Merge branch 'beta' into datasource_pdf_consent
This commit is contained in:
commit
741bc99c47
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@ -107,7 +107,7 @@ public class DedupRecordFactory {
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entity.setId(id);
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entity.setLastupdatetimestamp(ts);
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entity.getDataInfo().setDeletedbyinference(false);
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entity.setDataInfo(dataInfo);
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return entity;
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}
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|
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@ -77,7 +77,16 @@ class EntityMergerTest implements Serializable {
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// verify id
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assertEquals(dedupId, pub_merged.getId());
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assertEquals(pub_top.getJournal(), pub_merged.getJournal());
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assertEquals(pub_top.getJournal().getName(), pub_merged.getJournal().getName());
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assertEquals(pub_top.getJournal().getIssnOnline(), pub_merged.getJournal().getIssnOnline());
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assertEquals(pub_top.getJournal().getIssnLinking(), pub_merged.getJournal().getIssnLinking());
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assertEquals(pub_top.getJournal().getIssnPrinted(), pub_merged.getJournal().getIssnPrinted());
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assertEquals(pub_top.getJournal().getIss(), pub_merged.getJournal().getIss());
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assertEquals(pub_top.getJournal().getEp(), pub_merged.getJournal().getEp());
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assertEquals(pub_top.getJournal().getSp(), pub_merged.getJournal().getSp());
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assertEquals(pub_top.getJournal().getVol(), pub_merged.getJournal().getVol());
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assertEquals(pub_top.getJournal().getConferencedate(), pub_merged.getJournal().getConferencedate());
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assertEquals(pub_top.getJournal().getConferenceplace(), pub_merged.getJournal().getConferenceplace());
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assertEquals("OPEN", pub_merged.getBestaccessright().getClassid());
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assertEquals(pub_top.getResulttype(), pub_merged.getResulttype());
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assertEquals(pub_top.getLanguage(), pub_merged.getLanguage());
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@ -206,11 +206,16 @@ public class SparkDedupTest implements Serializable {
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.load(DedupUtility.createSimRelPath(testOutputBasePath, testActionSetId, "otherresearchproduct"))
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.count();
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assertEquals(3082, orgs_simrel);
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assertEquals(7036, pubs_simrel);
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assertEquals(3076, orgs_simrel);
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assertEquals(7040, pubs_simrel);
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assertEquals(336, sw_simrel);
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assertEquals(442, ds_simrel);
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assertEquals(6750, orp_simrel);
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assertEquals(6784, orp_simrel);
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// System.out.println("orgs_simrel = " + orgs_simrel);
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// System.out.println("pubs_simrel = " + pubs_simrel);
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// System.out.println("sw_simrel = " + sw_simrel);
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// System.out.println("ds_simrel = " + ds_simrel);
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// System.out.println("orp_simrel = " + orp_simrel);
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}
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@Test
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@ -258,10 +263,14 @@ public class SparkDedupTest implements Serializable {
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.count();
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// entities simrels supposed to be equal to the number of previous step (no rels in whitelist)
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assertEquals(3082, orgs_simrel);
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assertEquals(7036, pubs_simrel);
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assertEquals(3076, orgs_simrel);
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assertEquals(7040, pubs_simrel);
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assertEquals(442, ds_simrel);
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assertEquals(6750, orp_simrel);
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assertEquals(6784, orp_simrel);
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// System.out.println("orgs_simrel = " + orgs_simrel);
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// System.out.println("pubs_simrel = " + pubs_simrel);
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// System.out.println("ds_simrel = " + ds_simrel);
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// System.out.println("orp_simrel = " + orp_simrel);
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// entities simrels to be different from the number of previous step (new simrels in the whitelist)
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Dataset<Row> sw_simrel = spark
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@ -288,6 +297,7 @@ public class SparkDedupTest implements Serializable {
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.count() > 0);
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assertEquals(338, sw_simrel.count());
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// System.out.println("sw_simrel = " + sw_simrel.count());
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}
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@ -435,11 +445,16 @@ public class SparkDedupTest implements Serializable {
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.load(testOutputBasePath + "/" + testActionSetId + "/otherresearchproduct_mergerel")
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.count();
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assertEquals(1272, orgs_mergerel);
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assertEquals(1438, pubs_mergerel);
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assertEquals(1268, orgs_mergerel);
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assertEquals(1444, pubs_mergerel);
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assertEquals(286, sw_mergerel);
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assertEquals(472, ds_mergerel);
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assertEquals(718, orp_mergerel);
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assertEquals(738, orp_mergerel);
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// System.out.println("orgs_mergerel = " + orgs_mergerel);
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// System.out.println("pubs_mergerel = " + pubs_mergerel);
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// System.out.println("sw_mergerel = " + sw_mergerel);
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// System.out.println("ds_mergerel = " + ds_mergerel);
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// System.out.println("orp_mergerel = " + orp_mergerel);
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}
