implemented DedupRecord factory with the merge of project

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Dataset.java

@@ -74,4 +74,26 @@ public class Dataset extends Result implements Serializable {
     public void setGeolocation(List<GeoLocation> geolocation) {
         this.geolocation = geolocation;
     }
+
+    @Override
+    public void mergeFrom(OafEntity e) {
+        super.mergeFrom(e);
+        final Dataset d = (Dataset) e;
+
+        storagedate = d.getStoragedate() != null && compareTrust(this, e)<0? d.getStoragedate() : storagedate;
+
+        device= d.getDevice() != null && compareTrust(this, e)<0? d.getDevice() : device;
+
+        size= d.getSize() != null && compareTrust(this, e)<0? d.getSize() : size;
+
+        version= d.getVersion() != null && compareTrust(this, e)<0? d.getVersion() : version;
+
+        lastmetadataupdate= d.getLastmetadataupdate() != null && compareTrust(this, e)<0? d.getLastmetadataupdate() :lastmetadataupdate;
+
+        metadataversionnumber= d.getMetadataversionnumber() != null && compareTrust(this, e)<0? d.getMetadataversionnumber() : metadataversionnumber;
+
+        geolocation = mergeLists(geolocation, d.getGeolocation());
+
+        mergeOAFDataInfo(d);
+    }
 }

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/GeoLocation.java

@@ -33,4 +33,29 @@ public class GeoLocation implements Serializable {
     public void setPlace(String place) {
         this.place = place;
     }
+
+
+    public String toComparableString() {
+        return String.format("%s::%s%s", point != null ? point.toLowerCase() : "", box != null ? box.toLowerCase() : "",place != null ? place.toLowerCase() : "");
+    }
+
+    @Override
+    public int hashCode() {
+        return toComparableString().hashCode();
+    }
+
+    @Override
+    public boolean equals(Object obj) {
+        if (this == obj)
+            return true;
+        if (obj == null)
+            return false;
+        if (getClass() != obj.getClass())
+            return false;
+
+        GeoLocation other = (GeoLocation) obj;
+
+        return toComparableString()
+                .equals(other.toComparableString());
+    }
 }

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Oaf.java

@@ -23,4 +23,24 @@ public abstract class Oaf implements Serializable {
     public void setLastupdatetimestamp(Long lastupdatetimestamp) {
         this.lastupdatetimestamp = lastupdatetimestamp;
     }
+
+
+    public void mergeOAFDataInfo(Oaf e) {
+        if (e.getDataInfo()!= null && compareTrust(this,e)<0)
+            dataInfo = e.getDataInfo();
+    }
+
+    protected String extractTrust(Oaf e) {
+        if (e == null || e.getDataInfo()== null || e.getDataInfo().getTrust()== null)
+            return  "0.0";
+        return e.getDataInfo().getTrust();
+
+
+
+    }
+
+    protected int compareTrust(Oaf a, Oaf b) {
+        return extractTrust(a).compareTo(extractTrust(b));
+
+    }
 }

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/OafEntity.java

@@ -86,6 +86,7 @@ public abstract class OafEntity extends Oaf implements Serializable {
         this.oaiprovenance = oaiprovenance;
     }
 
+
     public void mergeFrom(OafEntity e) {
 
         if (e == null)
@@ -97,12 +98,15 @@ public abstract class OafEntity extends Oaf implements Serializable {
 
         pid = mergeLists(pid, e.getPid());
 
+        if (e.getDateofcollection() != null && compareTrust(this, e) < 0)
             dateofcollection = e.getDateofcollection();
 
+        if (e.getDateoftransformation() != null && compareTrust(this, e) < 0)
             dateoftransformation = e.getDateoftransformation();
 
         extraInfo = mergeLists(extraInfo, e.getExtraInfo());
 
+        if (e.getOaiprovenance() != null && compareTrust(this, e) < 0)
             oaiprovenance = e.getOaiprovenance();
 
