towards EOSC datasource profiles #130
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@ -38,8 +38,7 @@ import scala.Tuple2;
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/**
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* Groups the graph content by entity identifier to ensure ID uniqueness
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*/
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public class
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GroupEntitiesSparkJob {
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public class GroupEntitiesSparkJob {
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private static final Logger log = LoggerFactory.getLogger(GroupEntitiesSparkJob.class);
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@ -22,7 +22,6 @@ import org.apache.spark.util.LongAccumulator;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import com.google.common.collect.Maps;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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@ -42,61 +41,51 @@ public class XmlConverterJob {
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public static final String schemaLocation = "https://www.openaire.eu/schema/1.0/oaf-1.0.xsd";
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public static void main(String[] args) throws Exception {
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public static void main(final String[] args) throws Exception {
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(
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IOUtils
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.toString(
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XmlConverterJob.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/oa/provision/input_params_xml_converter.json")));
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.getResourceAsStream("/eu/dnetlib/dhp/oa/provision/input_params_xml_converter.json")));
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parser.parseArgument(args);
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Boolean isSparkSessionManaged = Optional
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final Boolean isSparkSessionManaged = Optional
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.ofNullable(parser.get("isSparkSessionManaged"))
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.map(Boolean::valueOf)
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.orElse(Boolean.TRUE);
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log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
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String inputPath = parser.get("inputPath");
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final String inputPath = parser.get("inputPath");
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log.info("inputPath: {}", inputPath);
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String outputPath = parser.get("outputPath");
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final String outputPath = parser.get("outputPath");
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log.info("outputPath: {}", outputPath);
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String isLookupUrl = parser.get("isLookupUrl");
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final String isLookupUrl = parser.get("isLookupUrl");
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log.info("isLookupUrl: {}", isLookupUrl);
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String otherDsTypeId = parser.get("otherDsTypeId");
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log.info("otherDsTypeId: {}", otherDsTypeId);
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SparkConf conf = new SparkConf();
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final SparkConf conf = new SparkConf();
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conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
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conf.registerKryoClasses(ProvisionModelSupport.getModelClasses());
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runWithSparkSession(
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conf,
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isSparkSessionManaged,
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spark -> {
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runWithSparkSession(conf, isSparkSessionManaged, spark -> {
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removeOutputDir(spark, outputPath);
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convertToXml(
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spark, inputPath, outputPath, ContextMapper.fromIS(isLookupUrl), otherDsTypeId);
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convertToXml(spark, inputPath, outputPath, ContextMapper.fromIS(isLookupUrl));
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});
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}
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private static void convertToXml(
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SparkSession spark,
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String inputPath,
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String outputPath,
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ContextMapper contextMapper,
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String otherDsTypeId) {
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final SparkSession spark,
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final String inputPath,
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final String outputPath,
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final ContextMapper contextMapper) {
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final XmlRecordFactory recordFactory = new XmlRecordFactory(
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prepareAccumulators(spark.sparkContext()),
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contextMapper,
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false,
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schemaLocation,
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otherDsTypeId);
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schemaLocation);
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final List<String> paths = HdfsSupport
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.listFiles(inputPath, spark.sparkContext().hadoopConfiguration());
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@ -116,16 +105,15 @@ public class XmlConverterJob {
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.mapToPair(
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(PairFunction<Tuple2<String, String>, Text, Text>) t -> new Tuple2<>(new Text(t._1()),
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new Text(t._2())))
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.saveAsHadoopFile(
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outputPath, Text.class, Text.class, SequenceFileOutputFormat.class, GzipCodec.class);
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.saveAsHadoopFile(outputPath, Text.class, Text.class, SequenceFileOutputFormat.class, GzipCodec.class);
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}
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private static void removeOutputDir(SparkSession spark, String path) {
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private static void removeOutputDir(final SparkSession spark, final String path) {
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HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
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}
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private static Map<String, LongAccumulator> prepareAccumulators(SparkContext sc) {
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Map<String, LongAccumulator> accumulators = Maps.newHashMap();
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private static Map<String, LongAccumulator> prepareAccumulators(final SparkContext sc) {
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final Map<String, LongAccumulator> accumulators = Maps.newHashMap();
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accumulators
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.put(
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"resultResult_similarity_isAmongTopNSimilarDocuments",
