airavata/common/model/PreferenceLevel.java | 64 ++-
.../airavata/common/model/ProfileOwnerType.java | 20 +-
.../common/model/ProjectResourceAccount.java | 93 ++++
.../airavata/common/model/ResourceAccessGrant.java | 205 ++++++++
.../airavata/common/model/SharingResourceType.java | 7 +-
.../model/SlurmComputeResourcePreference.java | 7 +-
.../airavata/common/model/USCitizenship.java | 5 +-
.../apache/airavata/common/model/UserProfile.java | 26 +-
.../apache/airavata/common/model/disability.java | 5 +-
.../apache/airavata/common/model/ethnicity.java | 5 +-
.../org/apache/airavata/common/model/race.java | 5 +-
.../org/apache/airavata/common/utils/DBUtil.java | 2 +-
.../org/apache/airavata/common/utils/JSONUtil.java | 1 -
.../apache/airavata/common/utils/SwingUtil.java | 350 --------------
.../airavata/config/AiravataConfigUtils.java | 16 +-
.../airavata/config/AiravataServerProperties.java | 2 +-
.../java/org/apache/airavata/config/JpaConfig.java | 2 +-
.../conditional/ConditionalOnApiService.java | 66 ---
.../conditional/ConditionalOnController.java | 48 --
.../config/conditional/ConditionalOnMonitor.java | 48 --
.../conditional/ConditionalOnParticipant.java | 48 --
.../config/conditional/ServiceConditionals.java | 95 ++++
.../org/apache/airavata/credential/Credential.java | 15 +-
.../credential/entities/CredentialEntity.java | 14 +
.../credential/model/CredentialSummary.java | 21 +-
.../credential/model/PasswordCredential.java | 11 +-
.../airavata/credential/model/SSHCredential.java | 18 +-
.../repositories/CredentialRepository.java | 21 +
.../services/CredentialEntityService.java | 35 +-
.../credential/services/CredentialReaderImpl.java | 2 +-
.../credential/utils/NotifierBootstrap.java | 2 +-
.../apache/airavata/monitor/AbstractMonitor.java | 2 +-
.../monitor/compute/ComputeResourceMonitor.java | 2 +-
.../monitor/email/AiravataCustomMailParser.java | 2 +-
.../apache/airavata/monitor/email/EmailParser.java | 2 +-
.../monitor/email/HTCondorEmailParser.java | 2 +-
.../airavata/monitor/email/LSFEmailParser.java | 2 +-
.../airavata/monitor/email/PBSEmailParser.java | 2 +-
.../airavata/monitor/email/SLURMEmailParser.java | 2 +-
.../airavata/monitor/email/UGEEmailParser.java | 4 +-
.../realtime/RealtimeComputeStatusParser.java | 98 ++--
.../apache/airavata/orchestrator/Constants.java | 26 -
.../apache/airavata/orchestrator/Orchestrator.java | 4 +-
.../orchestrator/OrchestratorConstants.java | 8 +-
.../airavata/orchestrator/OrchestratorContext.java | 2 +-
.../airavata/orchestrator/OrchestratorUtils.java | 8 +-
.../orchestrator/ProcessStatusUpdater.java | 2 +-
.../airavata/orchestrator/ValidationService.java | 4 +-
.../orchestrator/ValidationServiceImpl.java | 8 +-
.../internal/messaging/DaprMessagingFactory.java | 141 ------
.../internal/messaging/DaprMessagingImpl.java | 406 ++++++++++++++++
.../internal/messaging/DaprPublisher.java | 99 ----
.../internal/messaging/DaprSubscriber.java | 76 ---
.../messaging/DaprSubscriptionController.java | 127 -----
.../messaging/DaprSubscriptionRegistry.java | 46 --
.../internal/messaging/DaprTopics.java | 59 ---
.../internal/messaging/MessageContext.java | 116 -----
.../internal/messaging/MessageHandler.java | 26 -
.../internal/messaging/MessagingContracts.java | 228 +++++++++
