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add test to verify merge scholix on source

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pull/124/head
Sandro La Bruzzo 3 years ago
parent 7d8db2eb8a
commit 4c54bd8742
3 changed files with 40 additions and 18 deletions
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4
dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/sx/graph/SparkCreateScholix.scala
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@ -43,6 +43,10 @@ object SparkCreateScholix {
.map(r => (r.getId, r))(Encoders.tuple(Encoders.STRING, summaryEncoder))
val res: Array[((String, Relation), (String, ScholixSummary))] =relationDS.joinWith(summaryDS, relationDS("_1").equalTo(summaryDS("_1")), "left").take(10)
res.foreach(r =>println(r._1._2))
// relationDS.joinWith(summaryDS, relationDS("_1").equalTo(summaryDS("_1")), "left")
// .map {input:((String,Relation), (String, ScholixSummary)) =>

34
dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/sx/graph/scholix/ScholixGraphTest.scala
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@ -1,30 +1,26 @@
package eu.dnetlib.dhp.sx.graph.scholix
import com.fasterxml.jackson.databind.{DeserializationFeature, ObjectMapper, SerializationFeature}
import eu.dnetlib.dhp.schema.oaf.{Oaf, Relation, Result}
import eu.dnetlib.dhp.sx.graph.bio.BioDBToOAF
import eu.dnetlib.dhp.sx.graph.bio.BioDBToOAF.ScholixResolved
import eu.dnetlib.dhp.schema.oaf.{Relation, Result}
import eu.dnetlib.dhp.schema.sx.scholix.Scholix
import eu.dnetlib.dhp.schema.sx.summary.ScholixSummary
import eu.dnetlib.dhp.sx.graph.bio.pubmed.AbstractVocabularyTest
import org.json4s
import org.json4s.DefaultFormats
import org.json4s.JsonAST.{JField, JObject, JString}
import org.json4s.jackson.JsonMethods.parse
import org.junit.jupiter.api.Assertions._
import org.junit.jupiter.api.extension.ExtendWith
import org.junit.jupiter.api.{BeforeEach, Test}
import org.mockito.junit.jupiter.MockitoExtension
import java.io.{BufferedReader, InputStream, InputStreamReader}
import java.util.zip.GZIPInputStream
import scala.collection.JavaConverters._
import scala.io.Source
import scala.xml.pull.XMLEventReader
@ExtendWith(Array(classOf[MockitoExtension]))
class ScholixGraphTest extends AbstractVocabularyTest{
val mapper = new ObjectMapper().enable(SerializationFeature.INDENT_OUTPUT)
val mapper: ObjectMapper = new ObjectMapper().enable(SerializationFeature.INDENT_OUTPUT)
mapper.configure(DeserializationFeature.FAIL_ON_UNKNOWN_PROPERTIES,false)
@BeforeEach
@ -47,18 +43,28 @@ class ScholixGraphTest extends AbstractVocabularyTest{
assertEquals(result.size, items.size)
val d = result.find(s => s.getLocalIdentifier.asScala.exists(i => i.getUrl == null || i.getUrl.isEmpty))
assertFalse(d.isDefined)
println(mapper.writeValueAsString(result.head))
}
@Test
def testScholixMergeOnSource():Unit = {
val inputRelations = Source.fromInputStream(getClass.getResourceAsStream("/eu/dnetlib/dhp/sx/graph/merge_result_scholix")).mkString
val result:List[(Relation,ScholixSummary)] =inputRelations.lines.sliding(2).map(s => (s.head, s(1))).map(p => (mapper.readValue(p._1, classOf[Relation]),mapper.readValue(p._2, classOf[ScholixSummary]) )).toList
assertNotNull(result)
assertTrue(result.nonEmpty)
result.foreach(r => assertEquals(r._1.getSource, r._2.getId))
val scholix:List[Scholix] = result.map(r => ScholixUtils.scholixFromSource(r._1, r._2))
println(mapper.writeValueAsString(scholix.head))
}
@Test
def testScholixRelationshipsClean() = {
def testScholixRelationshipsClean(): Unit = {
val inputRelations = Source.fromInputStream(getClass.getResourceAsStream("/eu/dnetlib/dhp/sx/graph/relation_transform.json")).mkString
implicit lazy val formats: DefaultFormats.type = org.json4s.DefaultFormats
@ -66,17 +72,9 @@ class ScholixGraphTest extends AbstractVocabularyTest{
val l:List[String] =json.extract[List[String]]
assertNotNull(l)
assertTrue(l.nonEmpty)
val relVocbaulary =ScholixUtils.relations
l.foreach(r => assertTrue(relVocbaulary.contains(r.toLowerCase)))
}

20
dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/sx/graph/merge_result_scholix
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@ -0,0 +1,20 @@
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