From f439a6231ec10de63d31e78dbf357372cb4ea143 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Thu, 13 Aug 2020 15:30:55 +0200 Subject: [PATCH 01/10] added missing constraint in XQuery (verify the status of the RC/RI different from hidden) --- .../dnetlib/dhp/bulktag/community/QueryInformationSystem.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/community/QueryInformationSystem.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/community/QueryInformationSystem.java index 6a40bc2e29..993a7ef775 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/community/QueryInformationSystem.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/community/QueryInformationSystem.java @@ -19,7 +19,7 @@ public class QueryInformationSystem { + " let $communities := $x//CONFIGURATION/context/category[./@id=concat($x//CONFIGURATION/context/@id,'::zenodocommunities')]/concept " + "let $zenodo := $x//param[./@name='zenodoCommunity']/text() " - + " where $x//CONFIGURATION/context[./@type='community' or ./@type='ri'] " + + " where $x//CONFIGURATION/context[./@type='community' or ./@type='ri'] and $x//context/param[./@name = 'status']/text() != 'hidden' " + " return " + " " + " { $x//CONFIGURATION/context/@id} " From f25438b07ebea9559bca74ef62202c8f2a61fbd7 Mon Sep 17 00:00:00 2001 From: Claudio Atzori Date: Fri, 14 Aug 2020 10:56:35 +0200 Subject: [PATCH 02/10] sove error java.lang.NoSuchFieldError: INSTANCE when instantiating Solr client --- .../dnetlib/dhp/oa/provision/oozie_app/workflow.xml | 12 ++++++++++++ 1 file changed, 12 insertions(+) diff --git a/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml b/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml index 192a6f59bf..e2b74b9aa5 100644 --- a/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml +++ b/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml @@ -597,6 +597,12 @@ + + + oozie.launcher.mapreduce.user.classpath.first + true + + eu.dnetlib.dhp.oa.provision.SolrAdminApplication --isLookupUrl${isLookupUrl} --format${format} @@ -639,6 +645,12 @@ + + + oozie.launcher.mapreduce.user.classpath.first + true + + eu.dnetlib.dhp.oa.provision.SolrAdminApplication --isLookupUrl${isLookupUrl} --format${format} From 1871d1c6f661a3cae00de5d9b4b0c3b9b1a0ebef Mon Sep 17 00:00:00 2001 From: Claudio Atzori Date: Fri, 14 Aug 2020 10:56:35 +0200 Subject: [PATCH 03/10] solve error java.lang.NoSuchFieldError: INSTANCE when instantiating Solr client --- .../dnetlib/dhp/oa/provision/oozie_app/workflow.xml | 12 ++++++++++++ 1 file changed, 12 insertions(+) diff --git a/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml b/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml index 192a6f59bf..e2b74b9aa5 100644 --- a/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml +++ b/dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml @@ -597,6 +597,12 @@ + + + oozie.launcher.mapreduce.user.classpath.first + true + + eu.dnetlib.dhp.oa.provision.SolrAdminApplication --isLookupUrl${isLookupUrl} --format${format} @@ -639,6 +645,12 @@ + + + oozie.launcher.mapreduce.user.classpath.first + true + + eu.dnetlib.dhp.oa.provision.SolrAdminApplication --isLookupUrl${isLookupUrl} --format${format} From 37e7c4365237af2d5212a6d50c5268b6db419b8b Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Fri, 14 Aug 2020 18:18:25 +0200 Subject: [PATCH 04/10] changed parameter name from hdfsNaemNode to nameNode --- .../eu/dnetlib/dhp/oa/graph/dump/oozie_app/workflow.xml | 2 +- .../resources/eu/dnetlib/dhp/oa/graph/dump/upload_zenodo.json | 4 ++-- .../dhp/oa/graph/dump_whole/input_entity_parameter.json | 2 +- 3 files changed, 4 insertions(+), 4 deletions(-) diff --git a/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/oozie_app/workflow.xml b/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/oozie_app/workflow.xml index d5b6747152..7321fd0764 100644 --- a/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/oozie_app/workflow.xml +++ b/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/oozie_app/workflow.xml @@ -412,7 +412,7 @@ eu.dnetlib.dhp.oa.graph.dump.SendToZenodoHDFS --hdfsPath${outputPath} - --hdfsNameNode${nameNode} + --nameNode${nameNode} --accessToken${accessToken} --connectionUrl${connectionUrl} --metadata${metadata} diff --git a/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/upload_zenodo.json b/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/upload_zenodo.json index 9cf5d98941..4c3ec06e1b 100644 --- a/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/upload_zenodo.json +++ b/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump/upload_zenodo.json @@ -25,8 +25,8 @@ "paramRequired": true }, { -"paramName": "hdfsnn", -"paramLongName": "hdfsNameNode", +"paramName": "nn", +"paramLongName": "nameNode", "paramDescription": "the name node", "paramRequired": true }, diff --git a/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump_whole/input_entity_parameter.json b/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump_whole/input_entity_parameter.json index 8d03d90a8e..87de13d63b 100644 --- a/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump_whole/input_entity_parameter.json +++ b/dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/dump_whole/input_entity_parameter.json @@ -14,7 +14,7 @@ }, { "paramName": "nn", - "paramLongName": "hdfsNameNode", + "paramLongName": "nameNode", "paramDescription": "the name node", "paramRequired": true } From 09f5b92763069aacea2c3ec3c9f9a3df92f45178 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Fri, 14 Aug 2020 20:00:09 +0200 Subject: [PATCH 05/10] added specific reference to class --- .../eu/dnetlib/dhp/oa/graph/dump/graph/DumpGraphEntities.java | 2 ++ 1 file changed, 2 insertions(+) diff --git a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/graph/DumpGraphEntities.java b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/graph/DumpGraphEntities.java index 59e068c3f5..26359cca81 100644 --- a/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/graph/DumpGraphEntities.java +++ b/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/graph/DumpGraphEntities.java @@ -8,6 +8,8 @@ import java.io.StringReader; import java.util.*; import java.util.stream.Collectors; +import eu.dnetlib.dhp.schema.dump.oaf.graph.Funder; +import eu.dnetlib.dhp.schema.dump.oaf.graph.Project; import org.apache.spark.SparkConf; import org.apache.spark.sql.Encoders; import org.apache.spark.sql.SaveMode; From 96600ed04aa2e7399bd92591945e11efaadda3b5 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Fri, 14 Aug 2020 20:41:49 +0200 Subject: [PATCH 06/10] modified test resource for mirroring the deletion of affiliation from author parameters --- .../graph/dump/addProjectInfo/software.json | 10 +++++----- .../oa/graph/dump/splitForCommunity/dataset | 20 +++++++++---------- .../dhp/oa/graph/dump/splitForCommunity/orp | 6 +++--- .../graph/dump/splitForCommunity/publication | 4 ++-- .../oa/graph/dump/splitForCommunity/software | 10 +++++----- 5 files changed, 25 insertions(+), 25 deletions(-) diff --git a/dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software.json b/dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software.json index 9d0c1d2e39..1e5ed663c8 100644 --- a/dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software.json +++ b/dhp-workflows/dhp-graph-mapper/src/test/resources/eu/dnetlib/dhp/oa/graph/dump/addProjectInfo/software.json @@ -1,6 +1,6 @@ {"author":[],"collectedfrom":[{"key":"10|rest________::b8e502674c3c3499d5374e9b2ea6d8d5","value":"bio.tools"}],"context":[{"code":"dh-ch","label":"Digital Humanities and Cultural Heritage","provenance":[{"provenance":"Bulktagging for Community - 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Op basis van de grootschalige natuurlijke en antropogene verstoringen die in het gebied hebben plaatsgevonden en het versnipperde voorkomen van een intacte dekzandlandschap wordt geadviseerd om het plangebied vrij te geven voor de geplande zandwinning. Tijdens de geplande werkzaamheden kunnen nog resten aan het licht komen die tot heden volledig werden afgedekt in de waterbodem of niet als archeologisch object zijn herkend tijdens het geofysisch onderzoek. De uitvoerder is conform de Erfgoedwet (2016) verplicht om dergelijke vondsten te melden bij de bevoegde overheid. 