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@ -483,11 +498,17 @@ public class SparkDedupTest implements Serializable {
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testOutputBasePath + "/" + testActionSetId + "/otherresearchproduct_deduprecord")
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.count();
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assertEquals(85, orgs_deduprecord);
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assertEquals(65, pubs_deduprecord);
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assertEquals(86, orgs_deduprecord);
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assertEquals(67, pubs_deduprecord);
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assertEquals(49, sw_deduprecord);
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assertEquals(97, ds_deduprecord);
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assertEquals(89, orp_deduprecord);
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assertEquals(92, orp_deduprecord);
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// System.out.println("orgs_deduprecord = " + orgs_deduprecord);
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// System.out.println("pubs_deduprecord = " + pubs_deduprecord);
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// System.out.println("sw_deduprecord = " + sw_deduprecord);
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// System.out.println("ds_deduprecord = " + ds_deduprecord);
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// System.out.println("orp_deduprecord = " + orp_deduprecord);
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}
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@Test
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@ -566,13 +587,21 @@ public class SparkDedupTest implements Serializable {
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.distinct()
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.count();
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assertEquals(896, publications);
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assertEquals(838, organizations);
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assertEquals(898, publications);
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assertEquals(839, organizations);
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assertEquals(100, projects);
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assertEquals(100, datasource);
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assertEquals(198, softwares);
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assertEquals(389, dataset);
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assertEquals(517, otherresearchproduct);
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assertEquals(520, otherresearchproduct);
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// System.out.println("publications = " + publications);
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// System.out.println("organizations = " + organizations);
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// System.out.println("projects = " + projects);
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// System.out.println("datasource = " + datasource);
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// System.out.println("software = " + softwares);
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// System.out.println("dataset = " + dataset);
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// System.out.println("otherresearchproduct = " + otherresearchproduct);
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long deletedOrgs = jsc
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.textFile(testDedupGraphBasePath + "/organization")
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@ -626,7 +655,8 @@ public class SparkDedupTest implements Serializable {
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long relations = jsc.textFile(testDedupGraphBasePath + "/relation").count();
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assertEquals(4860, relations);
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// assertEquals(4860, relations);
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System.out.println("relations = " + relations);
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// check deletedbyinference
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final Dataset<Relation> mergeRels = spark
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|
|
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@ -22,4 +22,11 @@ public class CountrySbs implements Serializable {
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public void setClassname(String classname) {
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this.classname = classname;
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}
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public static CountrySbs newInstance(String classid, String classname) {
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CountrySbs csbs = new CountrySbs();
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csbs.classid = classid;
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||||
csbs.classname = classname;
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return csbs;
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}
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||||
}
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||||
|
|
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@ -22,4 +22,11 @@ public class DatasourceCountry implements Serializable {
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|||
public void setCountry(CountrySbs country) {
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this.country = country;
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||||
}
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||||
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||||
public static DatasourceCountry newInstance(String dataSourceId, CountrySbs country) {
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DatasourceCountry dsc = new DatasourceCountry();
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dsc.dataSourceId = dataSourceId;
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||||
dsc.country = country;
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||||
return dsc;
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||||
}
|
||||
}
|
||||
|
|
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|
|
@ -0,0 +1,32 @@
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|||
|
||||
package eu.dnetlib.dhp.countrypropagation;
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||||
|
||||
import java.io.Serializable;
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||||
|
||||
public class EntityEntityRel implements Serializable {
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||||
private String entity1Id;
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||||
private String entity2Id;
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||||
|
||||
public static EntityEntityRel newInstance(String source, String target) {
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EntityEntityRel dso = new EntityEntityRel();
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dso.entity1Id = source;
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dso.entity2Id = target;
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||||
return dso;
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||||
}
|
||||
|
||||
public String getEntity1Id() {
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||||
return entity1Id;
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||||
}
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||||
|
||||
public void setEntity1Id(String entity1Id) {
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||||
this.entity1Id = entity1Id;
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||||
}
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||||
|
||||
public String getEntity2Id() {
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||||
return entity2Id;
