mergin with branch beta

dhp-workflows/dhp-doiboost/src/main/resources/eu/dnetlib/dhp/doiboost/preprocess/oozie_app/workflow.xml

@@ -1,4 +1,4 @@
-<workflow-app name="Generate DOIBoost ActionSet" xmlns="uri:oozie:workflow:0.5">
+<workflow-app name="Generate DOIBoost ActionSet for BETA - PREPROCESS" xmlns="uri:oozie:workflow:0.5">
     <parameters>
         <property>
             <name>sparkDriverMemory</name>

dhp-workflows/dhp-doiboost/src/main/resources/eu/dnetlib/dhp/doiboost/process/oozie_app/workflow.xml

@@ -1,4 +1,4 @@
-<workflow-app name="Generate DOIBoost ActionSet for PROD" xmlns="uri:oozie:workflow:0.5">
+<workflow-app name="Generate DOIBoost ActionSet for BETA - PROCESS" xmlns="uri:oozie:workflow:0.5">
     <parameters>
         <property>
             <name>sparkDriverMemory</name>

dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/AbstractMdRecordToOafMapper.java

@@ -71,6 +71,8 @@ public abstract class AbstractMdRecordToOafMapper {
 
 	private final boolean shouldHashId;
 
+	private final boolean forceOriginalId;
+
 	protected static final String DATACITE_SCHEMA_KERNEL_4 = "http://datacite.org/schema/kernel-4";
 	protected static final String DATACITE_SCHEMA_KERNEL_4_SLASH = "http://datacite.org/schema/kernel-4/";
 	protected static final String DATACITE_SCHEMA_KERNEL_3 = "http://datacite.org/schema/kernel-3";
@@ -98,11 +100,20 @@ public abstract class AbstractMdRecordToOafMapper {
 		nsContext.put("datacite", DATACITE_SCHEMA_KERNEL_3);
 	}
 
+	protected AbstractMdRecordToOafMapper(final VocabularyGroup vocs, final boolean invisible,
+		final boolean shouldHashId, final boolean forceOriginalId) {
+		this.vocs = vocs;
+		this.invisible = invisible;
+		this.shouldHashId = shouldHashId;
+		this.forceOriginalId = forceOriginalId;
+	}
+
 	protected AbstractMdRecordToOafMapper(final VocabularyGroup vocs, final boolean invisible,
 		final boolean shouldHashId) {
 		this.vocs = vocs;
 		this.invisible = invisible;
 		this.shouldHashId = shouldHashId;
+		this.forceOriginalId = false;
 	}
 
 	public List<Oaf> processMdRecord(final String xml) {
@@ -190,11 +201,17 @@ public abstract class AbstractMdRecordToOafMapper {
 		final long lastUpdateTimestamp) {
 
 		final OafEntity entity = createEntity(doc, type, instances, collectedFrom, info, lastUpdateTimestamp);
+
+		final Set<String> originalId = Sets.newHashSet(entity.getOriginalId());
+		originalId.add(entity.getId());
+		entity.setOriginalId(Lists.newArrayList(originalId));
+
+		if (!forceOriginalId) {
 			final String id = IdentifierFactory.createIdentifier(entity, shouldHashId);
 			if (!id.equals(entity.getId())) {
-			entity.getOriginalId().add(entity.getId());
 				entity.setId(id);
 			}
+		}
 
 		final List<Oaf> oafs = Lists.newArrayList(entity);
 

dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/GenerateEntitiesApplication.java

@@ -163,11 +163,13 @@ public class GenerateEntitiesApplication {
 
 		switch (type.toLowerCase()) {
 			case "oaf-store-cleaned":
-			case "oaf-store-claim":
 				return new OafToOafMapper(vocs, false, shouldHashId).processMdRecord(s);
+			case "oaf-store-claim":
+				return new OafToOafMapper(vocs, false, shouldHashId, true).processMdRecord(s);
 			case "odf-store-cleaned":
-			case "odf-store-claim":
 				return new OdfToOafMapper(vocs, false, shouldHashId).processMdRecord(s);
+			case "odf-store-claim":
+				return new OdfToOafMapper(vocs, false, shouldHashId, true).processMdRecord(s);
 			case "oaf-store-intersection":
 				return new OafToOafMapper(vocs, true, shouldHashId).processMdRecord(s);
 			case "odf-store-intersection":

dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/OafToOafMapper.java

@@ -27,6 +27,11 @@ import eu.dnetlib.dhp.schema.oaf.utils.ModelHardLimits;
 
 public class OafToOafMapper extends AbstractMdRecordToOafMapper {
 
+	public OafToOafMapper(final VocabularyGroup vocs, final boolean invisible, final boolean shouldHashId,
+		final boolean forceOrginalId) {
+		super(vocs, invisible, shouldHashId, forceOrginalId);
+	}
+
 	public OafToOafMapper(final VocabularyGroup vocs, final boolean invisible, final boolean shouldHashId) {
 		super(vocs, invisible, shouldHashId);
 	}

dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/OdfToOafMapper.java

@@ -22,6 +22,11 @@ public class OdfToOafMapper extends AbstractMdRecordToOafMapper {
 
 	public static final String HTTP_DX_DOI_PREIFX = "http://dx.doi.org/";
 
+	public OdfToOafMapper(final VocabularyGroup vocs, final boolean invisible, final boolean shouldHashId,
+		final boolean forceOrginalId) {
+		super(vocs, invisible, shouldHashId, forceOrginalId);
+	}
+
 	public OdfToOafMapper(final VocabularyGroup vocs, final boolean invisible, final boolean shouldHashId) {
 		super(vocs, invisible, shouldHashId);
 	}

dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/utils/XmlRecordFactory.java

@@ -16,6 +16,7 @@ import javax.xml.transform.*;
 import javax.xml.transform.dom.DOMSource;
 import javax.xml.transform.stream.StreamResult;
 
+import eu.dnetlib.dhp.schema.oaf.utils.IdentifierFactory;
 import org.apache.commons.lang3.StringUtils;
 import org.apache.spark.util.LongAccumulator;
 import org.dom4j.Document;
@@ -183,6 +184,7 @@ public class XmlRecordFactory implements Serializable {
 						.getOriginalId()
 						.stream()
 						.filter(Objects::nonNull)
+						.filter(id -> !id.matches("^\\d{2}" + IdentifierFactory.ID_PREFIX_SEPARATOR))
 						.map(s -> XmlSerializationUtils.asXmlElement("originalId", s))
 						.collect(Collectors.toList()));
 		}