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Merge pull request #8 from ncbo/master
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Sync: BioPortal v5.33.4 release
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@alexskr
alexskr authored Dec 4, 2024
2 parents 6be07b0 + 78e6e0d commit 1e4882b
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6 changes: 2 additions & 4 deletions Gemfile
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Expand Up @@ -41,15 +41,13 @@ gem 'unicorn-worker-killer'
gem 'haml', '~> 5.2.2' # pin see https://github.com/ncbo/ontologies_api/pull/107
gem 'redcarpet'


# NCBO gems (can be from a local dev path or from rubygems/git)
gem 'goo', github: 'ncbo/goo', branch: 'master'
gem 'ncbo_annotator', github: 'ncbo/ncbo_annotator', branch: 'master'
gem 'ncbo_cron', github: 'ncbo/ncbo_cron', branch: 'master'
gem 'ncbo_ontology_recommender', github: 'ncbo/ncbo_ontology_recommender', branch: 'master'
gem 'sparql-client', github: 'ncbo/sparql-client', branch: 'master'
gem 'goo', github: 'ncbo/goo', branch: 'master'
gem 'ontologies_linked_data', github: 'ncbo/ontologies_linked_data', branch: 'master'

gem 'sparql-client', github: 'ncbo/sparql-client', branch: 'master'

group :development do
# bcrypt_pbkdf and ed35519 is required for capistrano deployments when using ed25519 keys; see https://github.com/miloserdow/capistrano-deploy/issues/42
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78 changes: 40 additions & 38 deletions Gemfile.lock
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@@ -1,6 +1,6 @@
GIT
remote: https://github.com/ncbo/goo.git
revision: f943ac33e87c55c88131c32d826ed5d39c89302c
revision: 39f67ab7fae7675b6ff417ace0ab923e40ffcbcd
branch: master
specs:
goo (0.0.2)
Expand All @@ -16,7 +16,7 @@ GIT

GIT
remote: https://github.com/ncbo/ncbo_annotator.git
revision: d46d667ec1b2343fbcdab587f1a70e763b894133
revision: 95da15aad0168200703c0306c6bd714dc06f4d3d
branch: master
specs:
ncbo_annotator (0.0.1)
Expand All @@ -27,7 +27,7 @@ GIT

GIT
remote: https://github.com/ncbo/ncbo_cron.git
revision: 32a721543f518167385256fa4f0a08c8c6d987b7
revision: 1e0cb7f5e230e1d19c02f11f3fd76ed9831a3807
branch: master
specs:
ncbo_cron (0.0.1)
Expand All @@ -45,7 +45,7 @@ GIT

GIT
remote: https://github.com/ncbo/ncbo_ontology_recommender.git
revision: 9dbd4f179e42c52095129d353a5ac584e9bd47f3
revision: f9ef23d95b02279d68b6dfb74b218a67ded395e4
branch: master
specs:
ncbo_ontology_recommender (0.0.1)
Expand All @@ -56,7 +56,7 @@ GIT

