From 3aeedd931a055dca66d0ef4aabed23a0608770f2 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Wed, 4 May 2022 10:06:38 +0200 Subject: [PATCH] [EOSCTag] fixed issue in case description is null. Modified test resources and classes --- .../eu/dnetlib/dhp/bulktag/SparkEoscTag.java | 30 +++++++++++++------ .../dhp/bulktag/oozie_app/workflow.xml | 4 +-- .../dnetlib/dhp/bulktag/EOSCTagJobTest.java | 6 ++-- .../eosctag/galaxy/dataset/dataset_10.json | 2 +- .../eosctag/galaxy/software/software_10.json | 3 +- .../eosctag/twitter/dataset/dataset_10.json | 1 + 6 files changed, 30 insertions(+), 16 deletions(-) diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/SparkEoscTag.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/SparkEoscTag.java index 1d0aaa631..561e1d57e 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/SparkEoscTag.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/SparkEoscTag.java @@ -179,12 +179,11 @@ public class SparkEoscTag { Set words = getWordsSP(r.getTitle()); words.addAll(getWordsF(r.getDescription())); if (words.contains("galaxy") && - (words.contains("workflow") || words.contains("software"))) + words.contains("workflow")) return true; if (r.getSubject().stream().anyMatch(sbj -> sbj.getValue().toLowerCase().contains("galaxy")) && - (r.getSubject().stream().anyMatch(sbj -> sbj.getValue().toLowerCase().contains("workflow"))) || - r.getSubject().stream().anyMatch(sbj -> sbj.getValue().toLowerCase().contains("software"))) + r.getSubject().stream().anyMatch(sbj -> sbj.getValue().toLowerCase().contains("workflow"))) return true; return false; } @@ -214,17 +213,30 @@ public class SparkEoscTag { private static Set getWordsSP(List elem) { Set words = new HashSet<>(); - elem - .forEach( - t -> words.addAll(Arrays.asList(t.getValue().toLowerCase().replaceAll("[^a-zA-Z ]", "").split(" ")))); + Optional + .ofNullable(elem) + .ifPresent( + e -> e + .forEach( + t -> words + .addAll( + Arrays.asList(t.getValue().toLowerCase().replaceAll("[^a-zA-Z ]", "").split(" "))))); return words; } private static Set getWordsF(List> elem) { Set words = new HashSet<>(); - elem - .forEach( - t -> words.addAll(Arrays.asList(t.getValue().toLowerCase().replaceAll("[^a-zA-Z ]", "").split(" ")))); + Optional + .ofNullable(elem) + .ifPresent( + e -> e + .forEach( + t -> words + .addAll( + Arrays.asList(t.getValue().toLowerCase().replaceAll("[^a-zA-Z ]", "").split(" "))))); +// elem +// .forEach( +// t -> words.addAll(Arrays.asList(t.getValue().toLowerCase().replaceAll("[^a-zA-Z ]", "").split(" ")))); return words; } diff --git a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/bulktag/oozie_app/workflow.xml b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/bulktag/oozie_app/workflow.xml index 91fca7d61..4c34886e6 100644 --- a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/bulktag/oozie_app/workflow.xml +++ b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/bulktag/oozie_app/workflow.xml @@ -29,7 +29,7 @@ - + Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}] @@ -226,7 +226,7 @@ --sourcePath${outputPath} --workingPath${workingDir}/eoscTag - + diff --git a/dhp-workflows/dhp-enrichment/src/test/java/eu/dnetlib/dhp/bulktag/EOSCTagJobTest.java b/dhp-workflows/dhp-enrichment/src/test/java/eu/dnetlib/dhp/bulktag/EOSCTagJobTest.java index d96dc7f6c..55d3939e1 100644 --- a/dhp-workflows/dhp-enrichment/src/test/java/eu/dnetlib/dhp/bulktag/EOSCTagJobTest.java +++ b/dhp-workflows/dhp-enrichment/src/test/java/eu/dnetlib/dhp/bulktag/EOSCTagJobTest.java @@ -322,7 +322,7 @@ public class EOSCTagJobTest { .textFile(workingDir.toString() + "/input/software") .map(item -> OBJECT_MAPPER.readValue(item, Software.class)); - Assertions.assertEquals(10, tmp.count()); + Assertions.assertEquals(11, tmp.count()); Assertions .assertEquals( @@ -534,11 +534,11 @@ public class