Revision 54764
Added by Claudio Atzori over 5 years ago
| modules/dnet-mapreduce-jobs/trunk/src/main/java/eu/dnetlib/data/mapreduce/hbase/broker/PIDEventFactory.java | ||
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| 1 | 1 |
package eu.dnetlib.data.mapreduce.hbase.broker; |
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import static eu.dnetlib.data.mapreduce.hbase.broker.mapping.EventFactory.asEvent; |
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import com.google.common.collect.Lists; |
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import eu.dnetlib.broker.objects.OpenAireEventPayload; |
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import eu.dnetlib.data.mapreduce.hbase.broker.mapping.HighlightFactory; |
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import eu.dnetlib.data.mapreduce.hbase.broker.mapping.OpenAireEventPayloadFactory; |
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import eu.dnetlib.data.mapreduce.hbase.broker.model.EventWrapper; |
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import eu.dnetlib.data.proto.FieldTypeProtos.StructuredProperty; |
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import eu.dnetlib.data.proto.OafProtos.Oaf; |
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import org.apache.commons.lang3.StringUtils; |
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import java.io.IOException; |
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import java.util.Collection; |
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import java.util.List; |
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import java.util.Objects; |
| ... | ... | |
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import java.util.stream.Collectors; |
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import java.util.stream.Stream; |
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import org.apache.commons.lang3.StringUtils; |
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import org.dom4j.DocumentException; |
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import static eu.dnetlib.data.mapreduce.hbase.broker.mapping.EventFactory.asEvent; |
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import com.google.common.collect.Lists; |
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import eu.dnetlib.broker.objects.OpenAireEventPayload; |
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import eu.dnetlib.data.mapreduce.hbase.broker.mapping.HighlightFactory; |
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import eu.dnetlib.data.mapreduce.hbase.broker.mapping.OpenAireEventPayloadFactory; |
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import eu.dnetlib.data.mapreduce.hbase.broker.model.EventWrapper; |
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import eu.dnetlib.data.proto.FieldTypeProtos.StructuredProperty; |
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import eu.dnetlib.data.proto.OafProtos.Oaf; |
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/** |
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* Created by claudio on 26/07/16. |
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*/ |
| modules/dnet-mapreduce-jobs/trunk/src/main/java/eu/dnetlib/data/mapreduce/hbase/broker/enrich/EnrichmentReducer.java | ||
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| 76 | 76 |
events.addAll(OAVersionEventFactory.process(current, other, trust, untrustedOaDsList)); |
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events.addAll(AbstractEventFactory.process(current, other, trust)); |
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events.addAll(PublicationDateEventFactory.process(current, other, trust)); |
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events.addAll(OrcidEventFactory.process(current, other, trust)); |
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} |
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events.addAll(SubjectEventFactory.process(context, current, other, trust)); |
| modules/dnet-mapreduce-jobs/trunk/src/main/java/eu/dnetlib/data/mapreduce/hbase/broker/enrich/SoftwareEnrichmentMapper.java | ||
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public class SoftwareEnrichmentMapper extends AbstractEnrichmentMapper {
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public static final String SOFTWARE = "software"; |
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public static final String RESULT_RESULT_RELATIONSHIP_IS_RELATED_TO = "resultResult_relationship_isRelatedTo"; |
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public static final String PUBLICATION = "publication"; |
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public static final String RESULT_RESULT_RELATIONSHIP_IS_RELATED_TO = "resultResult_relationship_isRelatedTo"; |
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@Override |
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protected String counterGroup() {
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return "Broker Enrichment Software"; |
| modules/dnet-mapreduce-jobs/trunk/src/main/java/eu/dnetlib/data/mapreduce/hbase/broker/mapping/HighlightFactory.java | ||
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import com.google.common.collect.Lists; |
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import eu.dnetlib.broker.objects.OpenAireEventPayload; |
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import eu.dnetlib.data.proto.FieldTypeProtos; |
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import eu.dnetlib.data.proto.FieldTypeProtos.StringField; |
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import eu.dnetlib.data.proto.FieldTypeProtos.StructuredProperty; |
