import java.io.FileOutputStream;
import java.io.IOException;
import java.lang.reflect.Field;
-import java.net.URI;
import java.net.URISyntaxException;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
+import java.util.Comparator;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import java.util.StringTokenizer;
import java.util.UUID;
-import org.apache.commons.lang.StringUtils;
+import org.apache.commons.lang3.StringUtils;
import org.apache.log4j.Logger;
import org.eclipse.core.runtime.preferences.ConfigurationScope;
import org.eclipse.core.runtime.preferences.IEclipsePreferences;
import eu.etaxonomy.cdm.api.service.IVocabularyService;
import eu.etaxonomy.cdm.api.service.config.FindTaxaAndNamesConfiguratorImpl;
import eu.etaxonomy.cdm.api.service.config.IFindTaxaAndNamesConfigurator;
+import eu.etaxonomy.cdm.api.service.config.SecundumForSubtreeConfigurator;
import eu.etaxonomy.cdm.common.CdmUtils;
+import eu.etaxonomy.cdm.common.URI;
import eu.etaxonomy.cdm.hibernate.HibernateProxyHelper;
import eu.etaxonomy.cdm.io.specimen.abcd206.in.Abcd206ImportConfigurator;
import eu.etaxonomy.cdm.model.common.ICdmBase;
import eu.etaxonomy.cdm.model.description.Feature;
import eu.etaxonomy.cdm.model.metadata.CdmPreference;
import eu.etaxonomy.cdm.model.metadata.CdmPreference.PrefKey;
+import eu.etaxonomy.cdm.model.metadata.EnabledComputedDescription;
import eu.etaxonomy.cdm.model.metadata.IPreferencePredicate;
import eu.etaxonomy.cdm.model.metadata.PreferencePredicate;
import eu.etaxonomy.cdm.model.metadata.PreferenceSubject;
+import eu.etaxonomy.cdm.model.metadata.SecReferenceHandlingEnum;
+import eu.etaxonomy.cdm.model.metadata.SecReferenceHandlingSwapEnum;
import eu.etaxonomy.cdm.model.metadata.TermDisplayEnum;
import eu.etaxonomy.cdm.model.metadata.TermOrder;
import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
import eu.etaxonomy.cdm.model.term.TermType;
import eu.etaxonomy.cdm.model.term.TermVocabulary;
import eu.etaxonomy.cdm.model.term.VocabularyEnum;
+import eu.etaxonomy.cdm.persistence.dto.TaxonNodeDto;
+import eu.etaxonomy.cdm.persistence.dto.TaxonNodeDtoByNameComparator;
+import eu.etaxonomy.cdm.persistence.dto.TaxonNodeDtoByRankAndNameComparator;
+import eu.etaxonomy.cdm.persistence.dto.TaxonNodeDtoNaturalComparator;
import eu.etaxonomy.cdm.strategy.match.DefaultMatchStrategy;
import eu.etaxonomy.cdm.strategy.match.FieldMatcher;
import eu.etaxonomy.cdm.strategy.match.IMatchStrategy;
import eu.etaxonomy.taxeditor.model.AbstractUtility;
import eu.etaxonomy.taxeditor.model.MessagingUtils;
import eu.etaxonomy.taxeditor.model.NomenclaturalCodeHelper;
-import eu.etaxonomy.taxeditor.remoting.source.CdmRemoteSource;
+import eu.etaxonomy.taxeditor.remoting.source.ICdmRemoteSource;
import eu.etaxonomy.taxeditor.store.CdmStore;
import eu.etaxonomy.taxeditor.store.TermStore;
import eu.etaxonomy.taxeditor.store.internal.TaxeditorStorePlugin;
private static TermTree<Feature> preferredTaxonFeatureTree;
+
+
private final static Logger logger = Logger.getLogger(PreferencesUtil.class);
public static IPreferenceStore getPreferenceStore() {
public static String getPreferenceValue(PrefKey prefKey){
try {
+ //check if there exist a node for the predicate
if(getEditorPreferences().nodeExists(prefKey.getPredicate())){
Preferences predicateNode = getEditorPreferences().node(prefKey.getPredicate());
String[] splittedSubject = extractSubjectParts(prefKey.getSubject());
+ //check if the predicate node contains a node for the subject, this should be the last part
String value = predicateNode.get(splittedSubject[splittedSubject.length-1], PreferencePredicate.getByKey(prefKey.getPredicate()).getDefaultValue() != null? PreferencePredicate.getByKey(prefKey.getPredicate()).getDefaultValue().toString(): "");
int index = splittedSubject.length -2;
while (value != null && index >= 0){