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@ -136,15 +124,13 @@ public class XmlConverterJob {
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sc.longAccumulator("resultResult_similarity_hasAmongTopNSimilarDocuments"));
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accumulators
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.put(
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"resultResult_supplement_isSupplementTo",
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sc.longAccumulator("resultResult_supplement_isSupplementTo"));
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"resultResult_supplement_isSupplementTo", sc.longAccumulator("resultResult_supplement_isSupplementTo"));
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accumulators
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.put(
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"resultResult_supplement_isSupplementedBy",
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sc.longAccumulator("resultResult_supplement_isSupplementedBy"));
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accumulators
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.put(
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"resultResult_dedup_isMergedIn", sc.longAccumulator("resultResult_dedup_isMergedIn"));
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.put("resultResult_dedup_isMergedIn", sc.longAccumulator("resultResult_dedup_isMergedIn"));
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accumulators.put("resultResult_dedup_merges", sc.longAccumulator("resultResult_dedup_merges"));
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accumulators
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@ -152,16 +138,11 @@ public class XmlConverterJob {
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"resultResult_publicationDataset_isRelatedTo",
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sc.longAccumulator("resultResult_publicationDataset_isRelatedTo"));
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accumulators
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.put(
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"resultResult_relationship_isRelatedTo",
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sc.longAccumulator("resultResult_relationship_isRelatedTo"));
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.put("resultResult_relationship_isRelatedTo", sc.longAccumulator("resultResult_relationship_isRelatedTo"));
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accumulators
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.put(
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"resultProject_outcome_isProducedBy",
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sc.longAccumulator("resultProject_outcome_isProducedBy"));
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.put("resultProject_outcome_isProducedBy", sc.longAccumulator("resultProject_outcome_isProducedBy"));
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accumulators
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.put(
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"resultProject_outcome_produces", sc.longAccumulator("resultProject_outcome_produces"));
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.put("resultProject_outcome_produces", sc.longAccumulator("resultProject_outcome_produces"));
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accumulators
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.put(
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"resultOrganization_affiliation_isAuthorInstitutionOf",
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@ -184,9 +165,7 @@ public class XmlConverterJob {
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"organizationOrganization_dedup_isMergedIn",
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sc.longAccumulator("organizationOrganization_dedup_isMergedIn"));
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accumulators
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.put(
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"organizationOrganization_dedup_merges",
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sc.longAccumulator("resultProject_outcome_produces"));
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.put("organizationOrganization_dedup_merges", sc.longAccumulator("resultProject_outcome_produces"));
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accumulators
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.put(
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"datasourceOrganization_provision_isProvidedBy",
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@ -1,7 +1,8 @@
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package eu.dnetlib.dhp.oa.provision.utils;
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import static eu.dnetlib.dhp.oa.provision.utils.GraphMappingUtils.*;
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import static eu.dnetlib.dhp.oa.provision.utils.GraphMappingUtils.authorPidTypes;
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import static eu.dnetlib.dhp.oa.provision.utils.GraphMappingUtils.getRelDescriptor;
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import static org.apache.commons.lang3.StringUtils.isNotBlank;
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import static org.apache.commons.lang3.StringUtils.substringBefore;
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@ -9,14 +10,23 @@ import java.io.IOException;
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import java.io.Serializable;
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import java.io.StringReader;
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import java.io.StringWriter;
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import java.util.*;
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import java.util.ArrayList;
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import java.util.HashSet;
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import java.util.List;
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import java.util.Map;
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import java.util.Objects;
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import java.util.Optional;
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import java.util.Set;
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import java.util.stream.Collectors;
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import javax.xml.transform.*;
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import javax.xml.transform.OutputKeys;
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import javax.xml.transform.Transformer;
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import javax.xml.transform.TransformerConfigurationException;
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import javax.xml.transform.TransformerException;
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import javax.xml.transform.TransformerFactory;
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import javax.xml.transform.dom.DOMSource;
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import javax.xml.transform.stream.StreamResult;
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import eu.dnetlib.dhp.schema.oaf.utils.IdentifierFactory;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.spark.util.LongAccumulator;
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import org.dom4j.Document;
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@ -36,19 +46,38 @@ import com.google.common.collect.Sets;
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import com.mycila.xmltool.XMLDoc;
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import com.mycila.xmltool.XMLTag;
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import eu.dnetlib.dhp.oa.provision.model.*;
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import eu.dnetlib.dhp.oa.provision.model.JoinedEntity;
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import eu.dnetlib.dhp.oa.provision.model.RelatedEntity;
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import eu.dnetlib.dhp.oa.provision.model.RelatedEntityWrapper;
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import eu.dnetlib.dhp.schema.common.EntityType;
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import eu.dnetlib.dhp.schema.common.MainEntityType;
