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package eu.dnetlib.data.mapreduce.hbase.bulktag;
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import com.google.common.collect.Maps;
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import com.google.protobuf.InvalidProtocolBufferException;
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import com.googlecode.protobuf.format.JsonFormat;
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import com.jayway.jsonpath.DocumentContext;
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import com.jayway.jsonpath.JsonPath;
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import eu.dnetlib.data.bulktag.CommunityConfiguration;
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import eu.dnetlib.data.bulktag.Pair;
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import eu.dnetlib.data.mapreduce.hbase.propagation.Utils;
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import eu.dnetlib.data.mapreduce.hbase.propagation.Value;
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import eu.dnetlib.data.proto.FieldTypeProtos;
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import eu.dnetlib.data.proto.OafProtos;
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import eu.dnetlib.data.proto.ResultProtos;
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import eu.dnetlib.data.proto.ResultProtos.Result.Context;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.hadoop.hbase.client.Put;
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import org.apache.hadoop.hbase.io.ImmutableBytesWritable;
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import org.apache.hadoop.hbase.util.Bytes;
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import org.apache.hadoop.mapreduce.Mapper;
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import javax.rmi.CORBA.Util;
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import java.util.*;
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import java.util.stream.Collectors;
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import java.util.stream.Stream;
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import static eu.dnetlib.data.mapreduce.hbase.bulktag.TagginConstants.*;
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import static eu.dnetlib.data.mapreduce.hbase.propagation.PropagationConstants.COUNTER_PROPAGATION;
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/**
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* Created by miriam on 02/08/2018.
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*/
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public class ResultTagger {
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private String trust = "0.8";
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private boolean clearContext(ResultProtos.Result.Metadata.Builder mBuilder){
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int tmp = mBuilder.getContextBuilderList().size();
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List<Context.Builder> clist = mBuilder.getContextBuilderList().stream()
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.filter(c -> (!c.getId().contains(ZENODO_COMMUNITY_INDICATOR))).collect(Collectors.toList());
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mBuilder.clearContext();
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clist.forEach(c->mBuilder.addContext(c));
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return (tmp != clist.size());
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}
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public Map<String,List<String>> getParamMap(final OafProtos.Oaf oaf, Map<String,String> params) {
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Map<String,List<String>> param = new HashMap<>();
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String json = JsonFormat.printToString(oaf);
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DocumentContext jsonContext = JsonPath.parse(json);
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if (params == null){
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params = new HashMap<>();
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}
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for(String key : params.keySet()) {
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try {
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param.put(key, jsonContext.read(params.get(key)));
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} catch (com.jayway.jsonpath.PathNotFoundException e) {
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param.put(key, new ArrayList<>());
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// throw e;
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}
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}
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return param;
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}
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public OafProtos.Oaf enrichContextCriteria(final OafProtos.Oaf oaf, final CommunityConfiguration conf, final Mapper.Context context, final Map<String,String> criteria) {
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final Map<String, List<String>> param = getParamMap(oaf, criteria);
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final OafProtos.Oaf.Builder builder = OafProtos.Oaf.newBuilder(oaf);
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final ResultProtos.Result.Metadata.Builder mBuilder = builder.getEntityBuilder().getResultBuilder().getMetadataBuilder();
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//Verify if the entity is deletedbyinference. In case verify if to clean the context list from all the zenodo communities
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if(oaf.getDataInfo().getDeletedbyinference()){
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context.getCounter(COUNTER_GROUP, "deleted by inference").increment(1);
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if(!clearContext(mBuilder))
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return null;
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context.getCounter(COUNTER_GROUP,"removed zenodo community context in del by inference record").increment(1);
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return builder.build();
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}
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//communities contains all the communities to be added as context for the result
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final Set<String> communities = new HashSet<>();
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//tagging for Subject
