Revision 1103732d
Added by Katja Luther almost 8 years ago
| eu.etaxonomy.taxeditor.cdmlib/.classpath | ||
|---|---|---|
| 29 | 29 |
<classpathentry exported="true" kind="lib" path="lib/batik-xml-1.7.jar"/> |
| 30 | 30 |
<classpathentry exported="true" kind="lib" path="lib/c3p0-0.9.5.2.jar"/> |
| 31 | 31 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-commons-4.3.0-SNAPSHOT.jar"/> |
| 32 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-ext-4.3.0-SNAPSHOT.jar"/> |
|
| 33 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-io-4.3.0-SNAPSHOT.jar"/> |
|
| 34 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-model-4.3.0-SNAPSHOT.jar"/> |
|
| 32 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-ext-4.3.0-SNAPSHOT.jar" sourcepath="C:/Users/k.luther/.m2/repository/eu/etaxonomy/cdmlib-ext/4.3.0-SNAPSHOT/cdmlib-ext-4.3.0-SNAPSHOT-sources.jar"/>
|
|
| 33 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-io-4.3.0-SNAPSHOT.jar" sourcepath="C:/Users/k.luther/.m2/repository/eu/etaxonomy/cdmlib-io/4.3.0-SNAPSHOT/cdmlib-io-4.3.0-SNAPSHOT-sources.jar"/>
|
|
| 34 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-model-4.3.0-SNAPSHOT.jar" sourcepath="C:/Users/k.luther/.m2/repository/eu/etaxonomy/cdmlib-model/4.3.0-SNAPSHOT/cdmlib-model-4.3.0-SNAPSHOT-sources.jar"/>
|
|
| 35 | 35 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-persistence-4.3.0-SNAPSHOT.jar"/> |
| 36 | 36 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-print-4.3.0-SNAPSHOT.jar"/> |
| 37 | 37 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-remote-4.3.0-SNAPSHOT.jar"/> |
| 38 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-services-4.3.0-SNAPSHOT.jar"/> |
|
| 38 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-services-4.3.0-SNAPSHOT.jar" sourcepath="C:/Users/k.luther/.m2/repository/eu/etaxonomy/cdmlib-services/4.3.0-SNAPSHOT/cdmlib-services-4.3.0-SNAPSHOT-sources.jar"/>
|
|
| 39 | 39 |
<classpathentry exported="true" kind="lib" path="lib/cdmlib-test-4.3.0-SNAPSHOT.jar"/> |
| 40 | 40 |
<classpathentry exported="true" kind="lib" path="lib/cglib-3.2.0.jar"/> |
| 41 | 41 |
<classpathentry exported="true" kind="lib" path="lib/cglib-nodep-3.2.0.jar"/> |
| eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/name/container/AbstractGroupedContainer.java | ||
|---|---|---|
| 900 | 900 |
getNameViewer().getTextWidget().setFont(defaultFont); |
| 901 | 901 |
|
| 902 | 902 |
getNameViewer().getDocument().set(getEmptyTextPrompt()); |
| 903 |
// placeCursor();
|
|
| 903 |
placeCursor(); |
|
| 904 | 904 |
} |
| 905 | 905 |
|
| 906 | 906 |
/** |
| ... | ... | |
| 1123 | 1123 |
AbstractGroupedContainer.this.handleSplitText(text); |
| 1124 | 1124 |
} |
| 1125 | 1125 |
|
| 1126 |
|
|
| 1127 | 1126 |
}; |
| 1128 | 1127 |
|
| 1129 | 1128 |
getNameViewer().getTextWidget().addVerifyListener(lineBreakListener); |
| 1130 |
//getNameViewer().getTextWidget().addKeyListener(lineBreakListener); |
|
| 1129 |
|
|
