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VirtualFlyBrain / VFB_owl

A repository for VFB owl files and the code that generates them
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Set up Jenkins jobs for automated update and checks of OWL files & DB #5

Closed dosumis closed 8 years ago

dosumis commented 10 years ago

TODO: sort out secure server arrangements - Ed or Cam?

Robbie1977 commented 9 years ago

@dosumis Jenkins now updates GitHub on build - please check this is OK See https://github.com/VirtualFlyBrain/VFB_owl/commit/8e3bda98e731561f88e9d0384a1eb88692a6e781

Robbie1977 commented 9 years ago

BTW is this common error during build ok? http://www.virtualflybrain.org/owl/VFB_00017880 http://www.virtualflybrain.org/owl/VFB_00015869)] java.lang.IllegalArgumentException: Comparison method violates its general contract! at java.util.ComparableTimSort.mergeLo(ComparableTimSort.java:714) at java.util.ComparableTimSort.mergeAt(ComparableTimSort.java:451) at java.util.ComparableTimSort.mergeCollapse(ComparableTimSort.java:376) at java.util.ComparableTimSort.sort(ComparableTimSort.java:182) at java.util.ComparableTimSort.sort(ComparableTimSort.java:146) at java.util.Arrays.sort(Arrays.java:472) at java.util.Collections.sort(Collections.java:155) at org.semanticweb.owlapi.util.CollectionFactory.sortOptionally(CollectionFactory.java:111) at org.coode.owlapi.functionalrenderer.OWLObjectRenderer.writeAxioms(OWLObjectRenderer.java:342) at org.coode.owlapi.functionalrenderer.OWLObjectRenderer.visit(OWLObjectRenderer.java:265) at uk.ac.manchester.cs.owl.owlapi.OWLOntologyImpl.accept(OWLOntologyImpl.java:1516) at org.coode.owlapi.functionalrenderer.OWLFunctionalSyntaxOntologyStorer.storeOntology(OWLFunctionalSyntaxOntologyStorer.java:90) at org.semanticweb.owlapi.util.AbstractOWLOntologyStorer.store(AbstractOWLOntologyStorer.java:182) at org.semanticweb.owlapi.util.AbstractOWLOntologyStorer.storeOntology(AbstractOWLOntologyStorer.java:126) at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.saveOntology(OWLOntologyManagerImpl.java:1001) at owltools.io.ParserWrapper.saveOWL(ParserWrapper.java:206) at owltools.cli.CommandRunner.runSingleIteration(CommandRunner.java:3037) at owltools.cli.CommandRunner.run(CommandRunner.java:316) at owltools.cli.CommandRunner.run(CommandRunner.java:308) at owltools.cli.CommandLineInterface.main(CommandLineInterface.java:12)

Feb 20, 2015 5:50:22 PM org.semanticweb.owlapi.util.CollectionFactory sortOptionally WARNING: Misbehaving triple comparator, leaving triples unsorted: [ObjectPropertyAssertion(http://purl.obolibrary.org/obo/RO_0002351 http://www.virtualflybrain.org/owl/VFB_00017890 http://www.virtualflybrain.org/owl/VFB_00011064),

Robbie1977 commented 9 years ago

Also do you want me to add a commit to sandbox process on Jenkins? Could also just do automatically on successful build?

Robbie1977 commented 9 years ago

Do the other owl files such as Ito2013.owl need updating? (they are supplied under the owl directory)