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final Set<String> subjects = new HashSet<>();
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oaf.getEntity().getResult().getMetadata().getSubjectList().stream()
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.map(subject -> subject.getValue())
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.filter(StringUtils::isNotBlank)
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.map(String::toLowerCase)
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.map(String::trim)
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.collect(Collectors.toCollection(HashSet::new))
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.forEach(s -> subjects.addAll(conf.getCommunityForSubjectValue(s)));
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//updating counters for subject matching
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subjects.forEach(c->context.getCounter(COUNTER_GROUP, "Matching subject for community " + c).increment(1));
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communities.addAll(subjects);
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context.getCounter(COUNTER_GROUP,"match found for subjects ").increment(subjects.size());
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//Tagging for datasource
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final Set<String> datasources = new HashSet<>();
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final Set<String> tmp = new HashSet<>();
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for(ResultProtos.Result.Instance i : oaf.getEntity().getResult().getInstanceList()){
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tmp.add(StringUtils.substringAfter(i.getCollectedfrom().getKey(),"|"));
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tmp.add(StringUtils.substringAfter(i.getHostedby().getKey(),"|"));
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}
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oaf.getEntity().getResult().getInstanceList()
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.stream()
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.map(i -> new Pair<>(i.getCollectedfrom().getKey(), i.getHostedby().getKey()))
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.flatMap(p -> Stream.of(p.getFst(), p.getSnd()))
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.map(s -> StringUtils.substringAfter(s, "|"))
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.collect(Collectors.toCollection(HashSet::new))
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.forEach(dsId -> datasources.addAll(conf.getCommunityForDatasource(dsId,param)));
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//updating counters for datasource matching
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datasources.forEach(c->context.getCounter(COUNTER_GROUP,"Matching datasource for community " + c).increment(1));
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communities.addAll(datasources);
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context.getCounter(COUNTER_GROUP,"Match found for content providers " ).increment(datasources.size());
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/*Tagging for Zenodo Communities*/
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final Set<String> czenodo = new HashSet<>();
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//final ResultProtos.Result.Metadata.Builder mBuilder = builder.getEntityBuilder().getResultBuilder().getMetadataBuilder();
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mBuilder.getContextBuilderList().stream().filter(cBuilder -> cBuilder.getId().contains(ZENODO_COMMUNITY_INDICATOR))
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.collect(Collectors.toList())
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.forEach(c->czenodo.addAll(conf.getCommunityForZenodoCommunityValue(c.getId().substring(c.getId().lastIndexOf("/")+1).trim())));
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czenodo.forEach(c->context.getCounter(COUNTER_GROUP,"Matching Zenodo community for community " + c).increment(1));
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//updating counters for Zenodo communities matching
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context.getCounter(COUNTER_GROUP,"Match found for Zenodo communities " ).increment(czenodo.size());
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communities.addAll(czenodo);
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boolean removed = clearContext(mBuilder);
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/*Verify if there is something to bulktag*/
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if(communities.isEmpty()){
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context.getCounter(COUNTER_GROUP, "list of communities empty").increment(1);
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// return null;
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if (!removed)
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return null;
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else {
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context.getCounter(COUNTER_GROUP,"removed Zenodo community from result not to be enriched").increment(1);
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return builder.build();
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}
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}else{
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context.getCounter(COUNTER_GROUP, "list of communities has values!").increment(1);
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}
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final Map<String, ResultProtos.Result.Context.Builder> cBuilders = Maps.newHashMap();
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mBuilder.getContextBuilderList().forEach(cBuilder -> {
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cBuilders.put(cBuilder.getId(), cBuilder);
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});
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/*Applies actual tagging*/
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for(String contextId:communities){
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ResultProtos.Result.Context.Builder cBuilder = cBuilders.get(contextId);
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if (cBuilder != null) {
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if (!cBuilder.getDataInfoBuilderList().stream()
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.map(di -> di.getInferenceprovenance())
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.anyMatch(s -> DATA_INFO_TYPE.equals(s))) {
