Increase the number of blocks used in dedup

dhp-common/src/main/java/eu/dnetlib/dhp/oa/merge/DispatchEntitiesSparkJob.java

@@ -47,17 +47,14 @@ public class DispatchEntitiesSparkJob {
 		String outputPath = parser.get("outputPath");
 		log.info("outputPath: {}", outputPath);
 
-		boolean filterInvisible = Boolean.valueOf(parser.get("filterInvisible"));
+		boolean filterInvisible = Boolean.parseBoolean(parser.get("filterInvisible"));
 		log.info("filterInvisible: {}", filterInvisible);
 
 		SparkConf conf = new SparkConf();
 		runWithSparkSession(
 			conf,
 			isSparkSessionManaged,
-			spark -> {
-				HdfsSupport.remove(outputPath, spark.sparkContext().hadoopConfiguration());
-				dispatchEntities(spark, inputPath, outputPath, filterInvisible);
-			});
+			spark -> dispatchEntities(spark, inputPath, outputPath, filterInvisible));
 	}
 
 	private static void dispatchEntities(
@@ -72,7 +69,9 @@ public class DispatchEntitiesSparkJob {
 			String entityType = entry.getKey();
 			Class<?> clazz = entry.getValue();
 
+			final String entityPath = outputPath + "/" + entityType;
 			if (!entityType.equalsIgnoreCase("relation")) {
+				HdfsSupport.remove(entityPath, spark.sparkContext().hadoopConfiguration());
 				Dataset<Row> entityDF = spark
 					.read()
 					.schema(Encoders.bean(clazz).schema())
@@ -91,7 +90,7 @@ public class DispatchEntitiesSparkJob {
 					.write()
 					.mode(SaveMode.Overwrite)
 					.option("compression", "gzip")
-					.json(outputPath + "/" + entityType);
+					.json(entityPath);
 			}
 		});
 	}

dhp-pace-core/src/main/java/eu/dnetlib/pace/model/SparkDeduper.scala

@@ -7,7 +7,7 @@ import org.apache.spark.sql.catalyst.expressions.Literal
 import org.apache.spark.sql.expressions._
 import org.apache.spark.sql.functions.{col, lit, udf}
 import org.apache.spark.sql.types._
-import org.apache.spark.sql.{Column, Dataset, Row, functions}
+import org.apache.spark.sql.{Column, Dataset, Row, SaveMode, functions}
 
 import java.util.function.Predicate
 import java.util.stream.Collectors
@@ -91,10 +91,19 @@ case class SparkDeduper(conf: DedupConfig) extends Serializable {
 
     val df_with_blocks = df_with_clustering_keys
       // filter out rows with position exceeding the maxqueuesize parameter
-      .filter(col("position").leq(conf.getWf.getQueueMaxSize))
-      .groupBy("clustering", "key")
+      //.filter(col("position").leq(conf.getWf.getQueueMaxSize))
+      .groupBy(col("clustering"), col("key"), functions.floor(col("position").divide(lit(conf.getWf.getQueueMaxSize))))
       .agg(functions.collect_set(functions.struct(model.schema.fieldNames.map(col): _*)).as("block"))
       .filter(functions.size(new Column("block")).gt(1))
+      .union(
+        df_with_clustering_keys
+          // create small blocks of records on "the border" of maxqueuesize: getSlidingWindowSize/2 elements before and after
+          .filter(col("position").mod(conf.getWf.getQueueMaxSize).lt(conf.getWf.getSlidingWindowSize/2) ||
+            col("position").mod(conf.getWf.getQueueMaxSize).gt(conf.getWf.getQueueMaxSize - (conf.getWf.getSlidingWindowSize/2)))
+          .groupBy(col("clustering"), col("key"), functions.floor((col("position") + lit(conf.getWf.getSlidingWindowSize/2)).divide(lit(conf.getWf.getQueueMaxSize))))
+          .agg(functions.collect_set(functions.struct(model.schema.fieldNames.map(col): _*)).as("block"))
+          .filter(functions.size(new Column("block")).gt(1))
+      )
 
     df_with_blocks
   }

dhp-pace-core/src/main/java/eu/dnetlib/pace/util/DiffPatchMatch.java

@@ -1,6 +1,23 @@
 
 package eu.dnetlib.pace.util;
 