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import eu.dnetlib.data.proto.OafProtos.OafEntity; |
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import eu.dnetlib.data.proto.ResultProtos.Result.Instance; |
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import static eu.dnetlib.data.mapreduce.util.OafHbaseUtils.getValue; |
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import static eu.dnetlib.data.mapreduce.util.OafHbaseUtils.listValues; |
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import static eu.dnetlib.data.mapreduce.util.OafHbaseUtils.*; |
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/** |
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* Created by alessia on 21/07/16. |
| ... | ... | |
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return p; |
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} |
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public static OpenAireEventPayload highlightEnrichOrcidAuthor(final OpenAireEventPayload p, final FieldTypeProtos.Author author) {
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p.getHighlight().getCreators().add(mapValue(author)); |
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return p; |
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} |
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public static OpenAireEventPayload highlightEnrichSubject(final OpenAireEventPayload p, final List<StructuredProperty> subjects) {
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p.getHighlight().setSubjects(listValues(subjects)); |
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return p; |
| modules/dnet-mapreduce-jobs/trunk/src/main/java/eu/dnetlib/data/mapreduce/hbase/broker/Topic.java | ||
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ENRICH_MISSING_SUBJECT_DDC("ENRICH/MISSING/SUBJECT/DDC"),
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ENRICH_MISSING_SUBJECT_ACM("ENRICH/MISSING/SUBJECT/ACM"),
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ENRICH_MISSING_SUBJECT_RVK("ENRICH/MISSING/SUBJECT/RVK"),
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ENRICH_MISSING_AUTHOR_ORCID("ENRICH/MISSING/AUTHOR/ORCID"),
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// ENRICHMENT MORE |
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ENRICH_MORE_PID("ENRICH/MORE/PID"),
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| modules/dnet-mapreduce-jobs/trunk/src/main/java/eu/dnetlib/data/mapreduce/util/OafHbaseUtils.java | ||
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return Lists.newArrayList(Iterables.transform(ts, t -> mapValue(t))); |
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} |
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public static <T> List<String> listObjects(Iterable<T> ts) {
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return Lists.newArrayList(Iterables.transform(ts, t -> mapObject(t))); |
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} |
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public static <T> String getKey(Iterable<T> ts) {
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return Iterables.getFirst(listKeys(ts), ""); |
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} |
| ... | ... | |
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throw new IllegalArgumentException(String.format("type %s not mapped", t.getClass()));
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} |
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private static <T> String mapValue(final T t) {
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public static <T> String mapValue(final T t) {
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if (t instanceof StructuredProperty) return ((StructuredProperty) t).getValue(); |
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if (t instanceof KeyValue) return ((KeyValue) t).getValue(); |
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if (t instanceof String) return (String) t; |
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if (t instanceof StringField) return ((StringField) t).getValue(); |
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if (t instanceof Qualifier) return ((Qualifier) t).getClassname(); |
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if (t instanceof Author) return ((Author) t).getFullname(); |
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if (t instanceof Author) {
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Author a = (Author) t; |
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if (a.getPidCount() == 0) {
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return a.getFullname(); |
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} else {
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return a.getFullname() + " " + listObjects(a.getPidList()); |
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} |
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} |
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throw new IllegalArgumentException(String.format("type %s not mapped", t.getClass()));
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} |
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public static <T> String mapObject(final T t) {
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if (t instanceof KeyValue) {
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KeyValue kv = (KeyValue) t; |
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return kv.getKey() + ":" + kv.getValue(); |
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} |
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if (t instanceof String) return (String) t; |
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throw new IllegalArgumentException(String.format("type %s not mapped", t.getClass()));