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import eu.dnetlib.dhp.schema.common.ModelConstants;
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import eu.dnetlib.dhp.schema.common.ModelSupport;
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import eu.dnetlib.dhp.schema.oaf.*;
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import eu.dnetlib.dhp.schema.oaf.Dataset;
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import eu.dnetlib.dhp.schema.oaf.Datasource;
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import eu.dnetlib.dhp.schema.oaf.ExternalReference;
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import eu.dnetlib.dhp.schema.oaf.ExtraInfo;
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import eu.dnetlib.dhp.schema.oaf.Instance;
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import eu.dnetlib.dhp.schema.oaf.Journal;
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import eu.dnetlib.dhp.schema.oaf.KeyValue;
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import eu.dnetlib.dhp.schema.oaf.OafEntity;
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import eu.dnetlib.dhp.schema.oaf.Organization;
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import eu.dnetlib.dhp.schema.oaf.OtherResearchProduct;
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import eu.dnetlib.dhp.schema.oaf.Project;
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import eu.dnetlib.dhp.schema.oaf.Publication;
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import eu.dnetlib.dhp.schema.oaf.Relation;
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import eu.dnetlib.dhp.schema.oaf.Result;
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import eu.dnetlib.dhp.schema.oaf.Software;
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import eu.dnetlib.dhp.schema.oaf.utils.IdentifierFactory;
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public class XmlRecordFactory implements Serializable {
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private final Map<String, LongAccumulator> accumulators;
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/**
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*
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*/
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private static final long serialVersionUID = 2912912999272373172L;
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private final Set<String> specialDatasourceTypes;
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private final Map<String, LongAccumulator> accumulators;
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private final ContextMapper contextMapper;
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@ -61,23 +90,20 @@ public class XmlRecordFactory implements Serializable {
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public XmlRecordFactory(
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final ContextMapper contextMapper,
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final boolean indent,
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final String schemaLocation,
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final String otherDatasourceTypesUForUI) {
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final String schemaLocation) {
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this(Maps.newHashMap(), contextMapper, indent, schemaLocation, otherDatasourceTypesUForUI);
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this(Maps.newHashMap(), contextMapper, indent, schemaLocation);
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}
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public XmlRecordFactory(
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||||
final Map<String, LongAccumulator> accumulators,
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final ContextMapper contextMapper,
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final boolean indent,
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final String schemaLocation,
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final String otherDatasourceTypesUForUI) {
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final String schemaLocation) {
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this.accumulators = accumulators;
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this.contextMapper = contextMapper;
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this.schemaLocation = schemaLocation;
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this.specialDatasourceTypes = Sets.newHashSet(Splitter.on(",").trimResults().split(otherDatasourceTypesUForUI));
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this.indent = indent;
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}
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@ -87,8 +113,8 @@ public class XmlRecordFactory implements Serializable {
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final Set<String> contexts = Sets.newHashSet();
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// final OafEntity entity = toOafEntity(je.getEntity());
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OafEntity entity = je.getEntity();
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TemplateFactory templateFactory = new TemplateFactory();
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final OafEntity entity = je.getEntity();
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final TemplateFactory templateFactory = new TemplateFactory();
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try {
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final EntityType type = EntityType.fromClass(entity.getClass());
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@ -110,11 +136,7 @@ public class XmlRecordFactory implements Serializable {
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|||
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final String body = templateFactory
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||||
.buildBody(
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||||
mainType,
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||||
metadata,
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||||
relations,
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listChildren(entity, je, templateFactory),
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||||
listExtraInfo(entity));
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||||
mainType, metadata, relations, listChildren(entity, je, templateFactory), listExtraInfo(entity));
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||||
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||||
return printXML(templateFactory.buildRecord(entity, schemaLocation, body), indent);
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} catch (final Throwable e) {
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|
@ -142,19 +164,19 @@ public class XmlRecordFactory implements Serializable {
|
|||
default:
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||||
throw new IllegalArgumentException("invalid type: " + type);
|
||||
}
|
||||
} catch (IOException e) {
|
||||
} catch (final IOException e) {
|
||||
throw new IllegalArgumentException(e);
|
||||
}
|
||||
}
|
||||
|
||||
private String printXML(String xml, boolean indent) {
|
||||
private String printXML(final String xml, final boolean indent) {
|
||||
try {
|
||||
final Document doc = new SAXReader().read(new StringReader(xml));
|
||||
OutputFormat format = indent ? OutputFormat.createPrettyPrint() : OutputFormat.createCompactFormat();
|
||||
final OutputFormat format = indent ? OutputFormat.createPrettyPrint() : OutputFormat.createCompactFormat();
|
||||
format.setExpandEmptyElements(false);
|
||||
format.setSuppressDeclaration(true);
|
||||
StringWriter sw = new StringWriter();
|
||||
XMLWriter writer = new XMLWriter(sw, format);
|
||||
final StringWriter sw = new StringWriter();
|
||||
final XMLWriter writer = new XMLWriter(sw, format);
|
||||
writer.write(doc);
|
||||
return sw.toString();
|
||||
} catch (IOException | DocumentException e) {
|
||||
|
|
@ -163,7 +185,9 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
|
||||
private List<String> metadata(
|
||||
final EntityType type, final OafEntity entity, final Set<String> contexts) {
|
||||
final EntityType type,
|
||||
final OafEntity entity,
|
||||
final Set<String> contexts) {