public static List<CdmPreference> getPreference(PreferencePredicate prefPredicate){
try {
- List<CdmPreference> prefs = new ArrayList();
+ List<CdmPreference> prefs = new ArrayList<>();
CdmPreference pref;
PreferenceSubject subject;
if(getEditorPreferences().nodeExists(prefPredicate.getKey())){
pref = CdmPreference.NewInstance(subject, prefPredicate, value);
prefs.add(pref);
}
-
}
-
} catch (BackingStoreException e) {
// TODO Auto-generated catch block
e.printStackTrace();
return null;
}
- /**
- * @param childName
- * @param child
- */
private static String createSubjectStringForChildNodes(String subject, Preferences parent) {
try {
for (String childName: parent.childrenNames()){
}
private static String prefKey(String name) {
- return name + "_"+ ((CdmRemoteSource)CdmStore.getActiveCdmSource()).toString();
+ return name + "_"+ ((ICdmRemoteSource)CdmStore.getActiveCdmSource()).toString();
}
public static String prefOverrideKey(String name) {
public static String getStringValue(String name, boolean local) {
CdmPreference pref = getDBPreferenceValue(name);
- String prefValue = null;
boolean override = getOverrideForPreference(name);
if (result instanceof String){
return (String)result;
}else{
- return result.toString();
+ return result != null?result.toString(): null;
}
}
return pref.getValue();
}
//no override but default value
- IPreferencePredicate pred = PreferencePredicate.getByKey(name);
+ IPreferencePredicate<?> pred = PreferencePredicate.getByKey(name);
if (pred != null){
if (pred.getDefaultValue() instanceof String){
return (String)pred.getDefaultValue();
}
}
return null;
-
-
-
}
public static String getStringValue(String name){
try{
result = Integer.parseInt(prefValue);
}catch(NumberFormatException e){
- logger.debug("Preference value of " + name + " is not a number");
-
+ logger.debug("Preference value of " + name + " is not an integer");
}
boolean override = getOverrideForPreference(name);
}
}
if (result == null){
- IPreferencePredicate pred = PreferencePredicate.getByKey(name);
+ IPreferencePredicate<?> pred = PreferencePredicate.getByKey(name);
if (pred != null){
if (pred.getDefaultValue() instanceof Integer){
result = (Integer)pred.getDefaultValue();
if (result == null){
result = 0;
}
-
}
return result;
-
}
public static boolean getBooleanValue(String name) {
}else{
return result;
}
-
}
public static Boolean getBooleanValue(String name, boolean local) {
return Boolean.valueOf(pref.getValue());
}
//no override but default value
- IPreferencePredicate pred = PreferencePredicate.getByKey(name);
+ IPreferencePredicate<?> pred = PreferencePredicate.getByKey(name);
if (pred != null){
if (pred.getDefaultValue() instanceof Boolean){
return (Boolean)pred.getDefaultValue();
// no connection to db, use local preference
return getPreferenceStore().getBoolean(name);
}
-
}
-
-
public static float getFloatValue(String name, boolean local) {
CdmPreference pref = getDBPreferenceValue(name);
String prefValue = null;
result = Float.parseFloat(prefValue);
}
}catch(NumberFormatException e){
- logger.debug("Preference value of " + name + " is not a number");
+ logger.debug("Preference value of " + name + " is not a float");
}
boolean override = getOverrideForPreference(name);
- if (local || pref == null || (pref != null && pref.isAllowOverride() && override)){
+ if (local || pref == null || (pref.isAllowOverride() && override)){
String dbSpecific = prefKey(name);
if (getPreferenceStore().contains(dbSpecific)){
result = getPreferenceStore().getFloat(dbSpecific);
}else{
- IPreferencePredicate pred = PreferencePredicate.getByKey(name);
+ IPreferencePredicate<?> pred = PreferencePredicate.getByKey(name);
if (pred != null){
if (pred.getDefaultValue() instanceof Float){
return (float)pred.getDefaultValue();
}
}
return result;
-
}
-
-