     }

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Organization.java

@@ -170,21 +170,22 @@ public class Organization extends OafEntity implements Serializable {
     public void mergeFrom(OafEntity e) {
         super.mergeFrom(e);
         final Organization o = (Organization) e;
-        legalshortname = o.getLegalshortname() != null ? o.getLegalshortname() : legalshortname;
+        legalshortname = o.getLegalshortname() != null && compareTrust(this, e)<0? o.getLegalshortname() : legalshortname;
-        legalname = o.getLegalname() != null ? o.getLegalname() : legalname;
+        legalname = o.getLegalname() != null && compareTrust(this, e)<0 ? o.getLegalname() : legalname;
         alternativeNames = mergeLists(o.getAlternativeNames(), alternativeNames);
-        websiteurl = o.getWebsiteurl() != null ? o.getWebsiteurl() : websiteurl;
+        websiteurl = o.getWebsiteurl() != null && compareTrust(this, e)<0? o.getWebsiteurl() : websiteurl;
-        logourl = o.getLogourl() != null ? o.getLogourl() : logourl;
+        logourl = o.getLogourl() != null && compareTrust(this, e)<0? o.getLogourl() : logourl;
-        eclegalbody = o.getEclegalbody() != null ? o.getEclegalbody() : eclegalbody;
+        eclegalbody = o.getEclegalbody() != null && compareTrust(this, e)<0? o.getEclegalbody() : eclegalbody;
-        eclegalperson = o.getEclegalperson() != null ? o.getEclegalperson() : eclegalperson;
+        eclegalperson = o.getEclegalperson() != null && compareTrust(this, e)<0? o.getEclegalperson() : eclegalperson;
-        ecnonprofit = o.getEcnonprofit() != null ? o.getEcnonprofit() : ecnonprofit;
+        ecnonprofit = o.getEcnonprofit() != null && compareTrust(this, e)<0? o.getEcnonprofit() : ecnonprofit;
-        ecresearchorganization = o.getEcresearchorganization() != null ? o.getEcresearchorganization() : ecresearchorganization;
+        ecresearchorganization = o.getEcresearchorganization() != null && compareTrust(this, e)<0? o.getEcresearchorganization() : ecresearchorganization;
-        echighereducation = o.getEchighereducation() != null ? o.getEchighereducation() : echighereducation;
+        echighereducation = o.getEchighereducation() != null && compareTrust(this, e)<0? o.getEchighereducation() : echighereducation;
-        ecinternationalorganizationeurinterests = o.getEcinternationalorganizationeurinterests() != null ? o.getEcinternationalorganizationeurinterests() : ecinternationalorganizationeurinterests;
+        ecinternationalorganizationeurinterests = o.getEcinternationalorganizationeurinterests() != null && compareTrust(this, e)<0? o.getEcinternationalorganizationeurinterests() : ecinternationalorganizationeurinterests;
-        ecinternationalorganization = o.getEcinternationalorganization() != null ? o.getEcinternationalorganization() : ecinternationalorganization;
+        ecinternationalorganization = o.getEcinternationalorganization() != null && compareTrust(this, e)<0? o.getEcinternationalorganization() : ecinternationalorganization;
-        ecenterprise = o.getEcenterprise() != null ? o.getEcenterprise() :ecenterprise;
+        ecenterprise = o.getEcenterprise() != null && compareTrust(this, e)<0? o.getEcenterprise() :ecenterprise;
-        ecsmevalidated = o.getEcsmevalidated() != null ? o.getEcsmevalidated() :ecsmevalidated;
+        ecsmevalidated = o.getEcsmevalidated() != null && compareTrust(this, e)<0? o.getEcsmevalidated() :ecsmevalidated;
-        ecnutscode = o.getEcnutscode() != null ? o.getEcnutscode() :ecnutscode;
+        ecnutscode = o.getEcnutscode() != null && compareTrust(this, e)<0? o.getEcnutscode() :ecnutscode;
-        country = o.getCountry() != null ? o.getCountry() :country;
+        country = o.getCountry() != null && compareTrust(this, e)<0 ? o.getCountry() :country;
+        mergeOAFDataInfo(o);
     }
 }