| 1131 | 1130 |
} |
| 1132 | 1131 |
|
| 1133 | 1132 |
abstract class LabelEllipsisListener extends ControlAdapter {
|
| eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/name/container/LineBreakListener.java | ||
|---|---|---|
| 44 | 44 |
* @created 19.05.2008 |
| 45 | 45 |
* @version 1.0 |
| 46 | 46 |
*/ |
| 47 |
|
|
| 47 | 48 |
public abstract class LineBreakListener implements VerifyListener{
|
| 48 | 49 |
|
| 50 |
|
|
| 49 | 51 |
private static String LINE_BREAK = System.getProperty("line.separator");
|
| 50 | 52 |
|
| 51 | 53 |
|
| eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/view/dataimport/transientServices/TransientClassificationService.java | ||
|---|---|---|
| 992 | 992 |
|
| 993 | 993 |
@Override |
| 994 | 994 |
public List<UuidAndTitleCache<TaxonNode>> getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification( |
| 995 |
UUID classificationUuid, List<UUID> excludeTaxa, Integer limit,
|
|
| 995 |
UUID classificationUuid, Integer limit, |
|
| 996 | 996 |
String pattern) {
|
| 997 |
return defaultService.getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(classificationUuid, excludeTaxa, limit, pattern);
|
|
| 997 |
return defaultService.getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(classificationUuid, limit, pattern); |
|
| 998 | 998 |
} |
| 999 | 999 |
|
| 1000 | 1000 |
@Override |
| 1001 | 1001 |
public List<UuidAndTitleCache<TaxonNode>> getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification( |
| 1002 |
Classification classification, List<UUID> excludeTaxa,
|
|
| 1002 |
Classification classification, |
|
| 1003 | 1003 |
Integer limit, String pattern) {
|
| 1004 |
return defaultService.getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(classification, excludeTaxa, limit, pattern);
|
|
| 1004 |
return defaultService.getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(classification, limit, pattern); |
|
| 1005 | 1005 |
} |
| 1006 | 1006 |
|
| 1007 | 1007 |
@Override |
| eu.etaxonomy.taxeditor.navigation/src/main/java/eu/etaxonomy/taxeditor/navigation/operation/CreateClassification.java | ||
|---|---|---|
| 66 | 66 |
|
| 67 | 67 |
if(classification.getReference() == null){
|
| 68 | 68 |
Reference reference = ReferenceFactory.newGeneric(); |
| 69 |
reference.setTitleCache(classification.getTitleCache(), true);
|
|
| 69 |
reference.setTitle(classification.getTitleCache());
|
|
| 70 | 70 |
classification.setReference(reference); |
| 71 | 71 |
} |
| 72 | 72 |
|
| eu.etaxonomy.taxeditor.store/plugin.xml | ||
|---|---|---|
| 229 | 229 |
name="%view.name" |
| 230 | 230 |
restorable="true"> |
| 231 | 231 |
</view> |
| 232 |
<view |
|
| 233 |
allowMultiple="true" |
|
| 234 |
class="eu.etaxonomy.taxeditor.view.dataimport.SpecimenImportView" |
|
| 235 |
id="eu.etaxonomy.taxeditor.view.dataimport.SpecimenImportView" |
|
| 236 |
name="%view.name.7"> |
|
| 237 |
</view> |
|
| 238 |
<view |
|
| 239 |
allowMultiple="true" |
|
| 240 |
