forked from D-Net/dnet-hadoop
add a default datainfo if missing
This commit is contained in:
parent
d2058fdc47
commit
25307965d2
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@ -1,15 +1,46 @@
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package eu.dnetlib.dhp.oa.graph.raw;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.*;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.createOpenaireId;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.dataInfo;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.field;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.journal;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.keyValue;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.listFields;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.oaiIProvenance;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.qualifier;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.structuredProperty;
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import java.util.ArrayList;
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import java.util.Arrays;
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import java.util.Date;
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import java.util.HashMap;
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import java.util.List;
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import java.util.Map;
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import eu.dnetlib.dhp.schema.oaf.*;
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import java.util.*;
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import org.apache.commons.lang3.StringUtils;
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import org.dom4j.Document;
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import org.dom4j.DocumentFactory;
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import org.dom4j.DocumentHelper;
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import org.dom4j.Node;
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import eu.dnetlib.dhp.schema.oaf.Author;
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import eu.dnetlib.dhp.schema.oaf.DataInfo;
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import eu.dnetlib.dhp.schema.oaf.Dataset;
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import eu.dnetlib.dhp.schema.oaf.Field;
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import eu.dnetlib.dhp.schema.oaf.GeoLocation;
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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.OAIProvenance;
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import eu.dnetlib.dhp.schema.oaf.Oaf;
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import eu.dnetlib.dhp.schema.oaf.OtherResearchProduct;
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import eu.dnetlib.dhp.schema.oaf.Publication;
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import eu.dnetlib.dhp.schema.oaf.Qualifier;
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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.StructuredProperty;
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public abstract class AbstractMdRecordToOafMapper {
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protected final Map<String, String> code2name;
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@ -18,17 +49,15 @@ public abstract class AbstractMdRecordToOafMapper {
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qualifier("main title", "main title", "dnet:dataCite_title", "dnet:dataCite_title");
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protected static final Qualifier PUBLICATION_RESULTTYPE_QUALIFIER =
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qualifier(
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"publication",
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"publication",
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"dnet:result_typologies",
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"dnet:result_typologies");
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qualifier("publication", "publication", "dnet:result_typologies", "dnet:result_typologies");
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protected static final Qualifier DATASET_RESULTTYPE_QUALIFIER =
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qualifier("dataset", "dataset", "dnet:result_typologies", "dnet:result_typologies");
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protected static final Qualifier SOFTWARE_RESULTTYPE_QUALIFIER =
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qualifier("software", "software", "dnet:result_typologies", "dnet:result_typologies");
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protected static final Qualifier OTHER_RESULTTYPE_QUALIFIER =
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qualifier("other", "other", "dnet:result_typologies", "dnet:result_typologies");
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protected static final Qualifier REPOSITORY_QUALIFIER =
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qualifier("sysimport:crosswalk:repository", "sysimport:crosswalk:repository", "dnet:provenanceActions", "dnet:provenanceActions");
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protected AbstractMdRecordToOafMapper(final Map<String, String> code2name) {
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this.code2name = code2name;
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@ -47,22 +76,15 @@ public abstract class AbstractMdRecordToOafMapper {
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DocumentFactory.getInstance().setXPathNamespaceURIs(nsContext);
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final Document doc =
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DocumentHelper.parseText(
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xml.replaceAll(
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"http://datacite.org/schema/kernel-4",
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"http://datacite.org/schema/kernel-3"));
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DocumentHelper.parseText(xml.replaceAll("http://datacite.org/schema/kernel-4", "http://datacite.org/schema/kernel-3"));
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final String type = doc.valueOf("//dr:CobjCategory/@type");
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final KeyValue collectedFrom =
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keyValue(
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doc.valueOf("//oaf:collectedFrom/@id"),
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doc.valueOf("//oaf:collectedFrom/@name"));
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keyValue(doc.valueOf("//oaf:collectedFrom/@id"), doc.valueOf("//oaf:collectedFrom/@name"));
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final KeyValue hostedBy =
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StringUtils.isBlank(doc.valueOf("//oaf:hostedBy/@id"))
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? collectedFrom
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: keyValue(
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doc.valueOf("//oaf:hostedBy/@id"),
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doc.valueOf("//oaf:hostedBy/@name"));
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: keyValue(doc.valueOf("//oaf:hostedBy/@id"), doc.valueOf("//oaf:hostedBy/@name"));
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final DataInfo info = prepareDataInfo(doc);
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final long lastUpdateTimestamp = new Date().getTime();
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@ -192,14 +214,7 @@ public abstract class AbstractMdRecordToOafMapper {
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r.setId(createOpenaireId(50, doc.valueOf("//dri:objIdentifier"), false));
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r.setOriginalId(Arrays.asList(doc.valueOf("//dri:objIdentifier")));
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r.setCollectedfrom(Arrays.asList(collectedFrom));
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r.setPid(