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} |
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public static List<String> getPropertyValues(final Reducer.Context context, final String name) {
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return doGetPropertyValues(context.getConfiguration().get(name, "")); |
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} |
| modules/dnet-openaireplus-workflows/branches/solr75/src/main/resources/eu/dnetlib/test/profiles/openaireplus/workflows/broker/calculateEnrichmentEvents.meta.xml | ||
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<WORKFLOW id="a6901d21-c09d-43dc-8fc9-236c32069293_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl" name="Calculate person distribution"> |
| 16 | 16 |
<WORKFLOW id="b9b6cd8a-8ee2-4a74-9344-f087eeac29ed_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl" name="Calculate enrichment events"/> |
| 17 | 17 |
<WORKFLOW id="6472af0e-f2ed-4ee5-835f-de698d89a7a7_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl" name="Calculate enrichment Project events"/> |
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<WORKFLOW id="120a074a-8b1b-485e-9d1c-1d0466b056ac_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl" name="Calculate enrichment Software links events"/> |
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</WORKFLOW> |
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</CONFIGURATION> |
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<SCHEDULING enabled="false"> |
| modules/dnet-openaireplus-workflows/branches/solr75/src/main/resources/eu/dnetlib/test/profiles/openaireplus/workflows/broker/calculateEnrichmentSoftwareLinksEvents.xml | ||
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<RESOURCE_PROFILE> |
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<HEADER> |
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<RESOURCE_IDENTIFIER value="120a074a-8b1b-485e-9d1c-1d0466b056ac_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl"/> |
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<RESOURCE_TYPE value="WorkflowDSResourceType"/> |
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<RESOURCE_KIND value="WorkflowDSResources"/> |
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<RESOURCE_URI value=""/> |
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<DATE_OF_CREATION value="2015-10-12T14:10:32+00:00"/> |
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</HEADER> |
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<BODY> |
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<WORKFLOW_NAME>Calculate enrichment Software links events</WORKFLOW_NAME> |
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<WORKFLOW_TYPE>Notification Broker</WORKFLOW_TYPE> |
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<WORKFLOW_PRIORITY>30</WORKFLOW_PRIORITY> |
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<CONFIGURATION start="manual"> |
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<NODE name="hadoopConfig" type="SetClusterAndTable" isStart="true"> |
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<DESCRIPTION>Set table name</DESCRIPTION> |
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<PARAMETERS> |
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<PARAM required="true" type="string" name="cluster" managedBy="system">DM</PARAM> |
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<PARAM required="true" type="string" name="tableParam" managedBy="system">tableName</PARAM> |
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<PARAM required="true" type="string" name="table" managedBy="user"/> |
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</PARAMETERS> |
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<ARCS> |
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<ARC to="cleanupHDFS"/> |
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</ARCS> |
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</NODE> |
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|
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<NODE name="setDedupConfigs" type="SetDedupConfiguration" isStart="true"> |
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<DESCRIPTION>Set Dedup conf</DESCRIPTION> |
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<PARAMETERS> |
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<PARAM function="obtainValues('dedupOrchestrations', {})" required="true" type="string" name="dedupConfigSequence" managedBy="user"></PARAM>
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<PARAM required="true" type="string" name="dedupConfigSequenceParam" managedBy="system">dedup.conf.queue</PARAM> |
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</PARAMETERS> |
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<ARCS> |
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<ARC to="cleanupHDFS"/> |
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</ARCS> |
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</NODE> |
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<NODE name="cleanupHDFS" type="DeleteHdfsPathJob" isJoin="true"> |
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<DESCRIPTION>hdfs cleanup (xml)</DESCRIPTION> |
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<PARAMETERS> |
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<PARAM required="true" type="string" name="cluster" managedBy="system">DM</PARAM> |
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<PARAM required="true" type="string" name="envParams" managedBy="system"> |
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{
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'path' : 'brokerEventsPath' |
