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[enrichment single step] remove parameter from execution

This commit is contained in:
Miriam Baglioni 2024-01-17 17:38:03 +01:00
parent 67ce2d54be
commit 82e9e262ee
3 changed files with 15 additions and 25 deletions
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29
dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/projecttoresult/SparkResultToProjectThroughSemRelJob.java
View File

@ -64,7 +64,7 @@ public class SparkResultToProjectThroughSemRelJob {
removeOutputDir(spark, outputPath); removeOutputDir(spark, outputPath);
} }
execPropagation( execPropagation(
spark, outputPath, alreadyLinkedPath, potentialUpdatePath, saveGraph); spark, outputPath, alreadyLinkedPath, potentialUpdatePath);
}); });
} }
@ -72,24 +72,23 @@ public class SparkResultToProjectThroughSemRelJob {
SparkSession spark, SparkSession spark,
String outputPath, String outputPath,
String alreadyLinkedPath, String alreadyLinkedPath,
String potentialUpdatePath, String potentialUpdatePath) {
Boolean saveGraph) {
Dataset<ResultProjectSet> toaddrelations = readPath(spark, potentialUpdatePath, ResultProjectSet.class); Dataset<ResultProjectSet> toaddrelations = readPath(spark, potentialUpdatePath, ResultProjectSet.class);
Dataset<ResultProjectSet> alreadyLinked = readPath(spark, alreadyLinkedPath, ResultProjectSet.class); Dataset<ResultProjectSet> alreadyLinked = readPath(spark, alreadyLinkedPath, ResultProjectSet.class);
if (saveGraph) { // if (saveGraph) {
toaddrelations toaddrelations
.joinWith( .joinWith(
alreadyLinked, alreadyLinked,
toaddrelations.col("resultId").equalTo(alreadyLinked.col("resultId")), toaddrelations.col("resultId").equalTo(alreadyLinked.col("resultId")),
"left_outer") "left_outer")
.flatMap(mapRelationRn(), Encoders.bean(Relation.class)) .flatMap(mapRelationRn(), Encoders.bean(Relation.class))
.write() .write()
.mode(SaveMode.Append) .mode(SaveMode.Append)
.option("compression", "gzip") .option("compression", "gzip")
.json(outputPath); .json(outputPath);
} // }
} }
private static FlatMapFunction<Tuple2<ResultProjectSet, ResultProjectSet>, Relation> mapRelationRn() { private static FlatMapFunction<Tuple2<ResultProjectSet, ResultProjectSet>, Relation> mapRelationRn() {

2
dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/main/job.properties
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@ -1,5 +1,5 @@
sourcePath=/tmp/beta_provision/graph/10_graph_orcid_enriched sourcePath=/tmp/beta_provision/graph/10_graph_orcid_enriched
resumeFrom=CommunitySemanticRelation resumeFrom=ResultProject
allowedsemrelsorcidprop=isSupplementedBy;isSupplementTo allowedsemrelsorcidprop=isSupplementedBy;isSupplementTo
allowedsemrelsresultproject=isSupplementedBy;isSupplementTo allowedsemrelsresultproject=isSupplementedBy;isSupplementTo
allowedsemrelscommunitysemrel=isSupplementedBy;isSupplementTo allowedsemrelscommunitysemrel=isSupplementedBy;isSupplementTo

9
dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/projecttoresult/oozie_app/workflow.xml
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@ -97,17 +97,8 @@
<arg>--potentialUpdatePath</arg><arg>${workingDir}/resultproject/preparedInfo/potentialUpdates</arg> <arg>--potentialUpdatePath</arg><arg>${workingDir}/resultproject/preparedInfo/potentialUpdates</arg>
<arg>--alreadyLinkedPath</arg><arg>${workingDir}/resultproject/preparedInfo/alreadyLinked</arg> <arg>--alreadyLinkedPath</arg><arg>${workingDir}/resultproject/preparedInfo/alreadyLinked</arg>
</spark> </spark>
<ok to="reset_workingDir"/>
<error to="Kill"/>
</action>
<action name="reset_workingDir">
<fs>
<delete path="${workingDir}"/>
<mkdir path="${workingDir}"/>
</fs>
<ok to="End"/> <ok to="End"/>
<error to="Kill"/> <error to="Kill"/>
</action> </action>
<end name="End"/>
</workflow-app> </workflow-app>