Package org.openbel.framework.api.KamTestUtil

Examples of org.openbel.framework.api.KamTestUtil.TestKamNode

30
31
32
33
34
35
36
37
38
39
40
    public KamBuilder addNodes(final String... nodes) {
        if (hasItems(nodes)) {
            for (final String n : nodes) {
                final Term term = BELParser.parseTerm(n);
                final String bel = getBEL(term);
                knodes.put(bel, new TestKamNode(knodes.size(), term
                        .getFunctionEnum(), bel));
            }
        }

        return this;
View Full Code Here
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
    }

    public KamBuilder addEdges(final Edge... edges) {
        if (hasItems(edges)) {
            for (final Edge e : edges) {
                final TestKamNode subjectNode = knodes.get(e.subject);
                if (subjectNode == null) {
                    throw new IllegalStateException("Subject node does not exist, error on: " + e);
                }
                final TestKamNode objectNode = knodes.get(e.object);
                if (objectNode == null) {
                    throw new IllegalStateException("Object node does not exist, error on: " + e);
                }

                String bel = e.subject + " " + e.rel + " " + e.object;
View Full Code Here
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
            e.printStackTrace();
            fail(e.getMessage());
        }

        final TestKamNode[] testKamNodes = new TestKamNode[] {
                new TestKamNode(1, COMPLEX_ABUNDANCE, "complex(p(1), p(2))"),
                new TestKamNode(2, PROTEIN_ABUNDANCE, "p(1)"),
                new TestKamNode(3, PROTEIN_ABUNDANCE, "p(2)"),
                new TestKamNode(4, KINASE_ACTIVITY, "kin(p(2))"),
                new TestKamNode(5, BIOLOGICAL_PROCESS, "bp(3)")
        };

        final TestKamEdge[] testKamEdges =
                new TestKamEdge[] {
                        new TestKamEdge(1, testKamNodes[0], HAS_COMPONENT,
View Full Code Here
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
            fail(e.getMessage());
        }

        final TestKamNode[] testKamNodes =
                new TestKamNode[] {
                        new TestKamNode(1, GENE_ABUNDANCE, "geneAbundance(23)"),
                        new TestKamNode(2, RNA_ABUNDANCE, "rnaAbundance(23)"),
                        new TestKamNode(3, PROTEIN_ABUNDANCE,
                                "proteinAbundance(23)"),
                        new TestKamNode(
                                4,
                                COMPLEX_ABUNDANCE,
                                "complexAbundance(abundance(22),proteinAbundance(23))"),
                        new TestKamNode(5, CATALYTIC_ACTIVITY,
                                "catalyticActivity(proteinAbundance(23))"),
                        new TestKamNode(6, ABUNDANCE, "abundance(29)"),
                        new TestKamNode(7, ABUNDANCE, "abundance(22)"),
                        new TestKamNode(
                                8,
                                COMPOSITE_ABUNDANCE,
                                "compositeAbundance(abundance(22),abundance(29))"),
                        new TestKamNode(
                                9,
                                COMPLEX_ABUNDANCE,
                                "complexAbundance(abundance(22),proteinAbundance(28))"),
                        new TestKamNode(10, CATALYTIC_ACTIVITY,
                                "catalyticActivity(proteinAbundance(28))"),
                        new TestKamNode(11, PROTEIN_ABUNDANCE,
                                "proteinAbundance(28)"),
                        new TestKamNode(12, RNA_ABUNDANCE, "rnaAbundance(28)"),
                        new TestKamNode(13, GENE_ABUNDANCE, "geneAbundance(28)"),
                };

        final TestKamEdge[] testKamEdges =
                new TestKamEdge[] {
                        new TestKamEdge(1, testKamNodes[0], TRANSCRIBED_TO,
View Full Code Here
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
            e.printStackTrace();
            fail(e.getMessage());
        }

        final TestKamNode[] testKamNodes = new TestKamNode[] {
                new TestKamNode(1, COMPLEX_ABUNDANCE, "complex(p(1), p(2))"),
                new TestKamNode(2, PROTEIN_ABUNDANCE, "p(1)"),
                new TestKamNode(3, PROTEIN_ABUNDANCE, "p(2)"),
                new TestKamNode(4, KINASE_ACTIVITY, "kin(p(2))"),
                new TestKamNode(5, BIOLOGICAL_PROCESS, "bp(3)")
        };

        final TestKamEdge[] testKamEdges =
                new TestKamEdge[] {
                        new TestKamEdge(1, testKamNodes[0], HAS_COMPONENT,
View Full Code Here
TOP

Related Classes of org.openbel.framework.api.KamTestUtil.TestKamNode

  • org.openbel.framework.api.BasicPathFinderTest
  • org.openbel.framework.api.EdgeFilterTest
  • org.openbel.framework.api.KamBuilder
  • org.openbel.framework.api.NodeFilterTest
    • 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.