+/*
+ * Diff Match and Patch
+ * Copyright 2018 The diff-match-patch Authors.
+ * https://github.com/google/diff-match-patch
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ *
+ *   http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ */
 /*
  * Diff Match and Patch
  * Copyright 2018 The diff-match-patch Authors.

dhp-workflows/dhp-aggregation/src/main/resources/eu/dnetlib/dhp/datacite/hostedBy_map.json

@@ -1,4 +1,9 @@
 {
+ "ETHZ.UNIGENF": {
+  "openaire_id": "opendoar____::1400",
+  "datacite_name": "Uni Genf",
+  "official_name": "Archive ouverte UNIGE"
+ },
  "GESIS.RKI": {
   "openaire_id": "re3data_____::r3d100010436",
   "datacite_name": "Forschungsdatenzentrum  am Robert Koch Institut",

dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkWhitelistSimRels.java

@@ -93,18 +93,13 @@ public class SparkWhitelistSimRels extends AbstractSparkAction {
 			Dataset<Row> entities = spark
 				.read()
 				.textFile(DedupUtility.createEntityPath(graphBasePath, subEntity))
-				.repartition(numPartitions)
-				.withColumn("id", functions.get_json_object(new Column("value"), dedupConf.getWf().getIdPath()));
+				.select(functions.get_json_object(new Column("value"), dedupConf.getWf().getIdPath()).as("id") )
+				.distinct();
 
-			Dataset<Row> whiteListRels1 = whiteListRels
-				.join(entities, entities.col("id").equalTo(whiteListRels.col("from")), "inner")
-				.select("from", "to");
 
-			Dataset<Row> whiteListRels2 = whiteListRels1
-				.join(entities, whiteListRels1.col("to").equalTo(entities.col("id")), "inner")
-				.select("from", "to");
-
-			Dataset<Relation> whiteListSimRels = whiteListRels2
+			Dataset<Relation> whiteListSimRels = whiteListRels
+				.join(entities, entities.col("id").equalTo(whiteListRels.col("from")), "semi")
+				.join(entities, functions.col("to").equalTo(entities.col("id")), "semi")
 				.map(
 					(MapFunction<Row, Relation>) r -> DedupUtility
 						.createSimRel(r.getString(0), r.getString(1), entity),

dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/graph/GraphProcessor.scala

@@ -8,8 +8,12 @@ import scala.collection.JavaConversions;
 object GraphProcessor {
 
   def findCCs(vertexes: RDD[(VertexId, String)], edges: RDD[Edge[String]], maxIterations: Int, cut:Int): RDD[ConnectedComponent] = {
-    val graph: Graph[String, String] = Graph(vertexes, edges).partitionBy(PartitionStrategy.RandomVertexCut) //TODO remember to remove partitionby
-    val cc = graph.connectedComponents(maxIterations).vertices
+
+    val (cc, didConverge, iterations) = com.kwartile.lib.cc.ConnectedComponent
+      .run(edges.map{ e => Seq(e.srcId, e.dstId).toList}, 50)
+
+   // val graph: Graph[String, String] = Graph(vertexes, edges).partitionBy(PartitionStrategy.RandomVertexCut) //TODO remember to remove partitionby
+   // val cc = graph.connectedComponents(maxIterations).vertices
 
     val joinResult = vertexes.leftOuterJoin(cc).map {
       case (id, (openaireId, cc)) => {

dhp-workflows/dhp-dedup-openaire/src/main/resources/eu/dnetlib/dhp/oa/dedup/scan/oozie_app/workflow.xml

@@ -127,6 +127,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=15000
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--isLookUpUrl</arg><arg>${isLookUpUrl}</arg>
@@ -154,6 +155,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=15000
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--isLookUpUrl</arg><arg>${isLookUpUrl}</arg>
@@ -182,6 +184,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=15000
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--workingPath</arg><arg>${workingPath}</arg>
@@ -209,6 +212,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=15000
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--workingPath</arg><arg>${workingPath}</arg>
@@ -236,6 +240,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=15000
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--workingPath</arg><arg>${workingPath}</arg>
@@ -263,6 +268,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=3840
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--workingPath</arg><arg>${workingPath}</arg>
@@ -289,6 +295,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=10000
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--workingPath</arg><arg>${workingPath}</arg>
@@ -315,6 +322,7 @@
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
                 --conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
                 --conf spark.sql.shuffle.partitions=10000
+                --conf spark.network.timeout=600
             </spark-opts>
             <arg>--graphBasePath</arg><arg>${graphBasePath}</arg>
             <arg>--workingPath</arg><arg>${workingPath}</arg>

dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/hostedbymap/DownloadCsvTest.java

