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/**
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* Copyright (C) 2009 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.cdm.io.common;
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import java.lang.reflect.InvocationTargetException;
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import java.lang.reflect.Method;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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import java.util.List;
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import org.apache.logging.log4j.LogManager;import org.apache.logging.log4j.Logger;
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import org.jdom.Element;
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import org.jdom.Namespace;
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import eu.etaxonomy.cdm.common.CdmUtils;
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import eu.etaxonomy.cdm.hibernate.HibernateProxyHelper;
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import eu.etaxonomy.cdm.model.common.AnnotatableEntity;
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import eu.etaxonomy.cdm.model.common.Annotation;
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import eu.etaxonomy.cdm.model.common.CdmBase;
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import eu.etaxonomy.cdm.model.common.ICdmBase;
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import eu.etaxonomy.cdm.model.common.IdentifiableEntity;
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import eu.etaxonomy.cdm.model.common.IdentifiableSource;
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import eu.etaxonomy.cdm.model.common.Language;
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import eu.etaxonomy.cdm.model.common.VerbatimTimePeriod;
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import eu.etaxonomy.cdm.model.description.DescriptionElementBase;
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import eu.etaxonomy.cdm.model.description.DescriptionElementSource;
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import eu.etaxonomy.cdm.model.name.TaxonName;
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import eu.etaxonomy.cdm.model.reference.IOriginalSource;
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import eu.etaxonomy.cdm.model.reference.ISourceable;
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import eu.etaxonomy.cdm.model.reference.OriginalSourceType;
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import eu.etaxonomy.cdm.model.reference.Reference;
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import eu.etaxonomy.cdm.strategy.parser.TimePeriodParser;
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/**
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* @author a.mueller
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*
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*/
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public class ImportHelper {
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private static final Logger logger = LogManager.getLogger(ImportHelper.class);
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public static final boolean OVERWRITE = true;
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public static final boolean NO_OVERWRITE = false;
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public static final boolean OBLIGATORY = true;
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public static final boolean FACULTATIVE = false;
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public static boolean setOriginalSource(ISourceable<?> sourceable, Reference sourceReference, long sourceId, String namespace){
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return setOriginalSource(sourceable, sourceReference, String.valueOf(sourceId), namespace);
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}
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/**
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* Adds an original source object to the identifiable entity.
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* @param idEntity
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* @param sourceReference
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* @param sourceId
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* @return
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*/
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public static boolean setOriginalSource(@SuppressWarnings("rawtypes") ISourceable sourceable,
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Reference sourceReference, String sourceId, String namespace){
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IOriginalSource originalSource;
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OriginalSourceType type = OriginalSourceType.Import;
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if (HibernateProxyHelper.isInstanceOf(sourceable, IdentifiableEntity.class)){
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originalSource = IdentifiableSource.NewInstance(type, sourceId, namespace, sourceReference, null);
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}else if (HibernateProxyHelper.isInstanceOf(sourceable, DescriptionElementBase.class)){
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originalSource = DescriptionElementSource.NewInstance(type, sourceId, namespace, sourceReference, null);
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}else{
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throw new ClassCastException("Unknown implementing class for ISourceable "+ sourceable.getClass() + " . Not supported bei ImportHelper.");
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}
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sourceable.addSource(originalSource);
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return true;
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}
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public static boolean addStringValue(ResultSet rs, CdmBase cdmBase, String dbAttrName, String cdmAttrName, boolean blankToNull){
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return addValue(rs, cdmBase, dbAttrName, cdmAttrName, String.class, OVERWRITE, blankToNull);
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}
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// public static boolean addStringValue(ResultSet rs, CdmBase cdmBase, String dbAttrName, String cdmAttrName, boolean overwriteNull){
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// return addValue(rs, cdmBase, dbAttrName, cdmAttrName, String.class, overwriteNull);
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// }
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public static boolean addBooleanValue(ResultSet rs, ICdmBase cdmBase, String dbAttrName, String cdmAttrName){
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return addValue(rs, cdmBase, dbAttrName, cdmAttrName, boolean.class, OVERWRITE, false);
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}
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public static boolean addValue(ResultSet rs, ICdmBase cdmBase, String dbAttrName, String cdmAttrName,
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Class<?> clazz, boolean overwriteNull, boolean blankToNull){
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Object strValue;
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try {
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strValue = rs.getObject(dbAttrName);