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if (subjects.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_SUBJECT, CLASS_NAME_BULKTAG_SUBJECT));
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if(datasources.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_DATASOURCE, CLASS_NAME_BULKTAG_DATASOURCE));
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if(czenodo.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_CZENODO, CLASS_NAME_BULKTAG_ZENODO));
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context.getCounter(COUNTER_GROUP, "add provenance").increment(1);
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} else {
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context.getCounter(COUNTER_GROUP, "provenance already bulk tagged").increment(1);
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}
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} else {
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context.getCounter(COUNTER_GROUP, "add context").increment(1);
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cBuilder = Context.newBuilder().setId(contextId);
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if (subjects.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_SUBJECT, CLASS_NAME_BULKTAG_SUBJECT));
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if(datasources.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_DATASOURCE, CLASS_NAME_BULKTAG_DATASOURCE));
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if(czenodo.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_CZENODO, CLASS_NAME_BULKTAG_ZENODO));
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mBuilder.addContext(cBuilder.build());
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}
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}
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return builder.build();
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}
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public OafProtos.Oaf enrichContext(final OafProtos.Oaf oaf, final CommunityConfiguration conf, final Mapper.Context context) {
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final OafProtos.Oaf.Builder builder = OafProtos.Oaf.newBuilder(oaf);
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final ResultProtos.Result.Metadata.Builder mBuilder = builder.getEntityBuilder().getResultBuilder().getMetadataBuilder();
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/*
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* Verify if the entity is deletedbyinference. In case verify if to clean the context list from all the zenodo communities
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* */
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if(oaf.getDataInfo().getDeletedbyinference()){
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context.getCounter(COUNTER_GROUP, "deleted by inference").increment(1);
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if(!clearContext(mBuilder))
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return null;
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context.getCounter(COUNTER_GROUP,"removed zenodo community context in del by inference record").increment(1);
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return builder.build();
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}
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//communities contains all the communities to be added as context for the result
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final Set<String> communities = new HashSet<>();
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/*
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*Tagging for Subject
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* */
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final Set<String> subjects = new HashSet<>();
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oaf.getEntity().getResult().getMetadata().getSubjectList().stream()
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.map(subject -> subject.getValue())
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.filter(StringUtils::isNotBlank)
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.map(String::toLowerCase)
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.map(String::trim)
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.collect(Collectors.toCollection(HashSet::new))
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.forEach(s -> subjects.addAll(conf.getCommunityForSubjectValue(s)));
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//updating counters for subject matching
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subjects.forEach(c->context.getCounter(COUNTER_GROUP, "Matching subject for community " + c).increment(1));
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communities.addAll(subjects);
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context.getCounter(COUNTER_GROUP,"match found for subjects ").increment(subjects.size());
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/*Tagging for datasource*/
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final Set<String> datasources = new HashSet<>();
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final Set<String> tmp = new HashSet<>();
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for(ResultProtos.Result.Instance i : oaf.getEntity().getResult().getInstanceList()){
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tmp.add(StringUtils.substringAfter(i.getCollectedfrom().getKey(),"|"));
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tmp.add(StringUtils.substringAfter(i.getHostedby().getKey(),"|"));
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}
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oaf.getEntity().getResult().getInstanceList()
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.stream()
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.map(i -> new Pair<>(i.getCollectedfrom().getKey(), i.getHostedby().getKey()))
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.flatMap(p -> Stream.of(p.getFst(), p.getSnd()))
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.map(s -> StringUtils.substringAfter(s, "|"))
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.collect(Collectors.toCollection(HashSet::new))
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.forEach(dsId -> datasources.addAll(conf.getCommunityForDatasourceValue(dsId)));
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//updating counters for datasource matching
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datasources.forEach(c->context.getCounter(COUNTER_GROUP,"Matching datasource for community " + c).increment(1));
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communities.addAll(datasources);
