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[AFFILIATION PROPAGATION] Applied some SonarLint suggestions

This commit is contained in:
Miriam Baglioni 2021-11-16 13:56:32 +01:00
parent 4c70201412
commit c7c0c3187b
3 changed files with 14 additions and 23 deletions
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20
dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttoorganizationfromsemrel/PrepareInfo.java
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@ -30,25 +30,17 @@ import scala.Tuple2;
public class PrepareInfo implements Serializable {
// leggo le relazioni e seleziono quelle fra result ed organizzazioni
// raggruppo per result e salvo
// r => {o1, o2, o3}
// leggo le relazioni fra le organizzazioni e creo la gerarchia delle parentele:
// hashMap key organizzazione -> value tutti i suoi padri
// o => {p1, p2}
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static final Logger log = LoggerFactory.getLogger(PrepareInfo.class);
// associate orgs with all their parent
private static final String relOrgQuery = "SELECT target key, collect_set(source) as valueSet " +
private static final String ORGANIZATION_ORGANIZATION_QUERY = "SELECT target key, collect_set(source) as valueSet " +
"FROM relation " +
"WHERE lower(relclass) = '" + ModelConstants.IS_PARENT_OF.toLowerCase() +
"' and datainfo.deletedbyinference = false " +
"GROUP BY target";
private static final String relResQuery = "SELECT source key, collect_set(target) as valueSet " +
//associates results with all the orgs they are affiliated to
private static final String RESULT_ORGANIZATION_QUERY = "SELECT source key, collect_set(target) as valueSet " +
"FROM relation " +
"WHERE lower(relclass) = '" + ModelConstants.HAS_AUTHOR_INSTITUTION.toLowerCase() +
"' and datainfo.deletedbyinference = false " +
@ -101,7 +93,7 @@ public class PrepareInfo implements Serializable {
relation.createOrReplaceTempView("relation");
spark
.sql(relOrgQuery)
.sql(ORGANIZATION_ORGANIZATION_QUERY)
.as(Encoders.bean(KeyValueSet.class))
.write()
.mode(SaveMode.Overwrite)
@ -109,7 +101,7 @@ public class PrepareInfo implements Serializable {
.json(childParentOrganizationPath);
spark
.sql(relResQuery)
.sql(RESULT_ORGANIZATION_QUERY)
.as(Encoders.bean(KeyValueSet.class))
.write()
.mode(SaveMode.Overwrite)
@ -130,7 +122,7 @@ public class PrepareInfo implements Serializable {
"' and datainfo.deletedbyinference = false")
.as(Encoders.STRING());
// prendo dalla join i risultati che hanno solo il lato sinistro: sono foglie
// takes from the join the entities having only the left hand side: the leaves. Saves them
children
.joinWith(parent, children.col("child").equalTo(parent.col("parent")), "left")
.map((MapFunction<Tuple2<String, String>, String>) value -> {

7
dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttoorganizationfromsemrel/SparkResultToOrganizationFromSemRel.java
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@ -32,6 +32,7 @@ import eu.dnetlib.dhp.schema.oaf.Relation;
public class SparkResultToOrganizationFromSemRel implements Serializable {
private static final Logger log = LoggerFactory.getLogger(SparkResultToOrganizationFromSemRel.class);
private static final int MAX_ITERATION = 5;
public static final String NEW_RELATION_PATH = "/newRelation";
public static void main(String[] args) throws Exception {
@ -120,11 +121,11 @@ public class SparkResultToOrganizationFromSemRel implements Serializable {
iteration++;
StepActions
.execStep(
spark, graphPath, workingPath + "/newRelation",
spark, graphPath, workingPath + NEW_RELATION_PATH,
leavesPath, childParentPath, resultOrganizationPath);
StepActions
.prepareForNextStep(
spark, workingPath + "/newRelation", resultOrganizationPath, leavesPath,
spark, workingPath + NEW_RELATION_PATH, resultOrganizationPath, leavesPath,
childParentPath, workingPath + "/leaves", workingPath + "/resOrg");
moveOutput(spark, workingPath, leavesPath, resultOrganizationPath);
leavesCount = readPath(spark, leavesPath, Leaves.class).count();
@ -154,7 +155,7 @@ public class SparkResultToOrganizationFromSemRel implements Serializable {
propagationCounter.getNotReachedFirstParent().add(1);
}
addNewRelations(spark, workingPath + "/newRelation", outputPath);
addNewRelations(spark, workingPath + NEW_RELATION_PATH, outputPath);
}
private static void moveOutput(SparkSession spark, String workingPath, String leavesPath,

10
dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttoorganizationfromsemrel/StepActions.java
View File

@ -27,7 +27,6 @@ import scala.Tuple2;
public class StepActions implements Serializable {
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static final Logger log = LoggerFactory.getLogger(StepActions.class);
public static void execStep(SparkSession spark,
String graphPath, String newRelationPath,
@ -185,10 +184,9 @@ public class StepActions implements Serializable {
"GROUP BY resId")
.as(Encoders.bean(KeyValueSet.class));
// resultParent.foreach((ForeachFunction<KeyValueSet>)kv ->
// System.out.println(OBJECT_MAPPER.writeValueAsString(kv)));
// create new relations from result to organization for each result linked to a leaf
Dataset<Relation> tmp = resultParent
return resultParent
.flatMap(
(FlatMapFunction<KeyValueSet, Relation>) v -> v
.getValueSet()
@ -206,8 +204,8 @@ public class StepActions implements Serializable {
.collect(Collectors.toList())
.iterator(),
Encoders.bean(Relation.class));
tmp.foreach((ForeachFunction<Relation>) r -> System.out.println(OBJECT_MAPPER.writeValueAsString(r)));
return tmp;
}
}