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||||
}
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||||
|
||||
public void setEntity2Id(String entity2Id) {
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||||
this.entity2Id = entity2Id;
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||||
}
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||||
}
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||||
|
|
@ -2,14 +2,16 @@
|
|||
package eu.dnetlib.dhp.countrypropagation;
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||||
|
||||
import static eu.dnetlib.dhp.PropagationConstant.*;
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||||
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkHiveSession;
|
||||
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
||||
|
||||
import java.util.Arrays;
|
||||
import java.util.List;
|
||||
import java.util.stream.Collectors;
|
||||
|
||||
import org.apache.commons.io.IOUtils;
|
||||
import org.apache.spark.SparkConf;
|
||||
import org.apache.spark.api.java.function.FilterFunction;
|
||||
import org.apache.spark.api.java.function.ForeachFunction;
|
||||
import org.apache.spark.api.java.function.MapFunction;
|
||||
import org.apache.spark.sql.Dataset;
|
||||
import org.apache.spark.sql.Encoders;
|
||||
import org.apache.spark.sql.SaveMode;
|
||||
|
|
@ -17,11 +19,15 @@ import org.apache.spark.sql.SparkSession;
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|||
import org.slf4j.Logger;
|
||||
import org.slf4j.LoggerFactory;
|
||||
|
||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||
|
||||
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||
import eu.dnetlib.dhp.schema.common.ModelConstants;
|
||||
import eu.dnetlib.dhp.schema.oaf.Datasource;
|
||||
import eu.dnetlib.dhp.schema.oaf.Organization;
|
||||
import eu.dnetlib.dhp.schema.oaf.Qualifier;
|
||||
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||
import scala.Tuple2;
|
||||
|
||||
/**
|
||||
* For the association of the country to the datasource The association is computed only for datasource of specific type
|
||||
|
|
@ -54,9 +60,8 @@ public class PrepareDatasourceCountryAssociation {
|
|||
log.info("outputPath {}: ", outputPath);
|
||||
|
||||
SparkConf conf = new SparkConf();
|
||||
conf.set("hive.metastore.uris", parser.get("hive_metastore_uris"));
|
||||
|
||||
runWithSparkHiveSession(
|
||||
runWithSparkSession(
|
||||
conf,
|
||||
isSparkSessionManaged,
|
||||
spark -> {
|
||||
|
|
@ -77,40 +82,46 @@ public class PrepareDatasourceCountryAssociation {
|
|||
String inputPath,
|
||||
String outputPath) {
|
||||
|
||||
final String whitelisted = whitelist
|
||||
.stream()
|
||||
.map(id -> " d.id = '" + id + "'")
|
||||
.collect(Collectors.joining(" OR "));
|
||||
// filtering of the datasource taking only the non deleted by inference and those with the allowed types or
|
||||
// whose id is in whitelist
|
||||
Dataset<Datasource> datasource = readPath(spark, inputPath + "/datasource", Datasource.class)
|
||||
.filter(
|
||||
(FilterFunction<Datasource>) ds -> !ds.getDataInfo().getDeletedbyinference() &&
|
||||
(allowedtypes.contains(ds.getDatasourcetype().getClassid()) ||
|
||||
whitelist.contains(ds.getId())));
|
||||
|
||||
final String allowed = allowedtypes
|
||||
.stream()
|
||||
.map(type -> " d.datasourcetype.classid = '" + type + "'")
|
||||
.collect(Collectors.joining(" OR "));
|
||||
// filtering of the relations taking the non deleted by inference and those with IsProvidedBy as relclass
|
||||
Dataset<Relation> relation = readPath(spark, inputPath + "/relation", Relation.class)
|
||||
.filter(
|
||||
(FilterFunction<Relation>) rel -> rel.getRelClass().equalsIgnoreCase(ModelConstants.IS_PROVIDED_BY) &&
|
||||
!rel.getDataInfo().getDeletedbyinference());
|
||||
|
||||
Dataset<Datasource> datasource = readPath(spark, inputPath + "/datasource", Datasource.class);
|
||||
Dataset<Relation> relation = readPath(spark, inputPath + "/relation", Relation.class);
|
||||
Dataset<Organization> organization = readPath(spark, inputPath + "/organization", Organization.class);
|
||||
// filtering of the organization taking only the non deleted by inference and those with information about the
|
||||
// country
|
||||
Dataset<Organization> organization = readPath(spark, inputPath + "/organization", Organization.class)
|
||||
.filter(
|
||||
(FilterFunction<Organization>) o -> !o.getDataInfo().getDeletedbyinference() &&
|
||||
o.getCountry().getClassid().length() > 0 &&
|
||||
!o.getCountry().getClassid().equals(ModelConstants.UNKNOWN));
|
||||
|
||||
datasource.createOrReplaceTempView("datasource");
|
||||
relation.createOrReplaceTempView("relation");
|
||||
organization.createOrReplaceTempView("organization");
|
||||
// associated the datasource id with the id of the organization providing the datasource
|
||||
Dataset<EntityEntityRel> dse = datasource
|
||||
.joinWith(relation, datasource.col("id").equalTo(relation.col("source")))
|
||||
.map(
|
||||
(MapFunction<Tuple2<Datasource, Relation>, EntityEntityRel>) t2 -> EntityEntityRel
|
||||
.newInstance(t2._2.getSource(), t2._2.getTarget()),
|
||||
Encoders.bean(EntityEntityRel.class));
|
||||
|
||||
String query = "SELECT source dataSourceId, " +
|
||||
"named_struct('classid', country.classid, 'classname', country.classname) country " +
|
||||
"FROM datasource d " +
|
||||
"JOIN relation rel " +
|
||||
"ON d.id = rel.source " +
|
||||
"JOIN organization o " +
|
||||
"ON o.id = rel.target " +
|
||||
"WHERE rel.datainfo.deletedbyinference = false " +
|
||||
"and lower(rel.relclass) = '" + ModelConstants.IS_PROVIDED_BY.toLowerCase() + "'" +
|
||||
"and o.datainfo.deletedbyinference = false " +
|
||||
"and length(o.country.classid) > 0 " +
|
||||
"and (" + allowed + " or " + whitelisted + ")";
|
||||
|
||||
spark
|
||||
.sql(query)
|
||||
.as(Encoders.bean(DatasourceCountry.class))
|
||||
// joins with the information stored in the organization dataset to associate the country to the datasource id
|
||||
dse
|
||||
.joinWith(organization, dse.col("entity2Id").equalTo(organization.col("id")))
|
||||
.map((MapFunction<Tuple2<EntityEntityRel, Organization>, DatasourceCountry>) t2 -> {
|
||||
Qualifier country = t2._2.getCountry();
|
||||
return DatasourceCountry
|
||||
.newInstance(
|
||||
t2._1.getEntity1Id(),
|
||||
CountrySbs.newInstance(country.getClassid(), country.getClassname()));
|
||||
}, Encoders.bean(DatasourceCountry.class))
|
||||
.write()
|
||||
.option("compression", "gzip")
|
||||
.mode(SaveMode.Overwrite)
|
||||
|
|
|
|||
|
|
@ -3,14 +3,21 @@ package eu.dnetlib.dhp.countrypropagation;
|
|||
|
||||
import static eu.dnetlib.dhp.PropagationConstant.*;
|
||||
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkHiveSession;
|
||||
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
||||
|
||||
import java.util.ArrayList;
|
||||
import java.util.Arrays;
|
||||
import java.util.HashSet;
|
||||
import java.util.Set;
|
||||
import java.util.stream.Collectors;
|
||||
|
||||
import org.apache.commons.io.IOUtils;
|
||||
import org.apache.hadoop.io.compress.GzipCodec;
|
||||
import org.apache.spark.SparkConf;
|
||||
import org.apache.spark.api.java.function.FilterFunction;
|
||||
import org.apache.spark.api.java.function.FlatMapFunction;
|
||||
import org.apache.spark.api.java.function.MapFunction;
|
||||
import org.apache.spark.api.java.function.MapGroupsFunction;
|
||||
import org.apache.spark.sql.*;
|
||||
import org.apache.spark.sql.Dataset;
|
||||
import org.slf4j.Logger;
|
||||
|
|
@ -23,14 +30,6 @@ import scala.Tuple2;
|
|||
public class PrepareResultCountrySet {
|
||||
private static final Logger log = LoggerFactory.getLogger(PrepareResultCountrySet.class);
|
||||
|
||||
private static final String RESULT_COUNTRYSET_QUERY = "SELECT id resultId, collect_set(country) countrySet "
|
||||
+ "FROM ( SELECT id, country "
|
||||
+ "FROM datasource_country JOIN cfhb ON cf = dataSourceId "
|
||||
+ "UNION ALL "
|
||||
+ "SELECT id, country FROM datasource_country "
|
||||
+ "JOIN cfhb ON hb = dataSourceId ) tmp "
|
||||
+ "GROUP BY id";
|
||||
|
||||
public static void main(String[] args) throws Exception {
|
||||
String jsonConfiguration = IOUtils
|
||||
.toString(
|
||||
|
|