.../orchestrator/internal/messaging/Publisher.java | 44 --
.../internal/messaging/Subscriber.java | 46 --
.../internal/messaging/TimestampDeserializer.java | 42 --
.../internal/messaging/TimestampSerializer.java | 41 --
.../orchestrator/internal/messaging/Type.java | 27 --
.../internal/monitoring/DaprMonitoringHandler.java | 37 --
.../monitoring/JobStatusEventPublisher.java | 174 +++++++
.../JobStatusEventToResultConverter.java | 110 +++++
.../internal/monitoring/MessageProducer.java | 54 +--
.../monitoring/MonitoringJobStatusController.java | 42 +-
.../internal/participant/TaskHelperImpl.java | 2 +-
.../internal/state/DaprStateManagerImpl.java | 8 +-
.../internal/workflow/DaprWorkflowDefinition.java | 2 +-
.../workflow/ProcessStatusUpdateHelper.java | 12 +-
.../orchestrator/messaging/MessagingFactory.java | 23 +-
.../airavata/orchestrator/messaging/Topics.java | 14 +-
.../state/ExperimentStateValidator.java | 53 ---
.../orchestrator/state/JobStateValidator.java | 70 ---
.../orchestrator/state/ProcessStateValidator.java | 117 -----
.../airavata/orchestrator/state/StateKeys.java | 61 ---
.../airavata/orchestrator/state/StateManager.java | 39 --
.../airavata/orchestrator/state/StateModel.java | 163 +++++++
.../orchestrator/state/StateTransition.java | 38 --
.../orchestrator/state/StateTransitionService.java | 64 ---
.../orchestrator/state/StateValidator.java | 47 --
.../orchestrator/state/StateValidators.java | 198 ++++++++
.../orchestrator/state/TaskStateValidator.java | 42 --
.../validator/BatchQueueValidator.java | 8 +-
.../validator/ExperimentStatusValidator.java | 6 +-
.../validator/GroupResourceProfileValidator.java | 8 +-
.../validator/JobMetadataValidator.java | 2 +-
.../exception/UserProfileRegistryException.java | 27 --
.../profile/mappers/UserProfileMapper.java | 4 +-
.../apache/airavata/profile/utils/Committer.java | 26 -
.../airavata/registry/entities/GatewayEntity.java | 2 +-
.../registry/entities/ResourceAccessEntity.java | 39 +-
.../entities/ResourceAccessGrantEntity.java | 264 ++++++++++
.../airavata/registry/entities/StatusEntity.java | 31 +-
.../airavata/registry/entities/UserEntity.java | 15 +
.../entities/UserGroupSelectionEntity.java | 135 ++++++
.../entities/UserGroupSelectionEntityPK.java | 109 +++++
.../AiravataWorkflowEntity.java | 40 +-
.../WorkflowApplicationEntity.java | 39 +-
.../WorkflowHandlerEntity.java | 39 +-
.../entities/appcatalog/AllocationPoolEntity.java | 136 ++++++
.../appcatalog/AllocationPoolGroupEntity.java | 89 ++++
.../entities/appcatalog/AllocationPoolGroupPK.java | 69 +++
.../appcatalog/BaseResourceProfileEntity.java | 143 ------
.../entities/appcatalog/BatchQueueEntity.java | 11 +
.../entities/appcatalog/ComputeResourceEntity.java | 42 ++
...tity.java => ComputeResourceProjectEntity.java} | 66 ++-
...hQueuePK.java => ComputeResourceProjectPK.java} | 30 +-
.../appcatalog/CredentialClusterInfoEntity.java | 147 ++++++
.../appcatalog/CredentialClusterInfoPK.java | 81 ++++
.../appcatalog/ProjectQueueAccessEntity.java | 104 ++++
...BatchQueuePK.java => ProjectQueueAccessPK.java} | 26 +-
.../appcatalog/ResourceInterfaceEntity.java | 181 -------
.../appcatalog/ResourceInterfaceEntityPK.java | 83 ----
.../appcatalog/ResourcePreferenceEntity.java | 4 +-