|
||||
|
||||
final List<String> metadata = Lists.newArrayList();
|
||||
|
||||
|
|
@ -230,16 +254,14 @@ public class XmlRecordFactory implements Serializable {
|
|||
.getAuthor()
|
||||
.stream()
|
||||
.filter(Objects::nonNull)
|
||||
.map(
|
||||
a -> {
|
||||
.map(a -> {
|
||||
final StringBuilder sb = new StringBuilder("<creator rank=\"" + a.getRank() + "\"");
|
||||
if (isNotBlank(a.getName())) {
|
||||
sb.append(" name=\"" + XmlSerializationUtils.escapeXml(a.getName()) + "\"");
|
||||
}
|
||||
if (isNotBlank(a.getSurname())) {
|
||||
sb
|
||||
.append(
|
||||
" surname=\"" + XmlSerializationUtils.escapeXml(a.getSurname()) + "\"");
|
||||
.append(" surname=\"" + XmlSerializationUtils.escapeXml(a.getSurname()) + "\"");
|
||||
}
|
||||
if (a.getPid() != null) {
|
||||
a
|
||||
|
|
@ -252,26 +274,22 @@ public class XmlRecordFactory implements Serializable {
|
|||
.collect(
|
||||
Collectors
|
||||
.toMap(
|
||||
p -> getAuthorPidType(p.getQualifier().getClassid()),
|
||||
p -> p,
|
||||
p -> getAuthorPidType(p.getQualifier().getClassid()), p -> p,
|
||||
(p1, p2) -> p1))
|
||||
.values()
|
||||
.stream()
|
||||
.collect(
|
||||
Collectors
|
||||
.groupingBy(
|
||||
p -> p.getValue(),
|
||||
Collectors
|
||||
p -> p.getValue(), Collectors
|
||||
.mapping(
|
||||
p -> p,
|
||||
Collectors.minBy(new AuthorPidTypeComparator()))))
|
||||
p -> p, Collectors.minBy(new AuthorPidTypeComparator()))))
|
||||
.values()
|
||||
.stream()
|
||||
.map(op -> op.get())
|
||||
.forEach(
|
||||
sp -> {
|
||||
String pidType = getAuthorPidType(sp.getQualifier().getClassid());
|
||||
String pidValue = XmlSerializationUtils.escapeXml(sp.getValue());
|
||||
.forEach(sp -> {
|
||||
final String pidType = getAuthorPidType(sp.getQualifier().getClassid());
|
||||
final String pidValue = XmlSerializationUtils.escapeXml(sp.getValue());
|
||||
|
||||
// ugly hack: some records provide swapped pidtype and pidvalue
|
||||
if (authorPidTypes.contains(pidValue.toLowerCase().trim())) {
|
||||
|
|
@ -282,9 +300,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
.append(
|
||||
String
|
||||
.format(
|
||||
" %s=\"%s\"",
|
||||
pidType,
|
||||
pidValue
|
||||
" %s=\"%s\"", pidType, pidValue
|
||||
.toLowerCase()
|
||||
.replaceAll("^.*orcid\\.org\\/", "")));
|
||||
}
|
||||
|
|
@ -292,8 +308,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
});
|
||||
}
|
||||
sb
|
||||
.append(
|
||||
">" + XmlSerializationUtils.escapeXml(a.getFullname()) + "</creator>");
|
||||
.append(">" + XmlSerializationUtils.escapeXml(a.getFullname()) + "</creator>");
|
||||
return sb.toString();
|
||||
})
|
||||
.collect(Collectors.toList()));
|
||||
|
|
@ -332,8 +347,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"dateofacceptance", r.getDateofacceptance().getValue()));
|
||||
.asXmlElement("dateofacceptance", r.getDateofacceptance().getValue()));
|
||||
}
|
||||
if (r.getDescription() != null) {
|
||||
metadata
|
||||
|
|
@ -347,8 +361,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (r.getEmbargoenddate() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("embargoenddate", r.getEmbargoenddate().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("embargoenddate", r.getEmbargoenddate().getValue()));
|
||||
}
|
||||
if (r.getSubject() != null) {
|
||||
metadata
|
||||
|
|
@ -423,23 +436,20 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"lastmetadataupdate", d.getLastmetadataupdate().getValue()));
|
||||
.asXmlElement("lastmetadataupdate", d.getLastmetadataupdate().getValue()));
|
||||
}
|
||||
if (d.getMetadataversionnumber() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"metadataversionnumber", d.getMetadataversionnumber().getValue()));
|
||||
.asXmlElement("metadataversionnumber", d.getMetadataversionnumber().getValue()));
|
||||
}
|
||||
if (d.getSize() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("size", d.getSize().getValue()));
|
||||
}
|
||||
if (d.getStoragedate() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("storagedate", d.getStoragedate().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("storagedate", d.getStoragedate().getValue()));
|
||||
}
|
||||
if (d.getVersion() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("version", d.getVersion().getValue()));
|
||||
|
|
@ -509,98 +519,87 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"codeRepositoryUrl", s.getCodeRepositoryUrl().getValue()));
|
||||
.asXmlElement("codeRepositoryUrl", s.getCodeRepositoryUrl().getValue()));
|
||||
}
|
||||
if (s.getProgrammingLanguage() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.mapQualifier(
|
||||
"programmingLanguage", s.getProgrammingLanguage()));
|
||||
.mapQualifier("programmingLanguage", s.getProgrammingLanguage()));
|
||||
}
|
||||
break;
|
||||
case datasource:
|
||||
final Datasource ds = (Datasource) entity;
|
||||
|
||||
if (ds.getDatasourcetype() != null) {
|
||||
mapDatasourceType(metadata, ds.getDatasourcetype());
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("datasourcetype", ds.getDatasourcetype()));
|
||||
}
|
||||
if (ds.getDatasourcetypeui() != null) {
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("datasourcetypeui", ds.getDatasourcetypeui()));
|
||||
}
|
||||
if (ds.getOpenairecompatibility() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.mapQualifier(
|
||||
"openairecompatibility", ds.getOpenairecompatibility()));
|
||||
.mapQualifier("openairecompatibility", ds.getOpenairecompatibility()));
|
||||
}
|
||||
if (ds.getOfficialname() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("officialname", ds.getOfficialname().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("officialname", ds.getOfficialname().getValue()));
|
||||
}
|
||||
if (ds.getEnglishname() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("englishname", ds.getEnglishname().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("englishname", ds.getEnglishname().getValue()));
|
||||
}
|
||||
if (ds.getWebsiteurl() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("websiteurl", ds.getWebsiteurl().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("websiteurl", ds.getWebsiteurl().getValue()));
|
||||
}
|
||||
if (ds.getLogourl() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("logourl", ds.getLogourl().getValue()));
|
||||
}
|
||||
if (ds.getContactemail() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("contactemail", ds.getContactemail().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("contactemail", ds.getContactemail().getValue()));
|
||||
}
|
||||
if (ds.getNamespaceprefix() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"namespaceprefix", ds.getNamespaceprefix().getValue()));
|
||||
.asXmlElement("namespaceprefix", ds.getNamespaceprefix().getValue()));
|
||||
}
|
||||
if (ds.getLatitude() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("latitude", ds.getLatitude().getValue()));
|
||||
}
|
||||
if (ds.getLongitude() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("longitude", ds.getLongitude().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("longitude", ds.getLongitude().getValue()));
|
||||
}
|
||||
if (ds.getDateofvalidation() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"dateofvalidation", ds.getDateofvalidation().getValue()));
|
||||
.asXmlElement("dateofvalidation", ds.getDateofvalidation().getValue()));
|
||||
}
|
||||
if (ds.getDescription() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("description", ds.getDescription().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("description", ds.getDescription().getValue()));
|
||||
}
|
||||
if (ds.getOdnumberofitems() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"odnumberofitems", ds.getOdnumberofitems().getValue()));
|
||||
.asXmlElement("odnumberofitems", ds.getOdnumberofitems().getValue()));
|
||||
}
|
||||
if (ds.getOdnumberofitemsdate() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"odnumberofitemsdate", ds.getOdnumberofitemsdate().getValue()));
|
||||
.asXmlElement("odnumberofitemsdate", ds.getOdnumberofitemsdate().getValue()));
|
||||
}
|
||||
if (ds.getOdpolicies() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("odpolicies", ds.getOdpolicies().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("odpolicies", ds.getOdpolicies().getValue()));
|
||||
}
|
||||
if (ds.getOdlanguages() != null) {
|
||||
metadata
|
||||
|
|
@ -635,50 +634,43 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"releasestartdate", ds.getReleaseenddate().getValue()));
|
||||
