owlapi-version5.zip

# OWLAPI ====== ## OWL API main repository The OWL API is a Java API for creating, manipulating and serialising OWL Ontologies. * The latest version of the API supports OWL 2. * It is available under Open Source licenses (LGPL and Apache). The following components are included: * An API for OWL 2 and an in-memory reference implementation * RDF/XML parser and writer * OWL/XML parser and writer * OWL Functional Syntax parser and writer * Turtle parser and writer * KRSS parser * OBO format parser * Reasoner interfaces for working with reasoners such as FaCT++, HermiT, Pellet, Racer, JFact and Chainsaw. ## Release notes ## 5.1.14 18 April 2020 ### Features: * General modularity classes contributed by Robn Nolte ### Bug fixes: * Fix XSD datatypes are erroneously quoted in OBO writer #918 * Fix referencingAxioms(OWLPrimitive) misses nested literals #912 * Fix Empty line in META-INF/services/ files causes exceptions #924 * Fix OWLOntologyWriterConfiguration does not disable banner comments #904 ## 5.1.13 27 January 2020 ### Bug fixes: * Fix OWLEntityRenamer and anonymous individuals #892 * Fix Builtin annotation properties lost during parsing #895 * Deal with OWLAnnotationProperty entities in OWLEntityURIConverter class #896 ## 5.1.12 20 October 2019 ### Bug fixes: * Implement Allow gzipped imports #887 * Fix Race condition in Injector #883 * Jackson update * Fix containsReference(OWLEntity) should be deprecated #864 * Fix referencingAxioms(OWLPrimitive) misses IRI appearances #865 * Fix Javadoc on applyChange/applyChanges and using the wrong manager #868 * Fix OWLObjectPropertyExpression#getSimplified() used incorrectly #882 * Fix Incomplete javadoc on OWLNaryAxiom#asPairwiseAxioms #884 * Fix OWLNegative*AssertionAxiom#containsAnonymousIndividuals javadoc #885 * Fix Annotated axiom with anon expression saved incorrectly #881 * Fix Ontology with relative IRIs is serialized incorrectly #880 * Fix Ann. annotation with anon individual saved in RDF incorrectly #877 * Fix Annotations dropped if annotation property is undeclared #875 * Fix SAXException from AutoIRIMapper at debug logging level #878 * Ensure isAnonymous is implemented correctly #867 * Fix Null pointers with imports and relation declarations #859 * Amend base and escaped characters in Tutle parsing #857 * Fix Exception when converting obi to obo #860 ## 5.1.11 02 June 2019 ### Features: * Add support to load an ontology from classpath #837 * Implement Allow annotations to be skipped in module extraction #838 * Add support for custom tags in obo files. ### Bug fixes: * Fix Unescaping characters: OBOFormatParser#handleNextChar() #822 * Fix IRI PREFIX_CACHE instance uses too much memory #825 * Fix roundtrip of escaped values #833 * Fix MaximumNumberOfNamedSuperclasses should count super classes #836 * Fix OWLDataPropertyAxiom not a subinterface of OWLPropertyAxiom #831 * Fix HTTP 307 and HTTP 308 redirects are not followed (in 4.x) #821 * Fix Missing escape character in OBO output #828 * Fix 5.1.10 Regression in OwlStringTools#translate(..) #829 * Fixed several incorrect XSD datatype matching patterns. * Fix OWLDataFactory::getLiteral error with empty string and integer #846 * Fix Unnecessary dc prefix added by Manchester syntax parser #845 * Fix Multiple Ontology Definitions should obey strict parsing #840 * Fix OWLLogicalEntity is not an OWLAnnotationProperty #847 * Security: Jackson to 2.9.9 * Fix Manchester syntax parser crashes on class/property punning #851 * Fix OBO parser does not support qualifier block #852 ## 5.1.10 04 March 2019 ### Bug fixes: * Fix DLExpressivity checker never computes anything #810 * Jackson version to 2.9.8 * Fix ensure allValuesFrom axioms are not lost #808 * Fix HTTP 307 and HTTP 308 redirects are not followed #821 * Fix OBO renderer