[Git][java-team/jsonld-java][upstream] New upstream version 0.13.6
Andrius Merkys (@merkys)
gitlab at salsa.debian.org
Mon Sep 23 10:39:49 BST 2024
Andrius Merkys pushed to branch upstream at Debian Java Maintainers / jsonld-java
Commits:
629305fe by Andrius Merkys at 2024-02-26T02:01:34-05:00
New upstream version 0.13.6
- - - - -
6 changed files:
- README.md
- core/pom.xml
- core/src/test/resources/custom/base-0001-in.jsonld
- core/src/test/resources/custom/base-0002-in.jsonld
- + core/src/test/resources/custom/monarch-context.jsonld
- pom.xml
Changes:
=====================================
README.md
=====================================
@@ -16,7 +16,7 @@ From Maven
<dependency>
<groupId>com.github.jsonld-java</groupId>
<artifactId>jsonld-java</artifactId>
- <version>0.13.4</version>
+ <version>0.13.5</version>
</dependency>
Code example
@@ -323,11 +323,11 @@ Here is the basic outline for what your module's pom.xml should look like
<parent>
<groupId>com.github.jsonld-java</groupId>
<artifactId>jsonld-java-parent</artifactId>
- <version>0.13.4</version>
+ <version>0.13.5</version>
</parent>
<modelVersion>4.0.0</modelVersion>
<artifactId>jsonld-java-{your module}</artifactId>
- <version>0.13.4-SNAPSHOT</version>
+ <version>0.13.5-SNAPSHOT</version>
<name>JSONLD Java :: {your module name}</name>
<description>JSON-LD Java integration module for {RDF Library your module integrates}</description>
<packaging>jar</packaging>
@@ -449,6 +449,14 @@ Alternatively, we can also host your repository in the jsonld-java organisation
CHANGELOG
=========
+### 2023-11-06
+* Release 0.13.6
+* Bump Jackson-databind version to latest for security update
+
+### 2023-11-03
+* Release 0.13.5
+* Bump Jackson and Guava versions to latest for security updates
+
### 2021-12-13
* Release 0.13.4
* Switch test logging from log4j to logback (Patch by @ansell)
=====================================
core/pom.xml
=====================================
@@ -4,7 +4,7 @@
<parent>
<artifactId>jsonld-java-parent</artifactId>
<groupId>com.github.jsonld-java</groupId>
- <version>0.13.4</version>
+ <version>0.13.6</version>
</parent>
<modelVersion>4.0.0</modelVersion>
<artifactId>jsonld-java</artifactId>
=====================================
core/src/test/resources/custom/base-0001-in.jsonld
=====================================
@@ -1,6 +1,6 @@
{
- "@context": [
-"https://raw.githubusercontent.com/monarch-initiative/monarch-app/master/conf/monarch-context.jsonld",
+ "@context": [
+ "https://raw.githubusercontent.com/jsonld-java/jsonld-java/master/core/src/test/resources/custom/monarch-context.jsonld",
{
"@base": "http://example.org/base/",
"ex": "http://example.org/",
@@ -13,4 +13,5 @@
"ex:name": "Jim",
"ex:friendOf": "1234",
"@type": "Person"
-}
\ No newline at end of file
+}
+
=====================================
core/src/test/resources/custom/base-0002-in.jsonld
=====================================
@@ -1,5 +1,5 @@
{
- "@context": [
+ "@context": [
{
"@base": "http://example.org/base/",
"ex": "http://example.org/",
@@ -7,10 +7,11 @@
"@type": "@id"
}
},
- "https://raw.githubusercontent.com/monarch-initiative/monarch-app/master/conf/monarch-context.jsonld"
+ "https://raw.githubusercontent.com/jsonld-java/jsonld-java/master/core/src/test/resources/custom/monarch-context.jsonld"
],
"@id": "3456",
"ex:name": "Jim",
"ex:friendOf": "1234",
"@type": "Person"
-}
\ No newline at end of file
+}
+
=====================================
core/src/test/resources/custom/monarch-context.jsonld
=====================================
@@ -0,0 +1,149 @@
+{
+ "@context" : {
+ "EFO" : "http://purl.obolibrary.org/obo/EFO_",
+ "obo" : "http://purl.obolibrary.org/obo/",
+ "inheritance" : "monarch:mode_of_inheritance",