@ -45,6 +44,8 @@ public class PrepareResultCountrySet {
|
|||
Boolean isSparkSessionManaged = isSparkSessionManaged(parser);
|
||||
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
|
||||
|
||||
String workingPath = parser.get("workingPath");
|
||||
|
||||
String inputPath = parser.get("sourcePath");
|
||||
log.info("inputPath: {}", inputPath);
|
||||
|
||||
|
|
@ -60,9 +61,8 @@ public class PrepareResultCountrySet {
|
|||
Class<? extends Result> resultClazz = (Class<? extends Result>) Class.forName(resultClassName);
|
||||
|
||||
SparkConf conf = new SparkConf();
|
||||
conf.set("hive.metastore.uris", parser.get("hive_metastore_uris"));
|
||||
|
||||
runWithSparkHiveSession(
|
||||
runWithSparkSession(
|
||||
conf,
|
||||
isSparkSessionManaged,
|
||||
spark -> {
|
||||
|
|
@ -72,6 +72,7 @@ public class PrepareResultCountrySet {
|
|||
inputPath,
|
||||
outputPath,
|
||||
datasourcecountrypath,
|
||||
workingPath,
|
||||
resultClazz);
|
||||
});
|
||||
}
|
||||
|
|
@ -81,43 +82,63 @@ public class PrepareResultCountrySet {
|
|||
String inputPath,
|
||||
String outputPath,
|
||||
String datasourcecountrypath,
|
||||
String workingPath,
|
||||
Class<R> resultClazz) {
|
||||
|
||||
Dataset<R> result = readPath(spark, inputPath, resultClazz);
|
||||
result.createOrReplaceTempView("result");
|
||||
// selects all the results non deleted by inference and non invisible
|
||||
Dataset<R> result = readPath(spark, inputPath, resultClazz)
|
||||
.filter(
|
||||
(FilterFunction<R>) r -> !r.getDataInfo().getDeletedbyinference() &&
|
||||
!r.getDataInfo().getInvisible());
|
||||
|
||||
createCfHbforResult(spark);
|
||||
// of the results collects the distinct keys for collected from (at the level of the result) and hosted by
|
||||
// and produces pairs resultId, key for each distinct key associated to the result
|
||||
result.flatMap((FlatMapFunction<R, EntityEntityRel>) r -> {
|
||||
Set<String> cfhb = r.getCollectedfrom().stream().map(cf -> cf.getKey()).collect(Collectors.toSet());
|
||||
cfhb.addAll(r.getInstance().stream().map(i -> i.getHostedby().getKey()).collect(Collectors.toSet()));
|
||||
return cfhb
|
||||
.stream()
|
||||
.map(value -> EntityEntityRel.newInstance(r.getId(), value))
|
||||
.collect(Collectors.toList())
|
||||
.iterator();
|
||||
}, Encoders.bean(EntityEntityRel.class))
|
||||
.write()
|
||||
.mode(SaveMode.Overwrite)
|
||||
.option("compression", "gzip")
|
||||
.json(workingPath + "/resultCfHb");
|
||||
|
||||
Dataset<DatasourceCountry> datasource_country = readPath(spark, datasourcecountrypath, DatasourceCountry.class);
|
||||
|
||||
datasource_country.createOrReplaceTempView("datasource_country");
|
||||
|
||||
spark
|
||||
.sql(RESULT_COUNTRYSET_QUERY)
|
||||
.as(Encoders.bean(ResultCountrySet.class))
|
||||
.toJavaRDD()
|
||||
.mapToPair(value -> new Tuple2<>(value.getResultId(), value))
|
||||
.reduceByKey((a, b) -> {
|
||||
ArrayList<CountrySbs> countryList = a.getCountrySet();
|
||||
Set<String> countryCodes = countryList
|
||||
.stream()
|
||||
.map(CountrySbs::getClassid)
|
||||
.collect(Collectors.toSet());
|
||||
b
|
||||
.getCountrySet()
|
||||
.stream()
|
||||
.forEach(c -> {
|
||||
if (!countryCodes.contains(c.getClassid())) {
|
||||
countryList.add(c);
|
||||
countryCodes.add(c.getClassid());
|
||||
}
|
||||
Dataset<EntityEntityRel> cfhb = readPath(spark, workingPath + "/resultCfHb", EntityEntityRel.class);
|
||||
|
||||
datasource_country
|
||||
.joinWith(
|
||||
cfhb, cfhb
|
||||
.col("entity2Id")
|
||||
.equalTo(datasource_country.col("datasourceId")))
|
||||
.groupByKey(
|
||||
(MapFunction<Tuple2<DatasourceCountry, EntityEntityRel>, String>) t2 -> t2._2().getEntity1Id(),
|
||||
Encoders.STRING())
|
||||
.mapGroups(
|
||||
(MapGroupsFunction<String, Tuple2<DatasourceCountry, EntityEntityRel>, ResultCountrySet>) (k, it) -> {
|
||||
ResultCountrySet rcs = new ResultCountrySet();
|
||||
rcs.setResultId(k);
|
||||
Set<CountrySbs> set = new HashSet<>();
|
||||
Set<String> countryCodes = new HashSet<>();
|
||||
DatasourceCountry first = it.next()._1();
|
||||
countryCodes.add(first.getCountry().getClassid());
|
||||
set.add(first.getCountry());
|
||||
it.forEachRemaining(t2 -> {
|
||||
if (!countryCodes.contains(t2._1().getCountry().getClassid()))
|
||||
set.add(t2._1().getCountry());
|
||||
});
|
||||
a.setCountrySet(countryList);
|
||||
return a;
|
||||
})
|
||||
.map(couple -> OBJECT_MAPPER.writeValueAsString(couple._2()))
|
||||
.saveAsTextFile(outputPath, GzipCodec.class);
|
||||
rcs.setCountrySet(new ArrayList<>(set));
|
||||
return rcs;
|
||||
}, Encoders.bean(ResultCountrySet.class))
|
||||
.write()
|
||||
.mode(SaveMode.Overwrite)
|
||||
.option("compression", "gzip")
|
||||
.json(outputPath);
|
||||
}
|
||||
|
||||
}
|
||||
|
|
|
|||
|
|
@ -56,12 +56,6 @@ public class SparkCountryPropagationJob {
|
|||
final String resultClassName = parser.get("resultTableName");
|
||||
log.info("resultTableName: {}", resultClassName);
|
||||
|
||||
final Boolean saveGraph = Optional
|
||||
.ofNullable(parser.get("saveGraph"))
|
||||
.map(Boolean::valueOf)
|
||||
.orElse(Boolean.TRUE);
|
||||
log.info("saveGraph: {}", saveGraph);
|
||||
|
||||
Class<? extends Result> resultClazz = (Class<? extends Result>) Class.forName(resultClassName);
|
||||
|
||||
SparkConf conf = new SparkConf();
|
||||
|
|
@ -75,8 +69,7 @@ public class SparkCountryPropagationJob {
|
|||
sourcePath,
|
||||
preparedInfoPath,
|
||||
outputPath,
|
||||
resultClazz,
|
||||
saveGraph);
|
||||
resultClazz);
|
||||
});
|
||||
}
|
||||
|
||||
|
|
@ -85,27 +78,25 @@ public class SparkCountryPropagationJob {
|
|||
String sourcePath,
|
||||
String preparedInfoPath,
|
||||
String outputPath,
|
||||
Class<R> resultClazz,
|
||||
boolean saveGraph) {
|
||||
Class<R> resultClazz) {
|
||||
|
||||
if (saveGraph) {
|
||||
log.info("Reading Graph table from: {}", sourcePath);
|
||||
Dataset<R> res = readPath(spark, sourcePath, resultClazz);
|
||||
log.info("Reading Graph table from: {}", sourcePath);
|
||||
Dataset<R> res = readPath(spark, sourcePath, resultClazz);
|
||||
|
||||
log.info("Reading prepared info: {}", preparedInfoPath);
|
||||
Dataset<ResultCountrySet> prepared = spark
|
||||
.read()
|
||||
.json(preparedInfoPath)
|
||||
.as(Encoders.bean(ResultCountrySet.class));
|
||||
log.info("Reading prepared info: {}", preparedInfoPath);
|
||||
Dataset<ResultCountrySet> prepared = spark
|
||||
.read()
|
||||
.json(preparedInfoPath)
|
||||
.as(Encoders.bean(ResultCountrySet.class));
|
||||
|
||||
res
|
||||
.joinWith(prepared, res.col("id").equalTo(prepared.col("resultId")), "left_outer")
|
||||
.map(getCountryMergeFn(), Encoders.bean(resultClazz))
|
||||
.write()
|
||||
.option("compression", "gzip")
|
||||
.mode(SaveMode.Overwrite)
|
||||
.json(outputPath);
|
||||
|
||||
res
|
||||
.joinWith(prepared, res.col("id").equalTo(prepared.col("resultId")), "left_outer")
|
||||
.map(getCountryMergeFn(), Encoders.bean(resultClazz))
|
||||
.write()
|
||||
.option("compression", "gzip")
|
||||
.mode(SaveMode.Overwrite)
|
||||
.json(outputPath);
|
||||
}
|
||||
}
|
||||
|
||||
private static <R extends Result> MapFunction<Tuple2<R, ResultCountrySet>, R> getCountryMergeFn() {
|
||||
|
|
|
|||
|
|
@ -5,18 +5,6 @@
|
|||
"paramDescription": "the path of the sequencial file to read",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName":"h",
|
||||
"paramLongName":"hive_metastore_uris",
|
||||
"paramDescription": "the hive metastore uris",
|
||||
"paramRequired": false
|
||||
},
|
||||
{
|
||||
"paramName":"sg",
|
||||
"paramLongName":"saveGraph",
|
||||
"paramDescription": "true if the new version of the graph must be saved",
|
||||
"paramRequired": false
|
||||
},
|
||||
{
|
||||
"paramName":"tn",
|
||||
"paramLongName":"resultTableName",
|
||||
|
|
|
|||
|
|
@ -5,12 +5,6 @@
|
|||
"paramDescription": "the path of the sequencial file to read",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName":"h",
|
||||
"paramLongName":"hive_metastore_uris",
|
||||
"paramDescription": "the hive metastore uris",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName": "out",
|
||||
"paramLongName": "outputPath",
|
||||
|
|
|
|||
|
|
@ -12,9 +12,9 @@
|
|||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName":"h",
|
||||