.asXmlElement("releasestartdate", ds.getReleaseenddate().getValue()));
|
||||
}
|
||||
if (ds.getReleaseenddate() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"releaseenddate", ds.getReleaseenddate().getValue()));
|
||||
.asXmlElement("releaseenddate", ds.getReleaseenddate().getValue()));
|
||||
}
|
||||
if (ds.getMissionstatementurl() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"missionstatementurl", ds.getMissionstatementurl().getValue()));
|
||||
.asXmlElement("missionstatementurl", ds.getMissionstatementurl().getValue()));
|
||||
}
|
||||
if (ds.getDataprovider() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"dataprovider", ds.getDataprovider().getValue().toString()));
|
||||
.asXmlElement("dataprovider", ds.getDataprovider().getValue().toString()));
|
||||
}
|
||||
if (ds.getServiceprovider() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"serviceprovider", ds.getServiceprovider().getValue().toString()));
|
||||
.asXmlElement("serviceprovider", ds.getServiceprovider().getValue().toString()));
|
||||
}
|
||||
if (ds.getDatabaseaccesstype() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"databaseaccesstype", ds.getDatabaseaccesstype().getValue()));
|
||||
.asXmlElement("databaseaccesstype", ds.getDatabaseaccesstype().getValue()));
|
||||
}
|
||||
if (ds.getDatauploadtype() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"datauploadtype", ds.getDatauploadtype().getValue()));
|
||||
.asXmlElement("datauploadtype", ds.getDatauploadtype().getValue()));
|
||||
}
|
||||
if (ds.getDatabaseaccessrestriction() != null) {
|
||||
metadata
|
||||
|
|
@ -691,39 +683,33 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"datauploadrestriction", ds.getDatauploadrestriction().getValue()));
|
||||
.asXmlElement("datauploadrestriction", ds.getDatauploadrestriction().getValue()));
|
||||
}
|
||||
if (ds.getVersioning() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"versioning", ds.getVersioning().getValue().toString()));
|
||||
.asXmlElement("versioning", ds.getVersioning().getValue().toString()));
|
||||
}
|
||||
if (ds.getCitationguidelineurl() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"citationguidelineurl", ds.getCitationguidelineurl().getValue()));
|
||||
.asXmlElement("citationguidelineurl", ds.getCitationguidelineurl().getValue()));
|
||||
}
|
||||
if (ds.getQualitymanagementkind() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"qualitymanagementkind", ds.getQualitymanagementkind().getValue()));
|
||||
.asXmlElement("qualitymanagementkind", ds.getQualitymanagementkind().getValue()));
|
||||
}
|
||||
if (ds.getPidsystems() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("pidsystems", ds.getPidsystems().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("pidsystems", ds.getPidsystems().getValue()));
|
||||
}
|
||||
if (ds.getCertificates() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("certificates", ds.getCertificates().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("certificates", ds.getCertificates().getValue()));
|
||||
}
|
||||
if (ds.getPolicies() != null) {
|
||||
metadata
|
||||
|
|
@ -757,13 +743,11 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"legalshortname", o.getLegalshortname().getValue()));
|
||||
.asXmlElement("legalshortname", o.getLegalshortname().getValue()));
|
||||
}
|
||||
if (o.getLegalname() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("legalname", o.getLegalname().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("legalname", o.getLegalname().getValue()));
|
||||
}
|
||||
if (o.getAlternativeNames() != null) {
|
||||
metadata
|
||||
|
|
@ -777,8 +761,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (o.getWebsiteurl() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("websiteurl", o.getWebsiteurl().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("websiteurl", o.getWebsiteurl().getValue()));
|
||||
}
|
||||
if (o.getLogourl() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("logourl", o.getLogourl().getValue()));
|
||||
|
|
@ -786,32 +769,27 @@ public class XmlRecordFactory implements Serializable {
|
|||
|
||||
if (o.getEclegalbody() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("eclegalbody", o.getEclegalbody().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("eclegalbody", o.getEclegalbody().getValue()));
|
||||
}
|
||||
if (o.getEclegalperson() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("eclegalperson", o.getEclegalperson().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("eclegalperson", o.getEclegalperson().getValue()));
|
||||
}
|
||||
if (o.getEcnonprofit() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("ecnonprofit", o.getEcnonprofit().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("ecnonprofit", o.getEcnonprofit().getValue()));
|
||||
}
|
||||
if (o.getEcresearchorganization() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"ecresearchorganization", o.getEcresearchorganization().getValue()));
|
||||
.asXmlElement("ecresearchorganization", o.getEcresearchorganization().getValue()));
|
||||
}
|
||||
if (o.getEchighereducation() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"echighereducation", o.getEchighereducation().getValue()));
|
||||
.asXmlElement("echighereducation", o.getEchighereducation().getValue()));
|
||||
}
|
||||
if (o.getEcinternationalorganizationeurinterests() != null) {
|
||||
metadata
|
||||
|
|
@ -830,20 +808,17 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (o.getEcenterprise() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("ecenterprise", o.getEcenterprise().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("ecenterprise", o.getEcenterprise().getValue()));
|
||||
}
|
||||
if (o.getEcsmevalidated() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"ecsmevalidated", o.getEcsmevalidated().getValue()));
|
||||
.asXmlElement("ecsmevalidated", o.getEcsmevalidated().getValue()));
|
||||
}
|
||||
if (o.getEcnutscode() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("ecnutscode", o.getEcnutscode().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("ecnutscode", o.getEcnutscode().getValue()));
|
||||
}
|
||||
if (o.getCountry() != null) {
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("country", o.getCountry()));
|
||||
|
|
@ -855,8 +830,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
|
||||
if (p.getWebsiteurl() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("websiteurl", p.getWebsiteurl().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("websiteurl", p.getWebsiteurl().getValue()));
|
||||
}
|
||||
if (p.getCode() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("code", p.getCode().getValue()));
|
||||
|
|
@ -869,8 +843,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (p.getStartdate() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("startdate", p.getStartdate().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("startdate", p.getStartdate().getValue()));
|
||||
}
|
||||
if (p.getEnddate() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("enddate", p.getEnddate().getValue()));
|
||||
|
|
@ -879,8 +852,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"callidentifier", p.getCallidentifier().getValue()));
|
||||
.asXmlElement("callidentifier", p.getCallidentifier().getValue()));
|
||||
}
|
||||
if (p.getKeywords() != null) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("keywords", p.getKeywords().getValue()));
|
||||
|
|
@ -890,8 +862,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (p.getEcarticle29_3() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("ecarticle29_3", p.getEcarticle29_3().getValue()));
|
||||
.add(XmlSerializationUtils.asXmlElement("ecarticle29_3", p.getEcarticle29_3().getValue()));
|
||||
}
|
||||
if (p.getSubjects() != null) {
|
||||
metadata
|
||||
|
|
@ -923,13 +894,11 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (p.getTotalcost() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("totalcost", p.getTotalcost().toString()));
|
||||
.add(XmlSerializationUtils.asXmlElement("totalcost", p.getTotalcost().toString()));
|
||||
}
|
||||
if (p.getFundedamount() != null) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("fundedamount", p.getFundedamount().toString()));
|
||||
.add(XmlSerializationUtils.asXmlElement("fundedamount", p.getFundedamount().toString()));
|
||||
}
|
||||
if (p.getFundingtree() != null) {
|
||||
metadata
|
||||
|
|
@ -950,28 +919,18 @@ public class XmlRecordFactory implements Serializable {
|
|||
return metadata;
|
||||
}
|
||||
|
||||