class="eu.etaxonomy.taxeditor.view.dataimport.GbifResponseImportView" |
|
| 241 |
id="eu.etaxonomy.taxeditor.view.dataimport.GbifResponseImportView" |
|
| 242 |
name="%view.name.8"> |
|
| 243 |
</view> |
|
| 232 | 244 |
<view |
| 233 | 245 |
name="%view.name.0" |
| 234 | 246 |
category="org.eclipse.ui" |
| ... | ... | |
| 799 | 811 |
id="eu.etaxonomy.taxeditor.io.import.tcs" |
| 800 | 812 |
name="%wizard.name"> |
| 801 | 813 |
</wizard> |
| 814 |
<wizard |
|
| 815 |
category="eu.etaxonomy.taxeditor.import.category.cdm" |
|
| 816 |
class="eu.etaxonomy.taxeditor.view.dataimport.SpecimenSearchWizard" |
|
| 817 |
id="eu.etaxonomy.taxeditor.view.dataimport.SpecimenSearchWizard" |
|
| 818 |
name="%wizard.name.21"> |
|
| 819 |
<description> |
|
| 820 |
%wizard.description |
|
| 821 |
</description> |
|
| 822 |
</wizard> |
|
| 823 |
|
|
| 802 | 824 |
<!-- <wizard |
| 803 | 825 |
category="eu.etaxonomy.taxeditor.import.category.cdm" |
| 804 | 826 |
class="eu.etaxonomy.taxeditor.io.wizard.JaxbImportWizard" |
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/io/AbstractIOManager.java | ||
|---|---|---|
| 30 | 30 |
protected ICdmApplicationConfiguration applicationConfiguration; |
| 31 | 31 |
|
| 32 | 32 |
public static enum TYPE {
|
| 33 |
Jaxb, Tcs, Excel_Taxa, Endnote, Sdd, Abcd, SpecimenCdmExcel, Excel_Name, SpecimenSearch |
|
| 33 |
Jaxb, Tcs, Excel_Taxa, Endnote, Sdd, Abcd, SpecimenCdmExcel, Excel_Name, SpecimenSearch, Gbif
|
|
| 34 | 34 |
} |
| 35 | 35 |
|
| 36 | 36 |
/** |
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/io/ImportManager.java | ||
|---|---|---|
| 12 | 12 |
|
| 13 | 13 |
import java.io.File; |
| 14 | 14 |
import java.io.InputStream; |
| 15 |
import java.net.URI; |
|
| 15 | 16 |
import java.nio.file.Files; |
| 16 | 17 |
import java.nio.file.Path; |
| 17 | 18 |
import java.nio.file.Paths; |
| 18 | 19 |
import java.util.List; |
| 20 |
import java.util.Set; |
|
| 19 | 21 |
import java.util.UUID; |
| 20 | 22 |
|
| 21 | 23 |
import org.apache.commons.io.IOUtils; |
| ... | ... | |
| 30 | 32 |
import eu.etaxonomy.cdm.api.application.CdmApplicationState; |
| 31 | 33 |
import eu.etaxonomy.cdm.api.application.ICdmApplicationConfiguration; |
| 32 | 34 |
import eu.etaxonomy.cdm.common.monitor.IRemotingProgressMonitor; |
| 35 |
import eu.etaxonomy.cdm.ext.occurrence.OccurenceQuery; |
|
| 33 | 36 |
import eu.etaxonomy.cdm.io.common.CdmDefaultImport; |
| 34 | 37 |
import eu.etaxonomy.cdm.io.common.IImportConfigurator; |
| 35 | 38 |
import eu.etaxonomy.cdm.io.common.IImportConfigurator.SOURCE_TYPE; |
| 36 | 39 |
import eu.etaxonomy.cdm.io.common.ImportResult; |
| 40 |
import eu.etaxonomy.cdm.io.dwca.in.DwcaImportConfigurator; |
|
| 37 | 41 |
import eu.etaxonomy.cdm.io.excel.taxa.NormalExplicitImportConfigurator; |
| 38 | 42 |
import eu.etaxonomy.cdm.io.jaxb.JaxbImportConfigurator; |
| 39 | 43 |
import eu.etaxonomy.cdm.io.reference.endnote.in.EndnoteImportConfigurator; |
| ... | ... | |
