Examples with DatasetImpl org.globalbioticinteractions.dataset.DatasetImpl used on opensource projects

Example 31 with DatasetImpl

use of org.globalbioticinteractions.dataset.DatasetImpl in project eol-globi-data by jhpoelen.

the class NodeFactoryNeo4jTest method createStudyWithSameExternalIdInDifferentNamespace.

@Test
public void createStudyWithSameExternalIdInDifferentNamespace() throws NodeFactoryException {
    StudyImpl study1 = new StudyImpl("myTitle", new DOI("myDoi", "123"), null);
    study1.setOriginatingDataset(new DatasetImpl("name/space", URI.create("foo:bar"), is -> is));
    study1.setExternalId("foo:bar");
    StudyNode study1Created = getNodeFactory().getOrCreateStudy(study1);
    StudyImpl study2 = new StudyImpl("myTitle", new DOI("myDoi", "123"), null);
    study2.setOriginatingDataset(new DatasetImpl("name/spacz", URI.create("foo:bar"), is -> is));
    study2.setExternalId("foo:bar");
    StudyNode study2Created = getNodeFactory().getOrCreateStudy(study2);
    assertThat(study1Created.getExternalId(), is("foo:bar"));
    assertThat(study1Created.getOriginatingDataset().getNamespace(), is("name/space"));
    assertThat(study2Created.getExternalId(), is("foo:bar"));
    assertThat(study2Created.getOriginatingDataset().getNamespace(), is("name/spacz"));
}

Example 32 with DatasetImpl

use of org.globalbioticinteractions.dataset.DatasetImpl in project eol-globi-data by jhpoelen.

the class NodeFactoryNeo4jTest method addDatasetToStudyNulls.

@Test
public void addDatasetToStudyNulls() throws NodeFactoryException {
    StudyImpl study1 = new StudyImpl("my title", SOME_DOI, "some citation");
    DatasetImpl dataset = new DatasetImpl(null, null, inStream -> inStream);
    study1.setOriginatingDataset(dataset);
    StudyNode study = getNodeFactory().getOrCreateStudy(study1);
    assertThat(NodeUtil.getDataSetForStudy(study), is(nullValue()));
}

Example 33 with DatasetImpl

use of org.globalbioticinteractions.dataset.DatasetImpl in project eol-globi-data by jhpoelen.

the class NodeFactoryNeo4jTest method addDatasetToStudy.

@Test
public void addDatasetToStudy() throws NodeFactoryException, IOException {
    StudyImpl study1 = new StudyImpl("my title", SOME_DOI, "some citation");
    DatasetImpl dataset = new DatasetImpl("some/namespace", URI.create("some:uri"), inStream -> inStream);
    ObjectNode objectNode = new ObjectMapper().createObjectNode();
    objectNode.put(DatasetConstant.SHOULD_RESOLVE_REFERENCES, false);
    dataset.setConfig(objectNode);
    study1.setOriginatingDataset(dataset);
    StudyNode study = getNodeFactory().getOrCreateStudy(study1);
    Dataset origDataset = study.getOriginatingDataset();
    assertThat(origDataset, is(notNullValue()));
    assertThat(origDataset.getArchiveURI().toString(), is("some:uri"));
    assertThat(origDataset.getOrDefault(DatasetConstant.SHOULD_RESOLVE_REFERENCES, "true"), is("false"));
    String expectedConfig = new ObjectMapper().writeValueAsString(objectNode);
    assertThat(new ObjectMapper().writeValueAsString(origDataset.getConfig()), is(expectedConfig));
    Node datasetNode = NodeUtil.getDataSetForStudy(study);
    assertThat(datasetNode.getProperty(DatasetConstant.NAMESPACE), is("some/namespace"));
    assertThat(datasetNode.getProperty("archiveURI"), is("some:uri"));
    assertThat(datasetNode.getProperty(DatasetConstant.SHOULD_RESOLVE_REFERENCES), is("false"));
    StudyImpl otherStudy = new StudyImpl("my other title", SOME_DOI, "some citation");
    otherStudy.setOriginatingDataset(dataset);
    StudyNode studySameDataset = getNodeFactory().getOrCreateStudy(otherStudy);
    Node datasetNodeOther = NodeUtil.getDataSetForStudy(studySameDataset);
    assertThat(datasetNode.getId(), is(datasetNodeOther.getId()));
}

Example 34 with DatasetImpl

use of org.globalbioticinteractions.dataset.DatasetImpl in project eol-globi-data by jhpoelen.

the class NodeFactoryNeo4jTest method createStudyWithDifferentExternalIdInSameNamespace.

@Test
public void createStudyWithDifferentExternalIdInSameNamespace() throws NodeFactoryException {
    StudyImpl study1 = new StudyImpl("myTitle", new DOI("myDoi", "123"), null);
    study1.setOriginatingDataset(new DatasetImpl("name/space", URI.create("foo:bar"), is -> is));
    study1.setExternalId("foo:bar");
    StudyNode study1Created = getNodeFactory().getOrCreateStudy(study1);
    StudyImpl study2 = new StudyImpl("myTitle", new DOI("myDoi", "123"), null);
    study2.setOriginatingDataset(new DatasetImpl("name/space", URI.create("foo:bar"), is -> is));
    study2.setExternalId("foo:baz");
    StudyNode study2Created = getNodeFactory().getOrCreateStudy(study2);
    assertThat(study1Created.getExternalId(), is("foo:bar"));
    assertThat(study2Created.getExternalId(), is("foo:baz"));
}

Example 35 with DatasetImpl

use of org.globalbioticinteractions.dataset.DatasetImpl in project eol-globi-data by jhpoelen.

the class NodeFactoryNeo4jTest method assertDataset.

protected void assertDataset(String citationKey) {
    DatasetImpl dataset = new DatasetImpl("some/namespace", URI.create("some:uri"), inStream -> inStream);
    ObjectNode objectNode = new ObjectMapper().createObjectNode();
    objectNode.put(DatasetConstant.SHOULD_RESOLVE_REFERENCES, false);
    objectNode.put(citationKey, "some citation");
    dataset.setConfig(objectNode);
    Dataset origDataset = getNodeFactory().getOrCreateDataset(dataset);
    assertThat(origDataset, is(notNullValue()));
    assertThat(origDataset.getArchiveURI().toString(), is("some:uri"));
    assertThat(origDataset.getOrDefault(DatasetConstant.SHOULD_RESOLVE_REFERENCES, "true"), is("false"));
    assertThat(origDataset.getOrDefault(DatasetConstant.CITATION, "no citation"), is("some citation"));
    assertThat(origDataset.getCitation(), is("some citation"));
    assertThat(origDataset.getOrDefault(DatasetConstant.LAST_SEEN_AT, "1"), is(not("1")));
    Dataset datasetAnother = getNodeFactory().getOrCreateDataset(dataset);
    assertThat(((DatasetNode) datasetAnother).getNodeID(), is(((DatasetNode) origDataset).getNodeID()));
}