@@ -49,7 +49,7 @@ public class DownloadCsvTest {
 	@Test
 	void getUnibiFileTest() throws CollectorException, IOException, ClassNotFoundException {
 
-		String fileURL = "https://pub.uni-bielefeld.de/download/2944717/2944718/issn_gold_oa_version_4.csv";
+		String fileURL = "https://pub.uni-bielefeld.de/download/2944717/2944718/issn_gold_oa_version_5.csv";
 
 		final String outputFile = workingDir + "/unibi_gold.json";
 		new DownloadCSV()

dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MappersTest.java

@@ -1067,6 +1067,28 @@ class MappersTest {
 		System.out.println("***************");
 	}
 
+	@Test
+	public void testD4ScienceTraining() throws IOException {
+		final String xml = IOUtils
+			.toString(Objects.requireNonNull(getClass().getResourceAsStream("d4science-1-training.xml")));
+		final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
+		final OtherResearchProduct trainingMaterial = (OtherResearchProduct) list.get(0);
+		System.out.println("***************");
+		System.out.println(new ObjectMapper().writeValueAsString(trainingMaterial));
+		System.out.println("***************");
+	}
+
+	@Test
+	public void testD4ScienceDataset() throws IOException {
+		final String xml = IOUtils
+			.toString(Objects.requireNonNull(getClass().getResourceAsStream("d4science-2-dataset.xml")));
+		final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
+		final Dataset trainingMaterial = (Dataset) list.get(0);
+		System.out.println("***************");
+		System.out.println(new ObjectMapper().writeValueAsString(trainingMaterial));
+		System.out.println("***************");
+	}
+
 	@Test
 	void testNotWellFormed() throws IOException {
 		final String xml = IOUtils

dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/raw/d4science-1-training.xml