GIT
remote: https://github.com/ncbo/ontologies_linked_data.git
revision: 9ab4be437ed84f5a480e7f0d8799824fcea310ae
revision: 536cbe5cef9e23abc299ed44942c0b3966f9c18d
branch: master
specs:
ontologies_linked_data (0.0.1)
Expand Down Expand Up @@ -120,7 +120,7 @@ GEM
bcrypt_pbkdf (1.1.1-arm64-darwin)
bigdecimal (3.1.8)
builder (3.3.0)
capistrano (3.19.1)
capistrano (3.19.2)
airbrussh (>= 1.0.0)
i18n
rake (>= 10.0.0)
Expand All @@ -139,24 +139,24 @@ GEM
rexml
cube-ruby (0.0.3)
dante (0.2.0)
date (3.3.4)
date (3.4.0)
docile (1.4.1)
domain_name (0.6.20240107)
ed25519 (1.3.0)
faraday (2.12.0)
faraday-net_http (>= 2.0, < 3.4)
faraday (2.12.1)
faraday-net_http (>= 2.0, < 3.5)
json
logger
faraday-follow_redirects (0.3.0)
faraday (>= 1, < 3)
faraday-net_http (3.3.0)
net-http
faraday-net_http (3.4.0)
net-http (>= 0.5.0)
faraday-retry (2.2.1)
faraday (~> 2.0)
ffi (1.17.0-aarch64-linux-gnu)
ffi (1.17.0-arm64-darwin)
ffi (1.17.0-x86_64-linux-gnu)
gapic-common (0.22.0)
gapic-common (0.23.0)
faraday (>= 1.9, < 3.a)
faraday-retry (>= 1.0, < 3.a)
google-protobuf (>= 3.25, < 5.a)
Expand Down Expand Up @@ -187,35 +187,35 @@ GEM
grpc (~> 1.41)
googleapis-common-protos-types (1.16.0)
google-protobuf (>= 3.18, < 5.a)
googleauth (1.11.1)
googleauth (1.11.2)
faraday (>= 1.0, < 3.a)
google-cloud-env (~> 2.1)
jwt (>= 1.4, < 3.0)
multi_json (~> 1.11)
os (>= 0.9, < 2.0)
signet (>= 0.16, < 2.a)
grpc (1.66.0-aarch64-linux)
grpc (1.67.0-aarch64-linux)
google-protobuf (>= 3.25, < 5.0)
googleapis-common-protos-types (~> 1.0)
grpc (1.66.0-arm64-darwin)
grpc (1.67.0-arm64-darwin)
google-protobuf (>= 3.25, < 5.0)
googleapis-common-protos-types (~> 1.0)
grpc (1.66.0-x86_64-linux)
grpc (1.67.0-x86_64-linux)
google-protobuf (>= 3.25, < 5.0)
googleapis-common-protos-types (~> 1.0)
haml (5.2.2)
temple (>= 0.8.0)
tilt
hashdiff (1.1.1)
hashdiff (1.1.2)
http-accept (1.7.0)
http-cookie (1.0.7)
domain_name (~> 0.5)
i18n (1.14.6)
concurrent-ruby (~> 1.0)
json (2.7.2)
json (2.8.2)
json-schema (2.8.1)
addressable (>= 2.4)
json_pure (2.7.2)
json_pure (2.8.1)
jwt (2.9.3)
base64
kgio (2.11.4)
Expand All @@ -233,19 +233,19 @@ GEM
mime-types (3.6.0)
logger
mime-types-data (~> 3.2015)
mime-types-data (3.2024.1001)
mime-types-data (3.2024.1105)
mini_mime (1.1.5)
minitest (5.25.1)
minitest (5.25.2)
minitest-hooks (1.5.2)
minitest (> 5.3)
minitest-stub_any_instance (1.0.3)
mlanett-redis-lock (0.2.7)
redis
multi_json (1.15.0)
net-http (0.4.1)
net-http (0.5.0)
uri
net-http-persistent (2.9.4)
net-imap (0.4.16)
net-imap (0.4.18)
date
net-protocol
net-pop (0.1.2)
Expand All @@ -260,22 +260,22 @@ GEM
net-protocol
net-ssh (7.3.0)
netrc (0.11.0)
newrelic_rpm (9.14.0)
oj (3.16.6)
newrelic_rpm (9.16.0)
oj (3.16.7)
bigdecimal (>= 3.0)
ostruct (>= 0.2)
omni_logger (0.1.4)
logger
os (1.1.4)
ostruct (0.6.0)
ostruct (0.6.1)
parallel (1.26.3)
parseconfig (1.1.2)
parser (3.3.5.0)
parser (3.3.6.0)
ast (~> 2.4.1)
racc
pony (1.13.1)
mail (>= 2.0)
pry (0.14.2)
pry (0.15.0)
coderay (~> 1.1)
method_source (~> 1.0)
public_suffix (6.0.1)
Expand Down Expand Up @@ -319,21 +319,21 @@ GEM
http-cookie (>= 1.0.2, < 2.0)
mime-types (>= 1.16, < 4.0)
netrc (~> 0.8)
rexml (3.3.8)
rexml (3.3.9)
rsolr (2.6.0)
builder (>= 2.1.2)
faraday (>= 0.9, < 3, != 2.0.0)
rubocop (1.66.1)
rubocop (1.69.0)
json (~> 2.3)
language_server-protocol (>= 3.17.0)
parallel (~> 1.10)
parser (>= 3.3.0.2)
rainbow (>= 2.2.2, < 4.0)
regexp_parser (>= 2.4, < 3.0)
rubocop-ast (>= 1.32.2, < 2.0)
rubocop-ast (>= 1.36.1, < 2.0)
ruby-progressbar (~> 1.7)
unicode-display_width (>= 2.4.0, < 3.0)
rubocop-ast (1.32.3)
unicode-display_width (>= 2.4.0, < 4.0)
rubocop-ast (1.36.1)
parser (>= 3.3.1.0)
ruby-progressbar (1.13.0)
ruby-xxHash (0.4.0.2)
Expand Down Expand Up @@ -367,7 +367,7 @@ GEM
rack-test
sinatra (~> 1.4.0)
tilt (>= 1.3, < 3)
sshkit (1.23.1)
sshkit (1.23.2)
base64
net-scp (>= 1.1.2)
net-sftp (>= 2.1.2)
Expand All @@ -377,24 +377,26 @@ GEM
temple (0.10.3)
thread_safe (0.3.6)
tilt (2.4.0)
timeout (0.4.1)
timeout (0.4.2)
tzinfo (1.2.11)
thread_safe (~> 0.1)
unicode-display_width (2.6.0)
unicode-display_width (3.1.2)
unicode-emoji (~> 4.0, >= 4.0.4)
unicode-emoji (4.0.4)
unicorn (6.1.0)
kgio (~> 2.6)
raindrops (~> 0.7)
unicorn-worker-killer (0.4.5)
get_process_mem (~> 0)
unicorn (>= 4, < 7)
uri (0.13.1)
uri (1.0.2)
uuid (2.3.9)
macaddr (~> 1.0)
webmock (3.19.1)
addressable (>= 2.8.0)
crack (>= 0.3.2)
hashdiff (>= 0.4.0, < 2.0.0)
webrick (1.8.2)
webrick (1.9.0)

PLATFORMS
aarch64-linux
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