Sync: ncbo v6.3.0 release

.github/workflows/ruby-unit-tests.yml

@@ -2,6 +2,10 @@ name: Ruby Unit Tests
 
 on:
   push:
+    branches:
+      - '**'
+    tags-ignore:
+      - '**'         # ignore all tag pushes
   pull_request:
 
 jobs:
@@ -18,15 +22,15 @@ jobs:
     - name: create config.rb file
       run: cp config/config.test.rb config/config.rb
     - name: Build docker compose
-      run: docker compose --profile 4store build #profile flag is set in order to build all containers in this step
+      run: docker compose --profile 4store build # profile flag is set in order to build all containers in this step
     - name: Run unit tests
       # unit tests are run inside a container
       # http://docs.codecov.io/docs/testing-with-docker
       run: |
         ci_env=`bash <(curl -s https://codecov.io/env)`
         docker compose run $ci_env -e CI --rm ${{ matrix.backend }} bundle exec rake test TESTOPTS='-v'
     - name: Upload coverage reports to Codecov
-      uses: codecov/codecov-action@v4
+      uses: codecov/codecov-action@v5
       with:
         token: ${{ secrets.CODECOV_TOKEN }}
         flags: unittests

Gemfile

@@ -26,6 +26,8 @@ group :test do
   gem 'email_spec'
   gem 'minitest', '~> 4'
   gem 'minitest-reporters', '>= 0.5.0'
+  gem 'mocha', '~> 2.7'
+  gem 'mock_redis', '~> 0.5'
   gem 'pry'
   gem 'rack-test', '~> 0.6'
   gem 'simplecov'
@@ -37,7 +39,7 @@ group :development do
 end
 # NCBO gems (can be from a local dev path or from rubygems/git)
 gem 'goo', github: 'ncbo/goo', branch: 'master'
-gem 'sparql-client', github: 'ncbo/sparql-client', branch: 'master'
+gem 'sparql-client', github: 'ncbo/sparql-client', tag: 'v6.3.0'
 
 gem 'public_suffix', '~> 5.1.1'
 gem 'net-imap', '~> 0.4.18'

Gemfile.lock

@@ -1,6 +1,6 @@
 GIT
   remote: https://github.com/ncbo/goo.git
-  revision: b9019ad9e1eb78c74105fc6c6a879085066da17d
+  revision: 26c0a69e67ac59778a46caf51202ebd38ccac767
   branch: master
   specs:
     goo (0.0.2)
@@ -16,8 +16,8 @@ GIT
 
 GIT
   remote: https://github.com/ncbo/sparql-client.git
-  revision: e89c26aa96f184dbe9b52d51e04fb3d9ba998dbc
-  branch: master
+  revision: 512edc320b43e83971835dc046b4923485e8f70e
+  tag: v6.3.0
   specs:
     sparql-client (1.0.1)
       json_pure (>= 1.4)
@@ -74,11 +74,11 @@ GEM
       launchy (>= 2.1, < 4.0)
       mail (~> 2.7)
     eventmachine (1.2.7)
-    faraday (2.13.1)
+    faraday (2.13.2)
       faraday-net_http (>= 2.0, < 3.5)
       json
       logger
-    faraday-net_http (3.4.0)
+    faraday-net_http (3.4.1)
       net-http (>= 0.5.0)
     ffi (1.17.2-aarch64-linux-gnu)
     ffi (1.17.2-arm64-darwin)
@@ -90,7 +90,7 @@ GEM
       domain_name (~> 0.5)
     i18n (0.9.5)
       concurrent-ruby (~> 1.0)
-    json (2.11.3)
+    json (2.12.2)
     json_pure (2.8.1)
     language_server-protocol (3.17.0.4)
     launchy (3.1.1)
@@ -108,17 +108,21 @@ GEM
       net-pop
       net-smtp
     method_source (1.1.0)
-    mime-types (3.6.2)
+    mime-types (3.7.0)
       logger
-      mime-types-data (~> 3.2015)
-    mime-types-data (3.2025.0422)
+      mime-types-data (~> 3.2025, >= 3.2025.0507)
+    mime-types-data (3.2025.0708)
     mini_mime (1.1.5)
     minitest (4.7.5)
     minitest-reporters (0.14.24)
       ansi
       builder
       minitest (>= 2.12, < 5.0)
       powerbar
+    mocha (2.7.1)
+      ruby2_keywords (>= 0.0.5)
+    mock_redis (0.50.0)
+      redis (~> 5)
     multi_json (1.15.0)
     net-ftp (0.3.8)
       net-protocol
@@ -156,7 +160,7 @@ GEM
       method_source (~> 1.0)
     public_suffix (5.1.1)
     racc (1.8.1)
-    rack (2.2.13)
+    rack (2.2.17)
     rack-test (0.8.3)
       rack (>= 1.0, < 3)
     rainbow (3.1.1)
@@ -165,7 +169,7 @@ GEM
       addressable (>= 2.2)
     redis (5.4.0)
       redis-client (>= 0.22.0)
-    redis-client (0.24.0)
+    redis-client (0.25.1)
       connection_pool
     regexp_parser (2.10.0)
     request_store (1.7.0)
@@ -194,6 +198,7 @@ GEM
       parser (>= 3.3.7.2)
       prism (~> 1.4)
     ruby-progressbar (1.13.0)
+    ruby2_keywords (0.0.5)
     rubyzip (1.3.0)
     simplecov (0.22.0)
       docile (~> 1.1)
@@ -225,6 +230,7 @@ PLATFORMS
   aarch64-linux
   arm64-darwin-22
   arm64-darwin-23
+  arm64-darwin-24
   x86_64-linux
 
 DEPENDENCIES
@@ -238,6 +244,8 @@ DEPENDENCIES
   libxml-ruby
   minitest (~> 4)
   minitest-reporters (>= 0.5.0)
+  mocha (~> 2.7)
+  mock_redis (~> 0.5)
   multi_json (~> 1.0)
   net-imap (~> 0.4.18)
   oj (~> 3.0)

config/schemes/ontology_submission.yml

@@ -56,7 +56,7 @@ version:
     "PAV: The version number of a resource.",
     "DOAP: A project release",
     "SCHEMA: The version of the CreativeWork embodied by a specified resource."]
-  extractedMetadata: true
+  extractedMetadata: false
   metadataMappings: [ "omv:version", "mod:version", "owl:versionInfo", "pav:version", "doap:release", "schema:version", "oboInOwl:data-version", "oboInOwl:version" ]
 
 #Status