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Project.java

@@ -264,4 +264,39 @@ public class Project extends OafEntity implements Serializable {
     public void setFundedamount(Float fundedamount) {
         this.fundedamount = fundedamount;
     }
+
+
+    @Override
+    public void mergeFrom(OafEntity e) {
+        super.mergeFrom(e);
+        Project p = (Project)e;
+
+            websiteurl= p.getWebsiteurl()!= null && compareTrust(this,e)<0?p.getWebsiteurl():websiteurl;
+            code= p.getCode()!=null && compareTrust(this,e)<0?p.getCode():code;
+            acronym= p.getAcronym()!= null && compareTrust(this,e)<0?p.getAcronym():acronym;
+            title= p.getTitle()!= null && compareTrust(this,e)<0?p.getTitle():title;
+            startdate= p.getStartdate()!=null && compareTrust(this,e)<0?p.getStartdate():startdate;
+            enddate= p.getEnddate()!=null && compareTrust(this,e)<0?p.getEnddate():enddate;
+            callidentifier= p.getCallidentifier()!=null && compareTrust(this,e)<0?p.getCallidentifier():callidentifier;
+            keywords= p.getKeywords()!=null && compareTrust(this,e)<0?p.getKeywords():keywords;
+            duration= p.getDuration()!=null && compareTrust(this,e)<0?p.getDuration():duration;
+            ecsc39= p.getEcsc39()!=null && compareTrust(this,e)<0?p.getEcsc39():ecsc39;
+            oamandatepublications= p.getOamandatepublications()!=null && compareTrust(this,e)<0?p.getOamandatepublications():oamandatepublications;
+            ecarticle29_3= p.getEcarticle29_3()!=null && compareTrust(this,e)<0?p.getEcarticle29_3():ecarticle29_3;
+            subjects= mergeLists(subjects, p.getSubjects());
+            fundingtree= mergeLists(fundingtree, p.getFundingtree());
+            contracttype= p.getContracttype()!=null && compareTrust(this,e)<0?p.getContracttype():contracttype;
+            optional1= p.getOptional1()!=null && compareTrust(this,e)<0?p.getOptional1():optional1;
+            optional2= p.getOptional2()!=null && compareTrust(this,e)<0?p.getOptional2():optional2;
+            jsonextrainfo= p.getJsonextrainfo()!=null && compareTrust(this,e)<0?p.getJsonextrainfo():jsonextrainfo;
+            contactfullname= p.getContactfullname()!=null && compareTrust(this,e)<0?p.getContactfullname():contactfullname;
+            contactfax= p.getContactfax()!=null && compareTrust(this,e)<0?p.getContactfax():contactfax;
+            contactphone= p.getContactphone()!=null && compareTrust(this,e)<0?p.getContactphone():contactphone;
+            contactemail= p.getContactemail()!=null && compareTrust(this,e)<0?p.getContactemail():contactemail;
+            summary= p.getSummary()!=null && compareTrust(this,e)<0?p.getSummary():summary;
+            currency= p.getCurrency()!=null && compareTrust(this,e)<0?p.getCurrency():currency;
+            totalcost= p.getTotalcost()!=null && compareTrust(this,e)<0?p.getTotalcost():totalcost;
+            fundedamount= p.getFundedamount()!= null && compareTrust(this,e)<0?p.getFundedamount():fundedamount;
+            mergeOAFDataInfo(e);
+    }
 }

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Publication.java

@@ -21,8 +21,9 @@ public class Publication extends Result implements Serializable {
 
         Publication p = (Publication) e;
 
