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mapping bioschema to oaf

This commit is contained in:
Enrico Ottonello 2022-02-22 11:46:29 +01:00
parent 446f81ee60
commit 2bc79c50f8
1 changed files with 18 additions and 18 deletions
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36
dhp-workflows/dhp-aggregation/src/main/scala/eu/dnetlib/dhp/bioschema/BioschemaToOAFTransformation.scala
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@ -42,7 +42,7 @@ object BioschemaToOAFTransformation {
PEDCollectedFrom.setDataInfo(DATA_INFO) PEDCollectedFrom.setDataInfo(DATA_INFO)
Map( Map(
"ped" -> PEDCollectedFrom "ped" -> PEDCollectedFrom
) )
} }
@ -362,11 +362,11 @@ object BioschemaToOAFTransformation {
result.setDateofacceptance(OafMapperUtils.field(i_date.get.get, null)) result.setDateofacceptance(OafMapperUtils.field(i_date.get.get, null))
result.getInstance().get(0).setDateofacceptance(OafMapperUtils.field(i_date.get.get, null)) result.getInstance().get(0).setDateofacceptance(OafMapperUtils.field(i_date.get.get, null))
} else if (publication_year != null) { } else if (publication_year != null) {
result.setDateofacceptance(OafMapperUtils.field(s"01-01-$publication_year", null)) result.setDateofacceptance(OafMapperUtils.field(s"01-01-$publication_year", null))
result result
.getInstance() .getInstance()
.get(0) .get(0)
.setDateofacceptance(OafMapperUtils.field(s"01-01-$publication_year", null)) .setDateofacceptance(OafMapperUtils.field(s"01-01-$publication_year", null))
} }
result.setRelevantdate( result.setRelevantdate(
@ -439,18 +439,18 @@ object BioschemaToOAFTransformation {
ModelConstants.DNET_ACCESS_MODES ModelConstants.DNET_ACCESS_MODES
) )
instance.setCollectedfrom(collectedFromMap("ped")) instance.setCollectedfrom(collectedFromMap("ped"))
instance.setUrl(List(s"https://proteinensemble.org/$pid").asJava) instance.setUrl(List(s"https://proteinensemble.org/$pid").asJava)
instance.setAccessright(access_rights_qualifier) instance.setAccessright(access_rights_qualifier)
instance.setPid(result.getPid) instance.setPid(result.getPid)
val license = accessRights val license = accessRights
.find(r => .find(r =>
r.startsWith("http") && r.matches( r.startsWith("http") && r.matches(
".*(/licenses|/publicdomain|unlicense\\.org/|/legal-and-data-protection-notices|/download/license|/open-government-licence).*" ".*(/licenses|/publicdomain|unlicense\\.org/|/legal-and-data-protection-notices|/download/license|/open-government-licence).*"
)
) )
if (license.isDefined) )
instance.setLicense(OafMapperUtils.field(license.get, null)) if (license.isDefined)
instance.setLicense(OafMapperUtils.field(license.get, null))
val awardUris: List[String] = for { val awardUris: List[String] = for {
JObject(fundingReferences) <- json \\ "fundingReferences" JObject(fundingReferences) <- json \\ "fundingReferences"
@ -514,7 +514,7 @@ object BioschemaToOAFTransformation {
rel.setTarget( rel.setTarget(
DHPUtils.generateUnresolvedIdentifier(r.relatedIdentifier, r.relatedIdentifierType) DHPUtils.generateUnresolvedIdentifier(r.relatedIdentifier, r.relatedIdentifierType)
) )
rel.setCollectedfrom(List(collectedFromMap("ped") ).asJava) rel.setCollectedfrom(List(collectedFromMap("ped")).asJava)
rel.getCollectedfrom.asScala.map(c => c.getValue).toList rel.getCollectedfrom.asScala.map(c => c.getValue).toList
rel rel
}) })