public static CdmPreference setPreferredNomenclaturalCode(
String preferenceValue, boolean local) {
if (local){
}
}
return null;
-
-
-
}
public static void setPreferredNomenclaturalCode(
}else{
controller.getPreferenceService().set(preference);
}
-
}
public static NomenclaturalCode getPreferredNomenclaturalCode() {
- CdmPreference pref = getPreferenceFromDB(PreferencePredicate.NomenclaturalCode);
-
-
- String preferredCode;
- if(pref == null || (pref.isAllowOverride() && getBooleanValue(prefOverrideKey(PreferencePredicate.NomenclaturalCode.getKey())))){
- preferredCode = getStringValue(
- PreferencePredicate.NomenclaturalCode.getKey(), true);
-
- }else{
- preferredCode = pref.getValue();
- }
- if (StringUtils.isBlank(preferredCode)){
- preferredCode = getPreferenceKey((NomenclaturalCode)PreferencePredicate.NomenclaturalCode.getDefaultValue());
- }
-
- return getPreferredNomenclaturalCode(preferredCode);
-
+ String nomString = getStringValue(PreferencePredicate.NomenclaturalCode.getKey());
+ return getPreferredNomenclaturalCode(nomString);
}
public static NomenclaturalCode getPreferredNomenclaturalCode(String preferenceKeyNomenclaturalCode) {
return result;
}
- public static CdmPreference getPreferenceFromDB(IPreferencePredicate predicate){
+ public static CdmPreference getPreferenceFromDB(IPreferencePredicate<?> predicate){
ICdmRepository controller;
CdmPreference pref = null;
}
return pref;
-
}
- public static List<CdmPreference> getPreferencesFromDB(IPreferencePredicate predicate){
+ public static List<CdmPreference> getPreferencesFromDB(IPreferencePredicate<?> predicate){
ICdmRepository controller;
List<CdmPreference> prefs = null;
}catch(Exception e){
e.printStackTrace();
}
-
-
-
}
public static CdmPreference getPreferenceFromDB(PrefKey key){
}catch(Exception e){
e.printStackTrace();
}
-
}
public static String getPreferredDefaultLangugae(){
* @param cdmBase
* @return
*/
- public static String getPreferenceKey(ISimpleTerm simpleTerm) {
+ public static String getPreferenceKey(ISimpleTerm<?> simpleTerm) {
simpleTerm = HibernateProxyHelper.deproxy(simpleTerm);
String key = simpleTerm.getClass().getName().concat(".")
.concat(simpleTerm.getUuid().toString());
return key;
}
-
-
/**
* Construct a unique key using the CdmBase object's uuid
- *
- * @param cdmBase
- * @return
*/
public static String getPreferenceKey(IDefinedTerm definedTerm) {
definedTerm = HibernateProxyHelper.deproxy(definedTerm);
IPreferenceKeys.TAXON_SERVICE_CONFIGURATOR_NAMES): true);
configurator.setDoTaxaByCommonNames(PreferencesUtil.getPreferenceStore().contains(IPreferenceKeys.TAXON_SERVICE_CONFIGURATOR_COMMON_NAMES)? PreferencesUtil.getPreferenceStore().getBoolean(
IPreferenceKeys.TAXON_SERVICE_CONFIGURATOR_COMMON_NAMES): true);
+ configurator.setDoIncludeAuthors(PreferencesUtil.getPreferenceStore().contains(IPreferenceKeys.TAXON_SERVICE_CONFIGURATOR_WITH_AUTHORS)? PreferencesUtil.getPreferenceStore().getBoolean(
+ IPreferenceKeys.TAXON_SERVICE_CONFIGURATOR_WITH_AUTHORS): false);
+ configurator.setIncludeUnpublished(PreferencesUtil.getPreferenceStore().contains(IPreferenceKeys.TAXON_SERVICE_CONFIGURATOR_UNPUBLISHED)? PreferencesUtil.getPreferenceStore().getBoolean(
+ IPreferenceKeys.TAXON_SERVICE_CONFIGURATOR_UNPUBLISHED): true);
//configurator.setMatchMode(eu.etaxonomy.cdm.persistence.query.MatchMode.valueOf(getStringValue(TAXON_SERVICE_CONFIGURATOR_MATCH_MODE)));
return configurator;
configurator.setDoSynonyms(true);
configurator.setDoNamesWithoutTaxa(true);
configurator.setDoTaxaByCommonNames(true);
-
+ configurator.setIncludeUnpublished(true);
+ configurator.setDoIncludeAuthors(false);
configurator.setTaxonPropertyPath(Arrays.asList("$", "titleCache",
"name", "name.$", "relationsFromThisTaxon.$"));
configurator.isDoNamesWithoutTaxa());
getPreferenceStore().setValue(TAXON_SERVICE_CONFIGURATOR_COMMON_NAMES,