@@ -0,0 +1,93 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<oai:record xmlns:dr="http://www.driver-repository.eu/namespace/dr"
+            xmlns:dri="http://www.driver-repository.eu/namespace/dri"
+            xmlns:oaf="http://namespace.openaire.eu/oaf" xmlns:oai="http://www.openarchives.org/OAI/2.0/">
+    <oai:header>
+        <dri:objIdentifier>alessia_____::104c2d4ba8878c16fa824dce5b1bea57</dri:objIdentifier>
+        <dri:recordIdentifier>12d8f77e-d66f-46f5-8d88-af7db23bc4c9</dri:recordIdentifier>
+        <dri:dateOfCollection>2023-09-08T10:12:35.864+02:00</dri:dateOfCollection>
+        <oaf:datasourceprefix>alessia_____</oaf:datasourceprefix>
+        <dr:dateOfTransformation>2023-09-08T11:31:45.692+02:00</dr:dateOfTransformation>
+    </oai:header>
+    <oai:metadata>
+        <datacite:resource
+                xmlns:datacite="http://datacite.org/schema/kernel-4"
+                xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4/metadata.xsd">
+            <datacite:identifier identifierType="URL">http://data.d4science.org/ctlg/ResourceCatalogue/visual_analytics_for_data_scientists</datacite:identifier>
+            <datacite:alternateIdentifiers/>
+            <datacite:creators>
+                <datacite:creator>
+                    <datacite:creatorName>BRAGHIERI MARCO</datacite:creatorName>
+                </datacite:creator>
+            </datacite:creators>
+            <datacite:titles>
+                <datacite:title>Visual Analytics for Data Scientists</datacite:title>
+            </datacite:titles>
+            <datacite:publisher>SoBigData++</datacite:publisher>
+            <datacite:publicationYear/>
+            <datacite:dates>
+                <datacite:date dateType="Issued"/>
+            </datacite:dates>
+            <datacite:resourceType resourceTypeGeneral="TrainingMaterial">TrainingMaterial</datacite:resourceType>
+            <datacite:descriptions>
+                <datacite:description descriptionType="Abstract">Participants to this module shall
+                    -    Learn the principles and rules underlying the design of visual data
+                    representations and human-computer interactions
+                    -    Understand, adapt and apply representative visual analytics methods and systems for diverse types
+                    of data and problems
+                    -    Analyse and evaluate the structure and properties
+                    of data to select or devise appropriate methods for data exploration
+                    -    Combine visualization, interactive techniques, and computational
+                    processing to develop practical data analysis for problem solving
+
+                    (This teaching material on Visual Analytics for Data Scientists is part of a MSc module at City University London).
+
+                    The author did not intend to violate any copyright on figures or content. In case you are the legal owner of any copyrighted content, please contact info@sobigdata.eu and we will immediately remove it</datacite:description>
+            </datacite:descriptions>
+            <datacite:subjects>
+                <datacite:subject>Visual analytics</datacite:subject>
+            </datacite:subjects>
+            <datacite:formats>
+                <datacite:format>Slides</datacite:format>
+                <datacite:format>Other</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>PDF</datacite:format>
+                <datacite:format>ZIP</datacite:format>
+            </datacite:formats>
+        </datacite:resource>
+        <oaf:accessrights>OPEN</oaf:accessrights>
+        <dr:CobjCategory type="other">0010</dr:CobjCategory>
+        <oaf:dateAccepted/>
+        <oaf:hostedBy id="alessia_____::alessia" name="Alessia"/>
+        <oaf:collectedFrom id="alessia_____::alessia" name="Alessia"/>
+        <oaf:license>other-open</oaf:license>
+        <oaf:projectid>corda__h2020::871042</oaf:projectid>
+    </oai:metadata>
+    <about xmlns:dc="http://purl.org/dc/elements/1.1/"
+           xmlns:prov="http://www.openarchives.org/OAI/2.0/provenance" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
+        <provenance xmlns="http://www.openarchives.org/OAI/2.0/provenance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/provenance http://www.openarchives.org/OAI/2.0/provenance.xsd">
+            <originDescription altered="true" harvestDate="2023-09-08T10:12:35.864+02:00">
+                <baseURL>https%3A%2F%2Fapi.d4science.org%2Fcatalogue%2Fitems</baseURL>
+                <identifier/>
+                <datestamp/>
+                <metadataNamespace/>
+            </originDescription>
+        </provenance>
+        <oaf:datainfo>
+            <oaf:inferred>false</oaf:inferred>
+            <oaf:deletedbyinference>false</oaf:deletedbyinference>
+            <oaf:trust>0.9</oaf:trust>
+            <oaf:inferenceprovenance/>
+            <oaf:provenanceaction classid="sysimport:crosswalk"
+                                  classname="Harvested" schemeid="dnet:provenanceActions" schemename="dnet:provenanceActions"/>
+        </oaf:datainfo>
+    </about>
+</oai:record>

dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/raw/d4science-2-dataset.xml