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prepareListStructProps(
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doc,
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"//oaf:identifier",
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"@identifierType",
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"dnet:pid_types",
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"dnet:pid_types",
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info));
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r.setPid(prepareListStructProps(doc, "//oaf:identifier", "@identifierType", "dnet:pid_types", "dnet:pid_types", info));
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r.setDateofcollection(doc.valueOf("//dr:dateOfCollection"));
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r.setDateoftransformation(doc.valueOf("//dr:dateOfTransformation"));
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r.setExtraInfo(new ArrayList<>()); // NOT PRESENT IN MDSTORES
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@ -228,7 +243,10 @@ public abstract class AbstractMdRecordToOafMapper {
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protected abstract Qualifier prepareResourceType(Document doc, DataInfo info);
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protected abstract List<Instance> prepareInstances(
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Document doc, DataInfo info, KeyValue collectedfrom, KeyValue hostedby);
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Document doc,
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DataInfo info,
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KeyValue collectedfrom,
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KeyValue hostedby);
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protected abstract List<Field<String>> prepareSources(Document doc, DataInfo info);
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@ -253,28 +271,34 @@ public abstract class AbstractMdRecordToOafMapper {
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protected abstract List<Author> prepareAuthors(Document doc, DataInfo info);
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protected abstract List<Field<String>> prepareOtherResearchProductTools(
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Document doc, DataInfo info);
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Document doc,
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DataInfo info);
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protected abstract List<Field<String>> prepareOtherResearchProductContactGroups(
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Document doc, DataInfo info);
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Document doc,
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DataInfo info);
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protected abstract List<Field<String>> prepareOtherResearchProductContactPersons(
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Document doc, DataInfo info);
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Document doc,
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DataInfo info);
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protected abstract Qualifier prepareSoftwareProgrammingLanguage(Document doc, DataInfo info);
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protected abstract Field<String> prepareSoftwareCodeRepositoryUrl(Document doc, DataInfo info);
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protected abstract List<StructuredProperty> prepareSoftwareLicenses(
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Document doc, DataInfo info);
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Document doc,
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DataInfo info);
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protected abstract List<Field<String>> prepareSoftwareDocumentationUrls(
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Document doc, DataInfo info);
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Document doc,
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DataInfo info);
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protected abstract List<GeoLocation> prepareDatasetGeoLocations(Document doc, DataInfo info);
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protected abstract Field<String> prepareDatasetMetadataVersionNumber(
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Document doc, DataInfo info);
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Document doc,
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DataInfo info);
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protected abstract Field<String> prepareDatasetLastMetadataUpdate(Document doc, DataInfo info);
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@ -298,27 +322,16 @@ public abstract class AbstractMdRecordToOafMapper {
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final String sp = n.valueOf("@sp");
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final String vol = n.valueOf("@vol");
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final String edition = n.valueOf("@edition");
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if (StringUtils.isNotBlank(name)) {
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return journal(
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name,
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issnPrinted,
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issnOnline,
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issnLinking,
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ep,
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iss,
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sp,
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vol,
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edition,
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null,
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null,
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info);
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}
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if (StringUtils.isNotBlank(name)) { return journal(name, issnPrinted, issnOnline, issnLinking, ep, iss, sp, vol, edition, null, null, info); }
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}
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return null;
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}
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protected Qualifier prepareQualifier(
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final Node node, final String xpath, final String schemeId, final String schemeName) {
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final Node node,
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final String xpath,
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final String schemeId,
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final String schemeName) {
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final String classId = node.valueOf(xpath);
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final String className = code2name.get(classId);
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return qualifier(classId, className, schemeId, schemeName);
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@ -336,15 +349,16 @@ public abstract class AbstractMdRecordToOafMapper {
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final Node n = (Node) o;
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final String classId = n.valueOf(xpathClassId);
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final String className = code2name.get(classId);
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res.add(
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structuredProperty(
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n.getText(), classId, className, schemeId, schemeName, info));
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res.add(structuredProperty(n.getText(), classId, className, schemeId, schemeName, info));
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}
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return res;
