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Semantic Software Lab
Concordia University
Montréal, Canada

loading mutation impact

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OMM impacts loaded I think with warnings as shown below

One more thing: Do you have a tutorial how to use OMM mutation or OMM impact after loading since I have never dealt with GATE before. At least how to test a corpus and see annotations, I would be thankful.

SLF4J: Class path contains multiple SLF4J bindings.
SLF4J: Found binding in [jar:file:/home/user/Downloads/gate-7.0-build4195-ALL/plugins/Gazetteer_LKB/lib/slf4j-log4j12-1.5.11.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: Found binding in [jar:file:/home/user/.ivy2/cache/org.slf4j/slf4j-log4j12/jars/slf4j-log4j12-1.5.8.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: Found binding in [jar:file:/home/user/Downloads/gate-7.0-build4195-ALL/plugins/Ontology/lib/slf4j-jdk14-1.5.6.jar!/org/slf4j/impl/StaticLoggerBinder.class]
SLF4J: See for an explanation.
Query loaded from /home/user/Downloads/OpenMutationMiner-1.0/gate/application-resources/largeKBgazetteer/query.txt
Looking for changes in configuration ...
Aliases in IGNORE list:0
Loading of trusted entities from /home/user/Downloads/OpenMutationMiner-1.0/gate/application-resources/largeKBgazetteer/kim.trusted.entities.cache
36276 elements loaded.
Aliases were loaded
WARNING: [Local Folder Repository] The specified file must be a directory. (/home/user/Downloads/gate-7.0-build4195-ALL/bin/plugins/edu.stanford.smi.protegex.owl) -- LocalFolderRepository.update()
Loading triples from: file:/home/user/Downloads/OpenMutationMiner-1.0/gate/application-resources/ontologies/impactOntology.owl
Completed triple loading after 927 ms
WARNING: Could not get ontology from URL: -- HTTPRepository.update()
WARNING: The system cannot find the ontology in any of the repositories. This import will be ignored. -- UnresolvedImportUIHandler.handleUnresolvableImport()
Postprocess: Process entities with incorrect Java type (0 entities) ... 0 ms
Postprocess: Process metaclasses (3 metaclasses) ... 0 ms
Postprocess: Process subclasses of rdf:List (1 classes) ... 0 ms
Postprocess: Instances with multiple types (32 instances) ... 1 ms
Postprocess: Add inferred superclasses ... 0 ms
Postprocess: Process orphan classes (75 classes) ... 397 ms
Postprocess: Generalized Concept Inclusion (0 axioms) ... 0 ms
Postprocess: Abstract classes... 0 ms
Postprocess: Domain and range of properties... 11 ms
Postprocess: Possibly typed entities (3 resources) ... 1 ms
Updating underlying frames model in 0 ms

rene's picture

Check the GATE documentation

These are normal diagnostic messages, OMM Impacts should run fine now.

If you never worked with GATE, I highly recommend to read the excellent documentation. In particular, the GATE Developer screencams show you how to load documents, view annotations, etc.

Cheers, René