-        if (p.getJournal() != null)
+        if (p.getJournal() != null && compareTrust(this, e)<0)
             journal = p.getJournal();
+        mergeOAFDataInfo(e);
     }
 
 

dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Result.java

@@ -252,10 +252,10 @@ public abstract class Result extends OafEntity implements Serializable {
 
         instance = mergeLists(instance, r.getInstance());
 
-        if (r.getResulttype() != null)
+        if (r.getResulttype() != null && compareTrust(this, r)<0)
             resulttype = r.getResulttype();
 
-        if (r.getLanguage() != null)
+        if (r.getLanguage() != null && compareTrust(this, r)<0)
             language = r.getLanguage();
 
         country = mergeLists(country, r.getCountry());
@@ -268,10 +268,10 @@ public abstract class Result extends OafEntity implements Serializable {
 
         description = longestLists(description, r.getDescription());
 
-        if (r.getPublisher() != null)
+        if (r.getPublisher() != null && compareTrust(this, r)<0)
             publisher = r.getPublisher();
 
-        if (r.getEmbargoenddate() != null)
+        if (r.getEmbargoenddate() != null && compareTrust(this, r)<0)
             embargoenddate = r.getEmbargoenddate();
 
         source = mergeLists(source, r.getSource());
@@ -287,21 +287,23 @@ public abstract class Result extends OafEntity implements Serializable {
 
         coverage = mergeLists(coverage, r.getCoverage());
 
-        if (r.getRefereed() != null)
+        if (r.getRefereed() != null && compareTrust(this, r)<0)
             refereed = r.getRefereed();
 
         context = mergeLists(context, r.getContext());
 
-        if (r.getProcessingchargeamount() != null)
+        if (r.getProcessingchargeamount() != null && compareTrust(this, r)<0)
             processingchargeamount = r.getProcessingchargeamount();
 
-        if (r.getProcessingchargecurrency() != null)
+        if (r.getProcessingchargecurrency() != null && compareTrust(this, r)<0)
             processingchargecurrency = r.getProcessingchargecurrency();
 
         externalReference = mergeLists(externalReference, r.getExternalReference());
 
     }
 
+
+
     private List<Field<String>> longestLists(List<Field<String>> a, List<Field<String>> b) {
         if(a == null || b == null)
             return a==null?b:a;

dhp-workflows/dhp-dedup/src/main/java/eu/dnetlib/dedup/DedupRecordFactory.java

@@ -24,6 +24,8 @@ public class DedupRecordFactory {
 
     public static JavaRDD<OafEntity> createDedupRecord(final JavaSparkContext sc, final SparkSession spark, final String mergeRelsInputPath, final String entitiesInputPath, final OafEntityType entityType, final DedupConfig dedupConf) {
 
+
+        long ts = System.currentTimeMillis();
         //<id, json_entity>
         final JavaPairRDD<String, String> inputJsonEntities = sc.textFile(entitiesInputPath)
                 .mapToPair((PairFunction<String, String, String>) it ->
@@ -43,57 +45,31 @@ public class DedupRecordFactory {
         //<dedup_id, json_entity_merged>
         final JavaPairRDD<String, String> joinResult = mergeRels.join(inputJsonEntities).mapToPair((PairFunction<Tuple2<String, Tuple2<String, String>>, String, String>) Tuple2::_2);
 