private String getAuthorPidType(String s) {
|
||||
private String getAuthorPidType(final String s) {
|
||||
return XmlSerializationUtils
|
||||
.escapeXml(s)
|
||||
.replaceAll("\\W", "")
|
||||
.replaceAll("\\d", "");
|
||||
}
|
||||
|
||||
private static boolean kvNotBlank(KeyValue kv) {
|
||||
private static boolean kvNotBlank(final KeyValue kv) {
|
||||
return kv != null && StringUtils.isNotBlank(kv.getKey()) && StringUtils.isNotBlank(kv.getValue());
|
||||
}
|
||||
|
||||
private void mapDatasourceType(List<String> metadata, final Qualifier dsType) {
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("datasourcetype", dsType));
|
||||
|
||||
if (specialDatasourceTypes.contains(dsType.getClassid())) {
|
||||
dsType.setClassid("other");
|
||||
dsType.setClassname("other");
|
||||
}
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("datasourcetypeui", dsType));
|
||||
}
|
||||
|
||||
private List<String> mapFields(RelatedEntityWrapper link, Set<String> contexts) {
|
||||
private List<String> mapFields(final RelatedEntityWrapper link, final Set<String> contexts) {
|
||||
final Relation rel = link.getRelation();
|
||||
final RelatedEntity re = link.getTarget();
|
||||
final String targetType = link.getTarget().getType();
|
||||
|
|
@ -987,16 +946,14 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (isNotBlank(re.getDateofacceptance())) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("dateofacceptance", re.getDateofacceptance()));
|
||||
.add(XmlSerializationUtils.asXmlElement("dateofacceptance", re.getDateofacceptance()));
|
||||
}
|
||||
if (isNotBlank(re.getPublisher())) {
|
||||
metadata.add(XmlSerializationUtils.asXmlElement("publisher", re.getPublisher()));
|
||||
}
|
||||
if (isNotBlank(re.getCodeRepositoryUrl())) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("coderepositoryurl", re.getCodeRepositoryUrl()));
|
||||
.add(XmlSerializationUtils.asXmlElement("coderepositoryurl", re.getCodeRepositoryUrl()));
|
||||
}
|
||||
if (re.getResulttype() != null && re.getResulttype().isBlank()) {
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("resulttype", re.getResulttype()));
|
||||
|
|
@ -1026,14 +983,16 @@ public class XmlRecordFactory implements Serializable {
|
|||
metadata.add(XmlSerializationUtils.asXmlElement("officialname", re.getOfficialname()));
|
||||
}
|
||||
if (re.getDatasourcetype() != null && !re.getDatasourcetype().isBlank()) {
|
||||
mapDatasourceType(metadata, re.getDatasourcetype());
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("datasourcetype", re.getDatasourcetype()));
|
||||
}
|
||||
if (re.getDatasourcetypeui() != null && !re.getDatasourcetypeui().isBlank()) {
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("datasourcetypeui", re.getDatasourcetypeui()));
|
||||
}
|
||||
if (re.getOpenairecompatibility() != null && !re.getOpenairecompatibility().isBlank()) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.mapQualifier(
|
||||
"openairecompatibility", re.getOpenairecompatibility()));
|
||||
.mapQualifier("openairecompatibility", re.getOpenairecompatibility()));
|
||||
}
|
||||
break;
|
||||
case organization:
|
||||
|
|
@ -1042,8 +1001,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
if (isNotBlank(re.getLegalshortname())) {
|
||||
metadata
|
||||
.add(
|
||||
XmlSerializationUtils.asXmlElement("legalshortname", re.getLegalshortname()));
|
||||
.add(XmlSerializationUtils.asXmlElement("legalshortname", re.getLegalshortname()));
|
||||
}
|
||||
if (re.getCountry() != null && !re.getCountry().isBlank()) {
|
||||
metadata.add(XmlSerializationUtils.mapQualifier("country", re.getCountry()));
|
||||
|
|
@ -1085,8 +1043,10 @@ public class XmlRecordFactory implements Serializable {
|
|||
return metadata;
|
||||
}
|
||||
|
||||
private String mapRelation(Set<String> contexts, TemplateFactory templateFactory, EntityType type,
|
||||
RelatedEntityWrapper link) {
|
||||
private String mapRelation(final Set<String> contexts,
|
||||
final TemplateFactory templateFactory,
|
||||
final EntityType type,
|
||||
final RelatedEntityWrapper link) {
|
||||
final Relation rel = link.getRelation();
|
||||
final String targetType = link.getTarget().getType();
|
||||
final String scheme = ModelSupport.getScheme(type.toString(), targetType);
|
||||
|
|
@ -1096,8 +1056,9 @@ public class XmlRecordFactory implements Serializable {
|
|||
String.format("missing scheme for: <%s - %s>", type, targetType));
|
||||
}
|
||||
final HashSet<String> fields = Sets.newHashSet(mapFields(link, contexts));
|
||||
if (rel.getValidated() == null)
|
||||
if (rel.getValidated() == null) {
|
||||
rel.setValidated(false);
|
||||
}
|
||||
return templateFactory
|
||||
.getRel(
|
||||
targetType, rel.getTarget(), fields, rel.getRelClass(), scheme, rel.getDataInfo(), rel.getValidated(),
|
||||
|
|
@ -1105,12 +1066,14 @@ public class XmlRecordFactory implements Serializable {
|
|||
}
|
||||
|
||||
private List<String> listChildren(
|
||||
final OafEntity entity, JoinedEntity je, TemplateFactory templateFactory) {
|
||||
final OafEntity entity,
|
||||
final JoinedEntity je,
|
||||
final TemplateFactory templateFactory) {
|
||||
|
||||
final EntityType entityType = EntityType.fromClass(je.getEntity().getClass());
|
||||
|
||||
final List<RelatedEntityWrapper> links = je.getLinks();
|
||||
List<String> children = links
|
||||
final List<String> children = links
|
||||
.stream()
|
||||
.filter(link -> isDuplicate(link))
|
||||
.map(link -> {
|
||||
|
|
@ -1131,13 +1094,11 @@ public class XmlRecordFactory implements Serializable {
|
|||
|
||||
if (instance.getAccessright() != null && !instance.getAccessright().isBlank()) {
|
||||
fields
|
||||
.add(
|
||||
XmlSerializationUtils.mapQualifier("accessright", instance.getAccessright()));
|
||||
.add(XmlSerializationUtils.mapQualifier("accessright", instance.getAccessright()));
|
||||
}
|
||||
if (instance.getCollectedfrom() != null && kvNotBlank(instance.getCollectedfrom())) {
|
||||
fields
|
||||
.add(
|
||||
XmlSerializationUtils.mapKeyValue("collectedfrom", instance.getCollectedfrom()));
|
||||
.add(XmlSerializationUtils.mapKeyValue("collectedfrom", instance.getCollectedfrom()));
|
||||
}
|
||||
if (instance.getHostedby() != null && kvNotBlank(instance.getHostedby())) {
|
||||
fields.add(XmlSerializationUtils.mapKeyValue("hostedby", instance.getHostedby()));
|
||||
|
|
@ -1147,20 +1108,17 @@ public class XmlRecordFactory implements Serializable {
|
|||
fields
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"dateofacceptance", instance.getDateofacceptance().getValue()));
|
||||
.asXmlElement("dateofacceptance", instance.getDateofacceptance().getValue()));
|
||||
}
|
||||
if (instance.getInstancetype() != null && !instance.getInstancetype().isBlank()) {
|
||||
fields
|
||||
.add(
|
||||
XmlSerializationUtils.mapQualifier("instancetype", instance.getInstancetype()));
|
||||
.add(XmlSerializationUtils.mapQualifier("instancetype", instance.getInstancetype()));
|
||||
}
|
||||
if (isNotBlank(instance.getDistributionlocation())) {
|
||||
fields
|
||||
.add(
|
||||
XmlSerializationUtils
|
||||
.asXmlElement(
|
||||
"distributionlocation", instance.getDistributionlocation()));
|
||||
.asXmlElement("distributionlocation", instance.getDistributionlocation()));
|
||||
}
|
||||
if (instance.getPid() != null) {
|
||||
fields
|
||||
|
|
@ -1185,8 +1143,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
|
||||
if (instance.getRefereed() != null && !instance.getRefereed().isBlank()) {
|
||||
fields
|
||||
.add(
|
||||
XmlSerializationUtils.mapQualifier("refereed", instance.getRefereed()));
|
||||
.add(XmlSerializationUtils.mapQualifier("refereed", instance.getRefereed()));
|
||||
}
|
||||
if (instance.getProcessingchargeamount() != null
|
||||
&& isNotBlank(instance.getProcessingchargeamount().getValue())) {
|
||||
|
|
@ -1208,8 +1165,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
children
|
||||
.add(
|
||||
templateFactory
|
||||
.getInstance(
|
||||
instance.getHostedby().getKey(), fields, instance.getUrl()));
|
||||
.getInstance(instance.getHostedby().getKey(), fields, instance.getUrl()));
|
||||
}
|
||||
}
|
||||
final List<ExternalReference> ext = ((Result) entity).getExternalReference();
|
||||
|
|
@ -1254,11 +1210,11 @@ public class XmlRecordFactory implements Serializable {
|
|||
return children;
|
||||
}
|
||||
|
||||
private boolean isDuplicate(RelatedEntityWrapper link) {
|
||||
private boolean isDuplicate(final RelatedEntityWrapper link) {
|
||||