stuck with untranslatable axioms on concurrent managers * Fix Annotations on DifferentIndividualsAxioms lost #816 * Fix No roundtrip for IRIs with colons in the fragment or path #817 * Fix EOFException in CustomTokenizer #813 * Fix Cyclic imports and missing declarations cause parsing error #798 ## 5.1.9 12 December 2018 ### Bug fixes: * Refactor OWLProfile implementations #638 * Fix Missing user defined datatype violation in literals #639 * Fix RDFGraph getSubjectsForObjects caught in infinite loop #809 ## 5.1.8 1 December 2018 ### Features: * Add OWLClassExpression.isNamed method #790 * Fix injection problem under OSGi * Implement Allow Atomic Decomposition to skip assertions #796 * Expressivity Checker for EL and FL #500 ### Bug fixes: * Fix ReadWriteLock should be injector singleton #785 * Fix Cyclic import of versioned ontologies fails #788 * Fix Annotate ontology annotations #791 * Fix Incorrect documentation for OWLOntologyManager methods. #795 * DisjointClasses with OWL:Thing produces incorrect axiom #747 * Fix Concurrent managers with own lock shared with own ontologies #806 ## 5.1.7 2 September 2018 ### Features: * PROV and TIME vocabularies ### Bug fixes: * Add representativeInstances() to OWLReasoner #772 * SWRLRule hash code computed incorrectly * Fix OWLOntology with shared structure causes incorrect RDF/XML #780 ## 5.1.6 24 July 2018 ### Features: * Remove Guice dependencies * Upgrade to jsonld-java version 0.12.0 (performance) #763 * Allow building with Java 10 ### Bug fixes: * Move from Trove4j to HPPC-RT #774 * Fix incorrect sorting of OBO header tags * Fix Line breaks in rdfs:label cause invalid FS output #758 * Fix AutoIriMapper chooses wrong IRIs. #755 ## 5.1.5 23 April 2018 ### Features: * Add an option to represent version build as strings * Implement #375 OWLZip reader and writer * Allow trimming to size after load to be disabled * do not register deprecated oboparser by default #729 ### Bug fixes: * Fix SWRL variable IRIs violate URN spec #732 * default IRI for unnamed ontologies is not valid * doubling of # at the end of default namespace * IRI should return true for isIRI() * Fix OWL/XML writes langString unnecessarily #748 * Fix importsDeclaration not returning imports for *.obo #727 ## 5.1.4 4 January 2018 ### Features: * Support Authorization header in remote loading ### Bug fixes: * Fix Problem saving ontologies in Turtle #719 * Fix Null pointer in OWLObjectPropertyManager #723 * Remove com.google.inject and add exclusion of javax.annotation. #720 ## 5.1.3 4 November 2017 Features: * Performance improvements on parsing of large ontologies. ## 5.1.2 13 October 2017 ### Features: * Accept Headers to include all MIME types with supporting parsers #705 * Add HasAnnotationValue interface with methods for mapping * Optional methods for OWLOntologyChange * Implement efficient way to test if an ontology refers entity type #698 ### Bug fixes: * Do not output xsd:string when unnecessary #640 * OWL/XML should reject XML files that are not valid OWL/XML #657 * getFragment advices an non existent replacement #684 * OWLObject immutable collections sorted #702 * Sort imports and imports closure #702 * Sort namespace prefixes for XML serialization #702 * OWLOntologyMerger fails with ConcurrentModificationException #673 * Poor performance in OWLImmutableOntologyImpl.getImportsClosure #696 * Fix AtomicDecomposition throws Nullpointer #695 * Fix hashcode and equals on OWLOntology differ #694 ## 5.1.1 25 July 2017 ### Features: * Add REPAIR_ILLEGAL_PUNNINGS property to disable fix of illegal punnings * Move punning log to warning ### Bug fixes: * Fix Profiles.OWL2_FULL returns Profiles.OWL2_DL #667 * Fix EntitySearcher.getEquivalentClasses incorrectly returns itself #663 * OWLEntityRenamer should rename annotation props in ontolog