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Merge pull request #39 from ontoportal-lirmm/feature/add-agent-crud-e…
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…ndpoint

Feature: Add agent crud endpoints
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@syphax-bouazzouni
syphax-bouazzouni committed Sep 5, 2023
1 parent 472677a commit fe7cc08
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1 change: 1 addition & 0 deletions .dockerignore
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Expand Up @@ -9,3 +9,4 @@ tmp/*
# Editor temp files
*.swp
*.swo
test/solr
8 changes: 5 additions & 3 deletions Gemfile
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@@ -1,6 +1,6 @@
source 'https://rubygems.org'

gem 'activesupport', '~> 3.0'
gem 'activesupport', '~> 3.1'
# see https://github.com/ncbo/ontologies_api/issues/69
gem 'bigdecimal', '1.4.2'
gem 'faraday', '~> 1.9'
Expand All @@ -13,21 +13,23 @@ gem 'rake', '~> 10.0'
gem 'sinatra', '~> 1.0'
gem 'sinatra-advanced-routes'
gem 'sinatra-contrib', '~> 1.0'
gem 'request_store'

# Rack middleware
gem 'ffi'
gem 'rack-accept', '~> 0.4'
gem 'rack-attack', '~> 6.6.1', require: 'rack/attack'
gem 'rack-cache', '~> 1.0'
gem 'rack-cache', '~> 1.13.0'
gem 'rack-cors', require: 'rack/cors'
# GitHub dependency can be removed when https://github.com/niko/rack-post-body-to-params/pull/6 is merged and released
gem 'rack-post-body-to-params', github: 'palexander/rack-post-body-to-params', branch: 'multipart_support'
gem 'rack-timeout'
gem 'redis-rack-cache', '~> 2.0'

# Data access (caching)
gem 'redis'
gem 'redis', '~> 4.8.1'
gem 'redis-activesupport'
gem 'redis-store', '1.9.1'

# Monitoring
gem 'cube-ruby', require: 'cube'
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71 changes: 38 additions & 33 deletions Gemfile.lock
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@@ -1,6 +1,6 @@
GIT
remote: https://github.com/ncbo/ncbo_ontology_recommender.git
revision: d0ac992c88bd417f2f2137ba62934c3c41b6db7c
revision: 83e835de368bc9f19da800a477982e0ad770900d
branch: master
specs:
ncbo_ontology_recommender (0.0.1)
Expand All @@ -11,7 +11,7 @@ GIT

GIT
remote: https://github.com/ontoportal-lirmm/goo.git
revision: cda6aff2338e2a2831e4e7bf716abdf8fa8483d2
revision: ddb95e427950fde3ac715aec340394208c8166fe
branch: development
specs:
goo (0.0.2)
Expand Down Expand Up @@ -53,7 +53,7 @@ GIT