| 302 | 306 |
return SpecimenCdmExcelImportConfigurator.NewInstance(null, null); |
| 303 | 307 |
case SpecimenSearch: |
| 304 | 308 |
return Abcd206ImportConfigurator.NewInstance(null, null); |
| 309 |
case Gbif: |
|
| 310 |
return DwcaImportConfigurator.NewInstance(null, null); |
|
| 305 | 311 |
default: |
| 306 | 312 |
MessagingUtils.notImplementedMessage(this); |
| 307 | 313 |
throw new IllegalArgumentException("Import not supported yet");
|
| ... | ... | |
| 386 | 392 |
public SpecimenCdmExcelImportConfigurator SpecimenCdmExcelImportConfigurator() {
|
| 387 | 393 |
return (SpecimenCdmExcelImportConfigurator) getConfigurator(TYPE.SpecimenCdmExcel); |
| 388 | 394 |
} |
| 395 |
|
|
| 396 |
public DwcaImportConfigurator DwcaImportConfigurator() {
|
|
| 397 |
return (DwcaImportConfigurator) getConfigurator(TYPE.Gbif); |
|
| 398 |
} |
|
| 399 |
|
|
| 389 | 400 |
|
| 390 | 401 |
/** |
| 391 | 402 |
* {@inheritDoc}
|
| ... | ... | |
| 402 | 413 |
|
| 403 | 414 |
} |
| 404 | 415 |
|
| 416 |
public Job createIOServiceJob(final DwcaImportConfigurator configurator) {
|
|
| 417 |
Assert.isNotNull(configurator, "Configuration may not be null"); |
|
| 418 |
final Display display = Display.getDefault(); |
|
| 419 |
Job job = new Job("Import: " + " Dwca") {
|
|
| 420 |
|
|
| 421 |
@Override |
|
| 422 |
protected IStatus run(IProgressMonitor monitor) {
|
|
| 423 |
monitor.beginTask("Importing data", IProgressMonitor.UNKNOWN);
|
|
| 424 |
IIOService ioService = CdmApplicationState.getIOService(); |
|
| 425 |
|
|
| 426 |
ImportResult result = ioService.importDataFromStream(configurator); |
|
| 427 |
monitor.done(); |
|
| 428 |
|
|
| 429 |
display.asyncExec(new Runnable() {
|
|
| 430 |
|
|
| 431 |
@Override |
|
| 432 |
public void run() {
|
|
| 433 |
CdmStore.getContextManager().notifyContextRefresh(); |
|
| 434 |
} |
|
| 435 |
}); |
|
| 436 |
|
|
| 437 |
return Status.OK_STATUS; |
|
| 438 |
} |
|
| 439 |
}; |
|
| 440 |
|
|
| 441 |
return job; |
|
| 442 |
|
|
| 443 |
} |
|
| 444 |
|
|
| 405 | 445 |
|
| 406 | 446 |
} |
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/ui/dialog/selection/TaxonNodeSelectionDialog.java | ||
|---|---|---|
| 152 | 152 |
|
| 153 | 153 |
//FIXME prelim |
| 154 | 154 |
pattern = pattern + "*"; |
| 155 |
model = CdmStore.getService(IClassificationService.class).getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(selectedClassification.getUuid(), excludeTaxa, limitOfInitialElements, pattern);
|
|
| 155 |
model = CdmStore.getService(IClassificationService.class).getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification(selectedClassification.getUuid(), limitOfInitialElements, pattern); |
|
| 156 | 156 |
} |
| 157 | 157 |
|
| 158 | 158 |
/** {@inheritDoc} */
|
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/ui/element/RepresentationElement.java | ||
|---|---|---|
| 135 | 135 |
ICdmFormElement formElement, int style) {
|
| 136 | 136 |
|
| 137 | 137 |
