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[INFO] ------------------------------------------------------------------------ [INFO] Reactor Build Order: [INFO] [INFO] PSI :: JAMI - Java framework for molecular interactions [INFO] PSI :: JAMI - Core interfaces, default implementations and utility classes [INFO] PSI :: PSI-JAMI html parser and writer [INFO] PSI :: JAMI - Bridges [INFO] JAMI :: bridges core interfaces [INFO] PSI :: JAMI - CHEBI [INFO] PSI :: JAMI - uniprot [INFO] PSI :: JAMI - OLS [INFO] PSI :: JAMI - uniprot taxonomy [INFO] PSI :: JAMI - OBO [INFO] PSI :: JAMI - EuroPubmedCentral [INFO] PSI :: JAMI - uniprot-mapping [INFO] PSI :: JAMI - unisave [INFO] PSI :: JAMI - PICR [INFO] PSI :: JAMI - MITAB [INFO] PSI :: JAMI - XML [INFO] PSI :: JAMI - commons [INFO] PSI :: JAMI - Ontology manager [INFO] PSI :: JAMI - IMEx central [INFO] jami-enricher [INFO] PSI :: JAMI - JSON [INFO] PSI :: JAMI - molecular interaction viewer json application [INFO] PSI :: JAMI - Spring Batch [INFO] PSI :: JAMI - examples [INFO] PSI :: JAMI - Cross link CSV [INFO] PSI :: JAMI - cross-link CSV uploader application [INFO] PSI :: JAMI - IMEx assigner [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building PSI :: JAMI - Java framework for molecular interactions 3.0.0 [INFO] ------------------------------------------------------------------------ [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building PSI :: JAMI - Core interfaces, default implementations and utility classes 3.0.0 [INFO] ------------------------------------------------------------------------ [INFO] [INFO] --- maven-resources-plugin:2.3:resources (default-resources) @ jami-core --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 2 resources [INFO] [INFO] --- maven-compiler-plugin:3.0:compile (default-compile) @ jami-core --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 575 source files to /home/colin/JAMI/psi-jami/jami-core/target/classes [WARNING] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/feature/FeatureBaseComparator.java: Some input files use unchecked or unsafe operations. [WARNING] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/feature/FeatureBaseComparator.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.3:testResources (default-testResources) @ jami-core --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /home/colin/JAMI/psi-jami/jami-core/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.0:testCompile (default-testCompile) @ jami-core --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 150 source files to /home/colin/JAMI/psi-jami/jami-core/target/test-classes [WARNING] /home/colin/JAMI/psi-jami/jami-core/src/test/java/psidev/psi/mi/jami/utils/clone/InteractorClonerTest.java: Some input files use unchecked or unsafe operations. [WARNING] /home/colin/JAMI/psi-jami/jami-core/src/test/java/psidev/psi/mi/jami/utils/clone/InteractorClonerTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:2.10:test (default-test) @ jami-core --- [INFO] Surefire report directory: /home/colin/JAMI/psi-jami/jami-core/target/surefire-reports ------------------------------------------------------- T E S T S ------------------------------------------------------- Running psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteractionTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.047 sec Running psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapperTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.binary.impl.BinaryInteractionWrapperTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.009 sec Running psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidenceTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapperTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.binary.expansion.MatrixExpansionTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.015 sec Running psidev.psi.mi.jami.binary.expansion.BipartiteExpansionTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.024 sec Running psidev.psi.mi.jami.binary.expansion.SpokeExpansionTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.005 sec Running psidev.psi.mi.jami.model.impl.DefaultConfidenceTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultParameterTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.008 sec Running psidev.psi.mi.jami.model.impl.DefaultSourceTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.model.impl.DefaultCooperativeEffectTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidenceTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultPolymerTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultStoichiometryTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultInteractionTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultModelledParameterTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultComplexTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultVariableParameterTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.model.impl.DefaultChecksumTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultNucleicAcidTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultFeatureTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultModelledInteractionTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultProteinTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.model.impl.DefaultParticipantTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultRangeTest Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.01 sec Running psidev.psi.mi.jami.model.impl.DefaultResultingSequenceTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultInteractorSetTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultExperimentTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.model.impl.DefaultInteractorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.model.impl.DefaultOrganismTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultFeatureEvidenceTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.model.impl.DefaultCausalRelationshipTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultAllosteryTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.model.impl.DefaultParticipantEvidenceTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultPositionTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultModelledFeatureTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultModelledConfidenceTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultCvTermTest Tests run: 18, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.007 sec Running psidev.psi.mi.jami.model.impl.DefaultPublicationTest Tests run: 17, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.006 sec Running psidev.psi.mi.jami.model.impl.DefaultModelledParticipantTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultAliasTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.model.impl.DefaultXrefTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultInteractionEvidenceTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultGeneTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultMoleculeEffectorTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.model.impl.DefaultFeatureModificationEffectorTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.impl.DefaultBioactiveEntityTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.model.impl.DefaultAnnotationTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.model.ParameterValueTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinderTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.007 sec Running psidev.psi.mi.jami.utils.AnnotationUtilsTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.OrganismUtilsTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.ParameterUtilsTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionBaseComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.005 sec Running psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionBaseComparatorTest Tests run: 12, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactModelledInteractionComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.014 sec Running psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.011 sec Running psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionEvidenceComparatorTest Tests run: 16, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.006 sec Running psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedModelledInteractionComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionBaseComparatorTest Tests run: 12, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.alias.UnambiguousAliasComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.comparator.publication.DefaultPublicationComparatorTest Tests run: 27, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.006 sec Running psidev.psi.mi.jami.utils.comparator.publication.UnambiguousPublicationComparatorTest Tests run: 27, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.publication.UnambiguousCuratedPublicationComparatorTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectBaseComparatorTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativityEvidenceComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectComparatorTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousFeatureModificationEffectorComparatorTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectBaseComparatorTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousMoleculeEffectorComparatorTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactAllosteryComparatorTest Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.005 sec Running psidev.psi.mi.jami.utils.comparator.confidence.UnambiguousConfidenceComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.cv.DefaultCvTermComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.cv.UnambiguousCvTermComparatorTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.annotation.UnambiguousAnnotationComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantInteractorComparatorTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceComparatorTest Tests run: 15, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceInteractorComparatorTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparatorTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.comparator.participant.UnambiguousCausalRelationshipComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.participant.StoichiometryComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureBaseComparatorTest Tests run: 19, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.005 sec Running psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureEvidenceComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.feature.DefaultFeatureBaseComparatorTest Tests run: 17, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.organism.UnambiguousOrganismComparatorTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.organism.OrganismTaxIdComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.checksum.UnambiguousChecksumComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeComparatorTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeAndResultingSequenceComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.range.ResultingSequenceComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.range.UnambiguousPositionComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousVariableParameterComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparatorTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparatorTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetComparatorTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.parameter.ParameterValueComparatorTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.parameter.UnambiguousParameterComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.interactor.DefaultProteinComparatorTest Tests run: 14, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.utils.comparator.interactor.DefaultNucleicAcidComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.interactor.DefaultGeneComparatorTest Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.utils.comparator.interactor.DefaultInteractorBaseComparatorTest Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactGeneComparatorTest Tests run: 15, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactBioactiveEntityComparatorTest Tests run: 15, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.interactor.DefaultPolymerComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorBaseComparatorTest Tests run: 14, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.003 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorBaseComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactProteinComparatorTest Tests run: 12, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactPolymerComparatorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorSetComparatorTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactInteractorBaseComparatorTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactNucleicAcidComparatorTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.interactor.DefaultBioactiveEntityComparatorTest Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.xref.UnambiguousXrefComparatorTest Tests run: 19, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.xref.DefaultXrefComparatorTest Tests run: 15, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.comparator.xref.ExactXrefComparatorTest Tests run: 21, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.xref.UnambiguousExternalIdentifierComparatorTest Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.comparator.xref.ExactExternalIdentifierComparatorTest Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.comparator.xref.DefaultExternalIdentifierComparatorTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.ParticipantUtilsTest Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.InteractionUtilsTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.RangeUtilsTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.ChecksumUtilsTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.PositionUtilsTest Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.ConfidenceUtilsTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.XrefUtilsTest Tests run: 12, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.clone.InteractorClonerTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 sec Running psidev.psi.mi.jami.utils.clone.ExperimentClonerTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.clone.FeatureClonerTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.clone.PublicationClonerTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.clone.RangeClonerTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.clone.OrganismClonerTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.clone.ParticipantClonerTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.utils.clone.CvTermClonerTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Running psidev.psi.mi.jami.utils.clone.InteractionClonerTest Tests run: 27, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 sec Running psidev.psi.mi.jami.utils.AliasUtilsTest Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 sec Running psidev.psi.mi.jami.factory.DefaultInteractorFactoryTest Tests run: 16, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.03 sec Running psidev.psi.mi.jami.factory.MiDataSourceFactoryTest Jun 22, 2016 11:47:24 AM psidev.psi.mi.jami.factory.MIDataSourceFactory getMIDataSourceWith WARNING: We cannot instantiate data source of type class psidev.psi.mi.jami.datasource.MockExperimentDataSource with the given options. java.lang.IllegalArgumentException: no source option at psidev.psi.mi.jami.datasource.MockExperimentDataSource.initialiseContext(MockExperimentDataSource.java:20) at psidev.psi.mi.jami.factory.MIDataSourceFactory.instantiateNewDataSource(MIDataSourceFactory.java:156) at psidev.psi.mi.jami.factory.MIDataSourceFactory.getMIDataSourceWith(MIDataSourceFactory.java:55) at psidev.psi.mi.jami.factory.MiDataSourceFactoryTest.test_missing_file_data_source_options(MiDataSourceFactoryTest.java:35) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:45) at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:15) at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:42) at org.junit.internal.runners.statements.InvokeMethod.evaluate(InvokeMethod.java:20) at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:263) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:68) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:47) at org.junit.runners.ParentRunner$3.run(ParentRunner.java:231) at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:60) at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:229) at org.junit.runners.ParentRunner.access$000(ParentRunner.java:50) at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:222) at org.junit.runners.ParentRunner.run(ParentRunner.java:300) at org.apache.maven.surefire.junit4.JUnit4TestSet.execute(JUnit4TestSet.java:53) at org.apache.maven.surefire.junit4.JUnit4Provider.executeTestSet(JUnit4Provider.java:123) at org.apache.maven.surefire.junit4.JUnit4Provider.invoke(JUnit4Provider.java:104) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.maven.surefire.util.ReflectionUtils.invokeMethodWithArray(ReflectionUtils.java:164) at org.apache.maven.surefire.booter.ProviderFactory$ProviderProxy.invoke(ProviderFactory.java:110) at org.apache.maven.surefire.booter.SurefireStarter.invokeProvider(SurefireStarter.java:175) at org.apache.maven.surefire.booter.SurefireStarter.runSuitesInProcessWhenForked(SurefireStarter.java:107) at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:68) Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.014 sec Results : Tests run: 1048, Failures: 0, Errors: 0, Skipped: 0 [INFO] [INFO] --- maven-jar-plugin:2.2:jar (default-jar) @ jami-core --- [INFO] Building jar: /home/colin/JAMI/psi-jami/jami-core/target/jami-core-3.0.0.jar [INFO] [INFO] >>> maven-source-plugin:3.0.0:jar (attach-source) @ jami-core >>> [INFO] [INFO] <<< maven-source-plugin:3.0.0:jar (attach-source) @ jami-core <<< [INFO] [INFO] --- maven-source-plugin:3.0.0:jar (attach-source) @ jami-core --- [INFO] Building jar: /home/colin/JAMI/psi-jami/jami-core/target/jami-core-3.0.0-sources.jar [INFO] [INFO] --- maven-javadoc-plugin:2.7:jar (attach-javadocs) @ jami-core --- [INFO] Loading source files for package psidev.psi.mi.jami.binary.impl... Loading source files for package psidev.psi.mi.jami.binary... Loading source files for package psidev.psi.mi.jami.binary.expansion... Loading source files for package psidev.psi.mi.jami.listener... Loading source files for package psidev.psi.mi.jami.listener.impl... Loading source files for package psidev.psi.mi.jami.model... Loading source files for package psidev.psi.mi.jami.model.impl... Loading source files for package psidev.psi.mi.jami.analysis.graph... Loading source files for package psidev.psi.mi.jami.analysis.graph.model... Loading source files for package psidev.psi.mi.jami.datasource... Loading source files for package psidev.psi.mi.jami.exception... Loading source files for package psidev.psi.mi.jami.utils... Loading source files for package psidev.psi.mi.jami.utils.comparator... Loading source files for package psidev.psi.mi.jami.utils.comparator.interaction... Loading source files for package psidev.psi.mi.jami.utils.comparator.alias... 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Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/ParticipantEvidenceChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/ParticipantPoolChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/PolymerChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/ProteinChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/PublicationChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/SourceChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Alias.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/AllostericEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/AllostericEffectorType.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Allostery.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Annotation.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/BioactiveEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/CausalRelationship.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Checksum.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Complex.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ComplexType.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Confidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/CooperativeEffect.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/CooperativityEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/CurationDepth.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/CvTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Entity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Experiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ExperimentalEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ExperimentalParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ExperimentalParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Feature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/FeatureEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/FeatureModificationEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Gene.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Interaction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/InteractionCategory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/InteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Interactor.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/InteractorPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledConfidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ModelledParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Molecule.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/MoleculeEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/NamedExperiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/NamedInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/NamedParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/NucleicAcid.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/OntologyTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Organism.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Parameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ParameterValue.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Participant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ParticipantEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Polymer.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Position.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Preassembly.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Protein.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Publication.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Range.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/ResultingSequence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Source.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Stoichiometry.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/VariableParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/VariableParameterValue.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/VariableParameterValueSet.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/Xref.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/AbstractEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/AbstractFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/AbstractFeature.FeatureIdentifierList.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/AbstractInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/AbstractParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/AbstractParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/AbstractParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultAlias.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultAllostery.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultAnnotation.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultBioactiveEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultCausalRelationship.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultChecksum.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultComplex.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultConfidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultCooperativeEffect.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultCooperativityEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultCvTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultExperiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultExperimentalParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultExperimentalParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultFeatureEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultFeatureModificationEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultGene.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultInteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultInteractor.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultInteractorPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultModelledConfidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultModelledFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultModelledInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultModelledParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultModelledParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultModelledParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultModelledParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultMolecule.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultMoleculeEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNamedExperiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNamedInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNamedInteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNamedModelledInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNamedModelledParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNamedParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNamedParticipantEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultNucleicAcid.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultOntologyTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultOrganism.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultParticipantEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultPolymer.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultPosition.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultPreassemby.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultProtein.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultPublication.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultRange.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultResultingSequence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultStoichiometry.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultVariableParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultVariableParameterValue.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultVariableParameterValueSet.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/DefaultXref.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/BindingPairFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/BindingSiteCliqueFinder.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/FeatureGraphBuilder.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/AbstractMIEdge.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/BindingFeatureGraph.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/BindingPair.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/MIEdge.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/BinaryInteractionEvidenceSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/BinaryInteractionEvidenceStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/BinaryInteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/BinaryInteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/ComplexSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/ComplexStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/CvTermStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/DefaultFileSourceContext.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/ExperimentStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/FileSourceContext.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/FileSourceLocator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/InteractionEvidenceSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/InteractionEvidenceStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/InteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/InteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/InteractionWriter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/InteractorStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/MIDataSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/MIFileDataSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/ModelledBinaryInteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/ModelledBinaryInteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/ModelledInteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/ModelledInteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/OrganismStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/PublicationStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/SourceCategory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/ComplexExpansionException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/IllegalParameterException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/IllegalRangeException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/MIIOException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/AliasUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/AnnotationUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/ChecksumUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/ConfidenceUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/CvTermUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/ExperimentUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/FeatureUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/InteractionUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/InteractorUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/MIFileDatasourceUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/OntologyTermUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/OrganismUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/ParameterUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/ParticipantUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/PositionUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/PublicationUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/RangeUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/XrefUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/CollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/ComparatorUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/IdentityHashComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/IntegerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/MIComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/CuratedInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/CuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultCuratedInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultExactCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultExactCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultExactCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultExactInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultExactInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultExactInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultExactModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/DefaultModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/InteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/InteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/InteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/InteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/ModelledInteractionCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/ModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousCuratedInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousExactCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousExactCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousExactCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousExactInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousExactInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousExactInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousExactModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/UnambiguousModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/AliasComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/AliasesCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/DefaultAliasComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/UnambiguousAliasComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/CuratedPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/DefaultCuratedPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/DefaultPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/PublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/UnambiguousCuratedPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/UnambiguousPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/AllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/CooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/CooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/CooperativityEvidenceCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/CooperativityEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultCooperativityEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultExactAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultExactCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultExactCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultExactMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultFeatureModificationEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/DefaultMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/FeatureModificationEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/MoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousCooperativityEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousExactAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousExactCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousExactCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousExactMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousFeatureModificationEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/UnambiguousMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/ConfidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/DefaultConfidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/UnambiguousConfidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/CvTermComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/CvTermIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/CvTermNameComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/CvTermsCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/DefaultCvTermComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/UnambiguousCvTermComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/AnnotationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/AnnotationsCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/DefaultAnnotationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/UnambiguousAnnotationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/CausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/CustomizableModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExactParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/DefaultParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/EntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/EntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ModelledParticipantCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ParticipantCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/ParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/StoichiometryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExactParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/UnambiguousParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/DefaultFeatureBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/DefaultFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/DefaultFeatureEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/DefaultModelledFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/FeatureBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/FeatureCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/FeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/FeatureEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/ModelledFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/UnambiguousFeatureBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/UnambiguousFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/UnambiguousFeatureEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/UnambiguousModelledFeaturecomparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/DefaultOrganismComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/OrganismComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/OrganismTaxIdComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/UnambiguousOrganismComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/ChecksumComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/DefaultChecksumComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/UnambiguousChecksumComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/DefaultPositionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/DefaultRangeAndResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/DefaultRangeComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/PositionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/RangeAndResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/RangeCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/RangeComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/ResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/UnambiguousPositionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/UnambiguousRangeAndResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/UnambiguousRangeComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/DefaultCuratedExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/DefaultExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/DefaultVariableParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/ExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/UnambiguousCuratedExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/UnambiguousExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/UnambiguousVariableParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/VariableParameterCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/VariableParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/VariableParameterValueCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/VariableParameterValueComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/VariableParameterValueSetCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/VariableParameterValueSetComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/DefaultParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/ParameterCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/ParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/ParameterValueComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/UnambiguousParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/BioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/ComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultExactProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/DefaultProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/ExactInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/GeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/InteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/InteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/InteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/NucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/PolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/ProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousExactProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/UnambiguousProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/DefaultExternalIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/DefaultXrefComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/ExactExternalIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/ExactXrefComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/UnambiguousExternalIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/UnambiguousXrefComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/XrefsCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/AbstractCollectionWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/AbstractListHavingProperties.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/IteratorHavingProperties.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/IteratorWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/ListIteratorHavingProperties.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/ListUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/Base64.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/Base64.InputStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/Base64.OutputStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/Crc64Generator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/RigidGenerator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/RogidGenerator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/SeguidException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/CooperativeEffectCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/CooperativityEvidenceCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/CvTermCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/ExperimentCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/FeatureCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/InteractionCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/InteractorCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/OrganismCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/ParticipantCandidateCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/ParticipantCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/PublicationCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/RangeCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/VariableParameterCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/BinaryInteractionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/ComplexExpansionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/ComplexExpansionType.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/DefaultBinaryInteractionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/DefaultComplexExpansionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/DefaultInteractorFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/InteractionWriterFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/InteractorCategory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/InteractorFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/MIDataSourceFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/InteractionWriterOptions.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/MIDataSourceOptions.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/MIFileDataSourceOptions.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/overview-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/package-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/package-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/package-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/constant-values.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/serialized-form.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/AbstractBinaryInteractionWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/BinaryInteractionWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/DefaultBinaryInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/DefaultNamedBinaryInteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/ModelledBinaryInteractionWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/DefaultNamedModelledBinaryInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/DefaultBinaryInteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/DefaultNamedBinaryInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/AbstractBinaryInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/DefaultModelledBinaryInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/class-use/BinaryInteractionEvidenceWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/class-use/ModelledBinaryInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/class-use/BinaryInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/class-use/BinaryInteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/ModelledInteractionBipartiteExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/ComplexExpansionMethod.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/SpokeExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/AbstractComplexExpansionMethod.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/InteractionEvidenceMatrixExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/AbstractMatrixExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/MatrixExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/AbstractBipartiteExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/AbstractSpokeExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/InteractionEvidenceSpokeExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/ModelledInteractionMatrixExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/ModelledInteractionSpokeExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/InteractionEvidenceBipartiteExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/class-use/BipartiteExpansion.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/SourceChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/MIFileParserListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ParametersChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ProteinChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/OrganismChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ModelledInteractionChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ExperimentChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ConfidencesChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/IdentifiersChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ChecksumsChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/CvTermChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/PolymerChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/PublicationChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ParticipantChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/EntityInteractorChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/FeatureEvidenceChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/XrefsChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/AliasesChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/AnnotationsChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/EntityChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ParticipantPoolChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ComplexChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/InteractionChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/FeatureChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/InteractorPoolChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/ParticipantEvidenceChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/InteractionEvidenceChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/OntologyTermChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/class-use/InteractorChangeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/MIFileParserCompositeListener.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/OntologyTermChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ParticipantChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/InteractionChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ExperimentalParticipantPoolChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/InteractorPoolChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/InteractionEvidenceChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/OrganismChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ParticipantEvidenceChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/FeatureEvidenceChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/InteractorChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/CvTermChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/MIFileParserLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/EntityChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/PolymerChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ExperimentChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ParticipantPoolChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/FeatureChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/SourceChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/PublicationChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ProteinChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ComplexChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/class-use/ModelledInteractionChangeLogger.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/MoleculeEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/CooperativityEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ExperimentalParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/AllostericEffectorType.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Interactor.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Allostery.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Feature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Position.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ParameterValue.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Protein.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/VariableParameterValueSet.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Polymer.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Preassembly.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/NamedInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Participant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Annotation.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/CurationDepth.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/VariableParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/AllostericEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Molecule.