added instanceTypeMapping original field in the mapping of

- DOIBoost
- Datacite
- PubMed
- Scholexplorer Datasource

dhp-workflows/dhp-aggregation/src/main/scala/eu/dnetlib/dhp/datacite/DataciteToOAFTransformation.scala

@@ -166,7 +166,7 @@ object DataciteToOAFTransformation {
     resourceTypeGeneral: String,
     schemaOrg: String,
     vocabularies: VocabularyGroup
-  ): (Qualifier, Qualifier) = {
+  ): (Qualifier, Qualifier, String) = {
     if (resourceType != null && resourceType.nonEmpty) {
       val typeQualifier =
         vocabularies.getSynonymAsQualifier(ModelConstants.DNET_PUBLICATION_RESOURCE, resourceType)
@@ -176,7 +176,7 @@ object DataciteToOAFTransformation {
           vocabularies.getSynonymAsQualifier(
             ModelConstants.DNET_RESULT_TYPOLOGIES,
             typeQualifier.getClassid
-          )
+          ), resourceType
         )
     }
     if (schemaOrg != null && schemaOrg.nonEmpty) {
@@ -188,7 +188,7 @@ object DataciteToOAFTransformation {
           vocabularies.getSynonymAsQualifier(
             ModelConstants.DNET_RESULT_TYPOLOGIES,
             typeQualifier.getClassid
-          )
+          ), schemaOrg
         )
 
     }
@@ -203,7 +203,7 @@ object DataciteToOAFTransformation {
           vocabularies.getSynonymAsQualifier(
             ModelConstants.DNET_RESULT_TYPOLOGIES,
             typeQualifier.getClassid
-          )
+          ), resourceTypeGeneral
         )
 
     }
@@ -216,12 +216,17 @@ object DataciteToOAFTransformation {
     schemaOrg: String,
     vocabularies: VocabularyGroup
   ): Result = {
-    val typeQualifiers: (Qualifier, Qualifier) =
+    val typeQualifiers: (Qualifier, Qualifier, String) =
       getTypeQualifier(resourceType, resourceTypeGeneral, schemaOrg, vocabularies)
     if (typeQualifiers == null)
       return null
     val i = new Instance
     i.setInstancetype(typeQualifiers._1)
+    // ADD ORIGINAL TYPE
+    val itm = new InstanceTypeMapping
+    itm.setOriginalType(typeQualifiers._3)
+    i.setInstanceTypeMapping(List(itm).asJava)
+
     typeQualifiers._2.getClassname match {
       case "dataset" =>
         val r = new OafDataset

dhp-workflows/dhp-aggregation/src/main/scala/eu/dnetlib/dhp/sx/bio/BioDBToOAF.scala

@@ -176,7 +176,7 @@ object BioDBToOAF {
       i.setUrl(List(s"${resolvedURL(input.pidType)}${input.pid}").asJava)
     }
 
-    if (input.pidType.equalsIgnoreCase("clinicaltrials.gov"))
+    if (input.pidType.equalsIgnoreCase("clinicaltrials.gov")) {
       i.setInstancetype(
         OafMapperUtils.qualifier(
           "0037",
@@ -185,7 +185,10 @@ object BioDBToOAF {
           ModelConstants.DNET_PUBLICATION_RESOURCE
         )
       )
-    else
+      val itm = new InstanceTypeMapping
+      itm.setOriginalType(input.pidType)
+      i.setInstanceTypeMapping(List(itm).asJava)
+    } else {
       i.setInstancetype(
         OafMapperUtils.qualifier(
           "0046",
@@ -194,6 +197,10 @@ object BioDBToOAF {
           ModelConstants.DNET_PUBLICATION_RESOURCE
         )
       )
+      val itm = new InstanceTypeMapping
+      itm.setOriginalType("Bioentity")
+      i.setInstanceTypeMapping(List(itm).asJava)
+    }
 
     if (input.datasource == null || input.datasource.isEmpty)
       return null
@@ -265,6 +272,9 @@ object BioDBToOAF {
         ModelConstants.DNET_PUBLICATION_RESOURCE
       )
     )
+    val itm = new InstanceTypeMapping
+    itm.setOriginalType("Bioentity")
+    i.setInstanceTypeMapping(List(itm).asJava)
 