.../entities/appcatalog/ResourceProfileEntity.java | 26 +-
.../appcatalog/ResourceProfileEntityPK.java | 14 +-
.../appcatalog/UnifiedJobSubmissionEntity.java | 305 ------------
.../appcatalog/UnifiedStoragePreferenceEntity.java | 178 -------
.../UnifiedStoragePreferenceEntityPK.java | 103 ----
.../entities/expcatalog/ProjectEntity.java | 4 +
.../expcatalog/ProjectResourceAccountEntity.java | 129 +++++
.../expcatalog/ProjectResourceAccountPK.java | 69 +++
.../airavata/registry/entities/package-info.java | 35 ++
.../entities/replicacatalog/DataProductEntity.java | 160 +++++++
.../registry/entities/workflowcatalog/EdgePK.java | 71 ---
.../registry/entities/workflowcatalog/NodePK.java | 71 ---
.../registry/entities/workflowcatalog/PortPK.java | 72 ---
.../entities/workflowcatalog/WorkflowInputPK.java | 75 ---
.../entities/workflowcatalog/WorkflowOutputPK.java | 72 ---
.../entities/workflowcatalog/WorkflowStatusPK.java | 71 ---
.../registry/exception/AppCatalogException.java | 36 --
.../exception/ExperimentCatalogException.java | 36 --
.../registry/exception/RegistryException.java | 53 ---
.../registry/exception/RegistryExceptions.java | 123 +++++
.../exception/ReplicaCatalogException.java | 35 --
.../exception/WorkflowCatalogException.java | 36 --
.../registry/mappers/AiravataWorkflowMapper.java | 3 +-
.../registry/mappers/ComputeResourceMapper.java | 2 +-
.../mappers/ComputeResourceProjectMapper.java | 62 +++
.../registry/mappers/DataProductMapper.java | 90 ++++
...tMapper.java => ResourceAccessGrantMapper.java} | 18 +-
.../airavata/registry/mappers/UserMapper.java | 2 -
.../apache/airavata/registry/model/AppCatalog.java | 2 +-
.../registry/model/ApplicationDeployment.java | 2 +-
.../registry/model/ApplicationInterface.java | 2 +-
.../airavata/registry/model/ComputeResource.java | 2 +-
.../registry/model/DataProductInterface.java | 2 +-
.../model/DataReplicaLocationInterface.java | 2 +-
.../airavata/registry/model/ExperimentCatalog.java | 2 +-
.../registry/model/GwyClientCredential.java | 2 +-
.../registry/model/GwyResourceProfile.java | 2 +-
.../airavata/registry/model/StorageResource.java | 2 +-
.../registry/model/UsrResourceProfile.java | 2 +-
.../airavata/registry/model/WorkflowCatalog.java | 2 +-
.../ResourceAccessGrantRepository.java | 50 ++
.../repositories/ResourceAccessRepository.java | 6 +
.../repositories/ResourcePreferenceRepository.java | 5 +-
.../registry/repositories/StatusRepository.java | 13 +-
.../repositories/UserGroupSelectionRepository.java | 50 ++
.../appcatalog/AllocationPoolRepository.java | 42 +-
.../CredentialClusterInfoRepository.java | 36 ++
.../appcatalog/UnifiedJobSubmissionRepository.java | 78 ---
.../UnifiedStoragePreferenceRepository.java | 70 ---
.../ProjectResourceAccountRepository.java | 36 ++
.../replicacatalog/DataProductRepository.java | 52 ++
.../services/ApplicationDeploymentService.java | 2 +-
.../services/ApplicationInterfaceService.java | 102 +++-
.../registry/services/CatalogResourceService.java | 18 +-
.../registry/services/ComputeResourceService.java | 157 +++++-
.../registry/services/DataProductService.java | 169 ++++++-
.../services/DataReplicaLocationService.java | 2 +-
.../airavata/registry/services/ErrorService.java | 2 +-
.../registry/services/ExperimentInputService.java | 2 +-