"paramLongName":"hive_metastore_uris",
|
||||
"paramDescription": "the hive metastore uris",
|
||||
"paramName":"w",
|
||||
"paramLongName":"workingPath",
|
||||
"paramDescription": "the working path",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
|
|
|
|||
|
|
@ -110,7 +110,6 @@
|
|||
<arg>--sourcePath</arg><arg>${sourcePath}</arg>
|
||||
<arg>--whitelist</arg><arg>${whitelist}</arg>
|
||||
<arg>--allowedtypes</arg><arg>${allowedtypes}</arg>
|
||||
<arg>--hive_metastore_uris</arg><arg>${hive_metastore_uris}</arg>
|
||||
<arg>--outputPath</arg><arg>${workingDir}/preparedInfo</arg>
|
||||
</spark>
|
||||
<ok to="fork_join_prepare_result_country"/>
|
||||
|
|
@ -146,7 +145,7 @@
|
|||
</spark-opts>
|
||||
<arg>--sourcePath</arg><arg>${sourcePath}/publication</arg>
|
||||
<arg>--outputPath</arg><arg>${workingDir}/publication</arg>
|
||||
<arg>--hive_metastore_uris</arg><arg>${hive_metastore_uris}</arg>
|
||||
<arg>--workingPath</arg><arg>${workingDir}/workingP</arg>
|
||||
<arg>--resultTableName</arg><arg>eu.dnetlib.dhp.schema.oaf.Publication</arg>
|
||||
<arg>--preparedInfoPath</arg><arg>${workingDir}/preparedInfo</arg>
|
||||
</spark>
|
||||
|
|
@ -176,7 +175,7 @@
|
|||
</spark-opts>
|
||||
<arg>--sourcePath</arg><arg>${sourcePath}/dataset</arg>
|
||||
<arg>--outputPath</arg><arg>${workingDir}/dataset</arg>
|
||||
<arg>--hive_metastore_uris</arg><arg>${hive_metastore_uris}</arg>
|
||||
<arg>--workingPath</arg><arg>${workingDir}/workingD</arg>
|
||||
<arg>--resultTableName</arg><arg>eu.dnetlib.dhp.schema.oaf.Dataset</arg>
|
||||
<arg>--preparedInfoPath</arg><arg>${workingDir}/preparedInfo</arg>
|
||||
</spark>
|
||||
|
|
@ -206,7 +205,7 @@
|
|||
</spark-opts>
|
||||
<arg>--sourcePath</arg><arg>${sourcePath}/otherresearchproduct</arg>
|
||||
<arg>--outputPath</arg><arg>${workingDir}/otherresearchproduct</arg>
|
||||
<arg>--hive_metastore_uris</arg><arg>${hive_metastore_uris}</arg>
|
||||
<arg>--workingPath</arg><arg>${workingDir}/workingO</arg>
|
||||
<arg>--resultTableName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
|
||||
<arg>--preparedInfoPath</arg><arg>${workingDir}/preparedInfo</arg>
|
||||
</spark>
|
||||
|
|
@ -236,7 +235,7 @@
|
|||
</spark-opts>
|
||||
<arg>--sourcePath</arg><arg>${sourcePath}/software</arg>
|
||||
<arg>--outputPath</arg><arg>${workingDir}/software</arg>
|
||||
<arg>--hive_metastore_uris</arg><arg>${hive_metastore_uris}</arg>
|
||||
<arg>--workingPath</arg><arg>${workingDir}/workingS</arg>
|
||||
<arg>--resultTableName</arg><arg>eu.dnetlib.dhp.schema.oaf.Software</arg>
|
||||
<arg>--preparedInfoPath</arg><arg>${workingDir}/preparedInfo</arg>
|
||||
</spark>
|
||||
|
|
|
|||
|
|
@ -173,6 +173,7 @@
|
|||
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||
--conf spark.dynamicAllocation.enabled=true
|
||||
--conf spark.dynamicAllocation.maxExecutors=${spark2MaxExecutors}
|
||||
--conf spark.sql.shuffle.partitions=3840
|
||||
</spark-opts>
|
||||
<arg>--relationPath</arg><arg>${workingDir}/preparedInfo/relation</arg>
|
||||
<arg>--outputPath</arg><arg>${outputPath}/relation</arg>
|
||||
|
|
|
|||
|
|
@ -24,6 +24,7 @@ import org.slf4j.LoggerFactory;
|
|||
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||
|
||||
import eu.dnetlib.dhp.schema.oaf.Country;
|
||||
import eu.dnetlib.dhp.schema.oaf.Publication;
|
||||
import eu.dnetlib.dhp.schema.oaf.Qualifier;
|
||||
import eu.dnetlib.dhp.schema.oaf.Software;
|
||||
import scala.Tuple2;
|
||||
|
|
@ -69,17 +70,16 @@ public class CountryPropagationJobTest {
|
|||
@Test
|
||||
void testCountryPropagationSoftware() throws Exception {
|
||||
final String sourcePath = getClass()
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/sample/software")
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/graph/software")
|
||||
.getPath();
|
||||
final String preparedInfoPath = getClass()
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/preparedInfo")
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/preparedInfo/software")
|
||||
.getPath();
|
||||
SparkCountryPropagationJob
|
||||
.main(
|
||||
new String[] {
|
||||
"--isSparkSessionManaged", Boolean.FALSE.toString(),
|
||||
"--sourcePath", sourcePath,
|
||||
"-saveGraph", "true",
|
||||
"-resultTableName", Software.class.getCanonicalName(),
|
||||
"-outputPath", workingDir.toString() + "/software",
|
||||
"-preparedInfoPath", preparedInfoPath
|
||||
|
|
@ -91,8 +91,6 @@ public class CountryPropagationJobTest {
|
|||
.textFile(workingDir.toString() + "/software")
|
||||
.map(item -> OBJECT_MAPPER.readValue(item, Software.class));
|
||||
|
||||
// tmp.map(s -> new Gson().toJson(s)).foreach(s -> System.out.println(s));
|
||||
|
||||
Assertions.assertEquals(10, tmp.count());
|
||||
|
||||
Dataset<Software> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Software.class));
|
||||
|
|
@ -259,4 +257,145 @@ public class CountryPropagationJobTest {
|
|||
7, countryExplodedWithCountryProvenance.filter("_2 = 'propagation'").count());
|
||||
}
|
||||
|
||||
@Test
|
||||
void testCountryPropagationPublication() throws Exception {
|
||||
final String sourcePath = getClass()
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/graph/publication")
|
||||
.getPath();
|
||||
final String preparedInfoPath = getClass()
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/preparedInfo/publication")
|
||||
.getPath();
|
||||
SparkCountryPropagationJob
|
||||
.main(
|
||||
new String[] {
|
||||
"--isSparkSessionManaged", Boolean.FALSE.toString(),
|
||||
"--sourcePath", sourcePath,
|
||||
"-resultTableName", Publication.class.getCanonicalName(),
|
||||
"-outputPath", workingDir.toString() + "/publication",
|
||||
"-preparedInfoPath", preparedInfoPath
|
||||
});
|
||||
|
||||
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
||||
|
||||
JavaRDD<Publication> tmp = sc
|
||||
.textFile(workingDir.toString() + "/publication")
|
||||
.map(item -> OBJECT_MAPPER.readValue(item, Publication.class));
|
||||
|
||||
Assertions.assertEquals(12, tmp.count());
|
||||
|
||||
Assertions.assertEquals(5, tmp.filter(r -> r.getCountry().size() > 0).count());
|
||||
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r.getCountry().stream().forEach(c -> Assertions.assertEquals("dnet:countries", c.getSchemeid())));
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r
|
||||
.getCountry()
|
||||
.stream()
|
||||
.forEach(c -> Assertions.assertEquals("dnet:countries", c.getSchemename())));
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r
|
||||
.getCountry()
|
||||
.stream()
|
||||
.forEach(c -> Assertions.assertFalse(c.getDataInfo().getDeletedbyinference())));
|
||||
tmp.foreach(r -> r.getCountry().stream().forEach(c -> Assertions.assertFalse(c.getDataInfo().getInvisible())));
|
||||
tmp.foreach(r -> r.getCountry().stream().forEach(c -> Assertions.assertTrue(c.getDataInfo().getInferred())));
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r.getCountry().stream().forEach(c -> Assertions.assertEquals("0.85", c.getDataInfo().getTrust())));
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r
|
||||
.getCountry()
|
||||
.stream()
|
||||
.forEach(c -> Assertions.assertEquals("propagation", c.getDataInfo().getInferenceprovenance())));
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r
|
||||
.getCountry()
|
||||
.stream()
|
||||
.forEach(
|
||||
c -> Assertions
|
||||
.assertEquals("country:instrepos", c.getDataInfo().getProvenanceaction().getClassid())));
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r
|
||||
.getCountry()
|
||||
.stream()
|
||||
.forEach(
|
||||
c -> Assertions
|
||||
.assertEquals(
|
||||
"dnet:provenanceActions", c.getDataInfo().getProvenanceaction().getSchemeid())));
|
||||
tmp
|
||||
.foreach(
|
||||
r -> r
|
||||
.getCountry()
|
||||
.stream()
|
||||
.forEach(
|
||||
c -> Assertions
|
||||
.assertEquals(
|
||||
"dnet:provenanceActions", c.getDataInfo().getProvenanceaction().getSchemename())));
|
||||
|
||||
List<Country> countries = tmp
|
||||
.filter(r -> r.getId().equals("50|06cdd3ff4700::49ec404cee4e1452808aabeaffbd3072"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry();
|
||||
Assertions.assertEquals(1, countries.size());
|
||||
Assertions.assertEquals("NL", countries.get(0).getClassid());
|
||||
Assertions.assertEquals("Netherlands", countries.get(0).getClassname());
