Clarified purpose of default.yaml being here

Tests/IsIdentifiableTests/default.yaml

@@ -1,3 +1,6 @@
+# This file demonstrates that you can load `ii review -y default.yaml` with a larger config file and it will ignore settings unrelated
+# to it.  This allows you to have a config file that is consumed by your own process (via IsIdentifiable Nuget package) but still use
+# the same config file with the reviewer CLI tool
 
 RabbitOptions:
     RabbitMqHostName: 'localhost'
@@ -8,208 +11,6 @@ RabbitOptions:
     RabbitMqControlExchangeName: 'TEST.ControlExchange'
     FatalLoggingExchange: 'TEST.FatalLoggingExchange'
 
-LoggingOptions:  
-    LogConfigFile: ''
-    LogsRoot: ''
-    TraceLogging: true
-
-FileSystemOptions:
-    FileSystemRoot: 'C:\temp'
-    ExtractRoot: 'C:\temp'
-    # Set this to "*" if your dicom files do not have file extensions
-    DicomSearchPattern: "*.dcm"
-
-RDMPOptions:
-    CatalogueConnectionString: 'server=localhost\sqlexpress;integrated security=true;database=RDMP_Catalogue'
-    DataExportConnectionString: 'server=localhost\sqlexpress;integrated security=true;database=RDMP_DataExport'
-
-    # Alternative to connection strings for if you have RDMP running with a YAML file system backend.  If specified then this will override the connection strings        
-    YamlDir: 
-MongoDatabases:
-    DicomStoreOptions:
-        HostName: 'localhost'
-        Port: 27017
-        UserName: ''
-        Password: ''
-        DatabaseName: 'dicom'
-    ExtractionStoreOptions:
-        HostName: 'localhost'
-        Port: 27017
-        UserName: ''
-        Password: ''
-        DatabaseName: 'extraction'
-
-DicomRelationalMapperOptions:
-    Guid: '6ff062af-5538-473f-801c-ed2b751c7897'
-    QueueName: 'TEST.AnonymousImageQueue'
-    QoSPrefetchCount: 10000
-    AutoAck: false
-    LoadMetadataId: 1
-    DatabaseNamerType: 'GuidDatabaseNamer'
-    MinimumBatchSize: 10000
-    UseInsertIntoForRAWMigration: true
-    RetryOnFailureCount: 1
-    RetryDelayInSeconds: 60
-    RunChecks: true
-
-UpdateValuesOptions:
-    QueueName: 'TEST.UpdateValuesQueue'
-    QoSPrefetchCount: 10000
-    AutoAck: false
-    #TableInfosToUpdate: 1,2,3 <-set this to limit which tables get updated when no explicit table is listed in the message
-    UpdateTimeout: 500 # number of seconds to wait for each UPDATE statement
-
-TriggerUpdatesOptions:
-    ExchangeName: 'TEST.TriggerUpdatesExchange'
-    MaxConfirmAttempts: 1
-
-CohortExtractorOptions:
-    QueueName: 'TEST.RequestQueue'
-    QoSPrefetchCount: 10000
-    AutoAck: false
-    AllCatalogues: true
-
-    # List of IDs of Catalogues to extract from (in ascending order).
-    # Ignored if "AllCatalogues == true"
-    OnlyCatalogues: [1,2,3]
-
-    # ID(s) of ColumnInfo that contains a list of values which should not have data extracted for them.  e.g. opt out.  The name of the column referenced must match a column in the extraction table
-    #RejectColumnInfos: [105,110]
-
-    AuditorType: 'Microservices.CohortExtractor.Audit.NullAuditExtractions'
-    RequestFulfillerType: 'Microservices.CohortExtractor.Execution.RequestFulfillers.FromCataloguesExtractionRequestFulfiller'
-    ProjectPathResolverType: 'Microservices.CohortExtractor.Execution.ProjectPathResolvers.DefaultProjectPathResolver'
-    ExtractAnonRoutingKey: anon
-    ExtractIdentRoutingKey: ident
-    # Writes (Producer) to this exchange
-    ExtractFilesProducerOptions: 
-        ExchangeName: 'TEST.ExtractFileExchange'
-        MaxConfirmAttempts: 1
-    # And audits this too
-    ExtractFilesInfoProducerOptions: 
-        ExchangeName: 'TEST.FileCollectionInfoExchange'
-        MaxConfirmAttempts: 1
-
-CohortPackagerOptions:
-    JobWatcherTimeoutInSeconds: 30
-    ReporterType: 'LoggingReporter'
-    NotifierType: 'LoggingNotifier'
-    ReportFormat: 'Combined'