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Parameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Experiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/VariableParameterValue.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Xref.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/BioactiveEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Checksum.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/NamedExperiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/InteractorPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/FeatureEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/CausalRelationship.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/NucleicAcid.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ResultingSequence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Source.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Entity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Range.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ExperimentalParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Complex.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/CvTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Confidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/OntologyTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Publication.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/CooperativeEffect.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/InteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ComplexType.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Interaction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ExperimentalEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/NamedParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Alias.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ModelledConfidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Stoichiometry.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/FeatureModificationEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/InteractionCategory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Gene.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/Organism.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/class-use/ParticipantEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultPreassemby.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/AbstractParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultModelledConfidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultGene.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNamedInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultOntologyTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNamedParticipantEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultPosition.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNamedInteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultInteractorPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultProtein.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultStoichiometry.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNucleicAcid.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultVariableParameterValueSet.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultComplex.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/AbstractInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultXref.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultVariableParameterValue.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultOrganism.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultModelledInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/AbstractParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultChecksum.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultFeatureEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultModelledParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultParticipantEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultConfidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/AbstractEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultRange.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/AbstractFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/AbstractFeature.FeatureIdentifierList.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNamedModelledInteraction.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultCvTerm.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultCooperativeEffect.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultExperiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultInteractor.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultAlias.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNamedParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNamedExperiment.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultExperimentalParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultMoleculeEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultNamedModelledParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultModelledFeature.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultPublication.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultInteractionEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultCausalRelationship.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultPolymer.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultModelledParticipant.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultAnnotation.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/AbstractParticipantPool.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultBioactiveEntity.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultCooperativityEvidence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultMolecule.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultResultingSequence.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultAllostery.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultModelledParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultModelledParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultVariableParameter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultFeatureModificationEffector.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/class-use/DefaultExperimentalParticipantCandidate.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/class-use/BindingPairFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/class-use/FeatureGraphBuilder.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/class-use/BindingSiteCliqueFinder.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/class-use/AbstractMIEdge.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/class-use/BindingFeatureGraph.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/class-use/BindingPair.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/class-use/MIEdge.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/PublicationStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/SourceCategory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/BinaryInteractionEvidenceStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/ModelledInteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/InteractionWriter.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/FileSourceContext.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/BinaryInteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/MIDataSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/MIFileDataSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/InteractionEvidenceSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/CvTermStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/ModelledInteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/ExperimentStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/ComplexStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/OrganismStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/BinaryInteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/InteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/InteractorStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/ModelledBinaryInteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/FileSourceLocator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/DefaultFileSourceContext.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/ComplexSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/BinaryInteractionEvidenceSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/InteractionEvidenceStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/ModelledBinaryInteractionStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/class-use/InteractionSource.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/class-use/IllegalRangeException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/class-use/ComplexExpansionException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/class-use/MIIOException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/class-use/IllegalParameterException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/AliasUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/ParameterUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/PositionUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/InteractionUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/OrganismUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/OntologyTermUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/CvTermUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/AnnotationUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/ConfidenceUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/ParticipantUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/FeatureUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/InteractorUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/PublicationUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/ChecksumUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/RangeUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/ExperimentUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/MIFileDatasourceUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/class-use/XrefUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/class-use/ComparatorUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/class-use/IntegerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/class-use/MIComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/class-use/CollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/class-use/IdentityHashComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousExactInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultExactInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultExactInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/InteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/CuratedInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultCuratedInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultExactInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultExactCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousCuratedInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousExactCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultInteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultExactCuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousExactCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousExactInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/CuratedModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/ModelledInteractionCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousExactInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultExactModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/InteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousExactModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousInteractionInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultExactCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousExactCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/InteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultCuratedInteractionEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/InteractionBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/DefaultInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/ModelledInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/class-use/UnambiguousCuratedInteractionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/class-use/AliasComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/class-use/AliasesCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/class-use/DefaultAliasComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/class-use/UnambiguousAliasComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