configurator.isDoTaxaByCommonNames());
+ getPreferenceStore().setValue(TAXON_SERVICE_CONFIGURATOR_WITH_AUTHORS,
+ configurator.isDoIncludeAuthors());
+ getPreferenceStore().setValue(TAXON_SERVICE_CONFIGURATOR_UNPUBLISHED,
+ configurator.isIncludeUnpublished());
}
public static void firePreferencesChanged(Class clazz) {
public static String createPreferenceString(String property){
return prefKey(property);
-
}
public static String createOverridePreferenceString(String property){
return prefOverrideKey(property);
-
}
public static boolean getOverrideForPreference(String preferenceString){
getPreferenceStore().setDefault(TAXON_SERVICE_CONFIGURATOR_SYNONYMS, true);
getPreferenceStore().setDefault(TAXON_SERVICE_CONFIGURATOR_NAMES, true);
getPreferenceStore().setDefault(TAXON_SERVICE_CONFIGURATOR_COMMON_NAMES, true);
-
+ getPreferenceStore().setDefault(TAXON_SERVICE_CONFIGURATOR_WITH_AUTHORS, false);
//Name Details
// getPreferenceStore().setDefault(createPreferenceString(PreferencePredicate.NameDetailsView.getKey()), new NameDetailsConfigurator(false).toString());
getPreferenceStore().setDefault(createPreferenceString(prefOverrideKey(PreferencePredicate.ShowModifierFreeText.getKey())), false);
getPreferenceStore().setDefault(createPreferenceString(prefOverrideKey(PreferencePredicate.ShowModifier.getKey())), false);
getPreferenceStore().setDefault(createPreferenceString(prefOverrideKey(PreferencePredicate.DistributionEditorActivated.getKey())), false);
-
}
public static void checkNomenclaturalCode() {
if (PreferencesUtil.getPreferredNomenclaturalCode() == null) {
PreferencesUtil.setPreferredNomenclaturalCode(getPreferenceKey(NomenclaturalCode.ICNAFP), true);
}
-
-
-
}
+
public static void setNomenclaturalCodePreferences(){
ICdmRepository controller;
controller = CdmStore.getCurrentApplicationConfiguration();
setStringValue(PreferencePredicate.NomenclaturalCode.getKey(),
getPreferenceKey(preferredCode));
-
}
public static void checkDefaultLanguage(){
return false;
}
- public static TermTree getDefaultFeatureTreeForTextualDescription() {
+ public static TermTree<?> getDefaultFeatureTreeForTextualDescription() {
String uuidString = getStringValue(
FEATURE_TREE_DEFAULT_TEXT, true);
if (StringUtils.isBlank(uuidString)) {
return null;
}
- TermTree tree = CdmStore.getService(
+ TermTree<?> tree = CdmStore.getService(
ITermTreeService.class).load(UUID.fromString(uuidString));
if (tree == null || tree.getId() == 0) {
return tree;
}
- public static TermTree getDefaultFeatureTreeForStructuredDescription() {
+ public static TermTree<?> getDefaultFeatureTreeForStructuredDescription() {
String uuidString = getStringValue(
FEATURE_TREE_DEFAULT_STRUCTURE, true);
return StringUtils.isBlank(uuidString) ? null : CdmStore.getService(
public static Language getGlobalLanguage() {
-
String languageUuidString = getStringValue(
GLOBAL_LANGUAGE_UUID, true);
setStringValue(GLOBAL_LANGUAGE_UUID,language.getUuid().toString());
CdmStore.setDefaultLanguage(language);
}
-
}
public static Map<MarkerType, Boolean> getEditMarkerTypePreferences() {
List<MarkerType> markerTypes = CdmStore.getTermManager()
.getPreferredTerms(MarkerType.class);
- Map<MarkerType, Boolean> result = new HashMap<MarkerType, Boolean>();
+ Map<MarkerType, Boolean> result = new HashMap<>();
for (MarkerType markerType : markerTypes) {
String name = getMarkerTypeEditingPreferenceKey(markerType);
Boolean value = getBooleanValue(name);
-
result.put(markerType, value);
}
setBooleanValue(name,
markerTypeEditingMap.get(markerType));
}
-
}
private static String getMarkerTypeEditingPreferenceKey(
/**
* Retrieves a list of previously saved P2 repositories
- *
- * @return
*/
public static List<MetadataRepositoryElement> getP2Repositories() {
List<MetadataRepositoryElement> p2Repos = new ArrayList<MetadataRepositoryElement>();