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if (strValue instanceof String){
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strValue = ((String)strValue).trim();
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if (blankToNull && strValue.equals("")){
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strValue = null;
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}
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}
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return addValue(strValue, cdmBase, cdmAttrName, clazz, overwriteNull, OBLIGATORY);
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}catch (SQLException e) {
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logger.error("SQLException: " + e);
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return false;
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}
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}
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public static boolean addXmlStringValue(Element root, CdmBase cdmBase, String xmlElementName, Namespace namespace, String cdmAttrName){
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return addXmlValue(root, cdmBase, xmlElementName, namespace, cdmAttrName, String.class, OVERWRITE);
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}
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public static boolean addXmlStringValue(Element root, CdmBase cdmBase, String xmlElementName, Namespace namespace, String cdmAttrName, boolean overwriteNull){
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return addXmlValue(root, cdmBase, xmlElementName, namespace, cdmAttrName, String.class, overwriteNull);
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}
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public static boolean addXmlBooleanValue(Element root, CdmBase cdmBase, String xmlElementName, Namespace namespace, String cdmAttrName){
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return addXmlValue(root, cdmBase, xmlElementName, namespace, cdmAttrName, boolean.class, OVERWRITE);
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}
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public static boolean addXmlValue(Element root, CdmBase cdmBase, String xmlElementName, Namespace namespace,
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String cdmAttrName, Class<?> clazz, boolean overwriteNull){
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return addXmlValue(root, cdmBase, xmlElementName, namespace, cdmAttrName, clazz, overwriteNull, OBLIGATORY);
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}
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public static boolean addXmlValue(Element root, CdmBase cdmBase, String xmlElementName, Namespace namespace,
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String cdmAttrName, Class<?> clazz, boolean overwriteNull, boolean obligat){
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Object strValue;
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strValue = getXmlInputValue(root, xmlElementName, namespace);
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return addValue(strValue, cdmBase, cdmAttrName, clazz, overwriteNull, obligat);
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}
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public static boolean addValue(Object sourceValue, ICdmBase cdmBase, String cdmAttrName, Class<?> clazz, boolean overwriteNull, boolean obligat){
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String methodName;
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// Object strValue;
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try {
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if (overwriteNull == NO_OVERWRITE && sourceValue == null ){
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if (logger.isDebugEnabled()) { logger.debug("no overwrite for NULL-value");}
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return true;
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}
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if (logger.isDebugEnabled()) { logger.debug("addValue: " + sourceValue);}
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methodName = getSetterMethodName(clazz, cdmAttrName);
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Method cdmMethod = cdmBase.getClass().getMethod(methodName, clazz);
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cdmMethod.invoke(cdmBase, sourceValue);
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return true;
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} catch (NullPointerException e) {
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logger.error("NullPointerException: " + e.getMessage());
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return false;
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} catch (IllegalArgumentException e) {
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logger.error("IllegalArgumentException: " + e.getMessage());
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return false;
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} catch (IllegalAccessException e) {
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logger.error("IllegalAccessException: " + e.getMessage());
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return false;
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} catch (InvocationTargetException e) {
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logger.error("InvocationTargetException: " + e.getMessage());
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return false;
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}catch (SecurityException e) {
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logger.error("SecurityException: " + e.getMessage());
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return false;
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} catch (NoSuchMethodException e) {
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if (obligat){
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logger.error("NoSuchMethod: " + e.getMessage());
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return false;
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}else{
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if (logger.isDebugEnabled()){ logger.debug("NoSuchMethod: " + e.getMessage());}
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return true;
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}
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}
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}
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/**
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* @param clazz either boolean or other class (for boolean the naming strategy is different !)
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* @param cdmAttrName
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* @return
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// * @throws IllegalArgumentException if a clazz is not yet supported
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*/
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public static String getSetterMethodName(Class<?> clazz, String cdmAttrName) {
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return getSetterPutterMethodName(clazz, cdmAttrName, "set");
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}
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/**
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* @param clazz either boolean or other class (for boolean the naming strategy is different !)