GIT
remote: https://github.com/ontoportal-lirmm/ontologies_linked_data.git
revision: e9b708c40b2b22b935fb48d18ed19de8148fca35
revision: 4c89c8346766d23e09b24c8e29750bf3a91e6b53
branch: development
specs:
ontologies_linked_data (0.0.1)
Expand Down Expand Up @@ -103,16 +103,16 @@ GEM
activesupport (3.2.22.5)
i18n (~> 0.6, >= 0.6.4)
multi_json (~> 1.0)
addressable (2.8.1)
addressable (2.8.5)
public_suffix (>= 2.0.2, < 6.0)
airbrussh (1.4.1)
airbrussh (1.4.2)
sshkit (>= 1.6.1, != 1.7.0)
backports (3.23.0)
bcrypt (3.1.18)
backports (3.24.1)
bcrypt (3.1.19)
bcrypt_pbkdf (1.1.0)
bigdecimal (1.4.2)
builder (3.2.4)
capistrano (3.17.1)
capistrano (3.17.3)
airbrussh (>= 1.0.0)
i18n
rake (>= 10.0.0)
Expand All @@ -125,7 +125,7 @@ GEM
capistrano (~> 3.1)
sshkit (~> 1.3)
coderay (1.1.3)
concurrent-ruby (1.2.0)
concurrent-ruby (1.2.2)
cube-ruby (0.0.3)
dante (0.2.0)
date (3.3.3)
Expand Down Expand Up @@ -160,9 +160,9 @@ GEM
ffi (1.15.5)
get_process_mem (0.2.7)
ffi (~> 1.0)
google-apis-analytics_v3 (0.12.0)
google-apis-core (>= 0.9.1, < 2.a)
google-apis-core (0.11.0)
google-apis-analytics_v3 (0.13.0)
google-apis-core (>= 0.11.0, < 2.a)
google-apis-core (0.11.1)
addressable (~> 2.5, >= 2.5.1)
googleauth (>= 0.16.2, < 2.a)
httpclient (>= 2.8.1, < 3.a)
Expand All @@ -171,7 +171,7 @@ GEM
retriable (>= 2.0, < 4.a)
rexml
webrick
googleauth (1.3.0)
googleauth (1.7.0)
faraday (>= 0.17.3, < 3.a)
jwt (>= 1.4, < 3.0)
memoist (~> 0.16)
Expand All @@ -191,9 +191,9 @@ GEM
json-schema (2.8.1)
addressable (>= 2.4)
json_pure (2.6.3)
jwt (2.7.0)
jwt (2.7.1)
kgio (2.11.4)
libxml-ruby (4.0.0)
libxml-ruby (4.1.1)
logger (1.5.3)
macaddr (1.7.2)
systemu (~> 2.6.5)
Expand All @@ -204,18 +204,18 @@ GEM
net-smtp
memoist (0.16.2)
method_source (1.0.0)
mime-types (3.4.1)
mime-types (3.5.1)
mime-types-data (~> 3.2015)
mime-types-data (3.2022.0105)
mini_mime (1.1.2)
mime-types-data (3.2023.0808)
mini_mime (1.1.5)
minitest (4.7.5)
minitest-stub_any_instance (1.0.3)
mlanett-redis-lock (0.2.7)
redis
multi_json (1.15.0)
multipart-post (2.3.0)
net-http-persistent (2.9.4)
net-imap (0.3.4)
net-imap (0.3.7)
date
net-protocol
net-pop (0.1.2)
Expand All @@ -226,9 +226,9 @@ GEM
net-ssh (>= 2.6.5, < 8.0.0)
net-smtp (0.3.3)
net-protocol
net-ssh (7.0.1)
net-ssh (7.2.0)
netrc (0.11.0)
newrelic_rpm (8.16.0)
newrelic_rpm (9.4.2)
oj (2.18.5)
omni_logger (0.1.4)
logger
Expand All @@ -239,7 +239,7 @@ GEM
pry (0.14.2)
coderay (~> 1.1)
method_source (~> 1.0)
public_suffix (5.0.1)
public_suffix (5.0.3)
rack (1.6.13)
rack-accept (0.4.5)
rack (>= 0.4)
Expand All @@ -249,14 +249,14 @@ GEM
rack (>= 0.4)
rack-cors (1.0.6)
rack (>= 1.6.0)
rack-mini-profiler (3.0.0)
rack-mini-profiler (3.1.1)
rack (>= 1.2.0)
rack-protection (1.5.5)
rack
rack-test (2.0.2)
rack-test (2.1.0)
rack (>= 1.3)
rack-timeout (0.6.3)
raindrops (0.20.0)
raindrops (0.20.1)
rake (10.5.0)
rdf (1.0.8)
addressable (>= 2.2)
Expand All @@ -274,13 +274,15 @@ GEM
declarative (< 0.1.0)
trailblazer-option (>= 0.1.1, < 0.2.0)
uber (< 0.2.0)
request_store (1.5.1)
rack (>= 1.4)
rest-client (2.1.0)
http-accept (>= 1.7.0, < 2.0)
http-cookie (>= 1.0.2, < 2.0)
mime-types (>= 1.16, < 4.0)
netrc (~> 0.8)
retriable (3.1.2)
rexml (3.2.5)
rexml (3.2.6)
rsolr (2.5.0)
builder (>= 2.1.2)
faraday (>= 0.9, < 3, != 2.0.0)
Expand Down Expand Up @@ -316,13 +318,13 @@ GEM
rack-test
sinatra (~> 1.4.0)
tilt (>= 1.3, < 3)
sshkit (1.21.3)
sshkit (1.21.5)
net-scp (>= 1.1.2)
net-ssh (>= 2.8.0)
systemu (2.6.5)
temple (0.10.0)
tilt (2.0.11)
timeout (0.3.2)
temple (0.10.2)
tilt (2.2.0)
timeout (0.4.0)
trailblazer-option (0.1.2)
tzinfo (2.0.6)
concurrent-ruby (~> 1.0)
Expand All @@ -341,10 +343,11 @@ GEM
webrick (1.8.1)

PLATFORMS
x86_64-darwin-21
x86_64-linux

DEPENDENCIES
activesupport (~> 3.0)
activesupport (~> 3.1)
bcrypt_pbkdf (>= 1.0, < 2.0)
bigdecimal (= 1.4.2)
capistrano (~> 3)
Expand Down Expand Up @@ -372,17 +375,19 @@ DEPENDENCIES
rack
rack-accept (~> 0.4)
rack-attack (~> 6.6.1)
rack-cache (~> 1.0)
rack-cache (~> 1.13.0)
rack-cors
rack-mini-profiler
rack-post-body-to-params!
rack-test
rack-timeout
rake (~> 10.0)
redcarpet
redis
redis (~> 4.8.1)
redis-activesupport
redis-rack-cache (~> 2.0)
redis-store (= 1.9.1)
request_store
shotgun!
simplecov
simplecov-cobertura
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4 changes: 4 additions & 0 deletions app.rb
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Expand Up @@ -36,6 +36,8 @@
# Inflector setup
require_relative "config/inflections"

require 'request_store'

# Protection settings
set :protection, :except => :path_traversal

Expand Down Expand Up @@ -143,6 +145,8 @@
use Rack::PostBodyToParams
use Rack::ParamTranslator

use RequestStore::Middleware

use LinkedData::Security::Authorization
use LinkedData::Security::AccessDenied

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