continue;
}
boolean enabled = Boolean.parseBoolean(p2ReposStrST.nextToken());
- MetadataRepositoryElement mre = new MetadataRepositoryElement(null, uri, true);
+ MetadataRepositoryElement mre = new MetadataRepositoryElement(null, uri.getJavaUri(), true);
mre.setNickname(nickname);
mre.setEnabled(enabled);
p2Repos.add(mre);
}else{
setStringValue(PreferencePredicate.TaxonNodeOrder.getKey(), nodesOrder.key);
}
-
}
public static NavigatorOrderEnum getSortNodes() {
return NavigatorOrderEnum.valueOf(getStringValue(PreferencePredicate.TaxonNodeOrder.getKey()));
-
}
-
+
public static boolean isNodesSortedNaturally() {
NavigatorOrderEnum value = NavigatorOrderEnum.valueOf(getStringValue(PreferencePredicate.TaxonNodeOrder.getKey()));
return value.equals(NavigatorOrderEnum.NaturalOrder);
-
}
public static boolean isNodesSortedByName() {
NavigatorOrderEnum value = NavigatorOrderEnum.valueOf(getStringValue(PreferencePredicate.TaxonNodeOrder.getKey()));
return value.equals(NavigatorOrderEnum.AlphabeticalOrder);
-
}
public static boolean isNodesSortedByNameAndRank() {
NavigatorOrderEnum value = NavigatorOrderEnum.valueOf(getStringValue(PreferencePredicate.TaxonNodeOrder.getKey()));
return value.equals(NavigatorOrderEnum.RankAndNameOrder);
-
}
+
+ public static Comparator<TaxonNodeDto> getNodeComparator() {
+ Comparator<TaxonNodeDto> comparator;
+ NavigatorOrderEnum orderValue = NavigatorOrderEnum.RankAndNameOrder;
+ try{
+ orderValue = PreferencesUtil.getSortNodes();
+ }catch(IllegalArgumentException e){
+
+ }
+
+ if (orderValue.equals(NavigatorOrderEnum.NaturalOrder)){
+ comparator = new TaxonNodeDtoNaturalComparator();
+ } else if (orderValue.equals(NavigatorOrderEnum.AlphabeticalOrder)){
+ comparator = new TaxonNodeDtoByNameComparator();
+ }else {
+ comparator = new TaxonNodeDtoByRankAndNameComparator();
+ }
+ return comparator;
+ }
public static boolean isStoreNavigatorState() {
return getBooleanValue(RESTORE_NAVIGATOR_STATE);
-
}
public static void setStoreNavigatorState(boolean selection) {
setBooleanValue(RESTORE_NAVIGATOR_STATE, selection);
-
}
public static boolean isShowUpWidgetIsDisposedMessages() {
return getBooleanValue(IS_SHOW_UP_WIDGET_IS_DISPOSED);
}
+
public static void setShowUpWidgetIsDisposedMessages(boolean selection) {
setBooleanValue(IS_SHOW_UP_WIDGET_IS_DISPOSED, selection);
}
}else{
return false;
}
- }
+ }
public static boolean isShowSymbol2InChecklistEditor() {
String area_display = getStringValue(PreferencePredicate.DisplayOfAreasInDistributionEditor.getKey());
if (area_display.equals(TermDisplayEnum.Symbol2.getKey())) {
}else{
return false;
}
- }
+ }
+
public static void setAreaDisplayInChecklistEditor(String selection) {
setStringValue(PreferencePredicate.DisplayOfAreasInDistributionEditor.getKey(), selection);
}
}
return result;
}
+
public static void setDisplayStatusInChecklistEditor(String selection) {
setStringValue(PreferencePredicate.DisplayOfStatus.getKey(), selection);
-
}
public static boolean isShowRankInChecklistEditor() {
return getBooleanValue(PreferencePredicate.ShowRankInDistributionEditor.getKey());
}
+
public static void setShowRankInChecklistEditor(boolean selection) {
setBooleanValue(PreferencePredicate.ShowRankInDistributionEditor.getKey(), selection);
}
else{
setStringValue(PreferencePredicate.NameDetailsView.getKey(), config.toString());
}
-
-
}
private static Boolean getValue(Map<String, Boolean> sectionMap, String string) {
}else{
return true;
}
+ }
+
+ public static void extractSecundumForSubtreeConfiguratorFromPreferenceString(SecundumForSubtreeConfigurator config,
+ String configString) {
+ if(configString != null){
+ String[] configArray = configString.split(";");
+ for (String configItem: configArray){
+ String[] keyValue = configItem.split(":");
+ String keyString = keyValue[0];