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} |
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</PARAM> |
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</PARAMETERS> |
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<ARCS> |
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<ARC to="enrichment"/> |
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</ARCS> |
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</NODE> |
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<NODE name="enrichment" type="DedupConfigurationAwareJob"> |
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<DESCRIPTION>Run M/R Job</DESCRIPTION> |
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<PARAMETERS> |
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<PARAM managedBy="system" name="cluster" required="true" type="string">DM</PARAM> |
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<PARAM managedBy="system" name="hadoopJob" required="true" type="string">brokerEnrichmentSoftwareLinksJob</PARAM> |
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<PARAM required="true" type="string" name="dedupConfigSequenceParam" managedBy="system">dedup.conf.queue</PARAM> |
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<PARAM managedBy="system" name="envParams" required="false" type="string"> |
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{
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'hbase.mapred.inputtable' : 'tableName', |
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'hbase.mapreduce.inputtable' : 'tableName' |
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} |
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</PARAM> |
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</PARAMETERS> |
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<ARCS> |
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<ARC to="success"/> |
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</ARCS> |
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</NODE> |
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</CONFIGURATION> |
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<STATUS/> |
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</BODY> |
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</RESOURCE_PROFILE> |
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| modules/dnet-openaireplus-profiles/trunk/src/main/resources/eu/dnetlib/test/profiles/HadoopJobConfigurationDSResources/HadoopJobConfigurationDSResourceType/brokerEnrichmentSoftwareLinksJob.xml | ||
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<RESOURCE_PROFILE> |
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<HEADER> |
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<RESOURCE_IDENTIFIER value="0631da9f-8a4f-4412-828b-37f7a0aa6d71_SGFkb29wSm9iQ29uZmlndXJhdGlvbkRTUmVzb3VyY2VzL0hhZG9vcEpvYkNvbmZpZ3VyYXRpb25EU1Jlc291cmNlVHlwZQ=="/> |
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<RESOURCE_TYPE value="HadoopJobConfigurationDSResourceType"/> |
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<RESOURCE_KIND value="HadoopJobConfigurationDSResources"/> |
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<RESOURCE_URI value=""/> |
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<DATE_OF_CREATION value="2001-12-31T12:00:00"/> |
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</HEADER> |
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<BODY> |
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<HADOOP_JOB name="brokerEnrichmentSoftwareLinksJob" type="mapreduce"> |
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<DESCRIPTION>map reduce job that calculates the enrichment events based on the publications dedup results</DESCRIPTION> |
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|
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<STATIC_CONFIGURATION><!-- I/O FORMAT --> |
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<PROPERTY key="mapreduce.inputformat.class" value="org.apache.hadoop.hbase.mapreduce.TableInputFormat"/> |
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<PROPERTY key="mapreduce.outputformat.class" value="org.elasticsearch.hadoop.mr.EsOutputFormat"/> |
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|
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<!-- MAPPER --> |
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<PROPERTY key="mapreduce.map.class" value="eu.dnetlib.data.mapreduce.hbase.broker.enrich.SoftwareEnrichmentMapper"/> |
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<PROPERTY key="mapred.mapoutput.key.class" value="org.apache.hadoop.hbase.io.ImmutableBytesWritable"/> |
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<PROPERTY key="mapred.mapoutput.value.class" value="org.apache.hadoop.hbase.io.ImmutableBytesWritable"/> |
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|
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<!-- REDUCER --> |
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<PROPERTY key="mapreduce.reduce.class" value="eu.dnetlib.data.mapreduce.hbase.broker.enrich.SoftwareEnrichmentReducer"/> |
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<PROPERTY key="mapred.output.key.class" value="org.apache.hadoop.io.Text"/> |
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<PROPERTY key="mapred.output.value.class" value="org.apache.hadoop.io.Text"/> |
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|
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<!-- MISC --> |
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<PROPERTY key="mapred.reduce.tasks.speculative.execution" value="false"/> |
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<PROPERTY key="mapred.map.tasks.speculative.execution" value="false"/> |
