Move data directory from ontologies/update to version-specific directory ontologies/update17to18
Create ontologies/update15to16 and ontologies/update16to17 from previous update data directories.
Revise UpdateKnowledgeBase to accept the data directory as a parameter instead of having it hard-coded.
Create classes like Release18Migrator that will call UpdateKnowledgeBase with the appropriate directory, and do other release-specific migration tasks.
Make corresponding changes in startup_listeners.txt
Replace PelletListener with a TBoxReasonerModule in the Application.
The reasoner will be accessible only through here, not as a context attribute or through the WebappDaoFactory.
Split out the initialization of the TBox reasoner from SimpleReasonerSetup.
Break out the filtering of TBox changes into a ConfiguredReasonerListener.
Refactor the threading logic into a BasicTBoxReasonerDriver.
Add a factory for creating VitroBackgroundThreads in an Executor.
Isolate the actual reasoner into a TBoxReasoner implementation. In this case, PelletTBoxReasoner.
Combine the consistency flag, error flag, explanation, and running status into one TBoxReasonerStatus object.
Add OntModelCache to the top of the stack of RDF data structures.
Add DataStructuresProvider to the bottom of the stack.
Redesign ModelAccess method signatures.
Create the ShowSources page.
Remove RequestModelsPrep, except for setting the Collator.
Reduce the complexity of ContentModelsSetup and ConfigurationModelsSetup.
VIVO-225 VIVO-819 VIVO-820 VIVO-821 VIVO-823 VIVO-832
Replace the JAR files with more current ones.
Add a one-line change to BaseInfGraph (from the Jena source), so it will work with Pellet 2.3.1
Adjust all implementations of Graph to include new methods and remove old ones.
Add annotations and generics to reduce compiler warnings.
Remove all dependencies on RDB, which is no longer supported.
This requires considerable refactoring of JenaIngestController, RDFUploadController, listModels.jsp
Refactor the ModelMaker uses
Remove VitroJenaModelMaker,
Revise VitroInterceptingModelMaker to be configurable for Config or Content models
Add debug logging code to ModelChangeImpl ChangeSetImpl, RDFServiceJena.
Add TDB support: RDFServiceFactoryTDB, RDFServiceTDB
Refactor RDFServiceJena and RDFServiceSDB so much of the code can be reused by RDFServiceTDB
Accomodate two RDFService instances - one for Configuration models and one for Content models.
Changes to RDFServiceUtils, RDFServiceSetup
Configuration models use TDB directory in Vitro home directory
Handle bulk updating:
Jena has deprecated bulk operations, and their models classes no longer use the bulk updaters
Create a VitroModelFactory to use instead of the ModelFactory, when bulk updating is required.
Create adapter classes: BulkUpdatingModel, BulkUpdatingOntModel, AbstractModelDecorator
Make the configuration model setup algorithms uniform
Combine ApplicationModelSetup and UserModelSetup into ConfigurationModelsSetup
SparqlQueryServlet was JSP-based, so delete the JSP also.
SparqlQueryController is Freemarker-based, and is a this shell around the SparqlQueryApiExecutor.
By making it a singleton, we do need an explicit Setup operation. However, it means that we can refer to the settings in client code that doesn’t have access to a request or to the ServletContext.
Other refactorings to simplify the logic or make it more scalable.