+ String valueString = null;
+ if (keyValue.length>1){
+ valueString = keyValue[1];
+ if (keyValue.length>2){
+
+ for (int index = 2; index< keyValue.length; index++){
+ valueString += ":"+ keyValue[index];
+ }
+ }
+ }
+ if (keyString.equals("includeAcceptedTaxa")){
+ config.setIncludeAcceptedTaxa(Boolean.valueOf(valueString));
+ }else if (keyString.equals("includeSynonyms")){
+ config.setIncludeSynonyms(Boolean.valueOf(valueString));
+ }else if (keyString.equals("includeSharedTaxa")){
+ config.setIncludeSharedTaxa(Boolean.valueOf(valueString));
+ }else if (keyString.equals("includeProParteSynonyms")){
+ config.setIncludeProParteSynonyms(Boolean.valueOf(valueString));
+ }else if (keyString.equals("includeMisapplications")){
+ config.setIncludeMisapplications(Boolean.valueOf(valueString));
+ }else if (keyString.equals("overwriteExisting")){
+ config.setOverwriteExisting(Boolean.valueOf(valueString));
+ }else if (keyString.equals("emptySecundumDetail")){
+ config.setEmptySecundumDetail(Boolean.valueOf(valueString));
+ }else{
+ logger.debug("This key of the set secundum configurator needs to be added to the transformer: " + keyString);
+ }
+ }
+ }
}
public static Abcd206ImportConfigurator getDBAbcdImportConfigurationPreference() {
config.setRemoveCountryFromLocalityText(Boolean.valueOf(valueString));
}else if (keyString.equals("getSiblings")){
config.setGetSiblings(Boolean.valueOf(valueString));
+ }else if (keyString.equals("classificationUUID")){
+ if (valueString != null){
+ config.setClassificationUuid(UUID.fromString(valueString));
+ }
+ }else if (keyString.equals("classificationName")){
+ config.setClassificationName(valueString);
}else if (keyString.equals("dnaSource")){
try{
- config.setDnaSoure(URI.create(valueString));
+ if (StringUtils.isNotBlank(valueString)){
+ config.setDnaSoure(URI.create(valueString));
+ }
}catch(Exception e){
config.setDnaSoure(null);
}
}else{
logger.debug("This key of the abcd configurator needs to be added to the transformer: " + keyString);
}
-
-
}
}
}
+
public static Abcd206ImportConfigurator getLocalAbcdImportConfigurator(){
return getLocalAbcdImportConfigurator(true);
}
+
public static Abcd206ImportConfigurator getLocalAbcdImportConfigurator(boolean skipCheckOverride){
Abcd206ImportConfigurator config = Abcd206ImportConfigurator.NewInstance(null,null);
CdmPreference pref = CdmPreferenceCache.instance().get(PreferencePredicate.AbcdImportConfig.getKey());
return config;
- }
+ }
public static void updateAbcdImportConfigurationPreference() {
CdmPreferenceCache cache = CdmPreferenceCache.instance();
public static void resetToDBPreferenceAbcdCOnfigurator(){
Abcd206ImportConfigurator config = getDBAbcdImportConfigurationPreference();
setStringValue(PreferencePredicate.AbcdImportConfig.getKey(), config.toString());
-
}
public static boolean isSortTaxaByRankAndName() {
-
return getBooleanValue(PreferencePredicate.SortTaxaByRankAndName.getKey());
}
public static void setSortNamedAreasInDistributionEditor(String isSortByVocabularyOrder) {
setStringValue(PreferencePredicate.AreasSortedInDistributionEditor.getKey(), isSortByVocabularyOrder);
-
}
public static void setLastSelectedReference(
List<String> lastSelectedReferences) {
- setStringValue(PreferencesUtil.LAST_SELECTED_REFERENCES, lastSelectedReferences.toString());
+ setStringValue(IPreferenceKeys.LAST_SELECTED_REFERENCES, lastSelectedReferences.toString());
}
public static List<String> getLastSelectedReferences() {
//IPreferenceStore preferenceStore = PreferencesUtil.getPreferenceStore();
- String lastSelected = getStringValue(PreferencesUtil.LAST_SELECTED_REFERENCES, true);
+ String lastSelected = getStringValue(IPreferenceKeys.LAST_SELECTED_REFERENCES, true);
List<String> result = new ArrayList<>();
if (!StringUtils.isBlank(lastSelected)){