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De aanleiding voor het onderzoek vormt de aanleg van een nieuwe waterleiding en een beluchtingstoren op het pompstation Beerschoten. In het kader van deze ontwikkeling dient een omgevingsvergunning te worden aangevraagd. Het plangebied bestaat uit het deel van het leidingtracé waar op basis van het vigerend bestemmingsplan een dubbelbestemming ‘Waarde Archeologie’ geldt. Op basis van het bureauonderzoek werd in het plangebied een podzolgrond in de top van het dekzand verwacht, waar bovenop mogelijk een circa één-meter dikke laag stuifzand ligt. Het archeologisch niveau bevindt zich hierbij direct onder de bouwvoor c.q. humeuze bovengrond of in de top van een al dan niet begraven podzolbodem. De resten, die hierin te verwachten zijn, dateren naar verwachting in het Laat-Paleolithicum tot en met de Middeleeuwen en betreffen sporen van nederzetting en/of landgebruik uit die periode. De verwachting hierop is middelhoog. Voor wat betreft resten uit de Nieuwe tijd is de verwachting laag. In de Nieuwe tijd is het plangebied waarschijnlijk altijd heidegebied geweest. Ondanks dit verwachtingspatroon zijn in het plangebied wel diepe verstoringen te verwachten als gevolg van de aanleg van het waterpompstation. Op basis van de resultaten van het veldonderzoek blijkt dat het plangebied diep verstoord is geraakt tot tenminste 85 cm –Mv. In de meeste gevallen reikt de verstoring zelfs dieper dan 1,0 m –Mv. Er zijn tevens in het plangebied geen sporen gevonden van stuifzand of resten van oorspronkelijke bodemvorming. Ook archeologische indicatoren ontbreken. De mate van verstoring en het ontbreken van indicatoren leiden ertoe dat de archeologische verwachting voor alle archeologische perioden naar laag is bij te stellen. 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API"}},{"provenance":{"provenance":"sysimport:crosswalk:datasetarchive","trust":"0.9"},"subject":{"scheme":"","value":"education expenditures"}},{"provenance":{"provenance":"sysimport:crosswalk:datasetarchive","trust":"0.9"},"subject":{"scheme":"","value":"Military"}},{"provenance":{"provenance":"sysimport:crosswalk:datasetarchive","trust":"0.9"},"subject":{"scheme":"","value":"visualization project"}},{"provenance":{"provenance":"iis","trust":"0.7542"},"subject":{"scheme":"acm","value":"ComputingMilieux_LEGALASPECTSOFCOMPUTING"}}],"type":"software"} \ No newline at end of file From 200cd5c730e8ba29f189b2ce1b1b3759866bd356 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Sat, 15 Aug 2020 11:22:19 +0200 Subject: [PATCH 07/10] removed leftover parameter --- .../resulttoorganizationfrominstrepo/oozie_app/workflow.xml | 4 ---- 1 file changed, 4 deletions(-) diff --git a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/oozie_app/workflow.xml b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/oozie_app/workflow.xml index e0563abae8..2fe9a4256b 100644 --- a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/oozie_app/workflow.xml +++ b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/oozie_app/workflow.xml @@ -176,7 +176,6 @@ --datasourceOrganizationPath${workingDir}/preparedInfo/datasourceOrganization --alreadyLinkedPath${workingDir}/preparedInfo/alreadyLinked --hive_metastore_uris${hive_metastore_uris} - --saveGraph${saveGraph} --resultTableNameeu.dnetlib.dhp.schema.oaf.Publication @@ -206,7 +205,6 @@ --datasourceOrganizationPath${workingDir}/preparedInfo/datasourceOrganization --alreadyLinkedPath${workingDir}/preparedInfo/alreadyLinked --hive_metastore_uris${hive_metastore_uris} - --saveGraph${saveGraph} --resultTableNameeu.dnetlib.dhp.schema.oaf.Dataset @@ -236,7 +234,6 @@ --datasourceOrganizationPath${workingDir}/preparedInfo/datasourceOrganization --alreadyLinkedPath${workingDir}/preparedInfo/alreadyLinked --hive_metastore_uris${hive_metastore_uris} - --saveGraph${saveGraph} --resultTableNameeu.dnetlib.dhp.schema.oaf.OtherResearchProduct @@ -266,7 +263,6 @@ --datasourceOrganizationPath${workingDir}/preparedInfo/datasourceOrganization --alreadyLinkedPath${workingDir}/preparedInfo/alreadyLinked --hive_metastore_uris${hive_metastore_uris} - --saveGraph${saveGraph} --resultTableNameeu.dnetlib.dhp.schema.oaf.Software From bc6b5d5b34106524fa579d75ee310a8542b146a4 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Sat, 15 Aug 2020 11:22:35 +0200 Subject: [PATCH 08/10] removed leftover parameter --- .../dhp/orcidtoresultfromsemrel/oozie_app/workflow.xml | 4 ---- 1 file changed, 4 deletions(-) diff --git a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/orcidtoresultfromsemrel/oozie_app/workflow.xml b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/orcidtoresultfromsemrel/oozie_app/workflow.xml index 5ddc5fedf4..5f52c16585 100644 --- a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/orcidtoresultfromsemrel/oozie_app/workflow.xml +++ b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/orcidtoresultfromsemrel/oozie_app/workflow.xml @@ -266,7 +266,6 @@ --hive_metastore_uris${hive_metastore_uris} --resultTableNameeu.dnetlib.dhp.schema.oaf.Publication --outputPath${outputPath}/publication - --saveGraph${saveGraph} @@ -298,7 +297,6 @@ --hive_metastore_uris${hive_metastore_uris} --resultTableNameeu.dnetlib.dhp.schema.oaf.Dataset --outputPath${outputPath}/dataset - --saveGraph${saveGraph} @@ -330,7 +328,6 @@ --hive_metastore_uris${hive_metastore_uris} --resultTableNameeu.dnetlib.dhp.schema.oaf.OtherResearchProduct --outputPath${outputPath}/otherresearchproduct - --saveGraph${saveGraph} @@ -362,7 +359,6 @@ --hive_metastore_uris${hive_metastore_uris} --resultTableNameeu.dnetlib.dhp.schema.oaf.Software --outputPath${outputPath}/software - --saveGraph${saveGraph} From f44dd5d8867436dda0e48826313b911e3908c284 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Mon, 17 Aug 2020 17:15:09 +0200 Subject: [PATCH 09/10] changed in mapping the result semantic name as it will be visible il the relclass Relation: from IsSupplementedBy to isSupplementedBy --- .../src/main/java/eu/dnetlib/dhp/export/DLIToOAF.scala | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/dhp-workflows/dhp-graph-provision-scholexplorer/src/main/java/eu/dnetlib/dhp/export/DLIToOAF.scala b/dhp-workflows/dhp-graph-provision-scholexplorer/src/main/java/eu/dnetlib/dhp/export/DLIToOAF.scala index 88277b8274..abac41b89a 100644 --- a/dhp-workflows/dhp-graph-provision-scholexplorer/src/main/java/eu/dnetlib/dhp/export/DLIToOAF.scala +++ b/dhp-workflows/dhp-graph-provision-scholexplorer/src/main/java/eu/dnetlib/dhp/export/DLIToOAF.scala @@ -46,7 +46,7 @@ object DLIToOAF { "IsReferencedBy" -> ("isRelatedTo", "relationship"), "References" -> ("isRelatedTo", "relationship"), "IsRelatedTo" -> ("isRelatedTo", "relationship"), - "IsSupplementedBy" -> ("IsSupplementedBy", "supplement"), + "IsSupplementedBy" -> ("isSupplementedBy", "supplement"), "Cites" -> ("cites", "citation"), "Unknown" -> ("isRelatedTo", "relationship"), "IsSourceOf" -> ("isRelatedTo", "relationship"), From 55e24c25473633e35d3c7721f01b2ab646710b1e Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Tue, 18 Aug 2020 16:42:08 +0200 Subject: [PATCH 10/10] relclass for relation and corresponding values have been put to lower case (isSupplementedBy wrote as IsSupplementedBy - orcid propagation) --- .../eu/dnetlib/dhp/PropagationConstant.java | 4 ++-- .../PrepareDatasourceCountryAssociation.java | 23 +------------------ .../PrepareResultOrcidAssociationStep1.java | 6 +++-- .../PrepareProjectResultsAssociation.java | 6 ++--- .../PrepareResultCommunitySet.java | 8 +++---- .../PrepareResultCommunitySetStep1.java | 4 ++-- .../PrepareResultInstRepoAssociation.java | 8 +++---- 7 files changed, 20 insertions(+), 39 deletions(-) diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/PropagationConstant.