@@ -0,0 +1,72 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<oai:record xmlns:dr="http://www.driver-repository.eu/namespace/dr"
+            xmlns:dri="http://www.driver-repository.eu/namespace/dri"
+            xmlns:oaf="http://namespace.openaire.eu/oaf" xmlns:oai="http://www.openarchives.org/OAI/2.0/">
+    <oai:header>
+        <dri:objIdentifier>alessia_____::028879484548f4e1c630e1c503e35231</dri:objIdentifier>
+        <dri:recordIdentifier>4fed018e-c2ff-4afa-b7b5-1ca1beebf850</dri:recordIdentifier>
+        <dri:dateOfCollection>2023-09-08T12:14:27.615+02:00</dri:dateOfCollection>
+        <oaf:datasourceprefix>alessia_____</oaf:datasourceprefix>
+        <dr:dateOfTransformation>2023-09-08T12:14:51.7+02:00</dr:dateOfTransformation>
+    </oai:header>
+    <oai:metadata>
+        <datacite:resource
+                xmlns:datacite="http://datacite.org/schema/kernel-4"
+                xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4/metadata.xsd">
+            <datacite:identifier identifierType="URL">http://data.d4science.org/ctlg/ResourceCatalogue/city-to-city_migration</datacite:identifier>
+            <datacite:alternateIdentifiers>
+                <datacite:alternateIdentifier type="URL"/>
+            </datacite:alternateIdentifiers>
+            <datacite:creators>
+                <datacite:creator>
+                    <datacite:creatorName>Pappalardo, Luca</datacite:creatorName>
+                    <datacite:affiliation/>
+                    <datacite:nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org">0000-0002-1547-6007</datacite:nameIdentifier>
+                </datacite:creator>
+            </datacite:creators>
+            <datacite:titles>
+                <datacite:title>City-to-city migration</datacite:title>
+            </datacite:titles>
+            <datacite:publisher>SoBigData++</datacite:publisher>
+            <datacite:publicationYear/>
+            <datacite:dates>
+                <datacite:date dateType="Issued">2018-02-15</datacite:date>
+            </datacite:dates>
+            <datacite:resourceType resourceTypeGeneral="Dataset">Dataset</datacite:resourceType>
+            <datacite:descriptions>
+                <datacite:description descriptionType="Abstract">Census data recording the migration of people between metropolitan areas in
+                    the US</datacite:description>
+            </datacite:descriptions>
+            <datacite:subjects>
+                <datacite:subject>Human Mobility data</datacite:subject>
+            </datacite:subjects>
+            <datacite:formats/>
+        </datacite:resource>
+        <oaf:accessrights>OPEN</oaf:accessrights>
+        <dr:CobjCategory type="dataset">0021</dr:CobjCategory>
+        <oaf:dateAccepted>2018-02-15</oaf:dateAccepted>
+        <oaf:hostedBy id="alessia_____::alessia" name="Alessia"/>
+        <oaf:collectedFrom id="alessia_____::alessia" name="Alessia"/>
+        <oaf:license>AFL-3.0</oaf:license>
+        <oaf:projectid>corda__h2020::871042</oaf:projectid>
+    </oai:metadata>
+    <about xmlns:dc="http://purl.org/dc/elements/1.1/"
+           xmlns:prov="http://www.openarchives.org/OAI/2.0/provenance" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
+        <provenance xmlns="http://www.openarchives.org/OAI/2.0/provenance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/provenance http://www.openarchives.org/OAI/2.0/provenance.xsd">
+            <originDescription altered="true" harvestDate="2023-09-08T12:14:27.615+02:00">
+                <baseURL>https%3A%2F%2Fapi.d4science.org%2Fcatalogue%2Fitems</baseURL>
+                <identifier/>
+                <datestamp/>
+                <metadataNamespace/>
+            </originDescription>
+        </provenance>
+        <oaf:datainfo>
+            <oaf:inferred>false</oaf:inferred>
+            <oaf:deletedbyinference>false</oaf:deletedbyinference>
+            <oaf:trust>0.9</oaf:trust>
+            <oaf:inferenceprovenance/>
+            <oaf:provenanceaction classid="sysimport:crosswalk"
+                                  classname="Harvested" schemeid="dnet:provenanceActions" schemename="dnet:provenanceActions"/>
+        </oaf:datainfo>
+    </about>
+</oai:record>

dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/XmlRecordFactoryTest.java

@@ -24,10 +24,7 @@ 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.XmlRecordFactory;
-import eu.dnetlib.dhp.schema.oaf.Datasource;
-import eu.dnetlib.dhp.schema.oaf.Project;
-import eu.dnetlib.dhp.schema.oaf.Publication;
-import eu.dnetlib.dhp.schema.oaf.Relation;
+import eu.dnetlib.dhp.schema.oaf.*;
 