-    ReportNewLine: ''
-    ExtractRequestInfoOptions:
-        QueueName: 'TEST.RequestInfoQueue'
-        QoSPrefetchCount: 1
-        AutoAck: false
-    FileCollectionInfoOptions:
-        QueueName: 'TEST.FileCollectionInfoQueue'
-        QoSPrefetchCount: 1
-        AutoAck: false
-    NoVerifyStatusOptions:
-        QueueName: 'TEST.ExtractedFileNoVerifyQueue'
-        QoSPrefetchCount: 1
-        AutoAck: false
-    VerificationStatusOptions:
-        QueueName: 'TEST.ExtractedFileVerifiedQueue'
-        QoSPrefetchCount: 1
-        AutoAck: false
-
-DicomReprocessorOptions:
-    ProcessingMode: 'ImageReprocessing'
-    ReprocessingProducerOptions: 
-        ExchangeName: 'TEST.IdentifiableImageExchange'
-        MaxConfirmAttempts: 1
-
-DicomTagReaderOptions:
-    QueueName: 'TEST.AccessionDirectoryQueue'
-    QoSPrefetchCount: 1
-    AutoAck: false
-    NackIfAnyFileErrors: true
-    ImageProducerOptions: 
-        ExchangeName: 'TEST.IdentifiableImageExchange'
-        MaxConfirmAttempts: 1
-    SeriesProducerOptions: 
-        ExchangeName: 'TEST.IdentifiableSeriesExchange'
-        MaxConfirmAttempts: 1
-    FileReadOption: 'ReadLargeOnDemand'
-    TagProcessorMode: 'Serial'
-    MaxIoThreads: 1
-
-IdentifierMapperOptions:
-    QueueName: 'TEST.IdentifiableImageQueue'
-    QoSPrefetchCount: 1000
-    AutoAck: false
-    AnonImagesProducerOptions: 
-        ExchangeName: 'TEST.AnonymousImageExchange'
-        MaxConfirmAttempts: 1
-    MappingConnectionString: 'Server=localhost\sqlexpress;Integrated Security=true;Initial Catalog=MappingDatabase;'
-    MappingDatabaseType: 'MicrosoftSQLServer'
-    MappingTableName: 'MappingTable'
-    TimeoutInSeconds: 600
-    SwapColumnName: 'CHI'
-    ReplacementColumnName: 'ECHI'
-    SwapperType: 'Microservices.IdentifierMapper.Execution.Swappers.ForGuidIdentifierSwapper'
-    AllowRegexMatching: false
-    RedisConnectionString: ''
-
-MongoDbPopulatorOptions:
-    SeriesQueueConsumerOptions:
-        QueueName: 'TEST.MongoSeriesQueue'
-        QoSPrefetchCount: 1000
-        AutoAck: false
-    ImageQueueConsumerOptions:
-        QueueName: 'TEST.MongoImageQueue'
-        QoSPrefetchCount: 10000
-        AutoAck: false
-    MongoDbFlushTime: 30 # Seconds
-    FailedWriteLimit: 5
-
-ProcessDirectoryOptions:
-    AccessionDirectoryProducerOptions:
-        ExchangeName: 'TEST.AccessionDirectoryExchange'
-        MaxConfirmAttempts: 1
-
-CTPAnonymiserOptions:
-    VerifyRoutingKey: verify
-    NoVerifyRoutingKey: noverify
-    AnonFileConsumerOptions:
-        QueueName: 'TEST.ExtractFileAnonQueue'
-        QoSPrefetchCount: 1
-        AutoAck: false
-    ExtractFileStatusProducerOptions:
-        ExchangeName: 'TEST.ExtractedFileStatusExchange'
-        MaxConfirmAttempts: 1
-
-DicomAnonymiserOptions:
-    AnonymiserType:
-    AnonFileConsumerOptions:
-        QueueName: 'TEST.ExtractFileAnonQueue'
-        QoSPrefetchCount: 1
-        AutoAck: false
-    ExtractFileStatusProducerOptions:
-        ExchangeName: 'TEST.ExtractedFileStatusExchange'
-        MaxConfirmAttempts: 1
-    RoutingKeySuccess: verify
-    RoutingKeyFailure: noverify
-    FailIfSourceWriteable: true
-
-FileCopierOptions:
-    NoVerifyRoutingKey: noverify
-    QueueName: 'TEST.ExtractFileIdentQueue'
-    QoSPrefetchCount: 1
-    AutoAck: false
-    CopyStatusProducerOptions:
-        ExchangeName: 'TEST.ExtractedFileStatusExchange'
-        MaxConfirmAttempts: 1
-
-ExtractImagesOptions:
-    MaxIdentifiersPerMessage: 1000
-    ExtractionRequestProducerOptions:
-        ExchangeName: 'TEST.RequestExchange'
-        MaxConfirmAttempts: 1
-    ExtractionRequestInfoProducerOptions:
-        ExchangeName: 'TEST.RequestInfoExchange'
-        MaxConfirmAttempts: 1
-
 IsIdentifiableServiceOptions:
     QueueName: 'TEST.ExtractedFileToVerifyQueue'
     QoSPrefetchCount: 1