return ModelConstants.DEDUP.equalsIgnoreCase(link.getRelation().getSubRelType());
|
||||
}
|
||||
|
||||
private List<String> listExtraInfo(OafEntity entity) {
|
||||
private List<String> listExtraInfo(final OafEntity entity) {
|
||||
final List<ExtraInfo> extraInfo = entity.getExtraInfo();
|
||||
return extraInfo != null
|
||||
? extraInfo
|
||||
|
|
@ -1271,7 +1227,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
private List<String> buildContexts(final String type, final Set<String> contexts) {
|
||||
final List<String> res = Lists.newArrayList();
|
||||
|
||||
if ((contextMapper != null)
|
||||
if (contextMapper != null
|
||||
&& !contextMapper.isEmpty()
|
||||
&& MainEntityType.result.toString().equals(type)) {
|
||||
|
||||
|
|
@ -1302,8 +1258,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
if (def.getName().equals("category")) {
|
||||
final String rootId = substringBefore(def.getId(), "::");
|
||||
document = addContextDef(
|
||||
document.gotoRoot().gotoTag("//context[./@id='" + rootId + "']", new Object()),
|
||||
def);
|
||||
document.gotoRoot().gotoTag("//context[./@id='" + rootId + "']", new Object()), def);
|
||||
}
|
||||
|
||||
if (def.getName().equals("concept")) {
|
||||
|
|
@ -1327,17 +1282,17 @@ public class XmlRecordFactory implements Serializable {
|
|||
|
||||
private Transformer getTransformer() {
|
||||
try {
|
||||
Transformer transformer = TransformerFactory.newInstance().newTransformer();
|
||||
final Transformer transformer = TransformerFactory.newInstance().newTransformer();
|
||||
transformer.setOutputProperty(OutputKeys.OMIT_XML_DECLARATION, "yes");
|
||||
return transformer;
|
||||
} catch (TransformerConfigurationException e) {
|
||||
} catch (final TransformerConfigurationException e) {
|
||||
throw new IllegalStateException("unable to create javax.xml.transform.Transformer", e);
|
||||
}
|
||||
}
|
||||
|
||||
private XMLTag addContextDef(final XMLTag tag, final ContextDef def) {
|
||||
tag.addTag(def.getName()).addAttribute("id", def.getId()).addAttribute("label", def.getLabel());
|
||||
if ((def.getType() != null) && !def.getType().isEmpty()) {
|
||||
if (def.getType() != null && !def.getType().isEmpty()) {
|
||||
tag.addAttribute("type", def.getType());
|
||||
}
|
||||
return tag;
|
||||
|
|
@ -1374,16 +1329,14 @@ public class XmlRecordFactory implements Serializable {
|
|||
if (level0 != null) {
|
||||
final String level0Id = Joiner.on("::").join(funderShortName, level0.valueOf("./name"));
|
||||
contextMapper
|
||||
.put(
|
||||
level0Id, new ContextDef(level0Id, level0.valueOf("./description"), "category", ""));
|
||||
.put(level0Id, new ContextDef(level0Id, level0.valueOf("./description"), "category", ""));
|
||||
final Node level1 = fundingPath.selectSingleNode("//funding_level_1");
|
||||
if (level1 == null) {
|
||||
contexts.add(level0Id);
|
||||
} else {
|
||||
final String level1Id = Joiner.on("::").join(level0Id, level1.valueOf("./name"));
|
||||
contextMapper
|
||||
.put(
|
||||
level1Id, new ContextDef(level1Id, level1.valueOf("./description"), "concept", ""));
|
||||
.put(level1Id, new ContextDef(level1Id, level1.valueOf("./description"), "concept", ""));
|
||||
final Node level2 = fundingPath.selectSingleNode("//funding_level_2");
|
||||
if (level2 == null) {
|
||||
contexts.add(level1Id);
|
||||
|
|
@ -1391,8 +1344,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
final String level2Id = Joiner.on("::").join(level1Id, level2.valueOf("./name"));
|
||||
contextMapper
|
||||
.put(
|
||||
level2Id,
|
||||
new ContextDef(level2Id, level2.valueOf("./description"), "concept", ""));
|
||||
level2Id, new ContextDef(level2Id, level2.valueOf("./description"), "concept", ""));
|
||||
contexts.add(level2Id);
|
||||
}
|
||||
}
|
||||
|
|
@ -1413,8 +1365,7 @@ public class XmlRecordFactory implements Serializable {
|
|||
funding += getFunderElement(ftree);
|
||||
|
||||
for (final Object o : Lists
|
||||
.reverse(
|
||||
ftree.selectNodes("//fundingtree//*[starts-with(local-name(),'funding_level_')]"))) {
|
||||
.reverse(ftree.selectNodes("//fundingtree//*[starts-with(local-name(),'funding_level_')]"))) {
|
||||
final Element e = (Element) o;
|
||||
final String _id = e.valueOf("./id");
|
||||
funding += "<"
|
||||
|
|
|
|||
|
|
@ -16,11 +16,5 @@
|
|||
"paramLongName": "isLookupUrl",
|
||||
"paramDescription": "URL of the isLookUp Service",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName": "odt",
|
||||
"paramLongName": "otherDsTypeId",
|
||||
"paramDescription": "list of datasource types to populate field datasourcetypeui",
|
||||
"paramRequired": true
|
||||
}
|
||||
]
|
||||
|
|
|
|||
|
|
@ -25,10 +25,6 @@
|
|||
<name>targetMaxRelations</name>
|
||||
<description>maximum number of relations allowed for a each entity grouping by target</description>
|
||||
</property>
|
||||
<property>
|
||||
<name>otherDsTypeId</name>
|
||||
<description>mapping used to populate datasourceTypeUi field</description>
|
||||
</property>
|
||||
<property>
|
||||
<name>format</name>
|
||||
<description>metadata format name (DMF|TMF)</description>
|
||||
|
|
@ -582,7 +578,6 @@
|
|||
<arg>--inputPath</arg><arg>${workingDir}/join_entities</arg>
|
||||
<arg>--outputPath</arg><arg>${workingDir}/xml</arg>
|
||||
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
||||
<arg>--otherDsTypeId</arg><arg>${otherDsTypeId}</arg>
|
||||
</spark>
|
||||
<ok to="should_index"/>
|
||||
<error to="Kill"/>
|
||||
|
|
|
|||
|
|
@ -4,7 +4,6 @@ package eu.dnetlib.dhp.oa.provision;
|
|||
import static org.junit.jupiter.api.Assertions.assertNotNull;
|
||||
|
||||
import java.io.IOException;
|
||||
import java.util.List;
|
||||
|
||||
import javax.xml.transform.Transformer;
|
||||
import javax.xml.transform.TransformerException;
|
||||
|
|
@ -16,11 +15,9 @@ import org.junit.jupiter.api.Assertions;
|
|||
import org.junit.jupiter.api.BeforeEach;
|
||||
import org.junit.jupiter.api.Test;
|
||||
|
||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||
import com.google.common.collect.Lists;
|
||||
|
||||
import eu.dnetlib.dhp.oa.provision.model.JoinedEntity;
|
||||
import eu.dnetlib.dhp.oa.provision.model.RelatedEntity;
|
||||
import eu.dnetlib.dhp.oa.provision.model.RelatedEntityWrapper;
|
||||
import eu.dnetlib.dhp.oa.provision.utils.ContextMapper;
|
||||
import eu.dnetlib.dhp.oa.provision.utils.StreamingInputDocumentFactory;
|
||||
|
|
@ -49,7 +46,7 @@ public class IndexRecordTransformerTest {
|
|||
|
||||
@Test
|
||||
public void testPreBuiltRecordTransformation() throws IOException, TransformerException {
|
||||
String record = IOUtils.toString(getClass().getResourceAsStream("record.xml"));
|
||||
final String record = IOUtils.toString(getClass().getResourceAsStream("record.xml"));
|
||||
|
||||
testRecordTransformation(record);
|
||||
}
|
||||
|
|
@ -57,14 +54,14 @@ public class IndexRecordTransformerTest {
|
|||
@Test
|
||||
public void testPublicationRecordTransformation() throws IOException, TransformerException {
|
||||
|
||||
XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false, XmlConverterJob.schemaLocation,
|
||||
XmlRecordFactoryTest.otherDsTypeId);
|
||||
final XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false,
|
||||
XmlConverterJob.schemaLocation);
|
||||
|
||||
Publication p = load("publication.json", Publication.class);
|
||||
Project pj = load("project.json", Project.class);
|
||||
Relation rel = load("relToValidatedProject.json", Relation.class);
|
||||
final Publication p = load("publication.json", Publication.class);
|
||||
final Project pj = load("project.json", Project.class);
|
||||
final Relation rel = load("relToValidatedProject.json", Relation.class);
|
||||
|
||||
JoinedEntity je = new JoinedEntity<>(p);
|
||||
final JoinedEntity je = new JoinedEntity<>(p);
|
||||
je
|
||||
.setLinks(
|
||||
Lists
|
||||
|
|
@ -72,24 +69,25 @@ public class IndexRecordTransformerTest {
|
|||
new RelatedEntityWrapper(rel,
|
||||
CreateRelatedEntitiesJob_phase1.asRelatedEntity(pj, Project.class))));
|
||||
|
||||
String record = xmlRecordFactory.build(je);
|
||||
final String record = xmlRecordFactory.build(je);
|
||||
|
||||
assertNotNull(record);
|
||||
|
||||
testRecordTransformation(record);
|
||||
}
|
||||
|
||||
private void testRecordTransformation(String record) throws IOException, TransformerException {
|
||||
String fields = IOUtils.toString(getClass().getResourceAsStream("fields.xml"));
|
||||
String xslt = IOUtils.toString(getClass().getResourceAsStream("layoutToRecordTransformer.xsl"));
|
||||
