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orcid-no-doi #123

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claudio.atzori merged 13 commits from enrico.ottonello/dnet-hadoop:orcid-no-doi into master 2021-07-15 17:53:59 +02:00
Conversation 2 Commits 13 Files Changed 2 +22 -5
1 changed files with 22 additions and 5 deletions
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27
dhp-workflows/dhp-doiboost/src/main/java/eu/dnetlib/doiboost/orcidnodoi/SparkGenEnrichedOrcidWorks.java
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@ -4,6 +4,7 @@ package eu.dnetlib.doiboost.orcidnodoi;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession; import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import java.io.IOException; import java.io.IOException;
import java.util.Arrays;
import java.util.List; import java.util.List;
import java.util.Objects; import java.util.Objects;
import java.util.Optional; import java.util.Optional;
@ -32,10 +33,7 @@ import com.google.gson.JsonParser;
import eu.dnetlib.dhp.application.ArgumentApplicationParser; import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.schema.action.AtomicAction; import eu.dnetlib.dhp.schema.action.AtomicAction;
import eu.dnetlib.dhp.schema.oaf.Publication; import eu.dnetlib.dhp.schema.oaf.Publication;
import eu.dnetlib.dhp.schema.orcid.AuthorData; import eu.dnetlib.dhp.schema.orcid.*;
import eu.dnetlib.dhp.schema.orcid.AuthorSummary;
import eu.dnetlib.dhp.schema.orcid.Work;
import eu.dnetlib.dhp.schema.orcid.WorkDetail;
import eu.dnetlib.doiboost.orcid.json.JsonHelper; import eu.dnetlib.doiboost.orcid.json.JsonHelper;
import eu.dnetlib.doiboost.orcid.util.HDFSUtil; import eu.dnetlib.doiboost.orcid.util.HDFSUtil;
import eu.dnetlib.doiboost.orcidnodoi.oaf.PublicationToOaf; import eu.dnetlib.doiboost.orcidnodoi.oaf.PublicationToOaf;
@ -111,6 +109,10 @@ public class SparkGenEnrichedOrcidWorks {
Encoders.bean(WorkDetail.class)); Encoders.bean(WorkDetail.class));
logger.info("Works data loaded: " + workDataset.count()); logger.info("Works data loaded: " + workDataset.count());
final LongAccumulator warnNotFoundContributors = spark
.sparkContext()
.longAccumulator("warnNotFoundContributors");
JavaRDD<Tuple2<String, String>> enrichedWorksRDD = workDataset JavaRDD<Tuple2<String, String>> enrichedWorksRDD = workDataset
.joinWith( .joinWith(
authorDataset, authorDataset,
@ -119,7 +121,21 @@ public class SparkGenEnrichedOrcidWorks {
(MapFunction<Tuple2<WorkDetail, AuthorData>, Tuple2<String, String>>) value -> { (MapFunction<Tuple2<WorkDetail, AuthorData>, Tuple2<String, String>>) value -> {
WorkDetail w = value._1; WorkDetail w = value._1;
AuthorData a = value._2; AuthorData a = value._2;
AuthorMatcher.match(a, w.getContributors()); if (w.getContributors() == null
|| (w.getContributors() != null && w.getContributors().size() == 0)) {
Contributor c = new Contributor();
c.setName(a.getName());
c.setSurname(a.getSurname());
c.setCreditName(a.getCreditName());
c.setOid(a.getOid());
List<Contributor> contributors = Arrays.asList(c);
w.setContributors(contributors);
if (warnNotFoundContributors != null) {
warnNotFoundContributors.add(1);
}
} else {
AuthorMatcher.match(a, w.getContributors());
}
return new Tuple2<>(a.getOid(), JsonHelper.createOidWork(w)); return new Tuple2<>(a.getOid(), JsonHelper.createOidWork(w));
}, },
Encoders.tuple(Encoders.STRING(), Encoders.STRING())) Encoders.tuple(Encoders.STRING(), Encoders.STRING()))
@ -180,6 +196,7 @@ public class SparkGenEnrichedOrcidWorks {
logger.info("parsedPublications: " + parsedPublications.value().toString()); logger.info("parsedPublications: " + parsedPublications.value().toString());
logger.info("enrichedPublications: " + enrichedPublications.value().toString()); logger.info("enrichedPublications: " + enrichedPublications.value().toString());
logger.info("warnNotFoundContributors: " + warnNotFoundContributors.value().toString());
logger.info("errorsGeneric: " + errorsGeneric.value().toString()); logger.info("errorsGeneric: " + errorsGeneric.value().toString());
logger.info("errorsInvalidTitle: " + errorsInvalidTitle.value().toString()); logger.info("errorsInvalidTitle: " + errorsInvalidTitle.value().toString());
logger.info("errorsNotFoundAuthors: " + errorsNotFoundAuthors.value().toString()); logger.info("errorsNotFoundAuthors: " + errorsNotFoundAuthors.value().toString());