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* @param cdmAttrName
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* @return
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// * @throws IllegalArgumentException if a clazz is not yet supported
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*/
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public static String getPutterMethodName(Class<?> clazz, String cdmAttrName) {
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return getSetterPutterMethodName(clazz, cdmAttrName, "put");
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}
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/**
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* @param clazz either boolean or other class (for boolean the naming strategy is different !)
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* @param cdmAttrName
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* @return
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// * @throws IllegalArgumentException if a clazz is not yet supported
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*/
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private static String getSetterPutterMethodName(Class<?> clazz, String cdmAttrName, String prefix) {
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String methodName;
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if (clazz == boolean.class || clazz == Boolean.class){
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if (cdmAttrName == null || cdmAttrName.length() < 1 ){
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throw new IllegalArgumentException("boolean CdmAttributeName should have atleast 3 characters");
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}
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methodName = prefix + cdmAttrName.substring(2, 3).toUpperCase() + cdmAttrName.substring(3) ;
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}else {
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if (cdmAttrName == null || cdmAttrName.length() < 1 ){
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throw new IllegalArgumentException("CdmAttributeName should have atleast 1 character");
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}
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methodName = prefix + cdmAttrName.substring(0, 1).toUpperCase() + cdmAttrName.substring(1) ;
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}
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return methodName;
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}
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private static boolean valuesAreNull(List<Object> values){
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for (Object sourceValue : values.toArray()){
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if (sourceValue != null){
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return false;
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}
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}
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return true;
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}
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public static boolean addMultipleValues(List<Object> sourceValues, CdmBase cdmBase, String cdmAttrName,
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@SuppressWarnings("rawtypes") List<Class> classes, boolean overwriteNull, boolean obligat){
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229
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String methodName;
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// Object strValue;
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try {
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232
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233
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if (overwriteNull == NO_OVERWRITE && valuesAreNull(sourceValues)){
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if (logger.isDebugEnabled()) { logger.debug("no overwrite for NULL-value");}
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return true;
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236
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}
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if (logger.isDebugEnabled()) { logger.debug("addValues: " + sourceValues.toString());}
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238
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239
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240
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if (cdmAttrName == null || cdmAttrName.length() < 1 ){
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throw new IllegalArgumentException("CdmAttributeName should have atleast 1 character");
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}
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methodName = "add" + cdmAttrName.substring(0, 1).toUpperCase() + cdmAttrName.substring(1) ;
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Class<?>[] classArray = classes.toArray(new Class[0]);
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Method cdmMethod = cdmBase.getClass().getMethod(methodName, classArray);
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cdmMethod.invoke(cdmBase, sourceValues.toArray());
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return true;
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249
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} catch (NullPointerException e) {
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250
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logger.error("NullPointerException: " + e.getMessage());
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251
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return false;
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252
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} catch (IllegalArgumentException e) {
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253
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logger.error("IllegalArgumentException: " + e.getMessage());
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254
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return false;
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255
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} catch (IllegalAccessException e) {
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256
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logger.error("IllegalAccessException: " + e.getMessage());
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257
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return false;
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258
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} catch (InvocationTargetException e) {
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259
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logger.error("InvocationTargetException: " + e.getMessage());
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260
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return false;
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261
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}catch (SecurityException e) {
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262
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logger.error("SecurityException: " + e.getMessage());
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263
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return false;
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264
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} catch (NoSuchMethodException e) {
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265
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if (obligat){
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266
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logger.error("NoSuchMethod: " + e.getMessage());
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267
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return false;
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268
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}else{
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269
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if (logger.isDebugEnabled()){ logger.debug("NoSuchMethod: " + e.getMessage());}
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270
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return true;
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271
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}
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272
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}
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273