.../registry/services/ExperimentOutputService.java | 2 +-
.../registry/services/ExperimentService.java | 26 +-
.../services/ExperimentSummaryService.java | 2 +-
.../registry/services/GatewayGroupsService.java | 2 +-
.../airavata/registry/services/GatewayService.java | 2 +-
.../GatewayUsageReportingCommandService.java | 2 +-
.../services/GroupResourceProfileService.java | 55 ++-
.../services/GwyResourceProfileService.java | 14 +-
.../airavata/registry/services/JobService.java | 9 +-
.../registry/services/JobStatusService.java | 6 +-
.../registry/services/NotificationService.java | 2 +-
.../registry/services/ParserIOService.java | 2 +-
.../registry/services/ParserInputService.java | 2 +-
.../registry/services/ParserOutputService.java | 2 +-
.../airavata/registry/services/ParserService.java | 4 +-
.../registry/services/ParsingTemplateService.java | 2 +-
.../services/PreferenceResolutionService.java | 219 +++++++--
.../registry/services/ProcessInputService.java | 2 +-
.../registry/services/ProcessOutputService.java | 2 +-
.../airavata/registry/services/ProcessService.java | 14 +-
.../registry/services/ProcessWorkflowService.java | 2 +-
.../services/ProjectResourceAccountService.java | 164 +++++++
.../airavata/registry/services/ProjectService.java | 7 +-
.../services/ResourceAccessGrantService.java | 152 ++++++
.../airavata/registry/services/StatusService.java | 28 +-
.../registry/services/StorageResourceService.java | 2 +-
.../airavata/registry/services/TaskService.java | 18 +-
.../services/UserGroupSelectionService.java | 105 ++++
.../services/UserResourceProfileService.java | 18 +-
.../airavata/registry/services/UserService.java | 2 +-
.../registry/services/WorkflowService.java | 83 ++--
.../airavata/registry/utils/EntityMergeHelper.java | 41 ++
.../registry/utils/WorkflowCatalogUtils.java | 29 --
.../policy/ComputeResourceSelectionPolicyImpl.java | 2 +-
.../policy/MultipleComputeResourcePolicy.java | 2 +-
.../airavata/security/AbstractAuthenticator.java | 2 +
.../airavata/security/AuthenticationException.java | 38 --
.../apache/airavata/security/Authenticator.java | 1 +
.../security/GatewayGroupsInitializer.java | 2 +-
.../airavata/security/KeyCloakSecurityManager.java | 4 +-
.../security/interceptor/SecurityInterceptor.java | 2 +-
.../airavata/security/userstore/JDBCUserStore.java | 2 +-
.../security/userstore/SessionDBUserStore.java | 2 +-
.../apache/airavata/service/AiravataService.java | 143 +++---
.../airavata/service/SharingRegistryService.java | 95 +++-
.../service/application/ApplicationService.java | 8 +-
.../service/cluster/ClusterInfoService.java | 259 ++++++++++
.../airavata/service/data/DataProductService.java | 8 +-
.../service/experiment/ExperimentService.java | 16 +-
.../service/notification/NotificationService.java | 8 +-
.../service/orchestrator/OrchestratorService.java | 102 ++--
.../service/profile/TenantProfileService.java | 4 +-
.../service/profile/UserProfileService.java | 55 +--
.../airavata/service/project/ProjectService.java | 10 +-
.../airavata/service/registry/RegistryService.java | 14 +-
.../service/security/AuthorizationService.java | 6 +-
.../service/security/CredentialStoreService.java | 58 ++-
.../service/security/GroupManagerService.java | 10 +-
.../airavata/service/security/IamAdminService.java | 67 ++-