|
||||
|
||||
countries = tmp
|
||||
.filter(r -> r.getId().equals("50|07b5c0ccd4fe::e7f5459cc97865f2af6e3da964c1250b"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry();
|
||||
Assertions.assertEquals(1, countries.size());
|
||||
Assertions.assertEquals("NL", countries.get(0).getClassid());
|
||||
Assertions.assertEquals("Netherlands", countries.get(0).getClassname());
|
||||
|
||||
countries = tmp
|
||||
.filter(r -> r.getId().equals("50|355e65625b88::e7d48a470b13bda61f7ebe3513e20cb6"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry();
|
||||
Assertions.assertEquals(2, countries.size());
|
||||
Assertions
|
||||
.assertTrue(
|
||||
countries.stream().anyMatch(cs -> cs.getClassid().equals("IT") && cs.getClassname().equals("Italy")));
|
||||
Assertions
|
||||
.assertTrue(
|
||||
countries.stream().anyMatch(cs -> cs.getClassid().equals("FR") && cs.getClassname().equals("France")));
|
||||
|
||||
countries = tmp
|
||||
.filter(r -> r.getId().equals("50|355e65625b88::74009c567c81b4aa55c813db658734df"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry();
|
||||
Assertions.assertEquals(2, countries.size());
|
||||
Assertions
|
||||
.assertTrue(
|
||||
countries.stream().anyMatch(cs -> cs.getClassid().equals("IT") && cs.getClassname().equals("Italy")));
|
||||
Assertions
|
||||
.assertTrue(
|
||||
countries
|
||||
.stream()
|
||||
.anyMatch(cs -> cs.getClassid().equals("NL") && cs.getClassname().equals("Netherlands")));
|
||||
|
||||
countries = tmp
|
||||
.filter(r -> r.getId().equals("50|355e65625b88::54a1c76f520bb2c8da27d12e42891088"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry();
|
||||
Assertions.assertEquals(2, countries.size());
|
||||
Assertions
|
||||
.assertTrue(
|
||||
countries.stream().anyMatch(cs -> cs.getClassid().equals("IT") && cs.getClassname().equals("Italy")));
|
||||
Assertions
|
||||
.assertTrue(
|
||||
countries.stream().anyMatch(cs -> cs.getClassid().equals("FR") && cs.getClassname().equals("France")));
|
||||
}
|
||||
|
||||
}
|
||||
|
|
|
|||
|
|
@ -0,0 +1,176 @@
|
|||
|
||||
package eu.dnetlib.dhp.countrypropagation;
|
||||
|
||||
import java.io.IOException;
|
||||
import java.nio.file.Files;
|
||||
import java.nio.file.Path;
|
||||
|
||||
import org.apache.commons.io.FileUtils;
|
||||
import org.apache.spark.SparkConf;
|
||||
import org.apache.spark.api.java.JavaRDD;
|
||||
import org.apache.spark.api.java.JavaSparkContext;
|
||||
import org.apache.spark.sql.SparkSession;
|
||||
import org.junit.jupiter.api.AfterAll;
|
||||
import org.junit.jupiter.api.Assertions;
|
||||
import org.junit.jupiter.api.BeforeAll;
|
||||
import org.junit.jupiter.api.Test;
|
||||
|
||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||
|
||||
public class DatasourceCountryPreparationTest {
|
||||
|
||||
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
||||
|
||||
private static SparkSession spark;
|
||||
|
||||
private static Path workingDir;
|
||||
|
||||
@BeforeAll
|
||||
public static void beforeAll() throws IOException {
|
||||
workingDir = Files.createTempDirectory(DatasourceCountryPreparationTest.class.getSimpleName());
|
||||
|
||||
SparkConf conf = new SparkConf();
|
||||
conf.setAppName(DatasourceCountryPreparationTest.class.getSimpleName());
|
||||
|
||||
conf.setMaster("local[*]");
|
||||
conf.set("spark.driver.host", "localhost");
|
||||
conf.set("hive.metastore.local", "true");
|
||||
conf.set("spark.ui.enabled", "false");
|
||||
conf.set("spark.sql.warehouse.dir", workingDir.toString());
|
||||
conf.set("hive.metastore.warehouse.dir", workingDir.resolve("warehouse").toString());
|
||||
|
||||
spark = SparkSession
|
||||
.builder()
|
||||
.appName(DatasourceCountryPreparationTest.class.getSimpleName())
|
||||
.config(conf)
|
||||
.getOrCreate();
|
||||
}
|
||||
|
||||
@AfterAll
|
||||
public static void afterAll() throws IOException {
|
||||
FileUtils.deleteDirectory(workingDir.toFile());
|
||||
spark.stop();
|
||||
}
|
||||
|
||||
@Test
|
||||
void testPrepareDatasourceCountry() throws Exception {
|
||||
final String sourcePath = getClass()
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/graph")
|
||||
.getPath();
|
||||
|
||||
PrepareDatasourceCountryAssociation
|
||||
.main(
|
||||
new String[] {
|
||||
"--isSparkSessionManaged", Boolean.FALSE.toString(),
|
||||
"--sourcePath", sourcePath,
|
||||
"--outputPath", workingDir.toString() + "/datasourceCountry",
|
||||
"--allowedtypes", "pubsrepository::institutional",
|
||||
"--whitelist",
|
||||
"10|openaire____::3795d6478e30e2c9f787d427ff160944;10|opendoar____::16e6a3326dd7d868cbc926602a61e4d0;10|eurocrisdris::fe4903425d9040f680d8610d9079ea14;10|openaire____::5b76240cc27a58c6f7ceef7d8c36660e;10|openaire____::172bbccecf8fca44ab6a6653e84cb92a;10|openaire____::149c6590f8a06b46314eed77bfca693f;10|eurocrisdris::a6026877c1a174d60f81fd71f62df1c1;10|openaire____::4692342f0992d91f9e705c26959f09e0;10|openaire____::8d529dbb05ec0284662b391789e8ae2a;10|openaire____::345c9d171ef3c5d706d08041d506428c;10|opendoar____::1c1d4df596d01da60385f0bb17a4a9e0;10|opendoar____::7a614fd06c325499f1680b9896beedeb;10|opendoar____::1ee3dfcd8a0645a25a35977997223d22;10|opendoar____::d296c101daa88a51f6ca8cfc1ac79b50;10|opendoar____::798ed7d4ee7138d49b8828958048130a;10|openaire____::c9d2209ecc4d45ba7b4ca7597acb88a2;10|eurocrisdris::c49e0fe4b9ba7b7fab717d1f0f0a674d;10|eurocrisdris::9ae43d14471c4b33661fedda6f06b539;10|eurocrisdris::432ca599953ff50cd4eeffe22faf3e48"
|
||||
});
|
||||
|
||||
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
||||
|
||||
JavaRDD<DatasourceCountry> tmp = sc
|
||||
.textFile(workingDir.toString() + "/datasourceCountry")
|
||||
.map(item -> OBJECT_MAPPER.readValue(item, DatasourceCountry.class));
|
||||
|
||||
Assertions.assertEquals(3, tmp.count());
|
||||
Assertions
|
||||
.assertEquals(
|
||||
1, tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|eurocrisdris::fe4903425d9040f680d8610d9079ea14"))
|
||||
.count());
|
||||
Assertions
|
||||
.assertEquals(
|
||||
1, tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|opendoar____::f0dd4a99fba6075a9494772b58f95280"))
|
||||
.count());
|
||||
Assertions
|
||||
.assertEquals(
|
||||
1, tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|eurocrisdris::9ae43d14471c4b33661fedda6f06b539"))
|
||||
.count());
|
||||
|
||||
Assertions
|
||||
.assertEquals(
|
||||
"NL", tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|eurocrisdris::fe4903425d9040f680d8610d9079ea14"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry()
|
||||
.getClassid());
|
||||
Assertions
|
||||
.assertEquals(
|
||||
"Netherlands", tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|eurocrisdris::fe4903425d9040f680d8610d9079ea14"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry()
|
||||
.getClassname());
|
||||
|
||||
Assertions
|
||||
.assertEquals(
|
||||
"IT", tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|opendoar____::f0dd4a99fba6075a9494772b58f95280"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry()
|
||||
.getClassid());
|
||||
Assertions
|
||||
.assertEquals(
|
||||
"Italy", tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|opendoar____::f0dd4a99fba6075a9494772b58f95280"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry()
|
||||
.getClassname());
|
||||
|
||||
Assertions
|
||||
.assertEquals(
|
||||
"FR", tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|eurocrisdris::9ae43d14471c4b33661fedda6f06b539"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry()
|
||||
.getClassid());
|
||||
Assertions
|
||||
.assertEquals(
|
||||
"France", tmp
|
||||
.filter(
|
||||
dsc -> dsc
|
||||
.getDataSourceId()
|
||||
.equals("10|eurocrisdris::9ae43d14471c4b33661fedda6f06b539"))
|
||||
.collect()
|
||||
.get(0)
|
||||
.getCountry()
|
||||
.getClassname());
|
||||
|
||||
tmp.foreach(e -> System.out.println(OBJECT_MAPPER.writeValueAsString(e)));
|
||||
|
||||
}
|
||||
}
|
||||
|
|
@ -0,0 +1,158 @@
|
|||
|
||||
package eu.dnetlib.dhp.countrypropagation;
|
||||
|
||||
import static eu.dnetlib.dhp.PropagationConstant.isSparkSessionManaged;
|
||||
|
||||
import java.io.IOException;
|
||||
import java.nio.file.Files;
|
||||
import java.nio.file.Path;
|
||||
|
||||
import org.apache.commons.io.FileUtils;