+ "@base" : "http://monarch-initiative.org/",
+ "email" : "foaf:mbox",
+ "BIND" : "http://identifiers.org/bind/bind:",
+ "morpholino" : "GENO:0000417",
+ "GENO" : "http://purl.obolibrary.org/obo/GENO_",
+ "UMLS" : "http://purl.obolibrary.org/obo/UMLS_",
+ "dcat" : "http://www.w3.org/ns/dcat#",
+ "PMID" : "http://www.ncbi.nlm.nih.gov/pubmed/",
+ "MP" : "http://purl.obolibrary.org/obo/MP_",
+ "ISBN-10" : "http://monarch-initiative.org/publications/ISBN:",
+ "rdf" : "http://www.w3.org/1999/02/22-rdf-syntax-ns#",
+ "title" : "dc:title",
+ "Class" : "owl:Class",
+ "FBbt" : "http://purl.obolibrary.org/obo/FBbt_",
+ "pathway_associations" : "rdfs:seeAlso",
+ "FBInternalGT" : "http://monarchinitiative.org/genotype/",
+ "has_genotype" : "GENO:0000222",
+ "genotype" : "GENO:0000000",
+ "void" : "http://rdfs.org/ns/void#",
+ "has_phenotype" : "RO:0002200",
+ "reference_locus" : "GENO:0000036",
+ "dbVar" : "http://identifiers.org/dbVar_",
+ "AQTLTrait" : "http://purl.obolibrary.org/obo/AQTLTrait_",
+ "phenotype_associations" : "rdfs:seeAlso",
+ "ECO" : "http://purl.obolibrary.org/obo/ECO_",
+ "WB" : "http://identifiers.org/WormBase:",
+ "rdfs" : "http://www.w3.org/2000/01/rdf-schema#",
+ "variant_loci" : "GENO:0000027",
+ "MedGen" : "http://purl.obolibrary.org/obo/MedGen_",
+ "creator" : {
+ "@id" : "dc:creator",
+ "@type" : "@id"
+ },
+ "SIO" : "http://semanticscience.org/resource/SIO_",
+ "DOID" : "http://purl.obolibrary.org/obo/DOID_",
+ "Ensembl" : "http://identifiers.org/ensembl:",
+ "id" : "@id",
+ "publisher" : "dc:publisher",
+ "depiction" : {
+ "@id" : "foaf:depiction",
+ "@type" : "@id"
+ },
+ "ENSEMBL" : "http://identifiers.org/ensembl:",
+ "monarch" : "http://monarchinitiative.org/",
+ "ORPHANET" : "http://purl.obolibrary.org/obo/ORPHANET_",
+ "owl" : "http://www.w3.org/2002/07/owl#",
+ "GeneReviews" : "http://www.ncbi.nlm.nih.gov/books/",
+ "SNOMED_CT" : "http://purl.obolibrary.org/obo/SNOMED_",
+ "chromosomal_region" : "GENO:0000390",
+ "EOM" : "http://purl.obolibrary.org/obo/EOM_",
+ "type" : {
+ "@id" : "rdf:type",
+ "@type" : "@id"
+ },
+ "FlyBase" : "http://identifiers.org/flybase:",
+ "DECIPHER" : "http://purl.obolibrary.org/obo/DECIPHER_",
+ "faldo" : "http://biohackathon.org/resource/faldo#",
+ "prov" : "http://www.w3.org/ns/prov#",
+ "MIM" : "http://purl.obolibrary.org/obo/OMIM_",
+ "genomic_variation_complement" : "GENO:0000009",
+ "evidence" : "monarch:evidence",
+ "BioGRID" : "http://purl.obolibrary.org/BioGRID_",
+ "dcterms" : "http://purl.org/dc/terms/",
+ "sequence_alteration" : "SO:0001059",
+ "RO" : "http://purl.obolibrary.org/obo/RO_",
+ "created" : {
+ "@id" : "dc:created",
+ "@type" : "xsd:dateTime"
+ },
+ "Orphanet" : "http://purl.obolibrary.org/obo/ORPHANET_",
+ "oa" : "http://www.w3.org/ns/oa#",
+ "SGD" : "http://identifiers.org/mgd/sgd:",
+ "Gene" : "http://purl.obolibrary.org/obo/NCBIGene_",
+ "PomBase" : "http://identifiers.org/PomBase:",
+ "genotype_associations" : "rdfs:seeAlso",
+ "xsd" : "http://www.w3.org/2001/XMLSchema#",
+ "OMIABreed" : "http://purl.obolibrary.org/obo/OMIA_",
+ "TAIR" : "http://identifiers.org/mgd/tair:",
+ "oboInOwl" : "http://www.geneontology.org/formats/oboInOwl#",
+ "description" : "dc:description",
+ "disease" : "monarch:disease",
+ "OMIAPub" : "http://purl.obolibrary.org/obo/OMIAPub_",
+ "foaf" : "http://xmlns.com/foaf/0.1/",
+ "idot" : "http://identifiers.org/",
+ "subClassOf" : "owl:subClassOf",
+ "source" : "dc:source",
+ "keyword" : "dcat:keyword",
+ "onset" : "monarch:age_of_onset",
+ "genomic_background" : "GENO:0000010",
+ "dictyBase" : "http://identifiers.org/dictyBase:",
+ "OMIA" : "http://purl.obolibrary.org/obo/OMIA_",
+ "has_part" : "BFO:0000051",