combo_language = formFactory.createDefinedTermComboElement(TermType.Language, formElement, |
| 138 |
"", null, true, style);
|
|
| 138 |
"", null, false, style);
|
|
| 139 | 139 |
|
| 140 | 140 |
combo_language.addSelectionListener(this); |
| 141 | 141 |
|
| ... | ... | |
| 174 | 174 |
element_Label.setText(selectedRepresentation.getLabel()); |
| 175 | 175 |
element_abbrevLabel.setText(selectedRepresentation.getAbbreviatedLabel()); |
| 176 | 176 |
element_text.setText(selectedRepresentation.getDescription()); |
| 177 |
|
|
| 177 |
|
|
| 178 | 178 |
}else {
|
| 179 |
|
|
| 179 | 180 |
element_Label.setEnabled(false); |
| 180 | 181 |
element_abbrevLabel.setEnabled(false); |
| 181 | 182 |
element_text.setEnabled(false); |
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/ui/element/TranslatableRepresentationElement.java | ||
|---|---|---|
| 17 | 17 |
|
| 18 | 18 |
import eu.etaxonomy.cdm.model.common.Representation; |
| 19 | 19 |
import eu.etaxonomy.cdm.model.common.TermBase; |
| 20 |
import eu.etaxonomy.cdm.model.common.TermType; |
|
| 20 | 21 |
import eu.etaxonomy.taxeditor.model.MessagingUtils; |
| 21 | 22 |
import eu.etaxonomy.taxeditor.preference.PreferencesUtil; |
| 22 | 23 |
import eu.etaxonomy.taxeditor.ui.section.vocabulary.TermTranslationWizard; |
| ... | ... | |
| 40 | 41 |
public TranslatableRepresentationElement(CdmFormFactory formFactory, ICdmFormElement formElement, |
| 41 | 42 |
Representation representation, TermBase term, Integer textHeight, int style, boolean fill) {
|
| 42 | 43 |
super(formFactory, formElement, representation, term, textHeight, style, fill); |
| 44 |
|
|
| 43 | 45 |
|
| 44 | 46 |
} |
| 45 | 47 |
|
| ... | ... | |
| 93 | 95 |
} |
| 94 | 96 |
@Override |
| 95 | 97 |
protected void createRepresentationEditingElements(ICdmFormElement formElement, int style) {
|
| 96 |
super.createRepresentationEditingElements(formElement, style); |
|
| 98 |
super.createRepresentationEditingElements(formElement, style );
|
|
| 97 | 99 |
button = formFactory.createButton(getLayoutComposite(), |
| 98 | 100 |
"Open In Translation Editor", SWT.PUSH); |
| 99 | 101 |
addControl(button); |
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/ui/translation/TermTranslationWizardPage.java | ||
|---|---|---|
| 122 | 122 |
text_source = formFactory.createRepresentationElement(element, preferredRepresentation,term, TEXT_HEIGHT, SWT.NULL, true); |
| 123 | 123 |
text_source.setTerm(term, true); |
| 124 | 124 |
|
| 125 |
|
|
| 126 | 125 |
} |
| 127 | 126 |
|
| 128 | 127 |
/** |
| ... | ... | |
| 131 | 130 |
*/ |
| 132 | 131 |
private void createRightControls(ICdmFormElement element){
|
| 133 | 132 |
text_target = formFactory.createRepresentationElement(element, null, term, TEXT_HEIGHT, SWT.NULL, false); |
| 133 |
|
|
| 134 | 134 |
} |
| 135 | 135 |
|
| 136 | 136 |
|
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/DataImportEditorContextMenu.java | ||
|---|---|---|
| 1 | 1 |
package eu.etaxonomy.taxeditor.view.dataimport; |