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context.getCounter(COUNTER_GROUP,"Match found for content providers " ).increment(datasources.size());
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/*Tagging for Zenodo Communities*/
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final Set<String> czenodo = new HashSet<>();
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//final ResultProtos.Result.Metadata.Builder mBuilder = builder.getEntityBuilder().getResultBuilder().getMetadataBuilder();
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mBuilder.getContextBuilderList().stream().filter(cBuilder -> cBuilder.getId().contains(ZENODO_COMMUNITY_INDICATOR))
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.collect(Collectors.toList())
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.forEach(c->czenodo.addAll(conf.getCommunityForZenodoCommunityValue(c.getId().substring(c.getId().lastIndexOf("/")+1).trim())));
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czenodo.forEach(c->context.getCounter(COUNTER_GROUP,"Matching Zenodo community for community " + c).increment(1));
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//updating counters for Zenodo communities matching
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context.getCounter(COUNTER_GROUP,"Match found for Zenodo communities " ).increment(czenodo.size());
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communities.addAll(czenodo);
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boolean removed = clearContext(mBuilder);
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/*Verify if there is something to bulktag*/
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if(communities.isEmpty()){
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context.getCounter(COUNTER_GROUP, "list of communities empty").increment(1);
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// return null;
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if (!removed)
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return null;
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else {
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context.getCounter(COUNTER_GROUP,"removed Zenodo community from result not to be enriched").increment(1);
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return builder.build();
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}
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}else{
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context.getCounter(COUNTER_GROUP, "list of communities has values!").increment(1);
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}
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final Map<String, ResultProtos.Result.Context.Builder> cBuilders = Maps.newHashMap();
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mBuilder.getContextBuilderList().forEach(cBuilder -> {
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cBuilders.put(cBuilder.getId(), cBuilder);
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});
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/*Applies actual tagging*/
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for(String contextId:communities){
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ResultProtos.Result.Context.Builder cBuilder = cBuilders.get(contextId);
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if (cBuilder != null) {
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if (!cBuilder.getDataInfoBuilderList().stream()
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.map(di -> di.getInferenceprovenance())
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.anyMatch(s -> DATA_INFO_TYPE.equals(s))) {
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if (subjects.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_SUBJECT, CLASS_NAME_BULKTAG_SUBJECT));
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if(datasources.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_DATASOURCE, CLASS_NAME_BULKTAG_DATASOURCE));
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if(czenodo.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_CZENODO, CLASS_NAME_BULKTAG_ZENODO));
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context.getCounter(COUNTER_GROUP, "add provenance").increment(1);
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} else {
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context.getCounter(COUNTER_GROUP, "provenance already bulk tagged").increment(1);
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}
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} else {
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context.getCounter(COUNTER_GROUP, "add context").increment(1);
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cBuilder = Context.newBuilder().setId(contextId);
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if (subjects.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_SUBJECT, CLASS_NAME_BULKTAG_SUBJECT));
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if(datasources.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_DATASOURCE, CLASS_NAME_BULKTAG_DATASOURCE));
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if(czenodo.contains(contextId))
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cBuilder.addDataInfo(buildDataInfo(CLASS_ID_CZENODO, CLASS_NAME_BULKTAG_ZENODO));
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mBuilder.addContext(cBuilder.build());
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}
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}
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return builder.build();
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}
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312
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private FieldTypeProtos.DataInfo buildDataInfo(String class_id, String class_name) {
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313
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FieldTypeProtos.DataInfo.Builder builder = FieldTypeProtos.DataInfo.newBuilder()
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314
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.setInferred(true)
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315
|
.setProvenanceaction(
|
|
316
|
FieldTypeProtos.Qualifier.newBuilder()
|
|
317
|
.setClassid(class_id)
|
|
318
|
.setClassname(class_name)
|
|
319
|
.setSchemeid(SCHEMA_ID)
|
|
320
|
.setSchemename(SCHEMA_NAME))
|
|
321
|
.setInferenceprovenance(DATA_INFO_TYPE)
|
|
322
|
.setTrust(trust);
|
|
323
|
return builder
|
|
324
|
.build();
|
|
325
|
}
|
|
326
|
|
|
327
|
|
|
328
|
public void setTrust(String s) {
|
|
329
|
trust = s;
|
|
330
|
}
|
|
331
|
}
|