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Fixing issues discovered by SCA. Updated TODOs.

jopa-owlapi-utils/src/main/java/cz/cvut/kbss/jopa/util/MappingFileParser.java jopa-impl/src/main/java/cz/cvut/kbss/jopa/model/JOPAPersistenceProvider.java jopa-impl/src/main/java/cz/cvut/kbss/jopa/model/EntityManagerImpl.java jopa-impl/src/test/java/cz/cvut/kbss/jopa/adapters/IndirectListTest.java jopa-impl/src/main/java/cz/cvut/kbss/jopa/utils/Procedure.java jopa-impl/src/test/java/cz/cvut/kbss/jopa/model/QueryTestBase.java jopa-impl/src/test/java/cz/cvut/kbss/jopa/model/QueryImplTest.java jopa-impl/src/test/java/cz/cvut/kbss/jopa/model/MetamodelImplTest.java jopa-impl/src/test/java/cz/cvut/kbss/jopa/adapters/IndirectSetTest.java jopa-impl/src/main/java/cz/cvut/kbss/jopa/model/MetamodelImpl.java TODO.md jopa-impl/src/main/java/cz/cvut/kbss/jopa/model/QueryImpl.java jopa-impl/src/main/java/cz/cvut/kbss/jopa/model/TypedQueryImpl.java jopa-impl/src/test/java/cz/cvut/kbss/jopa/model/TypedQueryImplTest.java

Martin Ledvinka at 12:53 PM 6/26/17

[0.9.8] Bumped version and updated release notes.

jopa-integration-tests-owlapi/pom.xml ontodriver-api/pom.xml jopa-integration-tests/pom.xml jopa-impl/pom.xml ontodriver-owlapi/pom.xml jopa-api/pom.xml ontodriver-sesame/pom.xml jopa-owlapi-utils/pom.xml ontodriver-jena/pom.xml jopa-integration-tests-sesame/pom.xml ReleaseNotes.md jopa-distribution/pom.xml jopa-owl2java/pom.xml pom.xml jopa-maven-plugin/pom.xml

Martin Ledvinka at 12:58 PM 6/26/17