Examples of ProtoNetworkServiceImpl

Examples of org.openbel.framework.core.protonetwork.ProtoNetworkServiceImpl

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        sysconfig = getSystemConfiguration();
        cache = new DefaultCacheableResourceService();

        final ProtoNetworkService protonetService =
                new ProtoNetworkServiceImpl();
        final EquivalenceIndexerService indexer =
                new EquivalenceIndexerServiceImpl();
        final PhaseTwoImpl phaseTwo =
                new PhaseTwoImpl(cache, indexer, protonetService);
        phaseTwo.setReportable(getReportable());
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Examples of org.openbel.framework.core.protonetwork.ProtoNetworkServiceImpl

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                new DefaultCacheableResourceService();
        final CacheLookupService cacheLookup = new DefaultCacheLookupService();
        final NamespaceService nsService = new DefaultNamespaceService(
                cache, cacheLookup, nsindexer);
        final ProtoNetworkService protonetService =
                new ProtoNetworkServiceImpl();
        final SemanticService semantics = new SemanticServiceImpl(nsService);
        final ExpansionService expansion = new ExpansionServiceImpl();
        final AnnotationService annotationService =
                new DefaultAnnotationService();
        final AnnotationDefinitionService annotationDefinitionService =
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Examples of org.openbel.framework.core.protonetwork.ProtoNetworkServiceImpl

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        syscfg = getSystemConfiguration();
        cache = new DefaultCacheableResourceService();

        final ProtoNetworkService protonetService =
                new ProtoNetworkServiceImpl();
        final EquivalenceIndexerService indexer =
                new EquivalenceIndexerServiceImpl();
        final PhaseTwoImpl phaseTwo =
                new PhaseTwoImpl(cache, indexer, protonetService);
        phaseTwo.setReportable(getReportable());
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Examples of org.openbel.framework.core.protonetwork.ProtoNetworkServiceImpl

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                    new XBELConverterServiceImpl(),
                    new BELValidatorServiceImpl(),
                    new BELConverterServiceImpl(),
                    nss,
                    new SemanticServiceImpl(nss), new ExpansionServiceImpl(),
                    new ProtoNetworkServiceImpl(),
                    new DefaultAnnotationService(),
                    new DefaultAnnotationDefinitionService(crs, cls));
        } catch (Exception e) {
            e.printStackTrace();
            fail("failed to create Phase One due to exception");
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Examples of org.openbel.framework.core.protonetwork.ProtoNetworkServiceImpl

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    public void testEquivalence() {
        // load equivalences using PhaseTwo
        final DefaultPhaseTwo p2 = new PhaseTwoImpl(
                new DefaultCacheableResourceService(),
                new EquivalenceIndexerServiceImpl(),
                new ProtoNetworkServiceImpl());

        assertThat("test protonetwork is null", pn, notNullValue());

        final Set<EquivalenceDataIndex> equivs;
        try {
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Examples of org.openbel.framework.core.protonetwork.ProtoNetworkServiceImpl

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                new DefaultCacheableResourceService();
        final CacheLookupService cacheLookup = new DefaultCacheLookupService();
        final NamespaceService nsService = new DefaultNamespaceService(
                cache, cacheLookup, nsindexer);
        final ProtoNetworkService protonetService =
                new ProtoNetworkServiceImpl();
        final SemanticService semantics = new SemanticServiceImpl(nsService);
        final ExpansionService expansion = new ExpansionServiceImpl();
        final AnnotationService annotationService =
                new DefaultAnnotationService();
        final AnnotationDefinitionService annotationDefinitionService =
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