 public class XmlRecordFactoryTest {
 
@@ -196,4 +193,51 @@ public class XmlRecordFactoryTest {
 		assertEquals("dnet:pid_types", ((Element) pids.get(0)).attribute("schemeid").getValue());
 		assertEquals("dnet:pid_types", ((Element) pids.get(0)).attribute("schemename").getValue());
 	}
+
+	@Test
+	public void testD4ScienceTraining() throws DocumentException, IOException {
+		final ContextMapper contextMapper = new ContextMapper();
+
+		final XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false,
+			XmlConverterJob.schemaLocation);
+
+		final OtherResearchProduct p = OBJECT_MAPPER
+			.readValue(
+				IOUtils.toString(getClass().getResourceAsStream("d4science-1-training.json")),
+				OtherResearchProduct.class);
+
+		final String xml = xmlRecordFactory.build(new JoinedEntity<>(p));
+
+		assertNotNull(xml);
+
+		final Document doc = new SAXReader().read(new StringReader(xml));
+
+		assertNotNull(doc);
+		System.out.println(doc.asXML());
+
+	}
+
+	@Test
+	public void testD4ScienceDataset() throws DocumentException, IOException {
+		final ContextMapper contextMapper = new ContextMapper();
+
+		final XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false,
+			XmlConverterJob.schemaLocation);
+
+		final OtherResearchProduct p = OBJECT_MAPPER
+			.readValue(
+				IOUtils.toString(getClass().getResourceAsStream("d4science-2-dataset.json")),
+				OtherResearchProduct.class);
+
+		final String xml = xmlRecordFactory.build(new JoinedEntity<>(p));
+
+		assertNotNull(xml);
+
+		final Document doc = new SAXReader().read(new StringReader(xml));
+
+		assertNotNull(doc);
+		System.out.println(doc.asXML());
+
+	}
+
 }

dhp-workflows/dhp-impact-indicators/src/main/resources/eu/dnetlib/dhp/oa/graph/impact_indicators/oozie_app/workflow.xml

@@ -39,7 +39,8 @@
 		<switch>
 			<!-- The default will be set as the normal start, a.k.a. get-doi-synonyms -->
 			<!-- If any different condition is set, go to the corresponding start -->
-			<case to="non-iterative-rankings">${wf:conf('resume') eq "rankings-start"}</case>
+			<case to="spark-cc">${wf:conf('resume') eq "cc"}</case>
+			<case to="spark-ram">${wf:conf('resume') eq "ram"}</case>
 			<case to="spark-impulse">${wf:conf('resume') eq "impulse"}</case>
 			<case to="spark-pagerank">${wf:conf('resume') eq "pagerank"}</case>
 			<case to="spark-attrank">${wf:conf('resume') eq "attrank"}</case>
@@ -89,18 +90,11 @@
 			<file>${nameNode}${wfAppPath}/create_openaire_ranking_graph.py#create_openaire_ranking_graph.py</file>
 		</spark>
 
-		<ok to="non-iterative-rankings" />
+		<ok to="spark-cc"/>
 		<error to="openaire-graph-error" />
 
 	</action>
 
-	<!-- Citation Count and RAM are calculated in parallel-->
-	<fork name="non-iterative-rankings">
-		<path start="spark-cc"/>
-		<!-- <path start="spark-impulse"/> -->
-		<path start="spark-ram"/>
-	</fork>
-
 	<!-- Run Citation Count calculation -->
 	<action name="spark-cc">
 		<spark xmlns="uri:oozie:spark-action:0.2">
@@ -129,7 +123,7 @@
 			<file>${wfAppPath}/bip-ranker/CC.py#CC.py</file>
 		</spark>
 
-		<ok to="join-non-iterative-rankings" />
+		<ok to="spark-ram" />
 		<error to="cc-fail" />
 
 	</action>
@@ -165,14 +159,11 @@
 			<file>${wfAppPath}/bip-ranker/TAR.py#TAR.py</file>
 		</spark>
 
-		<ok to="join-non-iterative-rankings" />
+		<ok to="spark-impulse" />
 		<error to="ram-fail" />
 
 	</action>
 
-	<!-- Join non-iterative methods -->
-	<join name="join-non-iterative-rankings" to="spark-impulse"/>
-
 	<action name="spark-impulse">
 		<spark xmlns="uri:oozie:spark-action:0.2">
 

pom.xml

@@ -112,6 +112,16 @@
 			<url>https://maven.d4science.org/nexus/content/repositories/dnet-deps</url>
 			<layout>default</layout>
 		</repository>
+		<repository>
+			<id>maven-restlet</id>
+			<name>Restlet repository</name>
+			<url>https://maven.restlet.talend.com</url>
+		</repository>
+		<repository>
+			<id>conjars</id>
+			<name>conjars</name>
+			<url>https://conjars.wensel.net/repo/</url>
+		</repository>
 	</repositories>
 
 	<dependencies>