.../airavata/service/sharing/SharingManager.java | 12 +-
...EntityTypeEntity.java => EntityTypeRecord.java} | 8 +-
.../{EntityEntity.java => ShareableEntity.java} | 10 +-
.../airavata/sharing/entities/UserGroupEntity.java | 14 +
.../airavata/sharing/mappers/EntityMapper.java | 12 +-
.../airavata/sharing/mappers/EntityTypeMapper.java | 12 +-
.../apache/airavata/sharing/model/UserGroup.java | 20 +-
.../sharing/repositories/EntityRepository.java | 8 +-
.../sharing/repositories/EntityTypeRepository.java | 4 +-
.../airavata/sharing/services/EntityService.java | 16 +-
.../sharing/services/EntityTypeService.java | 20 +-
.../sharing/services/GroupMembershipService.java | 4 +-
.../apache/airavata/sharing/utils/Committer.java | 26 -
.../airavata/task/aws/AWSCompletingTask.java | 4 +-
.../airavata/task/aws/AWSJobSubmissionTask.java | 6 +-
.../task/aws/AWSProcessContextManager.java | 2 +-
.../airavata/task/aws/CreateEC2InstanceTask.java | 8 +-
.../apache/airavata/task/aws/NoOperationTask.java | 4 +-
.../airavata/task/aws/utils/AWSTaskUtil.java | 4 +-
.../apache/airavata/task/base/AiravataTask.java | 36 +-
.../org/apache/airavata/task/base/TaskContext.java | 23 +-
.../airavata/task/base/UserContentStore.java | 12 +-
.../airavata/task/cancel/CancelCompletingTask.java | 4 +-
.../task/cancel/RemoteJobCancellationTask.java | 4 +-
.../task/cancel/WorkflowCancellationTask.java | 2 +-
.../airavata/task/completing/CompletingTask.java | 4 +-
.../org/apache/airavata/task/env/EnvSetupTask.java | 4 +-
.../airavata/task/factory/AWSTaskFactory.java | 6 +-
.../airavata/task/factory/PlainTaskFactory.java | 100 ++++
.../airavata/task/factory/SlurmTaskFactory.java | 6 +-
.../apache/airavata/task/factory/TaskFactory.java | 5 +-
.../org/apache/airavata/task/mock/MockTask.java | 2 +-
.../airavata/task/parsing/DataParsingTask.java | 6 +-
.../task/parsing/ParsingTriggeringTask.java | 45 +-
.../apache/airavata/task/staging/ArchiveTask.java | 4 +-
.../airavata/task/staging/DataStagingTask.java | 2 +-
.../task/staging/InputDataStagingTask.java | 4 +-
.../airavata/task/staging/JobVerificationTask.java | 4 +-
.../task/staging/OutputDataStagingTask.java | 4 +-
.../task/submission/DefaultJobSubmissionTask.java | 4 +-
.../task/submission/ForkJobSubmissionTask.java | 4 +-
.../airavata/task/submission/GroovyMapBuilder.java | 2 +-
.../airavata/task/submission/JobFactory.java | 4 +-
.../task/submission/JobSubmissionTask.java | 4 +-
.../task/submission/LocalJobSubmissionTask.java | 4 +-
.../airavata/workflow/common/WorkflowManager.java | 4 +-
.../monitoring/email/EmailMonitorWorkflow.java | 17 +-
.../realtime/RealtimeMonitorHandler.java | 135 ------
.../orchestrator/SimpleOrchestratorImpl.java | 16 +-
.../process/parsing/ParserWorkflowManager.java | 3 +-
.../workflow/process/post/PostWorkflowManager.java | 24 +-
.../workflow/process/post/ProcessPostWorkflow.java | 2 +-
.../workflow/process/pre/PreWorkflowManager.java | 2 +-
.../scheduling/DaprScheduledWorkflowManager.java | 2 +-
.../scheduling/ExponentialBackOffReScheduler.java | 6 +-
.../src/main/resources/conf/bin/slurminfo.sh | 119 +++++
.../TestIULdapSSHAccountProvisioner.java | 2 +-
.../provisioner/TestSSHAccountProvisioner.java | 2 +-
.../config/BackgroundServicesStartupTest.java | 13 +-
