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Merge pull request #2445 from intermine/dev
Release 5.1.0
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,5 +1,5 @@ | ||
| distributionBase=GRADLE_USER_HOME | ||
| distributionPath=wrapper/dists | ||
| distributionUrl=https\://services.gradle.org/distributions/gradle-4.9-bin.zip | ||
| zipStoreBase=GRADLE_USER_HOME | ||
| zipStorePath=wrapper/dists | ||
| distributionUrl=https\://services.gradle.org/distributions/gradle-4.9-bin.zip |
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,27 @@ | ||
| sourceSets { | ||
| main { | ||
| java { | ||
| srcDirs = ['src/main/java'] | ||
| } | ||
| resources { | ||
| srcDirs = ['src/main/resources'] | ||
| } | ||
| } | ||
| } | ||
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| repositories { | ||
| mavenCentral() | ||
| } | ||
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| dependencies { | ||
| bioModel group: 'org.intermine', name: 'bio-model', version: bioVersion, transitive: false | ||
| compile group: "org.intermine", name: "intermine-model", version: imVersion | ||
| compile group: "org.intermine", name: "intermine-objectstore", version: imVersion | ||
| compile group: "org.intermine", name: "intermine-api", version: imVersion | ||
| compile group: "org.apache.jena", name: "apache-jena-libs", version: "3.16.0" | ||
| } | ||
|
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| processResources { | ||
| from('.') { include ("*.properties")} | ||
| } | ||
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bio/postprocess/create-R2RML-mapping/create-R2RML-mapping.properties
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| @@ -0,0 +1 @@ | ||
| postprocessor.class=org.intermine.bio.postprocess.R2RMLMappingProcess |
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bio/postprocess/create-R2RML-mapping/src/main/java/org/intermine/bio/postprocess/R2RML.java
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| package org.intermine.bio.postprocess; | ||
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| /* | ||
| * Copyright (C) 2002-2021 FlyMine | ||
| * Copyright (C) 2020 SIB Swiss Institute of Bioinformatics | ||
| * | ||
| * This code may be freely distributed and modified under the | ||
| * terms of the GNU Lesser General Public Licence. This should | ||
| * be distributed with the code. See the LICENSE file for more | ||
| * information or http://www.gnu.org/copyleft/lesser.html. | ||
| * | ||
| */ | ||
| import org.apache.jena.rdf.model.Property; | ||
| import org.apache.jena.rdf.model.RDFNode; | ||
| import org.apache.jena.rdf.model.Resource; | ||
| import org.apache.jena.rdf.model.ResourceFactory; | ||
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| /** | ||
| * Class facilitating the creation of R2RML properties | ||
| * @author Jerven Bolleman | ||
| * @author Daniela Butano | ||
| */ | ||
| public final class R2RML | ||
| { | ||
| private R2RML() { | ||
| // Hidden constructor. | ||
| } | ||
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| /** | ||
| * R2RML namespace | ||
| */ | ||
| public static final String URI = "http://www.w3.org/ns/r2rml#"; | ||
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| /** | ||
| * Create TriplesMap property | ||
| */ | ||
| public static final Resource TRIPLE_MAP = ResourceFactory.createProperty(URI, "TriplesMap"); | ||
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| /** | ||
| * Create logicalTable property | ||
| */ | ||
| public static final Property LOGICAL_TABLE = ResourceFactory.createProperty(URI, | ||
| "logicalTable"); | ||
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| /** | ||
| * Create tableName property | ||
| */ | ||
| public static final Property TABLE_NAME = ResourceFactory.createProperty(URI, "tableName"); | ||
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| /** | ||
| * Create subjectMap property | ||
| */ | ||
| public static final Property SUBJECT_MAP = ResourceFactory.createProperty(URI, "subjectMap"); | ||
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| /** | ||
| * Create template property | ||
| */ | ||
| public static final Property TEMPLATE = ResourceFactory.createProperty(URI, "template"); | ||
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| /** | ||
| * Create class property | ||
| */ | ||
| public static final Property CLASS_PROPERTY = ResourceFactory.createProperty(URI, "class"); | ||
|
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| /** | ||
| * Create objectMap property | ||
| */ | ||
| public static final Property OBJECT_MAP = ResourceFactory.createProperty(URI, "objectMap"); | ||
|
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| /** | ||
| * Create TermMap property | ||
| */ | ||
| public static final RDFNode TERM_MAP = ResourceFactory.createProperty(URI, "TermMap"); | ||
|
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| /** | ||
| * Create Literal property | ||
| */ | ||
| public static final RDFNode LITERAL = ResourceFactory.createProperty(URI, "Literal"); | ||
|
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| /** | ||
| * Create termType property | ||
| */ | ||
| public static final Property TERM_TYPE = ResourceFactory.createProperty(URI, "termType"); | ||
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| /** | ||
| * Create datatype property | ||
| */ | ||
| public static final Property DATA_TYPE = ResourceFactory.createProperty(URI, "datatype"); | ||
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| /** | ||
| * Create property | ||
| */ | ||
| public static final Property COLUMN = ResourceFactory.createProperty(URI, "column"); | ||
|
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| /** | ||
| * Create column property | ||
| */ | ||
| public static final Property PREDICATE = ResourceFactory.createProperty(URI, "predicate"); | ||
|
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| /** | ||
| * Create predicate property | ||
| */ | ||
| public static final Property PARENT_TRIPLE_MAP = ResourceFactory.createProperty(URI, | ||
| "parentTriplesMap"); | ||
|
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| /** | ||
| * Create joinCondition property | ||
| */ | ||
| public static final Property JOIN_CONDITION = ResourceFactory.createProperty(URI, | ||
| "joinCondition"); | ||
|
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| /** | ||
| * Create child property | ||
| */ | ||
| public static final Property CHILD = ResourceFactory.createProperty(URI, "child"); | ||
|
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| /** | ||
| * Create parent property | ||
| */ | ||
| public static final Property PARENT = ResourceFactory.createProperty(URI, "parent"); | ||
|
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| /** | ||
| * Create R2RMLView property | ||
| */ | ||
| public static final Property R2RML_VIEW = ResourceFactory.createProperty(URI, "R2RMLView"); | ||
|
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| /** | ||
| * Create property | ||
| */ | ||
| public static final Property SQL_QUERY = ResourceFactory.createProperty(URI, "sqlQuery"); | ||
|
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| /** | ||
| * Create sqlQuery property | ||
| */ | ||
| public static final Property PREDICATE_OBJECT_MAP = ResourceFactory.createProperty(URI, | ||
| "predicateObjectMap"); | ||
|
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| /** | ||
| * Create IRI property | ||
| */ | ||
| public static final RDFNode IRI = ResourceFactory.createProperty(URI, "IRI"); | ||
| } |
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