| 2 | 2 |
|
| 3 | 3 |
import java.io.IOException; |
| 4 |
import java.util.HashSet; |
|
| 5 |
import java.util.Set; |
|
| 4 | 6 |
|
| 5 | 7 |
import org.apache.http.client.ClientProtocolException; |
| 6 | 8 |
import org.apache.log4j.Logger; |
| ... | ... | |
| 89 | 91 |
public void handleEvent(Event event) {
|
| 90 | 92 |
try{
|
| 91 | 93 |
DataSetResponse response = new GbifQueryServiceWrapper().queryOriginalDataSet(gbifResponse); |
| 92 |
final BioCaseEditorInput input = new BioCaseEditorInput(new OccurenceQuery(response.getUnitId()), response.getEndpoint()); |
|
| 94 |
Set<String[]> unitIds = new HashSet<String[]>(); |
|
| 95 |
String[] tripleId = {response.getUnitId()};
|
|
| 96 |
unitIds.add(tripleId); |
|
| 97 |
final BioCaseEditorInput input = new BioCaseEditorInput(new OccurenceQuery(unitIds), response.getEndpoint()); |
|
| 93 | 98 |
// EditorUtil.open(input); |
| 94 | 99 |
Job queryJob = new Job("Querying for original record...") {
|
| 95 | 100 |
|
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/GbifResponseImportView.java | ||
|---|---|---|
| 10 | 10 |
package eu.etaxonomy.taxeditor.view.dataimport; |
| 11 | 11 |
|
| 12 | 12 |
import java.io.IOException; |
| 13 |
import java.io.InputStream; |
|
| 13 | 14 |
import java.net.URISyntaxException; |
| 15 |
import java.util.ArrayList; |
|
| 14 | 16 |
import java.util.Collection; |
| 17 |
import java.util.HashSet; |
|
| 18 |
import java.util.Set; |
|
| 15 | 19 |
|
| 16 | 20 |
import org.apache.http.client.ClientProtocolException; |
| 21 |
import org.eclipse.core.runtime.jobs.Job; |
|
| 17 | 22 |
|
| 23 |
import eu.etaxonomy.cdm.ext.occurrence.bioCase.BioCaseQueryServiceWrapper; |
|
| 24 |
import eu.etaxonomy.cdm.ext.occurrence.gbif.GbifDataSetProtocol; |
|
| 18 | 25 |
import eu.etaxonomy.cdm.ext.occurrence.gbif.GbifQueryServiceWrapper; |
| 19 | 26 |
import eu.etaxonomy.cdm.ext.occurrence.gbif.GbifResponse; |
| 27 |
import eu.etaxonomy.cdm.io.common.CdmDefaultImport; |
|
| 28 |
import eu.etaxonomy.cdm.io.common.IImportConfigurator.SOURCE_TYPE; |
|
| 29 |
import eu.etaxonomy.cdm.io.dwca.in.DwcaImportConfigurator; |
|
| 30 |
import eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase; |
|
| 31 |
import eu.etaxonomy.taxeditor.store.CdmStore; |
|
| 20 | 32 |
|
| 21 | 33 |
/** |
| 22 | 34 |
* @author pplitzner |
| ... | ... | |
| 48 | 60 |
public void query() {
|
| 49 | 61 |
String errorMessage = "Could not execute query " + query; |
| 50 | 62 |
try{
|
| 51 |
Collection<GbifResponse> results = new GbifQueryServiceWrapper().query(query); |
|
| 52 |
setResults(results); |
|
| 53 |
} catch (ClientProtocolException e) {
|
|
| 54 |
logger.error(errorMessage, e); |
|
| 55 |
} catch (IOException e) {
|
|
| 56 |
logger.error(errorMessage, e); |
|
| 57 |
} catch (URISyntaxException e) {
|
|
| 58 |
logger.error(errorMessage, e); |
|
| 63 |
//Collection<GbifResponse> results = new GbifQueryServiceWrapper().query(query); |