-        JavaPairRDD<OafKey, String> keyJson = joinResult.mapToPair((PairFunction<Tuple2<String, String>, OafKey, String>) json -> {
+        JavaPairRDD<String, Iterable<String>> sortedJoinResult = joinResult.groupByKey();
-
-            String idValue = json._1();
-
-            String trust = "";
-            try {
-                trust = MapDocumentUtil.getJPathString("$.dataInfo.trust", json._2());
-            } catch (Throwable e) {
-
-            }
-
-            //TODO remember to replace this with the actual trust retrieving
-            if (StringUtils.isBlank(trust)) {
-                Random generator = new Random();
-                int number = generator.nextInt(20);
-                double result = (number / 100.0) + 0.80;
-                trust = "" + result;
-            }
-
-            return new Tuple2<OafKey, String>(new OafKey(idValue, trust), json._2());
-        });
-
-        OafComparator c = new OafComparator();
-        //<dedup_id, mergedRecordsSortedByTrust>
-        JavaPairRDD<String, Iterable<String>> sortedJoinResult = keyJson.repartitionAndSortWithinPartitions(new OafPartitioner(keyJson.getNumPartitions()), c)
-                .mapToPair((PairFunction<Tuple2<OafKey, String>, String, String>) t -> new Tuple2<String, String>(t._1().getDedupId(), t._2()))
-                .groupByKey();
-
 
         switch (entityType) {
             case publication:
-                return sortedJoinResult.map(DedupRecordFactory::publicationMerger);
+
+                return sortedJoinResult.map(p->DedupRecordFactory.publicationMerger(p, ts));
             case dataset:
-                return sortedJoinResult.map(DedupRecordFactory::datasetMerger);
+                return sortedJoinResult.map(d->DedupRecordFactory.datasetMerger(d,ts));
             case project:
-                return sortedJoinResult.map(DedupRecordFactory::projectMerger);
+                return sortedJoinResult.map(p->DedupRecordFactory.projectMerger(p,ts));
             case software:
-                return sortedJoinResult.map(DedupRecordFactory::softwareMerger);
+                return sortedJoinResult.map(s->DedupRecordFactory.softwareMerger(s,ts));
             case datasource:
-                return sortedJoinResult.map(DedupRecordFactory::datasourceMerger);
+                return sortedJoinResult.map(d->DedupRecordFactory.datasourceMerger(d,ts));
             case organization:
-                return sortedJoinResult.map(DedupRecordFactory::organizationMerger);
+                return sortedJoinResult.map(o->DedupRecordFactory.organizationMerger(o,ts));
             case otherresearchproduct:
-                return sortedJoinResult.map(DedupRecordFactory::otherresearchproductMerger);
+                return sortedJoinResult.map(o->DedupRecordFactory.otherresearchproductMerger(o,ts));
             default:
                 return null;
         }
 
     }
 
-    private static Publication publicationMerger(Tuple2<String, Iterable<String>> e) {
+    private static Publication publicationMerger(Tuple2<String, Iterable<String>> e, final long ts) {
 
         Publication p = new Publication(); //the result of the merge, to be returned at the end
 
@@ -103,19 +79,11 @@ public class DedupRecordFactory {
 
         final Collection<String> dateofacceptance = Lists.newArrayList();
 
-
-        StringBuilder trust = new StringBuilder("0.0");
-
         if (e._2() != null)
             e._2().forEach(pub -> {
                 try {
                     Publication publication = mapper.readValue(pub, Publication.class);
 
-                    final String currentTrust = publication.getDataInfo().getTrust();
-                    if (!"1.0".equals(currentTrust)) {
-                        trust.setLength(0);
-                        trust.append(currentTrust);
-                    }
                     p.mergeFrom(publication);
                     p.setAuthor(DedupUtility.mergeAuthor(p.getAuthor(), publication.getAuthor()));
                     //add to the list if they are not null
@@ -126,30 +94,74 @@ public class DedupRecordFactory {
                 }
             });
         p.setDateofacceptance(DatePicker.pick(dateofacceptance));
+        p.getDataInfo().setTrust("0.9");
+        p.setLastupdatetimestamp(ts);
         return p;
     }
 