+ "ClinVarVariant" : "http://identifiers.org/ClinVarVariant_",
+ "gene_locus" : "GENO:0000014",
+ "effective_genotype" : "GENO:0000525",
+ "VT" : "http://purl.obolibrary.org/obo/VT_",
+ "Association" : "SIO:000897",
+ "resource" : "monarch:nif-resource",
+ "KEGG" : "http://identifiers.org/kegg:",
+ "Annotation" : "oa:Annotation",
+ "FBdv" : "http://purl.obolibrary.org/obo/FBdv_",
+ "GeneID" : "http://purl.obolibrary.org/obo/NCBIGene_",
+ "has_background" : "GENO:0000010",
+ "BFO" : "http://purl.obolibrary.org/obo/BFO_",
+ "FB" : "http://identifiers.org/flybase:",
+ "frequency" : "monarch:frequency",
+ "ZP" : "http://purl.obolibrary.org/obo/ZP_",
+ "OMIM" : "http://purl.obolibrary.org/obo/OMIM_",
+ "MGI" : "http://identifiers.org/mgd/MGI:",
+ "dc" : "http://purl.org/dc/terms/",
+ "MONARCH" : "http://monarchinitiative.org/MONARCH_",
+ "ClinVarHaplotype" : "http://identifiers.org/ClinVarHaplotype_",
+ "homepage" : {
+ "@id" : "foaf:homepage",
+ "@type" : "@id"
+ },
+ "RGD" : "http://identifiers.org/mgd/rgd:",
+ "CORIELL" : "http://purl.obolibrary.org/obo/CORIELL_",
+ "label" : "rdfs:label",
+ "NCBIGene" : "http://purl.obolibrary.org/obo/NCBIGene_",
+ "intrinsic_genotype" : "GENO:0000000",
+ "FBcv" : "http://purl.obolibrary.org/obo/FBcv_",
+ "WBStrain" : "http://identifiers.org/WormBase:",
+ "sequence_alteration_collection" : "GENO:0000025",
+ "reference" : "dc:publication",
+ "zygosity" : "GENO:0000133",
+ "chromosome" : "GENO:0000323",
+ "WormBase" : "http://identifiers.org/WormBase:",
+ "HPRD" : "http://identifiers.org/hprd/hprd:",
+ "ClinVar" : "http://purl.obolibrary.org/obo/ClinVar_",
+ "ISBN-13" : "http://monarch-initiative.org/publications/ISBN:",
+ "extrinsic_genotype" : "GENO:0000524",
+ "NCBITaxon" : "http://purl.obolibrary.org/obo/NCBITaxon_",
+ "environment" : "GENO:0000099",
+ "variant_locus" : "GENO:0000481",
+ "comment" : "rdfs:comment",
+ "SO" : "http://purl.obolibrary.org/obo/SO_",
+ "phenotype" : "monarch:phenotype",
+ "ZFIN" : "http://identifiers.org/zfin:",
+ "HP" : "http://purl.obolibrary.org/obo/HP_",
+ "MESH" : "http://purl.obolibrary.org/obo/MESH_",
+ "dbSNP" : "http://identifiers.org/dbSNP_"
+ }
+}
=====================================
pom.xml
=====================================
@@ -4,7 +4,7 @@
<modelVersion>4.0.0</modelVersion>
<groupId>com.github.jsonld-java</groupId>
<artifactId>jsonld-java-parent</artifactId>
- <version>0.13.4</version>
+ <version>0.13.6</version>
<name>JSONLD Java :: Parent</name>
<description>Json-LD Java Parent POM</description>
<packaging>pom</packaging>
@@ -41,7 +41,8 @@
<httpclient.version>4.5.13</httpclient.version>
<httpcore.version>4.4.14</httpcore.version>
- <jackson.version>2.11.4</jackson.version>
+ <jackson.version>2.12.7</jackson.version>
+ <jackson-databind.version>2.12.7.1</jackson-databind.version>
<junit.version>4.13.2</junit.version>
<slf4j.version>1.7.32</slf4j.version>
<logback.version>1.2.7</logback.version>
@@ -66,7 +67,7 @@
<dependency>
<groupId>com.fasterxml.jackson.core</groupId>
<artifactId>jackson-databind</artifactId>
- <version>${jackson.version}</version>
+ <version>${jackson-databind.version}</version>
</dependency>
<dependency>
<groupId>com.fasterxml.jackson.core</groupId>
@@ -211,7 +212,7 @@
<dependency>
<groupId>com.google.guava</groupId>
<artifactId>guava</artifactId>
- <version>29.0-jre</version>
+ <version>32.1.3-jre</version>
</dependency>
</dependencies>
</dependencyManagement>
View it on GitLab: https://salsa.debian.org/java-team/jsonld-java/-/commit/629305fe9d9eb6bf7f733df2998890c63b819228
--
View it on GitLab: https://salsa.debian.org/java-team/jsonld-java/-/commit/629305fe9d9eb6bf7f733df2998890c63b819228
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