/class-use/UnambiguousPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/class-use/PublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/class-use/DefaultPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/class-use/CuratedPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/class-use/UnambiguousCuratedPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/class-use/DefaultCuratedPublicationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousExactCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/CooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultExactCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/MoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultExactAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/CooperativityEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousCooperativeEffectComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/CooperativityEvidenceCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/CooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/FeatureModificationEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultCooperativityEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousExactAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousExactMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultFeatureModificationEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultExactMoleculeEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultExactCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousExactCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/DefaultCooperativeEffectBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/AllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousAllosteryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousCooperativityEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/class-use/UnambiguousFeatureModificationEffectorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/class-use/UnambiguousConfidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/class-use/ConfidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/class-use/DefaultConfidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/class-use/DefaultCvTermComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/class-use/CvTermNameComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/class-use/CvTermIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/class-use/CvTermsCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/class-use/CvTermComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/class-use/UnambiguousCvTermComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/class-use/UnambiguousAnnotationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/class-use/DefaultAnnotationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/class-use/AnnotationsCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/class-use/AnnotationComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/CausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/CustomizableModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/StoichiometryComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ModelledParticipantCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousModelledParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/EntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactParticipantInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousModelledParticipantComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousCausalRelationshipComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExactParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/EntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ModelledEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactParticipantEvidenceInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactParticipantBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousExactModelledParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/DefaultExperimentalParticipantPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousEntityBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ParticipantCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/UnambiguousParticipantEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/class-use/ExperimentalEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/FeatureBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/UnambiguousFeatureBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/UnambiguousModelledFeaturecomparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/DefaultFeatureEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/FeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/UnambiguousFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/DefaultFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/DefaultFeatureBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/ModelledFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/FeatureCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/FeatureEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/UnambiguousFeatureEvidenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/class-use/DefaultModelledFeatureComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/class-use/OrganismTaxIdComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/class-use/DefaultOrganismComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/class-use/OrganismComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/class-use/UnambiguousOrganismComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/class-use/UnambiguousChecksumComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/class-use/ChecksumComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/class-use/DefaultChecksumComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/UnambiguousPositionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/DefaultRangeComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/DefaultPositionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/UnambiguousRangeComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/RangeComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/ResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/RangeAndResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/RangeCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/DefaultRangeAndResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/PositionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/class-use/UnambiguousRangeAndResultingSequenceComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/DefaultExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/VariableParameterCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/ExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/UnambiguousVariableParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/DefaultVariableParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/VariableParameterValueSetComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/VariableParameterValueComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/VariableParameterValueSetCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/DefaultCuratedExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/UnambiguousCuratedExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/VariableParameterValueCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/UnambiguousExperimentComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/class-use/VariableParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/class-use/ParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/class-use/UnambiguousParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/class-use/ParameterValueComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/class-use/ParameterCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/class-use/DefaultParameterComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/ProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/ComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/ExactInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/BioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/GeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/InteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultNucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/InteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/InteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactInteractorBaseComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/PolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultExactComplexComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousInteractorPoolComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/NucleicAcidComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultProteinComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultBioactiveEntityComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousExactPolymerComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/DefaultInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousGeneComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/class-use/UnambiguousInteractorComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/class-use/UnambiguousExternalIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/class-use/ExactExternalIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/class-use/UnambiguousXrefComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/class-use/ExactXrefComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/class-use/DefaultXrefComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/class-use/DefaultExternalIdentifierComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/class-use/XrefsCollectionComparator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/class-use/IteratorHavingProperties.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/class-use/AbstractCollectionWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/class-use/ListUtils.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/class-use/AbstractListHavingProperties.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/class-use/IteratorWrapper.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/class-use/ListIteratorHavingProperties.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/class-use/RigidGenerator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/class-use/Crc64Generator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/class-use/Base64.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/class-use/Base64.InputStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/class-use/Base64.OutputStream.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/class-use/SeguidException.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/class-use/RogidGenerator.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/CvTermCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/CooperativeEffectCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/RangeCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/ParticipantCandidateCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/ParticipantCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/ExperimentCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/InteractorCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/FeatureCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/PublicationCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/CooperativityEvidenceCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/VariableParameterCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/OrganismCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/class-use/InteractionCloner.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/BinaryInteractionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/InteractionWriterFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/ComplexExpansionType.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/ComplexExpansionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/InteractorCategory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/DefaultComplexExpansionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/DefaultInteractorFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/DefaultBinaryInteractionFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/InteractorFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/class-use/MIDataSourceFactory.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/class-use/MIFileDataSourceOptions.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/class-use/InteractionWriterOptions.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/class-use/MIDataSourceOptions.