private void testRecordTransformation(final String record) throws IOException, TransformerException {
|
||||
final String fields = IOUtils.toString(getClass().getResourceAsStream("fields.xml"));
|
||||
final String xslt = IOUtils.toString(getClass().getResourceAsStream("layoutToRecordTransformer.xsl"));
|
||||
|
||||
String transformer = XmlIndexingJob.getLayoutTransformer("DMF", fields, xslt);
|
||||
final String transformer = XmlIndexingJob.getLayoutTransformer("DMF", fields, xslt);
|
||||
|
||||
Transformer tr = SaxonTransformerFactory.newInstance(transformer);
|
||||
final Transformer tr = SaxonTransformerFactory.newInstance(transformer);
|
||||
|
||||
String indexRecordXML = XmlIndexingJob.toIndexRecord(tr, record);
|
||||
final String indexRecordXML = XmlIndexingJob.toIndexRecord(tr, record);
|
||||
|
||||
SolrInputDocument solrDoc = new StreamingInputDocumentFactory(VERSION, DSID).parseDocument(indexRecordXML);
|
||||
final SolrInputDocument solrDoc = new StreamingInputDocumentFactory(VERSION, DSID)
|
||||
.parseDocument(indexRecordXML);
|
||||
|
||||
final String xmlDoc = ClientUtils.toXML(solrDoc);
|
||||
|
||||
|
|
@ -97,7 +95,7 @@ public class IndexRecordTransformerTest {
|
|||
System.out.println(xmlDoc);
|
||||
}
|
||||
|
||||
private <T> T load(String fileName, Class<T> clazz) throws IOException {
|
||||
private <T> T load(final String fileName, final Class<T> clazz) throws IOException {
|
||||
return XmlRecordFactoryTest.OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream(fileName)), clazz);
|
||||
}
|
||||
|
|
|
|||
|
|
@ -1,7 +1,8 @@
|
|||
|
||||
package eu.dnetlib.dhp.oa.provision;
|
||||
|
||||
import static org.junit.jupiter.api.Assertions.*;
|
||||
import static org.junit.jupiter.api.Assertions.assertEquals;
|
||||
import static org.junit.jupiter.api.Assertions.assertNotNull;
|
||||
|
||||
import java.io.IOException;
|
||||
import java.io.StringReader;
|
||||
|
|
@ -29,27 +30,25 @@ import eu.dnetlib.dhp.schema.oaf.Relation;
|
|||
|
||||
public class XmlRecordFactoryTest {
|
||||
|
||||
public static final String otherDsTypeId = "scholarcomminfra,infospace,pubsrepository::mock,entityregistry,entityregistry::projects,entityregistry::repositories,websource";
|
||||
|
||||
public static ObjectMapper OBJECT_MAPPER = new ObjectMapper()
|
||||
.configure(DeserializationFeature.FAIL_ON_UNKNOWN_PROPERTIES, false);
|
||||
|
||||
@Test
|
||||
public void testXMLRecordFactory() throws IOException, DocumentException {
|
||||
|
||||
ContextMapper contextMapper = new ContextMapper();
|
||||
final ContextMapper contextMapper = new ContextMapper();
|
||||
|
||||
XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false, XmlConverterJob.schemaLocation,
|
||||
otherDsTypeId);
|
||||
final XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false,
|
||||
XmlConverterJob.schemaLocation);
|
||||
|
||||
Publication p = OBJECT_MAPPER
|
||||
final Publication p = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("publication.json")), Publication.class);
|
||||
|
||||
String xml = xmlRecordFactory.build(new JoinedEntity<>(p));
|
||||
final String xml = xmlRecordFactory.build(new JoinedEntity<>(p));
|
||||
|
||||
assertNotNull(xml);
|
||||
|
||||
Document doc = new SAXReader().read(new StringReader(xml));
|
||||
final Document doc = new SAXReader().read(new StringReader(xml));
|
||||
|
||||
assertNotNull(doc);
|
||||
|
||||
|
|
@ -72,30 +71,29 @@ public class XmlRecordFactoryTest {
|
|||
@Test
|
||||
public void testXMLRecordFactoryWithValidatedProject() throws IOException, DocumentException {
|
||||
|
||||
ContextMapper contextMapper = new ContextMapper();
|
||||
final ContextMapper contextMapper = new ContextMapper();
|
||||
|
||||
XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false, XmlConverterJob.schemaLocation,
|
||||
otherDsTypeId);
|
||||
final XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false,
|
||||
XmlConverterJob.schemaLocation);
|
||||
|
||||
Publication p = OBJECT_MAPPER
|
||||
final Publication p = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("publication.json")), Publication.class);
|
||||
Project pj = OBJECT_MAPPER
|
||||
final Project pj = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("project.json")), Project.class);
|
||||
Relation rel = OBJECT_MAPPER
|
||||
.readValue(
|
||||
(IOUtils.toString(getClass().getResourceAsStream("relToValidatedProject.json"))), Relation.class);
|
||||
RelatedEntity relatedProject = CreateRelatedEntitiesJob_phase1.asRelatedEntity(pj, Project.class);
|
||||
List<RelatedEntityWrapper> links = Lists.newArrayList();
|
||||
RelatedEntityWrapper rew = new RelatedEntityWrapper(rel, relatedProject);
|
||||
final Relation rel = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("relToValidatedProject.json")), Relation.class);
|
||||
final RelatedEntity relatedProject = CreateRelatedEntitiesJob_phase1.asRelatedEntity(pj, Project.class);
|
||||
final List<RelatedEntityWrapper> links = Lists.newArrayList();
|
||||
final RelatedEntityWrapper rew = new RelatedEntityWrapper(rel, relatedProject);
|
||||
links.add(rew);
|
||||
JoinedEntity je = new JoinedEntity<>(p);
|
||||
final JoinedEntity je = new JoinedEntity<>(p);
|
||||
je.setLinks(links);
|
||||
|
||||
String xml = xmlRecordFactory.build(je);
|
||||
final String xml = xmlRecordFactory.build(je);
|
||||
|
||||
assertNotNull(xml);
|
||||
|
||||
Document doc = new SAXReader().read(new StringReader(xml));
|
||||
final Document doc = new SAXReader().read(new StringReader(xml));
|
||||
assertNotNull(doc);
|
||||
System.out.println(doc.asXML());
|
||||
Assertions.assertEquals("2021-01-01", doc.valueOf("//validated/@date"));
|
||||
|
|
@ -104,29 +102,29 @@ public class XmlRecordFactoryTest {
|
|||
@Test
|
||||
public void testXMLRecordFactoryWithNonValidatedProject() throws IOException, DocumentException {
|
||||
|
||||
ContextMapper contextMapper = new ContextMapper();
|
||||
final ContextMapper contextMapper = new ContextMapper();
|
||||
|
||||
XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false, XmlConverterJob.schemaLocation,
|
||||
otherDsTypeId);
|
||||
final XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false,
|
||||
XmlConverterJob.schemaLocation);
|
||||
|
||||
Publication p = OBJECT_MAPPER
|
||||
final Publication p = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("publication.json")), Publication.class);
|
||||
Project pj = OBJECT_MAPPER
|
||||
final Project pj = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("project.json")), Project.class);
|
||||
Relation rel = OBJECT_MAPPER
|
||||
.readValue((IOUtils.toString(getClass().getResourceAsStream("relToProject.json"))), Relation.class);
|
||||
RelatedEntity relatedProject = CreateRelatedEntitiesJob_phase1.asRelatedEntity(pj, Project.class);
|
||||
List<RelatedEntityWrapper> links = Lists.newArrayList();
|
||||
RelatedEntityWrapper rew = new RelatedEntityWrapper(rel, relatedProject);
|
||||
final Relation rel = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("relToProject.json")), Relation.class);
|
||||
final RelatedEntity relatedProject = CreateRelatedEntitiesJob_phase1.asRelatedEntity(pj, Project.class);
|
||||
final List<RelatedEntityWrapper> links = Lists.newArrayList();
|
||||
final RelatedEntityWrapper rew = new RelatedEntityWrapper(rel, relatedProject);
|
||||
links.add(rew);
|
||||
JoinedEntity je = new JoinedEntity<>(p);
|
||||
final JoinedEntity je = new JoinedEntity<>(p);
|
||||
je.setLinks(links);
|
||||
|
||||
String xml = xmlRecordFactory.build(je);
|
||||
final String xml = xmlRecordFactory.build(je);
|
||||
|
||||
assertNotNull(xml);
|
||||
|
||||
Document doc = new SAXReader().read(new StringReader(xml));
|
||||
final Document doc = new SAXReader().read(new StringReader(xml));
|
||||
assertNotNull(doc);
|
||||
System.out.println(doc.asXML());
|
||||
assertEquals("", doc.valueOf("//rel/validated"));
|
||||
|
|
|
|||
2
pom.xml
2
pom.xml
|
|
@ -736,7 +736,7 @@
|
|||
<mockito-core.version>3.3.3</mockito-core.version>
|
||||
<mongodb.driver.version>3.4.2</mongodb.driver.version>
|
||||
<vtd.version>[2.12,3.0)</vtd.version>
|
||||
<dhp-schemas.version>[2.7.14]</dhp-schemas.version>
|
||||
<dhp-schemas.version>[2.7.15-SNAPSHOT]</dhp-schemas.version>
|
||||
<dnet-actionmanager-api.version>[4.0.3]</dnet-actionmanager-api.version>
|
||||
<dnet-actionmanager-common.version>[6.0.5]</dnet-actionmanager-common.version>
|
||||
<dnet-openaire-broker-common.version>[3.1.6]</dnet-openaire-broker-common.version>
|
||||
|
|
|
|||
Loading…
Reference in New Issue