|
| 64 |
//setResults(results); |
|
| 65 |
|
|
| 66 |
// String errorMessage = "Could not execute query " + query; |
|
| 67 |
|
|
| 68 |
// Collection<SpecimenOrObservationBase<?>> results = new ArrayList<SpecimenOrObservationBase<?>>(); |
|
| 69 |
Collection<GbifResponse> results = new GbifQueryServiceWrapper().query(query); |
|
| 70 |
|
|
| 71 |
setResults(results); |
|
| 72 |
|
|
| 73 |
|
|
| 74 |
// |
|
| 75 |
// results = repo.getUnits(); |
|
| 76 |
|
|
| 77 |
} catch (ClientProtocolException e) {
|
|
| 78 |
logger.error(errorMessage, e); |
|
| 79 |
} catch (IOException e) {
|
|
| 80 |
logger.error(errorMessage, e); |
|
| 81 |
} catch (URISyntaxException e) {
|
|
| 82 |
// TODO Auto-generated catch block |
|
| 83 |
e.printStackTrace(); |
|
| 84 |
} |
|
| 59 | 85 |
} |
| 60 | 86 |
|
| 61 |
} |
|
| 87 |
// setResults(results); |
|
| 88 |
// |
|
| 89 |
// } |
|
| 90 |
// } catch (ClientProtocolException e) {
|
|
| 91 |
// logger.error(errorMessage, e); |
|
| 92 |
// } catch (IOException e) {
|
|
| 93 |
// logger.error(errorMessage, e); |
|
| 94 |
// } catch (URISyntaxException e) {
|
|
| 95 |
// logger.error(errorMessage, e); |
|
| 96 |
// } |
|
| 97 |
|
|
| 98 |
// } |
|
| 62 | 99 |
|
| 63 | 100 |
} |
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/SaveImportedSpecimenAction.java | ||
|---|---|---|
| 1 | 1 |
package eu.etaxonomy.taxeditor.view.dataimport; |
| 2 | 2 |
|
| 3 |
import java.util.Collection; |
|
| 4 |
import java.util.HashSet; |
|
| 5 |
import java.util.Set; |
|
| 6 |
|
|
| 3 | 7 |
import org.apache.log4j.Logger; |
| 8 |
import org.eclipse.core.runtime.jobs.Job; |
|
| 4 | 9 |
import org.eclipse.jface.action.Action; |
| 5 | 10 |
import org.eclipse.swt.widgets.Table; |
| 6 | 11 |
import org.eclipse.swt.widgets.TableItem; |
| ... | ... | |
| 11 | 16 |
import eu.etaxonomy.cdm.api.conversation.ConversationHolder; |
| 12 | 17 |
import eu.etaxonomy.cdm.api.service.IOccurrenceService; |
| 13 | 18 |
import eu.etaxonomy.cdm.api.service.ITermService; |
| 19 |
import eu.etaxonomy.cdm.ext.occurrence.OccurenceQuery; |
|
| 20 |
import eu.etaxonomy.cdm.ext.occurrence.gbif.GbifDataSetProtocol; |
|
| 14 | 21 |
import eu.etaxonomy.cdm.ext.occurrence.gbif.GbifResponse; |
| 22 |
import eu.etaxonomy.cdm.io.dwca.in.DwcaImportConfigurator; |
|
| 15 | 23 |
import eu.etaxonomy.cdm.model.common.DefinedTermBase; |
| 16 | 24 |
import eu.etaxonomy.cdm.model.common.ICdmBase; |
| 17 | 25 |
import eu.etaxonomy.cdm.model.name.TaxonNameBase; |
| ... | ... | |
| 32 | 40 |
if(activePart instanceof DataImportView<?>){
|
| 33 | 41 |
DataImportView<?> dataImportView = (DataImportView<?>)activePart; |
| 34 | 42 |
Table table = dataImportView.getTable(); |
| 43 |
Collection<GbifResponse> checkedResults = new HashSet<GbifResponse>(); |
|
| 44 |
Object data; |
|
| 45 |
Set<String[]> unitIds = new HashSet<String[]>(); |
|
| 35 | 46 |
for(TableItem item:table.getItems()){
|
| 36 | 47 |
if(item.getChecked()){
|