-    private static Dataset datasetMerger(Tuple2<String, Iterable<String>> e) {
+    private static Dataset datasetMerger(Tuple2<String, Iterable<String>> e, final long ts) {
+
+        Dataset d = new Dataset(); //the result of the merge, to be returned at the end
+
+        d.setId(e._1());
+
+        final ObjectMapper mapper = new ObjectMapper();
+
+        final Collection<String> dateofacceptance = Lists.newArrayList();
+
+        if (e._2() != null)
+            e._2().forEach(dat -> {
+                try {
+                    Dataset dataset = mapper.readValue(dat, Dataset.class);
+
+                    d.mergeFrom(dataset);
+                    d.setAuthor(DedupUtility.mergeAuthor(d.getAuthor(), dataset.getAuthor()));
+                    //add to the list if they are not null
+                    if (dataset.getDateofacceptance() != null)
+                        dateofacceptance.add(dataset.getDateofacceptance().getValue());
+                } catch (Exception exc) {
+                    throw new RuntimeException(exc);
+                }
+            });
+        d.setDateofacceptance(DatePicker.pick(dateofacceptance));
+        d.getDataInfo().setTrust("0.9");
+        d.setLastupdatetimestamp(ts);
+        return d;
+    }
+
+    private static Project projectMerger(Tuple2<String, Iterable<String>> e, final long ts) {
+
+        Project p = new Project(); //the result of the merge, to be returned at the end
+
+        p.setId(e._1());
+
+        final ObjectMapper mapper = new ObjectMapper();
+        if (e._2() != null)
+            e._2().forEach(proj -> {
+                try {
+                    Project project = mapper.readValue(proj, Project.class);
+
+                    p.mergeFrom(project);
+                } catch (Exception exc) {
+                    throw new RuntimeException(exc);
+                }
+            });
+        p.getDataInfo().setTrust("0.9");
+        p.setLastupdatetimestamp(ts);
+        return p;
+    }
+
+    private static Software softwareMerger(Tuple2<String, Iterable<String>> e, final long ts) {
 
         throw new NotImplementedException();
     }
 
-    private static Project projectMerger(Tuple2<String, Iterable<String>> e) {
+    private static Datasource datasourceMerger(Tuple2<String, Iterable<String>> e, final long ts) {
 
         throw new NotImplementedException();
     }
 
-    private static Software softwareMerger(Tuple2<String, Iterable<String>> e) {
+    private static Organization organizationMerger(Tuple2<String, Iterable<String>> e, final long ts) {
-
-        throw new NotImplementedException();
-    }
-
-    private static Datasource datasourceMerger(Tuple2<String, Iterable<String>> e) {
-
-        throw new NotImplementedException();
-    }
-
-    private static Organization organizationMerger(Tuple2<String, Iterable<String>> e) {
 
         Organization o = new Organization(); //the result of the merge, to be returned at the end
 
@@ -180,7 +192,7 @@ public class DedupRecordFactory {
         return o;
     }
 
-    private static OtherResearchProduct otherresearchproductMerger(Tuple2<String, Iterable<String>> e) {
+    private static OtherResearchProduct otherresearchproductMerger(Tuple2<String, Iterable<String>> e, final long ts) {
 
         throw new NotImplementedException();
     }

dhp-workflows/dhp-dedup/src/main/java/eu/dnetlib/dedup/DedupUtility.java

@@ -109,58 +109,26 @@ public class DedupUtility {
         int sa = authorsSize(a);
         int sb = authorsSize(b);
 
-        if(pa == pb){
+        if (pa == pb) {
-            base = sa>sb?a:b;
+            base = sa > sb ? a : b;
-            enrich = sa>sb?b:a;
+            enrich = sa > sb ? b : a;
         } else {
-            base = pa>pb?a:b;
+            base = pa > pb ? a : b;
-            enrich = pa>pb?b:a;
+            enrich = pa > pb ? b : a;
         }
         enrichPidFromList(base, enrich);
         return base;
-
-
-
-//        //if both have no authors with pids
-//        if (pa < 1 && pb < 1) {
-//            //B is bigger than A
-//            if (sa < sb)
-//                return b;
-//                //A is bigger than B
-//            else
-//                return a;
-//        }
-//        //If A has author with pids
-//        if (pa > 0) {
-//            //B has no author with pid
-//            if (pb < 1)
-//                return a;
-//                //B has author with pid
-//            else {
-//                enrichPidFromList(a, b);
-//                return a;
-//            }
-//        }
-//        //If B has author with pids
-//        //A has no author with pid
-//        if (pa < 1)
-//            return b;
-//            //A has author with pid
-//        else {
-//            enrichPidFromList(b, a);
-//            return b;
-//        }
     }
 