|
||||
import org.apache.spark.SparkConf;
|
||||
import org.apache.spark.api.java.JavaRDD;
|
||||
import org.apache.spark.api.java.JavaSparkContext;
|
||||
import org.apache.spark.sql.SparkSession;
|
||||
import org.junit.jupiter.api.AfterAll;
|
||||
import org.junit.jupiter.api.Assertions;
|
||||
import org.junit.jupiter.api.BeforeAll;
|
||||
import org.junit.jupiter.api.Test;
|
||||
|
||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||
|
||||
import eu.dnetlib.dhp.schema.oaf.Publication;
|
||||
|
||||
public class ResultCountryPreparationTest {
|
||||
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
||||
|
||||
private static SparkSession spark;
|
||||
|
||||
private static Path workingDir;
|
||||
|
||||
@BeforeAll
|
||||
public static void beforeAll() throws IOException {
|
||||
workingDir = Files.createTempDirectory(ResultCountryPreparationTest.class.getSimpleName());
|
||||
|
||||
SparkConf conf = new SparkConf();
|
||||
conf.setAppName(ResultCountryPreparationTest.class.getSimpleName());
|
||||
|
||||
conf.setMaster("local[*]");
|
||||
conf.set("spark.driver.host", "localhost");
|
||||
conf.set("hive.metastore.local", "true");
|
||||
conf.set("spark.ui.enabled", "false");
|
||||
conf.set("spark.sql.warehouse.dir", workingDir.toString());
|
||||
conf.set("hive.metastore.warehouse.dir", workingDir.resolve("warehouse").toString());
|
||||
|
||||
spark = SparkSession
|
||||
.builder()
|
||||
.appName(ResultCountryPreparationTest.class.getSimpleName())
|
||||
.config(conf)
|
||||
.getOrCreate();
|
||||
}
|
||||
|
||||
@AfterAll
|
||||
public static void afterAll() throws IOException {
|
||||
FileUtils.deleteDirectory(workingDir.toFile());
|
||||
spark.stop();
|
||||
}
|
||||
|
||||
@Test
|
||||
void testPrepareResultCountry() throws Exception {
|
||||
final String sourcePath = getClass()
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/graph/publication")
|
||||
.getPath();
|
||||
|
||||
final String preparedInfoPath = getClass()
|
||||
.getResource("/eu/dnetlib/dhp/countrypropagation/datasourcecountry")
|
||||
.getPath();
|
||||
|
||||
PrepareResultCountrySet
|
||||
.main(
|
||||
new String[] {
|
||||
"--isSparkSessionManaged", Boolean.FALSE.toString(),
|
||||
"--workingPath", workingDir.toString() + "/working",
|
||||
"--sourcePath", sourcePath,
|
||||
"--outputPath", workingDir.toString() + "/resultCountry",
|
||||
"--preparedInfoPath", preparedInfoPath,
|
||||
"--resultTableName", Publication.class.getCanonicalName()
|
||||
});
|
||||
|
||||
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
||||
|
||||
JavaRDD<ResultCountrySet> tmp = sc
|
||||
.textFile(workingDir.toString() + "/resultCountry")
|
||||
.map(item -> OBJECT_MAPPER.readValue(item, ResultCountrySet.class));
|
||||
|
||||
Assertions.assertEquals(5, tmp.count());
|
||||
|
||||
ResultCountrySet rc = tmp
|
||||
.filter(r -> r.getResultId().equals("50|06cdd3ff4700::49ec404cee4e1452808aabeaffbd3072"))
|
||||
.collect()
|
||||
.get(0);
|
||||
Assertions.assertEquals(1, rc.getCountrySet().size());
|
||||
Assertions.assertEquals("NL", rc.getCountrySet().get(0).getClassid());
|
||||
Assertions.assertEquals("Netherlands", rc.getCountrySet().get(0).getClassname());
|
||||
|
||||
rc = tmp
|
||||
.filter(r -> r.getResultId().equals("50|07b5c0ccd4fe::e7f5459cc97865f2af6e3da964c1250b"))
|
||||
.collect()
|
||||
.get(0);
|
||||
Assertions.assertEquals(1, rc.getCountrySet().size());
|
||||
Assertions.assertEquals("NL", rc.getCountrySet().get(0).getClassid());
|
||||
Assertions.assertEquals("Netherlands", rc.getCountrySet().get(0).getClassname());
|
||||
|
||||
rc = tmp
|
||||
.filter(r -> r.getResultId().equals("50|355e65625b88::e7d48a470b13bda61f7ebe3513e20cb6"))
|
||||
.collect()
|
||||
.get(0);
|
||||
Assertions.assertEquals(2, rc.getCountrySet().size());
|
||||
Assertions
|
||||
.assertTrue(
|
||||
rc
|
||||
.getCountrySet()
|
||||
.stream()
|
||||
.anyMatch(cs -> cs.getClassid().equals("IT") && cs.getClassname().equals("Italy")));
|
||||
Assertions
|
||||
.assertTrue(
|
||||
rc
|
||||
.getCountrySet()
|
||||
.stream()
|
||||
.anyMatch(cs -> cs.getClassid().equals("FR") && cs.getClassname().equals("France")));
|
||||
|
||||
rc = tmp
|
||||
.filter(r -> r.getResultId().equals("50|355e65625b88::74009c567c81b4aa55c813db658734df"))
|
||||
.collect()
|
||||
.get(0);
|
||||
Assertions.assertEquals(2, rc.getCountrySet().size());
|
||||
Assertions
|
||||
.assertTrue(
|
||||
rc
|
||||
.getCountrySet()
|
||||
.stream()
|
||||
.anyMatch(cs -> cs.getClassid().equals("IT") && cs.getClassname().equals("Italy")));
|
||||
Assertions
|
||||
.assertTrue(
|
||||
rc
|
||||
.getCountrySet()
|
||||
.stream()
|
||||
.anyMatch(cs -> cs.getClassid().equals("NL") && cs.getClassname().equals("Netherlands")));
|
||||
|
||||
rc = tmp
|
||||
.filter(r -> r.getResultId().equals("50|355e65625b88::54a1c76f520bb2c8da27d12e42891088"))
|
||||
.collect()
|
||||
.get(0);
|
||||
Assertions.assertEquals(2, rc.getCountrySet().size());
|
||||
Assertions
|
||||
.assertTrue(
|
||||
rc
|
||||
.getCountrySet()
|
||||
.stream()
|
||||
.anyMatch(cs -> cs.getClassid().equals("IT") && cs.getClassname().equals("Italy")));
|
||||
Assertions
|
||||
.assertTrue(
|
||||
rc
|
||||
.getCountrySet()
|
||||
.stream()
|
||||
.anyMatch(cs -> cs.getClassid().equals("FR") && cs.getClassname().equals("France")));
|
||||
|
||||
}
|
||||
}
|
||||
|
|
@ -0,0 +1,3 @@
|
|||
{"dataSourceId":"10|eurocrisdris::fe4903425d9040f680d8610d9079ea14","country":{"classid":"NL","classname":"Netherlands"}}
|
||||
{"dataSourceId":"10|opendoar____::f0dd4a99fba6075a9494772b58f95280","country":{"classid":"IT","classname":"Italy"}}
|
||||
{"dataSourceId":"10|eurocrisdris::9ae43d14471c4b33661fedda6f06b539","country":{"classid":"FR","classname":"France"}}
|
||||
|
|
@ -0,0 +1,11 @@
|
|||
{"accessinfopackage":[],"collectedfrom":[{"key":"10|openaire____::081b82f96300b6a6e3d282bad31cb6e2","value":"Crossref"}],"contentpolicies":[{"classid":"Journal articles","classname":"Journal articles","schemeid":"eosc:contentpolicies","schemename":"eosc:contentpolicies"}],"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"dataprovider":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":false},"datasourcetype":{"classid":"pubsrepository::journal","classname":"Journal","schemeid":"dnet:datasource_typologies","schemename":"dnet:datasource_typologies"},"datasourcetypeui":{"classid":"Journal archive","classname":"Journal archive","schemeid":"dnet:datasource_typologies_ui","schemename":"dnet:datasource_typologies_ui"},"dateofcollection":"2020-07-10","englishname":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":"Estudos Portugueses"},"extraInfo":[],"id":"10|issn___print::a7a2010e75d849442790955162ef4e42","journal":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"issnPrinted":"2447-0546","name":"Estudos Portugueses"},"knowledgegraph":false,"lastupdatetimestamp":1646230297782,"latitude":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":"0.0"},"longitude":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":"0.0"},"namespaceprefix":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":"jrnl24470546"},"odcontenttypes":[],"odlanguages":[],"odnumberofitems":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":"0.0"},"officialname":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":"Estudos Portugueses"},"openairecompatibility":{"classid":"hostedBy","classname":"collected from a compatible aggregator","schemeid":"dnet:datasourceCompatibilityLevel","schemename":"dnet:datasourceCompatibilityLevel"},"originalId":["issn___print::2447-0546"],"pid":[],"policies":[],"serviceprovider":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":false},"subjects":[],"thematic":false,"versioning":{"dataInfo":{"deletedbyinference":false,"inferred":false,"invisible":false,"provenanceaction":{"classid":"sysimport:crosswalk:entityregistry","classname":"Harvested","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.900"},"value":false}}
|
||||
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@ -0,0 +1,24 @@
|