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/analysis/graph/model/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/expansion/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/binary/impl/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/datasource/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/exception/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/factory/options/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/listener/impl/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/model/impl/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/checksum/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/clone/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/collection/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/alias/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/annotation/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/checksum/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/confidence/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cooperativity/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/cv/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/experiment/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/feature/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interaction/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/interactor/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/organism/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/parameter/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/participant/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/publication/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/range/package-use.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/psidev/psi/mi/jami/utils/comparator/xref/package-use.html... Building index for all the packages and classes... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/overview-tree.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/index-all.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/deprecated-list.html... Building index for all classes... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/allclasses-frame.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/allclasses-noframe.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/index.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/overview-summary.html... Generating /home/colin/JAMI/psi-jami/jami-core/target/apidocs/help-doc.html... 45 errors 100 warnings [INFO] ------------------------------------------------------------------------ [INFO] Reactor Summary: [INFO] [INFO] PSI :: JAMI - Java framework for molecular interactions SUCCESS [0.002s] [INFO] PSI :: JAMI - Core interfaces, default implementations and utility classes FAILURE [15.954s] [INFO] PSI :: PSI-JAMI html parser and writer ............ SKIPPED [INFO] PSI :: JAMI - Bridges ............................. SKIPPED [INFO] JAMI :: bridges core interfaces ................... SKIPPED [INFO] PSI :: JAMI - CHEBI ............................... SKIPPED [INFO] PSI :: JAMI - uniprot ............................. SKIPPED [INFO] PSI :: JAMI - OLS ................................. SKIPPED [INFO] PSI :: JAMI - uniprot taxonomy .................... SKIPPED [INFO] PSI :: JAMI - OBO ................................. SKIPPED [INFO] PSI :: JAMI - EuroPubmedCentral ................... SKIPPED [INFO] PSI :: JAMI - uniprot-mapping ..................... SKIPPED [INFO] PSI :: JAMI - unisave ............................. SKIPPED [INFO] PSI :: JAMI - PICR ................................ SKIPPED [INFO] PSI :: JAMI - MITAB ............................... SKIPPED [INFO] PSI :: JAMI - XML ................................. SKIPPED [INFO] PSI :: JAMI - commons ............................. SKIPPED [INFO] PSI :: JAMI - Ontology manager .................... SKIPPED [INFO] PSI :: JAMI - IMEx central ........................ SKIPPED [INFO] jami-enricher ..................................... SKIPPED [INFO] PSI :: JAMI - JSON ................................ SKIPPED [INFO] PSI :: JAMI - molecular interaction viewer json application SKIPPED [INFO] PSI :: JAMI - Spring Batch ........................ SKIPPED [INFO] PSI :: JAMI - examples ............................ SKIPPED [INFO] PSI :: JAMI - Cross link CSV ...................... SKIPPED [INFO] PSI :: JAMI - cross-link CSV uploader application . SKIPPED [INFO] PSI :: JAMI - IMEx assigner ....................... SKIPPED [INFO] ------------------------------------------------------------------------ [INFO] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Total time: 16.160s [INFO] Finished at: Wed Jun 22 11:47:34 BST 2016 [INFO] Final Memory: 22M/399M [INFO] ------------------------------------------------------------------------ [ERROR] Failed to execute goal org.apache.maven.plugins:maven-javadoc-plugin:2.7:jar (attach-javadocs) on project jami-core: MavenReportException: Error while creating archive: [ERROR] Exit code: 1 - /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interaction.java:52: warning: no @param for [ERROR] public Collection getIdentifiers(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interaction.java:60: warning: no @param for [ERROR] public Collection getXrefs(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interaction.java:68: warning: no @param for [ERROR] public Collection getChecksums(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interaction.java:76: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interaction.java:123: warning: no @param for [ERROR] public Collection getParticipants(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/InteractionEvidence.java:60: warning: no @param for [ERROR] public Collection getVariableParameterValues(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/InteractionEvidence.java:81: warning: no @param for

[ERROR] public

Collection

getParameters(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/InteractionEvidence.java:102: warning: no @param for [ERROR] public Collection getConfidences(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ModelledInteraction.java:23: warning: no @param for [ERROR] public Collection getInteractionEvidences(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ModelledInteraction.java:46: warning: no @param for [ERROR] public Collection getModelledConfidences(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ModelledInteraction.java:54: warning: no @param for

[ERROR] public

Collection

getModelledParameters(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ModelledInteraction.java:62: warning: no @param for [ERROR] public Collection getCooperativeEffects(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/NamedInteraction.java:33: warning: no @param for [ERROR] public Collection getAliases(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/binary/expansion/ComplexExpansionMethod.java:40: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/binary/expansion/ComplexExpansionMethod.java:48: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/binary/expansion/ComplexExpansionMethod.java:62: warning: no description for @param [ERROR] * @param factory [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/InteractorChangeListener.java:37: warning: no @param for oldOrganism [ERROR] public void onOrganismUpdate(T interactor, Organism oldOrganism); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/InteractorChangeListener.java:44: warning: no @param for oldType [ERROR] public void onInteractorTypeUpdate(T interactor, CvTerm oldType); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/MIFileParserListener.java:22: warning: no description for @param [ERROR] * @param e [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/OrganismChangeListener.java:44: warning: no @param for oldType [ERROR] public void onCellTypeUpdate(Organism organism, CvTerm oldType); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/OrganismChangeListener.java:51: warning: no @param for oldType [ERROR] public void onTissueUpdate(Organism organism, CvTerm oldType); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/OrganismChangeListener.java:58: warning: no @param for oldType [ERROR] public void onCompartmentUpdate(Organism organism, CvTerm oldType); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/SourceChangeListener.java:20: warning: no description for @param [ERROR] * @param cv [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/SourceChangeListener.java:21: warning: no description for @param [ERROR] * @param oldUrl [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/SourceChangeListener.java:29: warning: no description for @param [ERROR] * @param cv [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/SourceChangeListener.java:30: warning: no description for @param [ERROR] * @param oldPostalAddress [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/SourceChangeListener.java:38: warning: no description for @param [ERROR] * @param cv [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/listener/SourceChangeListener.java:39: warning: no description for @param [ERROR] * @param oldPublication [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CooperativeEffect.java:67: warning: no @param for [ERROR] public Collection getCooperativityEvidences(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CooperativeEffect.java:75: warning: no @param for [ERROR] public Collection getAffectedInteractions(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CooperativeEffect.java:83: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interactor.java:53: warning: no @param for [ERROR] public Collection getIdentifiers(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interactor.java:69: warning: no @param for [ERROR] public Collection getChecksums(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interactor.java:76: warning: no @param for [ERROR] public Collection getXrefs(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interactor.java:84: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Interactor.java:92: warning: no @param for [ERROR] public Collection getAliases(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CooperativityEvidence.java:34: warning: no @param for [ERROR] public Collection getEvidenceMethods(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CvTerm.java:58: warning: no @param for [ERROR] public Collection getIdentifiers(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CvTerm.java:117: warning: no @param for [ERROR] public Collection getXrefs(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CvTerm.java:125: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/CvTerm.java:133: warning: no @param for [ERROR] public Collection getSynonyms(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Entity.java:44: warning: no @param for [ERROR] public Collection getFeatures(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Experiment.java:47: warning: no @param for [ERROR] public Collection getXrefs(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Experiment.java:55: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Experiment.java:62: warning: no @param for [ERROR] public Collection getConfidences(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Experiment.java:97: warning: no @param for [ERROR] public Collection getInteractionEvidences(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Experiment.java:133: warning: no @param for [ERROR] public Collection getVariableParameters(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Participant.java:107: warning: no @param for [ERROR] public Collection getXrefs(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Participant.java:114: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Participant.java:122: warning: no @param for [ERROR] public Collection getAliases(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ParticipantEvidence.java:38: warning: no @param for [ERROR] public Collection getIdentificationMethods(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ParticipantEvidence.java:47: warning: no @param for [ERROR] public Collection getExperimentalPreparations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ParticipantEvidence.java:69: warning: no @param for [ERROR] public Collection getConfidences(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/ParticipantEvidence.java:76: warning: no @param for

[ERROR] public

Collection

getParameters(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Feature.java:96: warning: no @param for [ERROR] public Collection getIdentifiers(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Feature.java:104: warning: no @param for [ERROR] public Collection getXrefs(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Feature.java:112: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Feature.java:132: warning: no @param for [ERROR] public Collection getRanges(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Feature.java:175: warning: no @param for [ERROR] public Collection getLinkedFeatures(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Feature.java:182: warning: no @param for [ERROR] public Collection getAliases(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/FeatureEvidence.java:22: warning: no @param for [ERROR] public Collection getDetectionMethods(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/FeatureEvidence.java:29: warning: no @param for