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<PROPERTY key="mapreduce.map.speculative" value="false"/> |
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<PROPERTY key="mapreduce.reduce.speculative" value="false"/> |
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<PROPERTY key="dfs.blocksize" value="256M"/> |
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<PROPERTY key="mapred.reduce.tasks" value="4"/> |
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|
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<PROPERTY key="broker.baseurl.publication" value="https://explore.openaire.eu/search/publication?articleId=%s"/> |
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<PROPERTY key="broker.baseurl.dataset" value="https://explore.openaire.eu/search/dataset?datasetId=%s"/> |
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<PROPERTY key="broker.baseurl.software" value="https://explore.openaire.eu/search/software?softwareId=%s"/> |
|
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<PROPERTY key="broker.baseurl.other" value="https://explore.openaire.eu/search/other?orpId=%s"/> |
|
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|
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|
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<!-- ES --> |
|
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<PROPERTY key="es.nodes" value="ip-90-147-167-137.ct1.garrservices.it:9200,ip-90-147-167-126.ct1.garrservices.it:9200,ip-90-147-167-13.ct1.garrservices.it:9200,ip-90-147-167-125.ct1.garrservices.it:9200"/> |
|
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<PROPERTY key="es.nodes.resolve.hostname" value="false"/> |
|
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<PROPERTY key="es.batch.write.retry.count " value="10"/> |
|
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<PROPERTY key="es.batch.size.entries " value="500"/> |
|
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<PROPERTY key="es.nodes.wan.only" value="true"/> |
|
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<PROPERTY key="es.resource" value="events_{infra}/event"/>
|
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<PROPERTY key="es.input.json" value="yes"/> |
|
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<PROPERTY key="es.mapping.id" value="eventId"/> |
|
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|
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<!-- BROKER --> |
|
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<PROPERTY key="broker.datasource.id.whitelist" value=""/> |
|
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<PROPERTY key="broker.datasource.id.blacklist" value=""/> |
|
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<PROPERTY key="broker.datasource.untrusted.oa.list" value="opendoar____::8b6dd7db9af49e67306feb59a8bdc52c"/> |
|
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<PROPERTY key="broker.datasource.type.whitelist" value="pubsrepository::unknown,pubsrepository::institutional,pubsrepository::thematic"/> |
|
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|
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<!-- <PROPERTY key="user.name" value="dnet" /> --> |
|
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<!-- Uncomment to override the default lib path --> |
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<!-- <PROPERTY key="job.lib" value="/user/dnet/dnet-mapreduce-jobs-0.0.2-SNAPSHOT-jar-with-dependencies.jar"/> --> |
|
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</STATIC_CONFIGURATION> |
|
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<JOB_INTERFACE> |
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<PARAM description="source hbase table" name="hbase.mapred.inputtable" required="true"/> |
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<PARAM description="source hbase table" name="hbase.mapreduce.inputtable" required="true"/> |
|
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</JOB_INTERFACE> |
|
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<SCAN> |
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<FILTERS operator="MUST_PASS_ONE"> |
|
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<FILTER type="prefix" value="40" /> |
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<FILTER type="prefix" value="50" /> |
|
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</FILTERS> |
|
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<FAMILIES> |
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<FAMILY value="result" /> |
|
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<FAMILY value="resultResult_relationship_isRelatedTo" /> |
|
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</FAMILIES> |
|
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</SCAN> |
|
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</HADOOP_JOB> |
|
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<STATUS> |
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<LAST_SUBMISSION_DATE value="2001-12-31T12:00:00"/> |
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<RUNNING_INSTANCES value="0"/> |
|
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<CUMULATIVE_RUN value="0" /> |
|
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</STATUS> |
|
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<SECURITY_PARAMETERS>SECURITY_PARAMETERS</SECURITY_PARAMETERS> |
|
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</BODY> |
|
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</RESOURCE_PROFILE> |
|
Also available in: Unified diff
Implemented ORCID event generation process and relative configuration profile
Added workflow to orchestrate the event generation for software links