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Oozie workflow for cleancontext #216

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claudio.atzori merged 7 commits from cleancontext into beta 2022-04-22 15:46:40 +02:00
Conversation 0 Commits 7 Files Changed 1 +27 -48
1 changed files with 27 additions and 48 deletions
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Showing only changes of commit 911ce0780a - Show all commits

75
dhp-workflows/dhp-doiboost/src/main/scala/eu/dnetlib/doiboost/SparkGenerateDoiBoost.scala
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@ -59,52 +59,6 @@ object SparkGenerateDoiBoost {
val workingDirPath = parser.get("workingPath")
val openaireOrganizationPath = parser.get("openaireOrganizationPath")
val crossrefAggregator = new Aggregator[(String, Publication), Publication, Publication] with Serializable {
override def zero: Publication = new Publication
override def reduce(b: Publication, a: (String, Publication)): Publication = {
if (b == null) {
if (a != null && a._2 != null) {
a._2.setId(a._1)
return a._2
}
} else {
if (a != null && a._2 != null) {
b.mergeFrom(a._2)
b.setId(a._1)
val authors = AuthorMerger.mergeAuthor(b.getAuthor, a._2.getAuthor)
b.setAuthor(authors)
return b
}
}
new Publication
}
override def merge(b1: Publication, b2: Publication): Publication = {
if (b1 == null) {
if (b2 != null)
return b2
} else {
if (b2 != null) {
b1.mergeFrom(b2)
val authors = AuthorMerger.mergeAuthor(b1.getAuthor, b2.getAuthor)
b1.setAuthor(authors)
if (b2.getId != null && b2.getId.nonEmpty)
b1.setId(b2.getId)
return b1
}
}
new Publication
}
override def finish(reduction: Publication): Publication = reduction
override def bufferEncoder: Encoder[Publication] = Encoders.kryo[Publication]
override def outputEncoder: Encoder[Publication] = Encoders.kryo[Publication]
}
implicit val mapEncoderPub: Encoder[Publication] = Encoders.kryo[Publication]
implicit val mapEncoderOrg: Encoder[Organization] = Encoders.kryo[Organization]
implicit val mapEncoderDataset: Encoder[OafDataset] = Encoders.kryo[OafDataset]
@ -175,8 +129,33 @@ object SparkGenerateDoiBoost {
.map(DoiBoostMappingUtil.fixPublication)
.map(p => (p.getId, p))
.groupByKey(_._1)
.agg(crossrefAggregator.toColumn)
.map(p => p._2)
.reduceGroups((left, right) => {
//Check left is not null
if (left != null && left._1 != null) {
//If right is null then return left
if (right == null || right._2 == null)
left
else {
// Here Left and Right are not null
// So we have to merge
val b1 = left._2
val b2 = right._2
b1.mergeFrom(b2)
b1.mergeOAFDataInfo(b2)
val authors = AuthorMerger.mergeAuthor(b1.getAuthor, b2.getAuthor)
b1.setAuthor(authors)
if (b2.getId != null && b2.getId.nonEmpty)
b1.setId(b2.getId)
//Return publication Merged
(b1.getId, b1)
}
} else {
// Left is Null so we return right
right
}
})
.filter(s => s != null && s._2 != null)
.map(s => s._2._2)
.write
.mode(SaveMode.Overwrite)
.save(s"$workingDirPath/doiBoostPublicationFiltered")