| 37 | 48 |
//Save Specimen |
| 38 |
Object data = item.getData(); |
|
| 39 |
if(data instanceof GbifResponse){
|
|
| 40 |
data = ((GbifResponse) item.getData()).getDerivedUnitFacade().innerFieldUnit(); |
|
| 41 |
} |
|
| 42 |
if(data instanceof SpecimenOrObservationBase){
|
|
| 43 |
ConversationHolder conversation = dataImportView.getConversationHolder(); |
|
| 44 |
SpecimenOrObservationBase<?> specimen = (SpecimenOrObservationBase<?>) data; |
|
| 45 |
conversation.bind(); |
|
| 46 |
IOccurrenceService occurrenceService = CdmStore.getService(IOccurrenceService.class); |
|
| 47 |
for(ICdmBase cdmEntity:occurrenceService.getNonCascadedAssociatedElements(specimen)){
|
|
| 48 |
if(cdmEntity instanceof DefinedTermBase){
|
|
| 49 |
persistTerm((DefinedTermBase<?>) cdmEntity, CdmStore.getService(ITermService.class), conversation); |
|
| 50 |
} |
|
| 51 |
else if(cdmEntity instanceof TaxonNameBase){
|
|
| 52 |
//user interaction |
|
| 53 |
} |
|
| 54 |
} |
|
| 55 |
occurrenceService.saveOrUpdate(specimen); |
|
| 56 |
dataImportView.getConversationHolder().commit(true); |
|
| 57 |
} |
|
| 49 |
data = item.getData(); |
|
| 50 |
if(data instanceof GbifResponse){
|
|
| 51 |
checkedResults.add((GbifResponse)item.getData()); |
|
| 52 |
} |
|
| 53 |
} |
|
| 54 |
} |
|
| 55 |
for (GbifResponse response:checkedResults){
|
|
| 56 |
if (response != null){
|
|
| 57 |
System.err.println("response: " + response.getDataSetUri() + " " + response.getDataSetProtocol());
|
|
| 58 |
|
|
| 59 |
String[] tripleId = response.getTripleID(); |
|
| 60 |
unitIds.add(tripleId); |
|
| 61 |
|
|
| 62 |
} |
|
| 58 | 63 |
} |
| 64 |
|
|
| 65 |
DwcaImportConfigurator configurator = DwcaImportConfigurator.NewInstance(null, null); |
|
| 66 |
OccurenceQuery query = new OccurenceQuery(unitIds); |
|
| 67 |
configurator.setQuery(query); |
|
| 68 |
|
|
| 69 |
Job job = CdmStore.getImportManager().createIOServiceJob(configurator); |
|
| 70 |
CdmStore.getImportManager().run(job); |
|
| 71 |
|
|
| 72 |
|
|
| 59 | 73 |
} |
| 60 | 74 |
} |
| 61 |
} |
|
| 75 |
|
|
| 62 | 76 |
|
| 63 | 77 |
private void persistTerm(DefinedTermBase<?> term, ITermService termService, ConversationHolder conversation){
|
| 64 | 78 |
if(term!=null){
|
| eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/SpecimenSearchWizard.java | ||
|---|---|---|
| 116 | 116 |
try {
|
| 117 | 117 |
|
| 118 | 118 |
dataImportView = (GbifResponseImportView) activePart.showView(GbifResponseImportView.ID, "query_"+query.toString().replaceAll(",", ""), IWorkbenchPage.VIEW_ACTIVATE);
|
| 119 |
|
|
| 119 |
dataImportView.setQuery(query); |
|
| 120 | 120 |
// (GbifResponseImportView) activePart.showView(GbifResponseImportView.ID);getWorkbench().getActiveWorkbenchWindow().getActivePage() |
| 121 | 121 |
// .showView(GbifResponseImportView.ID, "query_"+query.toString().replaceAll(",", ""),IWorkbenchPage.VIEW_ACTIVATE);
|
| 122 | 122 |
|
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