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/PropagationConstant.java index c8eb017c71..1cc41c395e 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/PropagationConstant.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/PropagationConstant.java @@ -109,9 +109,9 @@ public class PropagationConstant { } public static String getConstraintList(String text, List constraints) { - String ret = " and (" + text + constraints.get(0) + "'"; + String ret = " and (" + text + constraints.get(0).toLowerCase() + "'"; for (int i = 1; i < constraints.size(); i++) { - ret += " OR " + text + constraints.get(i) + "'"; + ret += " OR " + text + constraints.get(i).toLowerCase() + "'"; } ret += ")"; return ret; diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/countrypropagation/PrepareDatasourceCountryAssociation.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/countrypropagation/PrepareDatasourceCountryAssociation.java index f28c5aa06d..04a659a1ca 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/countrypropagation/PrepareDatasourceCountryAssociation.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/countrypropagation/PrepareDatasourceCountryAssociation.java @@ -96,27 +96,6 @@ public class PrepareDatasourceCountryAssociation { relation.createOrReplaceTempView("relation"); organization.createOrReplaceTempView("organization"); -// String query = "SELECT source dataSourceId, named_struct('classid', country.classid, 'classname', country.classname) country " -// + "FROM ( SELECT id " -// + " FROM datasource " -// + " WHERE (datainfo.deletedbyinference = false " -// + whitelisted -// + ") " -// + getConstraintList("datasourcetype.classid = '", allowedtypes) -// + ") d " -// + "JOIN ( SELECT source, target " -// + " FROM relation " -// + " WHERE relclass = '" -// + ModelConstants.IS_PROVIDED_BY -// + "' " -// + " AND datainfo.deletedbyinference = false ) rel " -// + "ON d.id = rel.source " -// + "JOIN (SELECT id, country " -// + " FROM organization " -// + " WHERE datainfo.deletedbyinference = false " -// + " AND length(country.classid) > 0) o " -// + "ON o.id = rel.target"; - String query = "SELECT source dataSourceId, " + "named_struct('classid', country.classid, 'classname', country.classname) country " + "FROM datasource d " + @@ -125,7 +104,7 @@ public class PrepareDatasourceCountryAssociation { "JOIN organization o " + "ON o.id = rel.target " + "WHERE rel.datainfo.deletedbyinference = false " + - "and rel.relclass = '" + ModelConstants.IS_PROVIDED_BY + "'" + + "and lower(rel.relclass) = '" + ModelConstants.IS_PROVIDED_BY.toLowerCase() + "'" + "and o.datainfo.deletedbyinference = false " + "and length(o.country.classid) > 0 " + "and (" + allowed + " or " + whitelisted + ")"; diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java index b15f813acd..869831ba2b 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java @@ -102,15 +102,17 @@ public class PrepareResultOrcidAssociationStep1 { + " FROM result " + " LATERAL VIEW EXPLODE (author) a AS MyT " + " LATERAL VIEW EXPLODE (MyT.pid) p AS MyP " - + " WHERE MyP.qualifier.classid = 'ORCID') tmp " + + " WHERE lower(MyP.qualifier.classid) = 'orcid') tmp " + " GROUP BY id) r_t " + " JOIN (" + " SELECT source, target " + " FROM relation " + " WHERE datainfo.deletedbyinference = false " - + getConstraintList(" relclass = '", allowedsemrel) + + getConstraintList(" lower(relclass) = '", allowedsemrel) + " ) rel_rel " + " ON source = id"; + + log.info("executedQuery: {}", query); spark .sql(query) .as(Encoders.bean(ResultOrcidList.class)) diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/projecttoresult/PrepareProjectResultsAssociation.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/projecttoresult/PrepareProjectResultsAssociation.java index 4cd7f88dff..27ff727fdf 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/projecttoresult/PrepareProjectResultsAssociation.