|||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","source":"10|eurocrisdris::fe4903425d9040f680d8610d9079ea14","subRelType":"affiliation","target":"20|pending_org_::82f63b2d21ae88596b9d8991780e9888","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","source":"10|opendoar____::fd272fe04b7d4e68effd01bddcc6bb34","subRelType":"affiliation","target":"20|pending_org_::5b73b8b2d0df764e13a62291dfedf8f6","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","source":"10|opendoar____::f0dd4a99fba6075a9494772b58f95280","subRelType":"affiliation","target":"20|openorgs____::322ff2a6524820640bc5d1311871585e","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","source":"10|eurocrisdris::9ae43d14471c4b33661fedda6f06b539","subRelType":"affiliation","target":"20|openorgs____::58e60f1715d219aa6757ba0b0f2ccbce","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","target":"20|openorgs____::64badd35233ba2cd4946368ef2f4cf57","subRelType":"affiliation","source":"10|issn___print::a7a2010e75d849442790955162ef4e42","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","source":"10|issn___print::a7a2010e75d849442790955162ef4e43","subRelType":"affiliation","target":"20|openorgs____::64badd35233ba2cd4946368ef2f4cf57","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","source":"10|issn___print::a7a2010e75d849442790955162ef4e44","subRelType":"affiliation","target":"20|openorgs____::548cbb0c5a93722f3a9aa62aa17a1ba1","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"IsProvidedBy","relType":"resultOrganization","source":"10|issn___print::a7a2010e75d849442790955162ef4e45","subRelType":"affiliation","target":"20|pending_org_::c522a7c935f9fd9578122e60eeec282c","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|openorgs____::64badd35233ba2cd4946368ef2f4cf57","subRelType":"affiliation","target":"50|dedup_wf_001::06e51d2bf295531b2d2e7a1b55500783","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::06e51d2bf295531b2d2e7a1b55500783","subRelType":"affiliation","target":"20|openorgs____::64badd35233ba2cd4946368ef2f4cf57","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|openorgs____::91a81877815afb4ebf25c1a3f3b03c5d","subRelType":"affiliation","target":"50|dedup_wf_001::08d6f2001319c86d0e69b0f83ad75df2","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::08d6f2001319c86d0e69b0f83ad75df2","subRelType":"affiliation","target":"20|openorgs____::91a81877815afb4ebf25c1a3f3b03c5d","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|openorgs____::548cbb0c5a93722f3a9aa62aa17a1ba1","subRelType":"affiliation","target":"50|dedup_wf_001::0a1cdf269375d32ce341fdeb0e92dfa8","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::0a1cdf269375d32ce341fdeb0e92dfa8","subRelType":"affiliation","target":"20|openorgs____::548cbb0c5a93722f3a9aa62aa17a1ba1","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|pending_org_::a50fdd7f7e77b74ea2b16823151c391a","subRelType":"affiliation","target":"50|dedup_wf_001::0ab92bed024ee6883c7a1244722e5eec","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::0ab92bed024ee6883c7a1244722e5eec","subRelType":"affiliation","target":"20|pending_org_::a50fdd7f7e77b74ea2b16823151c391a","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|openorgs____::64badd35233ba2cd4946368ef2f4cf57","subRelType":"affiliation","target":"50|dedup_wf_001::0ca26c736ad4d15b3d5ee90a4d7853e1","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::0ca26c736ad4d15b3d5ee90a4d7853e1","subRelType":"affiliation","target":"20|openorgs____::64badd35233ba2cd4946368ef2f4cf57","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|pending_org_::a50fdd7f7e77b74ea2b16823151c391a","subRelType":"affiliation","target":"50|dedup_wf_001::0ef8dfab3927cb4d69df0d3113f05a42","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::0ef8dfab3927cb4d69df0d3113f05a42","subRelType":"affiliation","target":"20|pending_org_::a50fdd7f7e77b74ea2b16823151c391a","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|openorgs____::548cbb0c5a93722f3a9aa62aa17a1ba1","subRelType":"affiliation","target":"50|dedup_wf_001::0f488ad00253126c14a21abe6b2d406c","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::0f488ad00253126c14a21abe6b2d406c","subRelType":"affiliation","target":"20|openorgs____::548cbb0c5a93722f3a9aa62aa17a1ba1","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"isAuthorInstitutionOf","relType":"resultOrganization","source":"20|pending_org_::c522a7c935f9fd9578122e60eeec282c","subRelType":"affiliation","target":"50|dedup_wf_001::12206bf78aabd7d52132477182d19147","validated":false}
|
||||
{"dataInfo":{"deletedbyinference":false,"inferenceprovenance":"propagation","inferred":true,"invisible":false,"provenanceaction":{"classid":"result:organization:instrepo","classname":"Propagation of affiliation to result collected from datasources of type institutional repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"},"trust":"0.85"},"properties":[],"relClass":"hasAuthorInstitution","relType":"resultOrganization","source":"50|dedup_wf_001::12206bf78aabd7d52132477182d19147","subRelType":"affiliation","target":"20|pending_org_::c522a7c935f9fd9578122e60eeec282c","validated":false}
|
||||
|
|
@ -0,0 +1,5 @@
|
|||
{"resultId":"50|07b5c0ccd4fe::e7f5459cc97865f2af6e3da964c1250b","countrySet":[{"classid":"NL","classname":"Netherlands"}]}
|
||||
{"resultId":"50|355e65625b88::54a1c76f520bb2c8da27d12e42891088","countrySet":[{"classid":"IT","classname":"Italy"},{"classid":"FR","classname":"France"}]}
|
||||
{"resultId":"50|06cdd3ff4700::49ec404cee4e1452808aabeaffbd3072","countrySet":[{"classid":"NL","classname":"Netherlands"}]}
|
||||
{"resultId":"50|355e65625b88::74009c567c81b4aa55c813db658734df","countrySet":[{"classid":"NL","classname":"Netherlands"},{"classid":"IT","classname":"Italy"}]}
|
||||
{"resultId":"50|355e65625b88::e7d48a470b13bda61f7ebe3513e20cb6","countrySet":[{"classid":"IT","classname":"Italy"},{"classid":"FR","classname":"France"}]}
|
||||
|
|
@ -0,0 +1,27 @@
|
|||
[
|
||||
|
||||
{
|
||||
"paramName":"op",
|
||||
"paramLongName":"outputPath",
|
||||
"paramDescription": "the output json file produced by the CSV downlaod procedure",
|
||||
"paramRequired": true
|
||||
},
|
||||
|
||||
{
|
||||
"paramName": "hnn",
|
||||
"paramLongName": "hdfsNameNode",
|
||||
"paramDescription": "the path used to store the HostedByMap",
|
||||
"paramRequired": true
|
||||
},{
|
||||
"paramName": "cf",
|
||||
"paramLongName": "compressedFile",
|
||||
"paramDescription": "the path used to store the HostedByMap",
|
||||
"paramRequired": true
|
||||
},{
|
||||
"paramName":"wp",
|
||||
"paramLongName":"workingPath",
|
||||
"paramDescription": "the output json file produced by the CSV downlaod procedure",
|
||||
"paramRequired": true
|
||||
}
|
||||
]
|
||||
|
||||
|
|
@ -0,0 +1,3 @@
|
|||
#!/bin/bash
|
||||
curl -LSs $1 | hdfs dfs -put - $2/$3
|
||||
curl -LSs http://api.crossref.org/works/10.1099/jgv.0.001453 > prova.txt
|
||||
|
|
@ -92,7 +92,7 @@
|
|||
|
||||
<action name="download_gold">
|
||||
<java>
|
||||
<main-class>eu.dnetlib.dhp.oa.graph.hostedbymap.DownloadCSV2</main-class>
|
||||
<main-class>eu.dnetlib.dhp.oa.graph.hostedbymap.DownloadCSV</main-class>
|
||||
<arg>--hdfsNameNode</arg><arg>${nameNode}</arg>
|
||||
<arg>--fileURL</arg><arg>${unibiFileURL}</arg>
|
||||
<arg>--tmpFile</arg><arg>/tmp/unibi_gold_replaced.csv</arg>
|
||||
|
|
|
|||
|
|
@ -8,7 +8,6 @@ import java.io.IOException;
|
|||
import java.io.StringReader;
|
||||
import java.util.List;
|
||||
|
||||
import eu.dnetlib.dhp.schema.oaf.Datasource;
|
||||
import org.apache.commons.io.IOUtils;
|
||||
import org.dom4j.Document;
|
||||
import org.dom4j.DocumentException;
|
||||
|
|
@ -24,6 +23,7 @@ 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;
|
||||
|
|
@ -146,10 +146,10 @@ public class XmlRecordFactoryTest {
|
|||
final ContextMapper contextMapper = new ContextMapper();
|
||||
|
||||
final XmlRecordFactory xmlRecordFactory = new XmlRecordFactory(contextMapper, false,
|
||||
XmlConverterJob.schemaLocation);
|
||||
XmlConverterJob.schemaLocation);
|
||||
|
||||
final Datasource d = OBJECT_MAPPER
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("datasource.json")), Datasource.class);
|
||||
.readValue(IOUtils.toString(getClass().getResourceAsStream("datasource.json")), Datasource.class);
|
||||
|
||||
final String xml = xmlRecordFactory.build(new JoinedEntity<>(d));
|
||||
|
||||
|
|
|
|||
Loading…
Reference in New Issue