.../config/IntegrationTestConfiguration.java | 18 +
.../org/apache/airavata/config/TestDaprConfig.java | 17 +-
.../dapr/messaging/DaprPubSubIntegrationTest.java | 2 +-
.../dapr/messaging/MessageVerificationUtils.java | 11 +-
.../dapr/messaging/TestMessagingUtils.java | 2 +-
.../ResourceAccessGrantRepositoryTest.java | 135 ++++++
.../ApplicationDeploymentRepositoryTest.java | 9 +-
.../ApplicationInterfaceRepositoryTest.java | 81 +++-
.../appcatalog/ComputeResourceRepositoryTest.java | 11 +-
.../appcatalog/GatewayProfileRepositoryTest.java | 20 +-
.../GroupResourceProfileRepositoryTest.java | 15 +-
.../JobSubmissionInterfaceRepositoryTest.java | 2 +-
.../appcatalog/StorageResourceRepositoryTest.java | 2 +-
.../UserResourceProfileRepositoryTest.java | 9 +-
.../registry/repositories/common/TestBase.java | 20 +
.../expcatalog/ExperimentInputRepositoryTest.java | 2 +-
.../expcatalog/ExperimentOutputRepositoryTest.java | 2 +-
.../expcatalog/ExperimentStatusRepositoryTest.java | 2 +-
.../ExperimentSummaryRepositoryTest.java | 14 +-
.../expcatalog/JobStatusRepositoryTest.java | 2 +-
.../expcatalog/ProcessInputRepositoryTest.java | 2 +-
.../expcatalog/ProcessOutputRepositoryTest.java | 2 +-
.../expcatalog/ProcessStatusRepositoryTest.java | 2 +-
.../expcatalog/TaskStatusRepositoryTest.java | 2 +-
.../replicacatalog/DataProductRepositoryTest.java | 2 +-
.../DataReplicaLocationRepositoryTest.java | 2 +-
.../workflowcatalog/WorkflowRepositoryTest.java | 2 +-
.../services/ResourceAccessGrantServiceTest.java | 234 +++++++++
.../security/GatewayGroupsInitializerTest.java | 2 +-
.../security/KeyCloakSecurityManagerTest.java | 2 +-
.../configurations/TestDBAuthenticator1.java | 2 +-
.../configurations/TestDBAuthenticator2.java | 2 +-
.../configurations/TestDBAuthenticator3.java | 2 +-
.../service/cluster/ClusterInfoServiceTest.java | 117 +++++
.../AiravataServiceIntegrationTest.java | 4 +-
...pplicationDeploymentServiceIntegrationTest.java | 9 +-
.../AwsComputeResourceIntegrationTest.java | 2 +-
.../CredentialStoreServiceIntegrationTest.java | 70 ++-
.../DataMovementStateMachineIntegrationTest.java | 15 +-
.../ExperimentLifecycleIntegrationTest.java | 15 +-
.../ExperimentStateTransitionIntegrationTest.java | 72 +--
...rimentSubmitStateTransitionIntegrationTest.java | 2 +-
.../GroupManagerServiceIntegrationTest.java | 2 +-
.../IamAdminServiceIntegrationTest.java | 20 +-
.../service/integration/JobStateValidatorTest.java | 44 +-
.../JobSubmissionStateMachineIntegrationTest.java | 39 +-
.../OrchestratorServiceIntegrationTest.java | 13 +-
...rocessExecutionStateMachineIntegrationTest.java | 31 +-
.../ProcessStateTransitionComprehensiveTest.java | 64 +--
.../apache/airavata/service/integration/README.md | 31 +-
.../RegistryServiceIntegrationTest.java | 10 +-
.../integration/ServiceIntegrationTestBase.java | 9 +-
.../SharingRegistryServiceIntegrationTest.java | 4 +-
.../SlurmComputeResourceIntegrationTest.java | 2 +-
.../service/integration/StateMachineTestUtils.java | 10 +-
.../StateTransitionValidationIntegrationTest.java | 161 +++----
.../TaskOutcomeStateTransitionIntegrationTest.java | 42 +-
.../TaskStateTransitionIntegrationTest.java | 50 +-
.../service/integration/TestDataFactory.java | 2 +-
.../airavata/service/integration/TestFixtures.java | 2 +-
