2018-06-12 00:05:40,661 WARN (ChangeIndexingProcessor:66) [reasoner.indexing.axiomIgnored]ELK does not support InverseObjectProperties. Axiom ignored:
InverseObjectProperties(<http://purl.obolibrary.org/obo/RO_0002005> <http://purl.obolibrary.org/obo/RO_0002134>)
Exception in thread "main" java.lang.NullPointerException
at org.obolibrary.obo2owl.OWLAPIObo2Owl.translateShorthandIdToExpandedId(OWLAPIObo2Owl.java:1766)
at org.obolibrary.obo2owl.OWLAPIObo2Owl.oboIdToIRI_load(OWLAPIObo2Owl.java:1705)
at org.obolibrary.obo2owl.OWLAPIObo2Owl.oboIdToIRI(OWLAPIObo2Owl.java:1670)
at org.obolibrary.oboformat.writer.OBOFormatWriter$OWLOntologyNameProvider.getName(OBOFormatWriter.java:1182)
at org.semanticweb.owlapi.oboformat.OBOFormatRenderer$1.getName(OBOFormatRenderer.java:74)
at org.obolibrary.oboformat.writer.OBOFormatWriter.write(OBOFormatWriter.java:637)
at org.obolibrary.oboformat.writer.OBOFormatWriter.write(OBOFormatWriter.java:363)
at org.obolibrary.oboformat.writer.OBOFormatWriter.write(OBOFormatWriter.java:203)
at org.semanticweb.owlapi.oboformat.OBOFormatRenderer.render(OBOFormatRenderer.java:88)
at org.semanticweb.owlapi.oboformat.OBOFormatStorer.storeOntology(OBOFormatStorer.java:42)
at org.semanticweb.owlapi.util.AbstractOWLStorer.storeOntology(AbstractOWLStorer.java:155)
at org.semanticweb.owlapi.util.AbstractOWLStorer.storeOntology(AbstractOWLStorer.java:119)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.saveOntology(OWLOntologyManagerImpl.java:1521)
at uk.ac.manchester.cs.owl.owlapi.OWLOntologyManagerImpl.saveOntology(OWLOntologyManagerImpl.java:1498)
at owltools.io.ParserWrapper.saveOWL(ParserWrapper.java:289)
at owltools.io.ParserWrapper.saveOWL(ParserWrapper.java:209)
at owltools.cli.CommandRunner.runSingleIteration(CommandRunner.java:3708)
at owltools.cli.CommandRunnerBase.run(CommandRunnerBase.java:76)
at owltools.cli.CommandRunnerBase.run(CommandRunnerBase.java:68)
at owltools.cli.CommandLineInterface.main(CommandLineInterface.java:12)
Hi.
I'm getting an exception from owltools --make-species-subset using the go-plus.owl from here: http://purl.obolibrary.org/obo/go/extensions/go-plus.owl
Sorry if this is the wrong place to report the problem. It's not clear from the exception whether it's my mistake or if it's an owltools or GO issue.
I don't get an exception if I use the current (2018-06-07) go-plus.owl from SVN.
This is the command line:
The error is:
Here's the full output in case it helps: http://curation.pombase.org/kmr44/owltools-make-species-subset.log
Thanks.