EOSCTagJobTest { .textFile(workingDir.toString() + "/input/dataset") .map(item -> OBJECT_MAPPER.readValue(item, Dataset.class)); - Assertions.assertEquals(10, dats.count()); + Assertions.assertEquals(11, dats.count()); Assertions .assertEquals( - 2, + 3, dats .filter(s -> s.getSubject().stream().anyMatch(sbj -> sbj.getValue().equals("EOSC::Twitter Data"))) .count()); diff --git a/dhp-workflows/dhp-enrichment/src/test/resources/eu/dnetlib/dhp/eosctag/galaxy/dataset/dataset_10.json b/dhp-workflows/dhp-enrichment/src/test/resources/eu/dnetlib/dhp/eosctag/galaxy/dataset/dataset_10.json index 0243a4e3d..645a7522f 100644 --- a/dhp-workflows/dhp-enrichment/src/test/resources/eu/dnetlib/dhp/eosctag/galaxy/dataset/dataset_10.json +++ b/dhp-workflows/dhp-enrichment/src/test/resources/eu/dnetlib/dhp/eosctag/galaxy/dataset/dataset_10.json @@ -7,4 +7,4 @@ {"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}},"lastupdatetimestamp":1585055870582,"id":"50|od______3989::752fd0b2bbac1ea1cc50e52fd46eb663","originalId":["od______3989::752fd0b2bbac1ea1cc50e52fd46eb663"],"collectedfrom":[{"key":"opendoar____::3989","value":"Depósito Digital e-UCJC","dataInfo":null}],"pid":[],"dateofcollection":"2020-03-03T13:05:34.561Z","dateoftransformation":"2020-03-03T13:06:55.716Z","extraInfo":[],"oaiprovenance":{"originDescription":{"harvestDate":"2020-03-03T13:05:34.561Z","altered":true,"baseURL":"http%3A%2F%2Frepositorio.ucjc.edu%2Foai%2Frequest","identifier":"oai:repositorio.ucjc.edu:20.500.12020/798","datestamp":"2018-11-14T12:57:26Z","metadataNamespace":"http://www.openarchives.org/OAI/2.0/oai_dc/"}},"author":[{"fullname":"Universidad Camilo José Cela, Vicerrectorado de Innovación","name":"Vicerrectorado Innovación","surname":"Universidad Camilo José Cela","rank":1,"pid":null,"affiliation":null}],"resulttype":{"classid":"dataset","classname":"dataset","schemeid":"dnet:result_typologies","schemename":"dnet:result_typologies"},"language":{"classid":"esl/spa","classname":"Spanish","schemeid":"dnet:languages","schemename":"dnet:languages"},"country":[],"subject":[{"value":"Psicología","qualifier":{"classid":"","classname":"","schemeid":"","schemename":""},"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}}},{"value":"Alcohol","qualifier":{"classid":"","classname":"","schemeid":"","schemename":""},"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}}},{"value":"Dependencia","qualifier":{"classid":"","classname":"","schemeid":"","schemename":""},"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}}},{"value":"Proyectos de investigación","qualifier":{"classid":"","classname":"","schemeid":"","schemename":""},"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}}},{"value":"Alcoholismo","qualifier":{"classid":"","classname":"","schemeid":"","schemename":""},"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}}},{"value":"Realidad virtual","qualifier":{"classid":"","classname":"","schemeid":"","schemename":""},"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}}},{"value":"Psicología conductual","qualifier":{"classid":"","classname":"","schemeid":"","schemename":""},"dataInfo":{"invisible":false,"inferred":false,"deletedbyinference":false,"trust":"0.9","inferenceprovenance":"","provenanceaction":{"classid":"sysimport:crosswalk:repository","classname":"sysimport:crosswalk:repository","schemeid":"dnet:provenanceActions","schemename":"dnet:provenanceActions"}}}],"title":[{"value":"Investigación - 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La fase final del tratamiento se enfoca en que el paciente \"sea capaz de reconstruir su vida\" a través de programas de entrenamiento de habilidades sociales, asertividad, familias... \"Juntando todas las áreas de intervención, la abstinencia se mantiene mucho más tiempo y las recaídas 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