.../WorkflowStateTransitionEndToEndTest.java | 46 +-
.../WorkflowTaskExecutionIntegrationTest.java | 24 +-
.../workflow/dapr/ProcessPreWorkflowTest.java | 2 +-
modules/distribution/pom.xml | 296 +-----------
.../src/main/assembly/native-binary-assembly.xml | 137 ------
.../src/main/assembly/tarball-assembly.xml | 57 +--
.../org/apache/airavata/AiravataCommandLine.java | 41 +-
.../apache/airavata/cli/commands/InitCommand.java | 15 +-
.../apache/airavata/cli/commands/ServeCommand.java | 20 +-
.../airavata/cli/handlers/AccountHandler.java | 2 +-
.../airavata/cli/handlers/ComputeHandler.java | 5 +-
.../apache/airavata/cli/handlers/InitHandler.java | 120 ++---
.../airavata/cli/handlers/ProjectHandler.java | 4 +-
.../airavata/cli/handlers/ServiceRegistry.java | 3 +-
.../airavata/cli/handlers/StorageHandler.java | 5 +-
.../apache/airavata/cli/handlers/TestHandler.java | 4 +-
.../cli/util/ApplicationContextHolder.java | 19 +
.../apache/airavata/cli/util/ProcessManager.java | 4 -
.../airavata/config/InitDataSourceConfig.java | 55 +++
.../apache/airavata/cli/CLIInfrastructureTest.java | 18 +-
.../apache/airavata/cli/CLIIntegrationTest.java | 3 +-
.../file/server/service/AirvataFileService.java | 2 +-
.../file/server/service/ProcessDataManager.java | 2 +-
.../research-framework/research-service/README.md | 7 +-
.../service/handlers/ResearchHubHandler.java | 2 +-
.../research-framework/simexr_mod/FINAL_REPORT.md | 144 ------
modules/research-framework/simexr_mod/README.md | 6 -
modules/rest-api/README.md | 24 +
.../airavata/restapi/config/WebMvcConfig.java | 20 +-
.../ApplicationDeploymentController.java | 26 +-
.../controller/ApplicationInterfaceController.java | 2 +-
.../restapi/controller/CatalogController.java | 4 +-
.../restapi/controller/ClusterInfoController.java | 166 +++++++
.../controller/ComputeResourceController.java | 176 ++++++-
.../controller/ConnectivityTestController.java | 103 ++++
.../restapi/controller/CredentialController.java | 99 +++-
.../restapi/controller/DataProductController.java | 60 ++-
.../restapi/controller/ExperimentController.java | 2 +-
.../restapi/controller/GatewayController.java | 2 +-
.../GatewayResourceProfileController.java | 2 +-
.../restapi/controller/GroupController.java | 10 +-
.../airavata/restapi/controller/JobController.java | 2 +-
.../restapi/controller/NoticeController.java | 2 +-
.../controller/ParsingTemplateController.java | 2 +-
.../restapi/controller/ProcessController.java | 2 +-
.../restapi/controller/ProjectController.java | 83 +++-
.../restapi/controller/ProxyController.java | 1 +
.../controller/ResourceAccessController.java | 334 ++++++++++++-
.../controller/ResourceAccessGrantController.java | 163 +++++++
.../restapi/controller/StatisticsController.java | 274 +++++++++++
.../controller/StorageResourceController.java | 170 ++++++-
...HealthController.java => SystemController.java} | 30 +-
.../restapi/controller/UserController.java | 142 ++++--
.../controller/UserResourceProfileController.java | 2 +-
.../restapi/controller/WorkflowController.java | 2 +-
.../security/AuthenticationInterceptor.java | 5 +
.../restapi/security/AuthorizationService.java | 3 +-
.../restapi/RestEndpointRegistrationTest.java | 26 +-
.../client/AiravataServiceClientFactory.java | 2 +-