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/projecttoresult/PrepareProjectResultsAssociation.java @@ -85,8 +85,8 @@ public class PrepareProjectResultsAssociation { String resproj_relation_query = "SELECT source, target " + " FROM relation " + " WHERE datainfo.deletedbyinference = false " - + " AND relClass = '" - + ModelConstants.IS_PRODUCED_BY + + " AND lower(relClass) = '" + + ModelConstants.IS_PRODUCED_BY.toLowerCase() + "'"; Dataset resproj_relation = spark.sql(resproj_relation_query); @@ -98,7 +98,7 @@ public class PrepareProjectResultsAssociation { + " FROM (SELECT source, target " + " FROM relation " + " WHERE datainfo.deletedbyinference = false " - + getConstraintList(" relClass = '", allowedsemrel) + + getConstraintList(" lower(relClass) = '", allowedsemrel) + " ) r1" + " JOIN resproj_relation r2 " + " ON r1.source = r2.source " diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromorganization/PrepareResultCommunitySet.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromorganization/PrepareResultCommunitySet.java index 750d333e53..bea0a3e54f 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromorganization/PrepareResultCommunitySet.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromorganization/PrepareResultCommunitySet.java @@ -76,14 +76,14 @@ public class PrepareResultCommunitySet { + "FROM (SELECT source, target " + " FROM relation " + " WHERE datainfo.deletedbyinference = false " - + " AND relClass = '" - + ModelConstants.HAS_AUTHOR_INSTITUTION + + " AND lower(relClass) = '" + + ModelConstants.HAS_AUTHOR_INSTITUTION.toLowerCase() + "') result_organization " + "LEFT JOIN (SELECT source, collect_set(target) org_set " + " FROM relation " + " WHERE datainfo.deletedbyinference = false " - + " AND relClass = '" - + ModelConstants.MERGES + + " AND lower(relClass) = '" + + ModelConstants.MERGES.toLowerCase() + "' " + " GROUP BY source) organization_organization " + "ON result_organization.target = organization_organization.source "; diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromsemrel/PrepareResultCommunitySetStep1.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromsemrel/PrepareResultCommunitySetStep1.java index 4f5ac25521..0c836a3ba9 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromsemrel/PrepareResultCommunitySetStep1.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttocommunityfromsemrel/PrepareResultCommunitySetStep1.java @@ -144,8 +144,8 @@ public class PrepareResultCommunitySetStep1 { String resultContextQuery = String .format( RESULT_CONTEXT_QUERY_TEMPLATE, - getConstraintList(" co.id = '", communityIdList), - getConstraintList(" relClass = '", allowedsemrel)); + getConstraintList(" lower(co.id) = '", communityIdList), + getConstraintList(" lower(relClass) = '", allowedsemrel)); Dataset result_context = spark.sql(resultContextQuery); result_context.createOrReplaceTempView("result_context"); diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/PrepareResultInstRepoAssociation.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/PrepareResultInstRepoAssociation.java index 84e40fa88b..fe5889c53f 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/PrepareResultInstRepoAssociation.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/PrepareResultInstRepoAssociation.java @@ -91,8 +91,8 @@ public class PrepareResultInstRepoAssociation { + "AND datainfo.deletedbyinference = false ) d " + "JOIN ( SELECT source, target " + "FROM relation " - + "WHERE relclass = '" - + ModelConstants.IS_PROVIDED_BY + + "WHERE lower(relclass) = '" + + ModelConstants.IS_PROVIDED_BY.toLowerCase() + "' " + "AND datainfo.deletedbyinference = false ) rel " + "ON d.id = rel.source "; @@ -111,8 +111,8 @@ public class PrepareResultInstRepoAssociation { String query = "Select source resultId, collect_set(target) organizationSet " + "from relation " + "where datainfo.deletedbyinference = false " - + "and relClass = '" - + ModelConstants.HAS_AUTHOR_INSTITUTION + + "and lower(relClass) = '" + + ModelConstants.HAS_AUTHOR_INSTITUTION.toLowerCase() + "' " + "group by source";