Collections.addAll(result, lastSelected.substring(1,lastSelected.length()-1).split(", "));
String saveCheckedElements, String saveGrayedElements, boolean local) {
if (local){
setStringValue(PreferencePredicate.AvailableDistributionAreaTerms.getKey(), saveCheckedElements);
-
}
else{
CdmPreference preference = null;
}
}
-
}
public static void setPreferredVocabulariesForDistributionEditor(String saveCheckedElements,
setBooleanValue(prefOverrideKey(PreferencePredicate.AvailableDistributionAreaVocabularies.getKey()), isOverride);
}
else{
- ICdmRepository controller;
CdmPreference preference = null;
if (saveCheckedElements == null){
setPreferenceToDB(preference);
setStringValue(PreferencePredicate.AvailableDistributionAreaVocabularies.getKey(),
saveCheckedElements);
-
}
}
}
} else{
return preference.getValue();
}
-
}
}
public static List<UUID> createUuidList(String prefValue) {
String[] stringArray = prefValue.split(";");
- List<UUID> uuidList = new ArrayList();
+ List<UUID> uuidList = new ArrayList<>();
for (String uuid: stringArray){
if (!StringUtils.isBlank(uuid)){
uuidList.add(UUID.fromString(uuid));
}
public static boolean getFilterCommonNameReferences(){
- Boolean result = getBooleanValue(PreferencePredicate.CommonNameReferencesWithMarker.getKey());
- if (result == null){
- return false;
- }
- return result;
+ return getBooleanValue(PreferencePredicate.CommonNameReferencesWithMarker.getKey());
}
public static void updateDBPreferences() {
-
CdmPreferenceCache cache = CdmPreferenceCache.instance();
cache.getAllTaxEditorDBPreferences();
- //ABCD Configurator
-
- //updateAbcdImportConfigurationPreference();
-
//Name Details
NameDetailsConfigurator config = getPreferredNameDetailsConfiguration(false);
- // if (config != null ){
- // if (!getBooleanValue(OVERRIDE_NAME_DETAILS) || !getBooleanValue(ALLOW_OVERRIDE_NAME_DETAILS)){
- // setPreferredNameDetailsConfiguration(config, false);
- // }
- // }
}
public static void setPreferencesToDB(List<CdmPreference> preferences) {
ICdmRepository controller;
- //try{
- if(CdmStore.isActive()){
- controller = CdmStore.getCurrentApplicationConfiguration();
- for (CdmPreference preference: preferences){
- if (preference.getValue() == null && preference.isAllowOverride()){
- controller.getPreferenceService().remove(preference.getKey());
-
- }else{
- controller.getPreferenceService().set(preference);
+ if(CdmStore.isActive()){
+ controller = CdmStore.getCurrentApplicationConfiguration();
+ for (CdmPreference preference: preferences){
+ if (preference.getValue() == null && preference.isAllowOverride()){
+ controller.getPreferenceService().remove(preference.getKey());
- }
+ }else{
+ controller.getPreferenceService().set(preference);
}
- CdmPreferenceCache.instance().getAllTaxEditorDBPreferences();
}
- /*}catch(Exception e){
- e.printStackTrace();
- }*/
+ CdmPreferenceCache.instance().getAllTaxEditorDBPreferences();
+ }
}
/**
/**
*
*/
- public static TermTree getPreferredFeatureTreeForNameDescription(boolean createNew) {
+ public static TermTree<?> getPreferredFeatureTreeForNameDescription(boolean createNew) {
if(preferredNameFeatureTree != null && !createNew){
return preferredNameFeatureTree;
}
createPreferredFeatureTreeForNameDescription();
return preferredNameFeatureTree;
-
}
public static void createPreferredFeatureTreeForNameDescription() {
CdmPreferenceCache cache = CdmPreferenceCache.instance();
CdmPreference pref = cache.get(PreferencePredicate.NameFeatures.getKey());
- List<Feature> terms = new ArrayList();
+ List<Feature> terms = new ArrayList<>();
boolean override = PreferencesUtil.getOverrideForPreference(PreferencePredicate.NameFeatures.getKey());
List<UUID> uuids = PreferencesUtil.createUUIDListFromStringPref(PreferencePredicate.NameFeatures.getKey(), false);
terms = CdmStore.getTermManager().getTerms(uuids, Feature.class);
}
-
-
-
if (terms.isEmpty()){