     private static void enrichPidFromList(List<Author> base, List<Author> enrich) {
-        if(base==null || enrich == null)
+        if (base == null || enrich == null)
             return;
         final Map<String, Author> basePidAuthorMap = base.stream()
                 .filter(a -> a.getPid() != null && a.getPid().size() > 0)
                 .flatMap(a -> a.getPid()
                         .stream()
                         .map(p -> new Tuple2<>(p.toComparableString(), a))
-                ).collect(Collectors.toMap(Tuple2::_1, Tuple2::_2));
+                ).collect(Collectors.toMap(Tuple2::_1, Tuple2::_2, (x1, x2) -> x1));
 
         final List<Tuple2<StructuredProperty, Author>> pidToEnrich = enrich
                 .stream()
@@ -171,7 +139,7 @@ public class DedupUtility {
 
         pidToEnrich.forEach(a -> {
             Optional<Tuple2<Double, Author>> simAuhtor = base.stream().map(ba -> new Tuple2<>(sim(ba, a._2()), ba)).max(Comparator.comparing(Tuple2::_1));
-            if (simAuhtor.isPresent() && simAuhtor.get()._1()> THRESHOLD) {
+            if (simAuhtor.isPresent() && simAuhtor.get()._1() > THRESHOLD) {
                 Author r = simAuhtor.get()._2();
                 r.getPid().add(a._1());
             }
@@ -179,15 +147,15 @@ public class DedupUtility {
     }
 
     public static String createEntityPath(final String basePath, final String entityType) {
-        return String.format("%s/%s", basePath,entityType);
+        return String.format("%s/%s", basePath, entityType);
     }
 
     public static String createSimRelPath(final String basePath, final String entityType) {
-        return String.format("%s/%s_simRel", basePath,entityType);
+        return String.format("%s/%s_simRel", basePath, entityType);
     }
 
     public static String createMergeRelPath(final String basePath, final String entityType) {
-        return String.format("%s/%s_mergeRel", basePath,entityType);
+        return String.format("%s/%s_mergeRel", basePath, entityType);
     }
 
     private static Double sim(Author a, Author b) {
@@ -220,6 +188,7 @@ public class DedupUtility {
     private static String nfd(final String s) {
         return Normalizer.normalize(s, Normalizer.Form.NFD);
     }
+
     private static Person parse(Author author) {
         if (StringUtils.isNotBlank(author.getSurname())) {
             return new Person(author.getSurname() + ", " + author.getName(), false);
@@ -233,7 +202,7 @@ public class DedupUtility {
         if (authors == null)
             return 0;
 
-        return (int) authors.stream().map(DedupUtility::extractAuthorPid).filter(Objects::nonNull).filter(StringUtils::isNotBlank).count();
+        return (int) authors.stream().filter(DedupUtility::hasPid).count();
     }
 
     private static int authorsSize(List<Author> authors) {
@@ -242,29 +211,9 @@ public class DedupUtility {
         return authors.size();
     }
 