[ERROR] public

Collection

getParameters(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/NamedExperiment.java:48: warning: no @param for [ERROR] public Collection getAliases(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/OntologyTerm.java:34: warning: no @param for [ERROR] public Collection getParents(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/OntologyTerm.java:41: warning: no @param for [ERROR] public Collection getChildren(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Organism.java:65: warning: no @param for id [ERROR] public void setTaxId(int id); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Organism.java:73: warning: no @param for [ERROR] public Collection getAliases(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Position.java:63: error: malformed HTML [ERROR] * an interval and in this case, start <= end. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Position.java:71: error: malformed HTML [ERROR] * an interval and in this case, start <= end. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Publication.java:58: warning: no @param for [ERROR] public Collection getIdentifiers(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Publication.java:129: warning: no @param for [ERROR] public Collection getXrefs(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Publication.java:137: warning: no @param for [ERROR] public Collection getAnnotations(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Publication.java:144: warning: no @param for [ERROR] public Collection getExperiments(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Range.java:41: error: bad use of '>' [ERROR] * - start > end [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/Range.java:79: warning: no description for @param [ERROR] * @param participant [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/VariableParameter.java:49: warning: no @param for [ERROR] public Collection getVariableValues(); [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/model/impl/DefaultPosition.java:72: warning: no description for @param [ERROR] * @param position [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/InteractionStream.java:22: warning: no description for @throws [ERROR] * @throws MIIOException [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/MIDataSource.java:30: error: unexpected text [ERROR] * @throws MIIOException: if the dataSource cannot be closed [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/MIDataSource.java:38: error: malformed HTML [ERROR] * initialiseContext(Map options). [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/MIDataSource.java:38: error: bad use of '>' [ERROR] * initialiseContext(Map options). [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/InteractionSource.java:23: warning: no description for @throws [ERROR] * @throws psidev.psi.mi.jami.exception.MIIOException [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/InteractionWriter.java:76: error: malformed HTML [ERROR] * initialiseContext(Map options). [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/InteractionWriter.java:76: error: bad use of '>' [ERROR] * initialiseContext(Map options). [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/MIFileDataSource.java:39: warning: no description for @throws [ERROR] * @throws MIIOException [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/datasource/MIFileDataSource.java:41: warning: no @return [ERROR] public boolean validateSyntax() throws MIIOException; [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/AnnotationUtils.java:198: warning: no description for @param [ERROR] * @param value [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/AnnotationUtils.java:221: warning: no description for @param [ERROR] * @param value [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ChecksumUtils.java:158: warning: no description for @return [ERROR] * @return [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:23: warning: no description for @param [ERROR] * @param conf [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:24: warning: no description for @param [ERROR] * @param typeId [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:25: warning: no description for @param [ERROR] * @param typeName [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:26: warning: no description for @return [ERROR] * @return [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:50: warning: no description for @param [ERROR] * @param confs [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:51: warning: no description for @param [ERROR] * @param typeId [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:52: warning: no description for @param [ERROR] * @param typeName [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ConfidenceUtils.java:53: warning: no description for @return [ERROR] * @return [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/ExperimentUtils.java:111: warning: no description for @param [ERROR] * @param exp [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/FeatureUtils.java:124: warning: no description for @param [ERROR] * @param annotation [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:34: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:37: warning: no @param for checkExperimentalRoleIfInteractionEvidence [ERROR] public static ComplexType findInteractionCategoryOf(Interaction interaction, boolean checkExperimentalRoleIfInteractionEvidence){ [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:77: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:120: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:130: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:140: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:150: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:159: error: bad use of '>' [ERROR] * Creates a new BinaryInteraction from the given interaction which should only contain one participant with a stoichiometry >= 2 [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:162: warning: no description for @param [ERROR] * @param interaction [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:164: warning: no @return [ERROR] public static BinaryInteraction createNewSelfBinaryInteractionFrom(Interaction interaction) { [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:172: error: bad use of '>' [ERROR] * Creates a new BinaryInteractionEvidence from the given interactionEvidence which should only contain one participant with a stoichiometry >= 2 [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/InteractionUtils.java:186: error: bad use of '>' [ERROR] * Creates a new ModelledBinaryInteraction from the given interaction which should only contain one participant with a stoichiometry >= 2 [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/interaction/CuratedModelledInteractionComparator.java:42: error: unknown tag: Interaction [ERROR] * It will use a Comparator to compare basic interaction properties. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/interaction/ModelledInteractionComparator.java:67: error: unknown tag: Interaction [ERROR] * It will use a Comparator to compare basic interaction properties. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/interaction/CuratedModelledInteractionComparator.java:14: error: unknown tag: Interaction [ERROR] * It will use a Comparator to compare basic interaction properties. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/interaction/InteractionEvidenceComparator.java:114: error: unknown tag: Interaction [ERROR] * It will first compare the basic interaction properties using Comparator. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/interaction/InteractionEvidenceComparator.java:17: error: unknown tag: Interaction [ERROR] * It will first compare the basic interaction properties using Comparator. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/interaction/ModelledInteractionComparator.java:16: error: unknown tag: Interaction [ERROR] * It will use a Comparator to compare basic interaction properties. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/participant/EntityBaseComparator.java:61: error: unknown tag: Feature [ERROR] * it will compare the features using a Comparator. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/participant/EntityBaseComparator.java:12: error: unknown tag: Feature [ERROR] * it will compare the features using a Comparator. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/participant/ParticipantBaseComparator.java:63: error: unknown tag: Feature [ERROR] * it will compare the features using a Comparator. [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/experiment/ExperimentComparator.java:12: error: unknown tag: Publication [ERROR] * It will look first at the publications using a Comparator. If the publications are the same, it will look at the [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/comparator/experiment/ExperimentComparator.java:32: error: unknown tag: Publication [ERROR] * Creates a new ExperimentComparator. It needs a Comparator to compare publications, a OrganismComparator to compare host organisms [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:532: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:538: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:540: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:624: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:630: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:632: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:662: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:668: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:670: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:6: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:12: error: malformed HTML [ERROR] * when using very small files (~< 40 bytes). [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:28: error: tag not allowed here:

[ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:56: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:1300: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:1307: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:1510: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/utils/checksum/Base64.java:1517: error: self-closing element not allowed [ERROR] *

[ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/factory/options/InteractionWriterOptions.java:22: error: malformed HTML [ERROR] * It has to be an object instance which implements the ComplexExpansionMethod interface [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/factory/options/InteractionWriterOptions.java:22: error: bad use of '>' [ERROR] * It has to be an object instance which implements the ComplexExpansionMethod interface [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/factory/options/InteractionWriterOptions.java:43: error: bad use of '>' [ERROR] * so only binary interactions are written. When COMPLEX_TYPE_OPTION_KEY -> binary, [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/factory/options/MIDataSourceOptions.java:39: error: malformed HTML [ERROR] * It has to be an object instance which implements the ComplexExpansionMethod interface [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/factory/options/MIDataSourceOptions.java:39: error: bad use of '>' [ERROR] * It has to be an object instance which implements the ComplexExpansionMethod interface [ERROR] ^ [ERROR] /home/colin/JAMI/psi-jami/jami-core/src/main/java/psidev/psi/mi/jami/factory/options/MIDataSourceOptions.java:30: error: bad use of '>' [ERROR] * it is up to them to expand the complexes in several binary interactions so only binary interactions are returned. When COMPLEX_TYPE_OPTION_KEY -> binary, [ERROR] ^ [ERROR] [ERROR] Command line was: /home/colin/jdk1.8.0_91/jre/../bin/javadoc @options @packages [ERROR] [ERROR] Refer to the generated Javadoc files in '/home/colin/JAMI/psi-jami/jami-core/target/apidocs' dir. [ERROR] -> [Help 1] [ERROR] [ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch. [ERROR] Re-run Maven using the -X switch to enable full debug logging. [ERROR] [ERROR] For more information about the errors and possible solutions, please read the following articles: [ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoExecutionException [ERROR] [ERROR] After correcting the problems, you can resume the build with the command [ERROR] mvn -rf :jami-core