terms.addAll(TermStore.getTerms(CdmStore.getService(IVocabularyService.class).load(VocabularyEnum.NameFeature.getUuid()), null));
-
}
terms.remove(Feature.PROTOLOGUE());
if (terms.isEmpty()){
}else{
preferredNameFeatureTree = TermTree.NewInstance(terms);
}
-
-
}
- /**
- * @param prefsToDelete
- */
public static void removeFromDB(List<CdmPreference> prefsToDelete) {
ICdmRepository controller;
//try{
}
CdmPreferenceCache.instance().getAllTaxEditorDBPreferences();
}
-
}
-
public static void removeFromDB(CdmPreference prefToDelete) {
ICdmRepository controller;
CdmPreferenceCache.instance().getAllTaxEditorDBPreferences();
}
-
}
- /**
- * @return
- */
+
public static TermTree<?> getPreferredFeatureTreeForTaxonDescription(boolean createNew) {
if(preferredTaxonFeatureTree != null && !createNew){
return preferredTaxonFeatureTree;
}
createPreferredFeatureTreeForTaxonDescription();
return preferredTaxonFeatureTree;
-
}
public static void createPreferredFeatureTreeForTaxonDescription() {
}else{
preferredTaxonFeatureTree = TermTree.NewInstance(terms);
}
+ }
+ public static void setLastSelectedBiocaseProvider(String lastAccessPoint) {
+ setStringValue(LAST_USED_BIOCASE_PROVIDER, lastAccessPoint);
+ }
+ /**
+ * @return
+ */
+ public static boolean getLocalActive() {
+ // TODO: this needs to be adapted!!!
+ return true;
}
/**
- * @param lastAccessPoint
+ * @return
*/
- public static void setLastSelectedBiocaseProvider(String lastAccessPoint) {
- setStringValue(LAST_USED_BIOCASE_PROVIDER, lastAccessPoint);
+ public static boolean showGfbioMetaData() {
+ //TODO: needs to be adapted!!!
+ return false;
+ }
+
+ public static SecReferenceHandlingEnum getSecReferenceHandlingPreference(){
+
+ String defaultBehaviour = getStringValue(PreferencePredicate.DefaultBehaviourForSecundum.getKey());
+ SecReferenceHandlingEnum handling = null;
+ try{
+ handling = SecReferenceHandlingEnum.valueOf(defaultBehaviour);
+ }catch(IllegalArgumentException e){
+ handling = (SecReferenceHandlingEnum)PreferencePredicate.DefaultBehaviourForSecundum.getDefaultValue();
+ }
+ return handling;
+
+ }
+
+ public static SecReferenceHandlingSwapEnum getSecReferenceHandlingSwapPreference(){
+ String defaultBehaviour = getStringValue(PreferencePredicate.DefaultBehaviourForSecundumWhenSwap.getKey());
+ SecReferenceHandlingSwapEnum handling = null;
+ try{
+ handling = SecReferenceHandlingSwapEnum.valueOf(defaultBehaviour);
+ }catch (IllegalArgumentException e){
+ handling = (SecReferenceHandlingSwapEnum)PreferencePredicate.DefaultBehaviourForSecundumWhenSwap.getDefaultValue();
+ }
+ return handling;
+
}
+ public static EnabledComputedDescription getComputedDesciptionHandlingPreference(){
+ String defaultBehaviour= getStringValue(PreferencePredicate.EnableComputedDescription.getKey());
+ EnabledComputedDescription computedDescriptionsEnabled = (EnabledComputedDescription)PreferencePredicate.EnableComputedDescription.getDefaultValue();
+ if (StringUtils.isNotBlank(defaultBehaviour)){
+ try{
+ computedDescriptionsEnabled = EnabledComputedDescription.byKey(defaultBehaviour);
+ }catch(IllegalArgumentException e){
+ //do nothing, keep default value;
+ }
+ }
+ return computedDescriptionsEnabled;
+ }
+ public static boolean isComputedDesciptionHandlingDisabled(){
+ String defaultBehaviour= getStringValue(PreferencePredicate.EnableComputedDescription.getKey());
+ EnabledComputedDescription computedDescriptionsEnabled = null;
+ try{
+ computedDescriptionsEnabled = EnabledComputedDescription.byKey(defaultBehaviour);
+ }catch (IllegalArgumentException e){
+ computedDescriptionsEnabled = (EnabledComputedDescription)PreferencePredicate.EnableComputedDescription.getDefaultValue();
+ }
+ return computedDescriptionsEnabled.equals(EnabledComputedDescription.Disabled);
+
+ }
}
BGBM BDI Projects / taxeditor.git / blobdiff