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274
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}
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275
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276
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public static boolean addAnnotationFromResultSet(ResultSet rs, String attributeName, AnnotatableEntity cdmBase, Language language){
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277
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try {
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278
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String value = rs.getString(attributeName);
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279
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if (CdmUtils.Nz(value).equals("")){
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280
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String strAnnotation = attributeName + ": " + value;
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281
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Annotation annoatation = Annotation.NewInstance(strAnnotation, language);
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282
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cdmBase.addAnnotation(annoatation);
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283
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284
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}
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285
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return true;
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286
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} catch (SQLException e) {
|
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287
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logger.warn(e);
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288
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e.printStackTrace();
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289
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return false;
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|
290
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}
|
|
291
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}
|
|
292
|
|
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293
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public static Object getXmlInputValue(Element root, String xmlElementName, Namespace namespace){
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294
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Object result = null;
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295
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Element child = root.getChild(xmlElementName, namespace);
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296
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if (child != null){
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297
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result = child.getText().trim();
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298
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}
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299
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return result;
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|
300
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}
|
|
301
|
|
|
302
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public static VerbatimTimePeriod getDatePublished(String refYear){
|
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303
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VerbatimTimePeriod resultNew;
|
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304
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try {
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305
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resultNew = TimePeriodParser.parseStringVerbatim(refYear);
|
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306
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} catch (IllegalArgumentException e) {
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307
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logger.warn("RefYear could not be parsed: " + refYear);
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308
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resultNew = null;
|
|
309
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}
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|
310
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return resultNew;
|
|
311
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}
|
|
312
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|
|
313
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//************** EXPORT *******************/
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|
314
|
|
|
315
|
|
|
316
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public static<T extends Object> T getValue(CdmBase cdmBase, String cdmAttrName,
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|
317
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boolean isBoolean, boolean obligatory){
|
|
318
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try {
|
|
319
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String methodName = getGetterMethodName(cdmAttrName, isBoolean);
|
|
320
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if (cdmBase.isInstanceOf(TaxonName.class)){
|
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321
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cdmBase = CdmBase.deproxy(cdmBase);
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|
322
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}
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|
323
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Method cdmMethod = cdmBase.getClass().getMethod(methodName);
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324
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@SuppressWarnings("unchecked")
|
|
325
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T result = (T)cdmMethod.invoke(cdmBase);
|
|
326
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return result;
|
|
327
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} catch (NullPointerException e) {
|
|
328
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logger.error("NullPointerException: " + e.getMessage());
|
|
329
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return null;
|
|
330
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} catch (IllegalArgumentException e) {
|
|
331
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logger.error("IllegalArgumentException: " + e.getMessage());
|
|
332
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return null;
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|
333
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} catch (IllegalAccessException e) {
|
|
334
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logger.error("IllegalAccessException: " + e.getMessage());
|
|
335
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return null;
|
|
336
|
} catch (InvocationTargetException e) {
|
|
337
|
logger.error("InvocationTargetException: " + e.getMessage());
|
|
338
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return null;
|
|
339
|
}catch (SecurityException e) {
|
|
340
|
logger.error("SecurityException: " + e.getMessage());
|
|
341
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return null;
|
|
342
|
} catch (NoSuchMethodException e) {
|
|
343
|
if (obligatory){
|
|
344
|
logger.error("NoSuchMethod: " + e.getMessage());
|
|
345
|
return null;
|
|
346
|
}else{
|
|
347
|
if (logger.isDebugEnabled()){ logger.debug("NoSuchMethod: " + e.getMessage());}
|
|
348
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return null;
|
|
349
|
}
|
|
350
|
}
|
|
351
|
}
|
|
352
|
|
|
353
|
/**
|
|
354
|
* @param cdmAttrName
|
|
355
|
* @param isBoolean
|
|
356
|
* @return
|
|
357
|
*/
|
|
358
|
public static String getGetterMethodName(String cdmAttrName, boolean isBoolean) {
|
|
359
|
String methodName;
|
|
360
|
if (isBoolean){
|
|
361
|
if (cdmAttrName == null || cdmAttrName.length() < 3 || !( cdmAttrName.startsWith("is") || cdmAttrName.startsWith("use")) ){
|
|
362
|
throw new IllegalArgumentException("boolean CdmAttributeName should have atleast 3 characters and start with 'is' or 'use': " + cdmAttrName);
|
|
363
|
}
|
|
364
|
methodName = cdmAttrName ;
|
|
365
|
}else {
|
|
366
|
if (cdmAttrName == null || cdmAttrName.length() < 1 ){
|
|
367
|
throw new IllegalArgumentException("CdmAttributeName should have atleast 1 character");
|
|
368
|
}
|
|
369
|
methodName = "get" + cdmAttrName.substring(0, 1).toUpperCase() + cdmAttrName.substring(1) ;
|
|
370
|
}
|
|
371
|
return methodName;
|
|
372
|
}
|
|
373
|
|
|
374
|
}
|