-
+    private static boolean hasPid(Author a) {
-    private static boolean isAccurate(final Author a) {
-        return StringUtils.isNotBlank(a.getName()) && StringUtils.isNotBlank(a.getSurname());
-    }
-
-    private static String extractAuthorPid(Author a) {
-
         if (a == null || a.getPid() == null || a.getPid().size() == 0)
-            return null;
+            return false;
-
+        return a.getPid().stream().anyMatch(p -> p != null && StringUtils.isNotBlank(p.getValue()));
-        StringBuilder mainPid = new StringBuilder();
-
-        a.getPid().forEach(pid -> {
-            if (pid.getQualifier().getClassid().equalsIgnoreCase("orcid")) {
-                mainPid.setLength(0);
-                mainPid.append(pid.getValue());
-            } else {
-                if (mainPid.length() == 0)
-                    mainPid.append(pid.getValue());
-            }
-        });
-
-        return mainPid.toString();
-
     }
 }

dhp-workflows/dhp-dedup/src/main/java/eu/dnetlib/dedup/OafComparator.java

@@ -1,15 +0,0 @@
-package eu.dnetlib.dedup;
-import com.google.common.collect.ComparisonChain;
-import java.io.Serializable;
-import java.util.Comparator;
-
-public class OafComparator implements Comparator<OafKey>, Serializable {
-
-    @Override
-    public int compare(OafKey a, OafKey b) {
-        return ComparisonChain.start()
-                .compare(a.getDedupId(), b.getDedupId())
-                .compare(a.getTrust(), b.getTrust())
-                .result();
-    }
-}

dhp-workflows/dhp-dedup/src/main/java/eu/dnetlib/dedup/OafKey.java

@@ -1,31 +0,0 @@
-package eu.dnetlib.dedup;
-
-import java.io.Serializable;
-public class OafKey implements Serializable {
-
-    private String dedupId;
-    private String trust;
-
-    public OafKey(String dedupId, String trust) {
-        this.dedupId = dedupId;
-        this.trust = trust;
-    }
-    public OafKey() {
-    }
-    public String getDedupId() {
-        return dedupId;
-    }
-    public void setDedupId(String dedupId) {
-        this.dedupId = dedupId;
-    }
-    public String getTrust() {
-        return trust;
-    }
-    public void setTrust(String trust) {
-        this.trust = trust;
-    }
-    @Override
-    public String toString(){
-        return String.format("%s->%d", dedupId,trust);
-    }
-}

dhp-workflows/dhp-dedup/src/main/java/eu/dnetlib/dedup/OafPartitioner.java

@@ -1,59 +0,0 @@
-package eu.dnetlib.dedup;
-
-import org.apache.spark.Partitioner;
-
-import java.io.Serializable;
-
-public class OafPartitioner extends Partitioner implements Serializable {
-
-    private final int numPartitions;
-
-    public OafPartitioner(int partitions) {
-        assert (partitions > 0);
-        this.numPartitions = partitions;
-    }
-
-    @Override
-    public int numPartitions() {
-        return numPartitions;
-    }
-
-    @Override
-    public int getPartition(Object key) {
-        if (key instanceof OafKey) {
-            @SuppressWarnings("unchecked")
-            OafKey item = (OafKey) key;
-            return Math.abs(item.getDedupId().hashCode() % numPartitions);
-        } else {
-            throw new IllegalArgumentException("Unexpected Key");
-        }
-    }
-
-    @Override
-    public int hashCode() {
-        final int prime = 31;
-        int result = 1;
-        result = prime * result + numPartitions;
-        return result;
-    }
-
-    @Override
-    public boolean equals(Object obj) {
-        if (this == obj) {
-            return true;
-        }
-        if (obj == null) {
-            return false;
-        }
-        if (!(obj instanceof OafPartitioner)) {
-            return false;
-        }
-        //
-        OafPartitioner other = (OafPartitioner) obj;
-        if (numPartitions != other.numPartitions) {
-            return false;
-        }
-        //
-        return true;
-    }
-}

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

@@ -30,7 +30,7 @@
         </property>
     </parameters>
 
-    <start to="CreateSimRels"/>
+    <start to="CreateDedupRecord"/>
 
 
     <kill name="Kill">