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}
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protected List<StructuredProperty> prepareListStructProps(
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final Node node, final String xpath, final Qualifier qualifier, final DataInfo info) {
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final Node node,
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final String xpath,
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final Qualifier qualifier,
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final DataInfo info) {
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final List<StructuredProperty> res = new ArrayList<>();
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for (final Object o : node.selectNodes(xpath)) {
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final Node n = (Node) o;
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@ -354,52 +368,37 @@ public abstract class AbstractMdRecordToOafMapper {
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}
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protected List<StructuredProperty> prepareListStructProps(
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final Node node, final String xpath, final DataInfo info) {
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final Node node,
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final String xpath,
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final DataInfo info) {
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final List<StructuredProperty> res = new ArrayList<>();
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for (final Object o : node.selectNodes(xpath)) {
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final Node n = (Node) o;
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res.add(
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structuredProperty(
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n.getText(),
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n.valueOf("@classid"),
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n.valueOf("@classname"),
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n.valueOf("@schemeid"),
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n.valueOf("@schemename"),
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info));
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res.add(structuredProperty(n.getText(), n.valueOf("@classid"), n.valueOf("@classname"), n.valueOf("@schemeid"), n.valueOf("@schemename"), info));
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}
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return res;
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}
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protected OAIProvenance prepareOAIprovenance(final Document doc) {
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final Node n =
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doc.selectSingleNode(
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"//*[local-name()='provenance']/*[local-name()='originDescription']");
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doc.selectSingleNode("//*[local-name()='provenance']/*[local-name()='originDescription']");
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if (n == null) {
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return null;
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}
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if (n == null) { return null; }
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final String identifier = n.valueOf("./*[local-name()='identifier']");
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final String baseURL = n.valueOf("./*[local-name()='baseURL']");
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;
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final String metadataNamespace = n.valueOf("./*[local-name()='metadataNamespace']");
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;
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final String baseURL = n.valueOf("./*[local-name()='baseURL']");;
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final String metadataNamespace = n.valueOf("./*[local-name()='metadataNamespace']");;
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final boolean altered = n.valueOf("@altered").equalsIgnoreCase("true");
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final String datestamp = n.valueOf("./*[local-name()='datestamp']");
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;
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final String harvestDate = n.valueOf("@harvestDate");
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;
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final String datestamp = n.valueOf("./*[local-name()='datestamp']");;
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final String harvestDate = n.valueOf("@harvestDate");;
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return oaiIProvenance(
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identifier, baseURL, metadataNamespace, altered, datestamp, harvestDate);
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return oaiIProvenance(identifier, baseURL, metadataNamespace, altered, datestamp, harvestDate);
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}
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protected DataInfo prepareDataInfo(final Document doc) {
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final Node n = doc.selectSingleNode("//oaf:datainfo");
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if (n == null) {
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return null;
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}
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if (n == null) { return dataInfo(false, null, false, false, REPOSITORY_QUALIFIER, "0.9"); }
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final String paClassId = n.valueOf("./oaf:provenanceaction/@classid");
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final String paClassName = n.valueOf("./oaf:provenanceaction/@classname");
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@ -412,13 +411,7 @@ public abstract class AbstractMdRecordToOafMapper {
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final Boolean inferred = Boolean.parseBoolean(n.valueOf("./oaf:inferred"));
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final String trust = n.valueOf("./oaf:trust");
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return dataInfo(
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deletedbyinference,
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inferenceprovenance,
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inferred,
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false,
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qualifier(paClassId, paClassName, paSchemeId, paSchemeName),
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trust);
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return dataInfo(deletedbyinference, inferenceprovenance, inferred, false, qualifier(paClassId, paClassName, paSchemeId, paSchemeName), trust);
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}
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protected Field<String> prepareField(final Node node, final String xpath, final DataInfo info) {
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@ -426,7 +419,9 @@ public abstract class AbstractMdRecordToOafMapper {
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}
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protected List<Field<String>> prepareListFields(
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final Node node, final String xpath, final DataInfo info) {
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final Node node,
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final String xpath,
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final DataInfo info) {
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return listFields(info, prepareListString(node, xpath));
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}
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