Package org.openbel.framework.common.model

Examples of org.openbel.framework.common.model.AnnotationDefinition

106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
        String desc = t.getDescription();
        String id = t.getId();
        String use = t.getUsage();

        AnnotationDefinition dest = null;
        if (t.isSetListAnnotation()) {
            XBELListAnnotation listAnnotation = t.getListAnnotation();
            List<String> vals = listAnnotation.getListValue();
            dest = new AnnotationDefinition(id, desc, use, vals);
        } else if (t.isSetPatternAnnotation()) {
            String regex = t.getPatternAnnotation();
            dest = new AnnotationDefinition(id, REGULAR_EXPRESSION, desc, use);
            dest.setValue(regex);
        } else {
            throw new UnsupportedOperationException("unhandled");
        }

        return dest;
View Full Code Here
94
95
96
97
98
99
100
101
102
103
104
        if (source == null) return null;

        String refID = source.getRefID();
        String value = source.getValue();

        final AnnotationDefinition ad = CommonModelFactory.getInstance()
                .createAnnotationDefinition(refID,
                        UNRESOLVED_ANNOTATION_DEFINITION_TYPE,
                        UNRESOLVED_ANNOTATION_DEFINITION_DESCRIPTION,
                        UNRESOLVED_ANNOTATION_DEFINITION_USAGE,
                        UNRESOLVED_ANNOTATION_DEFINITION_VALUE);
View Full Code Here
114
115
116
117
118
119
120
121
122
123
124
125
     */
    @Override
    public XBELAnnotation convert(Annotation source) {
        if (source == null) return null;

        AnnotationDefinition definition = source.getDefinition();
        String refID = definition.getId();
        String value = source.getValue();

        XBELAnnotation xa = new XBELAnnotation();
        xa.setRefID(refID);
        xa.setValue(value);
View Full Code Here
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
                try {
                    if (verbose) {
                        reportable.output("Resolving Annotation Definition: "
                                + url);
                    }
                    AnnotationDefinition external =
                            annoDefService.resolveAnnotationDefinition(url);
                    annodef.setDescription(external.getDescription());
                    annodef.setEnums(external.getEnums());
                    annodef.setType(external.getType());
                    annodef.setURL(external.getURL());
                    annodef.setUsage(external.getUsage());
                    annodef.setValue(external.getValue());
                } catch (AnnotationDefinitionResolutionException e) {
                    adFailures++;
                    if (!quiet) {
                        if (permissive) {
                            reportable.warning(e.getUserFacingMessage());
View Full Code Here
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
            if (url == null) {
                resolved.add(annodef);
                continue;
            }

            AnnotationDefinition ad;
            try {
                ad = annotationDefinition.resolveAnnotationDefinition(url);
                annodef.setType(ad.getType());
                annodef.setDescription(ad.getDescription());
                annodef.setUsage(ad.getUsage());
                annodef.setEnums(ad.getEnums());
                annodef.setValue(ad.getValue());

                resolved.add(annodef);
            } catch (AnnotationDefinitionResolutionException e) {
                ad = getInstance().createAnnotationDefinition(annodef.getId());
                ad.setType(ENUMERATION);
                List<String> enums = emptyList();
                ad.setEnums(enums);
                resolved.add(ad);
                output.addResolutionException(e);
            }
        }
View Full Code Here
TOP

Related Classes of org.openbel.framework.common.model.AnnotationDefinition

  • org.openbel.framework.api.internal.KAMStoreDaoImpl
  • org.openbel.framework.common.bel.converters.BELAnnotationConverter
  • org.openbel.framework.common.bel.converters.BELAnnotationDefinitionConverter
  • org.openbel.framework.common.InvalidArgument
  • org.openbel.framework.common.xbel.converters.AnnotationConverter
  • org.openbel.framework.common.xbel.converters.ExternalAnnotationDefinitionConverter
  • org.openbel.framework.common.xbel.converters.InternalAnnotationDefinitionConverter
  • org.openbel.framework.compiler.PhaseOneImpl
  • org.openbel.framework.core.annotation.DefaultAnnotationDefinitionService
  • org.openbel.framework.core.annotation.DefaultAnnotationDefinitionServiceTest
    • Copyright © 2018 www.massapicom. All rights reserved.
    All source code are property of their respective owners. Java is a trademark of Sun Microsystems, Inc and owned by ORACLE Inc. Contact coftware#gmail.com.