     i.setCollectedfrom(collectedFromMap("uniprot"))
     d.setInstance(List(i).asJava)
@@ -471,6 +481,9 @@ object BioDBToOAF {
         ModelConstants.DNET_PUBLICATION_RESOURCE
       )
     )
+    val itm = new InstanceTypeMapping
+    itm.setOriginalType("Bioentity")
+    i.setInstanceTypeMapping(List(itm).asJava)
 
     i.setCollectedfrom(collectedFromMap("pdb"))
     d.setInstance(List(i).asJava)
@@ -571,6 +584,10 @@ object BioDBToOAF {
         ModelConstants.DNET_PUBLICATION_RESOURCE
       )
     )
+    val itm = new InstanceTypeMapping
+    itm.setOriginalType("Bioentity")
+    i.setInstanceTypeMapping(List(itm).asJava)
+
 
     i.setCollectedfrom(collectedFromMap("ebi"))
     d.setInstance(List(i).asJava)

dhp-workflows/dhp-aggregation/src/main/scala/eu/dnetlib/dhp/sx/bio/pubmed/PubMedToOaf.scala

@@ -188,12 +188,22 @@ object PubMedToOaf {
       val cojbCategory =
         getVocabularyTerm(ModelConstants.DNET_PUBLICATION_RESOURCE, vocabularies, ja.get.getValue)
       pubmedInstance.setInstancetype(cojbCategory)
+      // ADD ORIGINAL TYPE to the publication
+      val itm = new InstanceTypeMapping
+      itm.setOriginalType(ja.get.getValue)
+      pubmedInstance.setInstanceTypeMapping(List(itm).asJava)
     } else {
       val i_type = article.getPublicationTypes.asScala
-        .map(s => getVocabularyTerm(ModelConstants.DNET_PUBLICATION_RESOURCE, vocabularies, s.getValue))
-        .find(q => q != null)
-      if (i_type.isDefined)
-        pubmedInstance.setInstancetype(i_type.get)
+        .map(s => (s.getValue,getVocabularyTerm(ModelConstants.DNET_PUBLICATION_RESOURCE, vocabularies, s.getValue)))
+        .find(q => q._2 != null)
+
+      if (i_type.isDefined) {
+        pubmedInstance.setInstancetype(i_type.get._2)
+        // ADD ORIGINAL TYPE to the publication
+        val itm = new InstanceTypeMapping
+        itm.setOriginalType(i_type.get._1)
+        pubmedInstance.setInstanceTypeMapping(List(itm).asJava)
+      }
       else
         return null
     }

dhp-workflows/dhp-doiboost/src/main/scala/eu/dnetlib/doiboost/crossref/Crossref2Oaf.scala

@@ -107,7 +107,7 @@ case object Crossref2Oaf {
       .map(f => f.id)
   }
 
-  def mappingResult(result: Result, json: JValue, cobjCategory: String): Result = {
+  def mappingResult(result: Result, json: JValue, cobjCategory: String, originalType:String): Result = {
     implicit lazy val formats: DefaultFormats.type = org.json4s.DefaultFormats
 
     //MAPPING Crossref DOI into PID
@@ -283,6 +283,10 @@ case object Crossref2Oaf {
         ModelConstants.DNET_PUBLICATION_RESOURCE
       )
     )
+    //ADD ORIGINAL TYPE to the mapping
+    val itm = new InstanceTypeMapping
+    itm.setOriginalType(originalType)
+    instance.setInstanceTypeMapping(List(itm).asJava)
     result.setResourcetype(
       OafMapperUtils.qualifier(
         cobjCategory.substring(0, 4),
@@ -367,7 +371,7 @@ case object Crossref2Oaf {
       objectType,
       mappingCrossrefSubType.getOrElse(objectSubType, "0038 Other literature type")
     )
-    mappingResult(result, json, cOBJCategory)
+    mappingResult(result, json, cOBJCategory, originalType)
     if (result == null || result.getId == null)
       return List()