.../client/OrchestratorServiceClientFactory.java | 2 +-
.../thriftapi/handler/AiravataServiceHandler.java | 20 +-
.../handler/CredentialServiceHandler.java | 2 +-
.../handler/GroupManagerServiceHandler.java | 2 +-
.../thriftapi/handler/IamAdminServiceHandler.java | 2 +-
.../handler/OrchestratorServiceHandler.java | 6 +-
.../thriftapi/handler/RegistryServiceHandler.java | 20 +-
.../handler/SharingRegistryServerHandler.java | 2 +
.../handler/TenantProfileServiceHandler.java | 2 +-
.../handler/UserProfileServiceHandler.java | 2 +-
.../thriftapi/mapper/DataProductModelMapper.java | 3 +-
.../{UserMapper.java => DataProductTagMapper.java} | 18 +-
.../mapper/RegistryServiceExceptionMapper.java | 2 +-
.../client/TestAiravataServiceClientFactory.java | 6 +-
.../airavata/thriftapi/client/TestSSLClient.java | 2 -
pom.xml | 40 +-
scripts/README.md | 44 ++
scripts/dev.sh | 52 ++
scripts/init.sh | 100 ++++
scripts/jar.sh | 37 ++
scripts/quickstart.sh | 29 ++
.../distribution/native-image.properties | 6 -
.../META-INF/native-image/reflect-config.json | 44 --
.../META-INF/native-image/resource-config.json | 10 -
src/main/resources/application-init.properties | 5 +
src/main/resources/application.properties | 13 +-
src/main/resources/bin/airavata.sh | 44 +-
src/main/resources/conf/bin/pid-airavata | 1 -
.../db/migration/airavata/V1__Baseline_schema.sql | 282 ++++++++---
.../db/migration/airavata/V2__Catalog_tables.sql | 51 --
.../airavata/V3__Add_preference_enforcement.sql | 4 -
.../V4__Merge_notebook_model_to_repository.sql | 6 -
.../migration/airavata/V5__Add_resource_scope.sql | 50 --
src/main/resources/conf/keystores/airavata.sym.p12 | Bin 409 -> 425 bytes
.../components/dbevent-retry-subscription.yaml | 29 --
.../components/experiment-topic-subscription.yaml | 30 --
.../components/monitoring-data-subscription.yaml | 31 --
.../monitoring-job-status-subscription.yaml | 29 --
.../components/process-topic-subscription.yaml | 30 --
...iption.yaml => status-change-subscription.yaml} | 11 +-
.../dapr/components/status-topic-subscription.yaml | 30 --
.../components/experiment-topic-subscription.yaml | 28 --
.../components/monitoring-data-subscription.yaml | 28 --
.../monitoring-job-status-subscription.yaml | 28 --
.../dapr/components/parsing-data-subscription.yaml | 28 --
.../components/process-topic-subscription.yaml | 28 --
...iption.yaml => status-change-subscription.yaml} | 8 +-
.../dapr/components/status-topic-subscription.yaml | 28 --
src/test/resources/keycloak/realm-default.json | 2 +
.../airavata-apis/messaging_events.thrift | 2 +-
.../data-models/application_io_models.thrift | 3 +-
.../data-models/compute_resource_model.thrift | 9 +
.../data-models/data_movement_models.thrift | 2 +-
.../group_resource_profile_model.thrift | 6 +-
.../data-models/replica_catalog_models.thrift | 17 +
.../data-models/sharing_models.thrift | 3 +-
.../generate-thrift-stubs.sh | 4 +-
570 files changed, 12597 insertions(+), 10297 deletions(-)
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(53%)
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modules/airavata-api/src/main/java/org/apache/airavata/sharing/entities/{EntityTypeEntity.java
=> EntityTypeRecord.java} (96%)
rename
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