diff --git a/Gemfile.lock b/Gemfile.lock
deleted file mode 100644
index 80bcbfdb..00000000
--- a/Gemfile.lock
+++ /dev/null
@@ -1,467 +0,0 @@
-GIT
-  remote: https://github.com/ncbo/ncbo_ontology_recommender.git
-  revision: 013abea4af3b10910ec661dbb358a4b6cae198a4
-  branch: master
-  specs:
-    ncbo_ontology_recommender (0.0.1)
-      goo
-      ncbo_annotator
-      ontologies_linked_data
-      redis
-
-GIT
-  remote: https://github.com/ontoportal-lirmm/goo.git
-  revision: a95245b8c964431505ca6315907440996c59a00d
-  branch: development
-  specs:
-    goo (0.0.2)
-      addressable (~> 2.8)
-      pry
-      rdf (= 3.2.11)
-      rdf-raptor
-      rdf-rdfxml
-      rdf-vocab
-      redis
-      rest-client
-      rsolr
-      sparql-client
-      uuid
-
-GIT
-  remote: https://github.com/ontoportal-lirmm/ncbo_annotator.git
-  revision: 1eb751b65d10ae23d45c74e0516c78754a8419f0
-  branch: development
-  specs:
-    ncbo_annotator (0.0.1)
-      goo
-      ontologies_linked_data
-      redis
-      ruby-xxHash
-
-GIT
-  remote: https://github.com/ontoportal-lirmm/ncbo_cron.git
-  revision: bed0ff08408ad1241db3513992ad025a253eeef0
-  branch: master
-  specs:
-    ncbo_cron (0.0.1)
-      dante
-      goo
-      google-analytics-data
-      google-apis-analytics_v3
-      mlanett-redis-lock
-      multi_json
-      ncbo_annotator
-      ontologies_linked_data
-      redis
-      rufus-scheduler (~> 2.0.24)
-
-GIT
-  remote: https://github.com/ontoportal-lirmm/ontologies_linked_data.git
-  revision: 99b934317f303f9ea839413de4ff8a5638ac074f
-  branch: feature/parse-diff-files
-  specs:
-    ontologies_linked_data (0.0.1)
-      activesupport
-      bcrypt
-      goo
-      json
-      libxml-ruby
-      multi_json
-      oj
-      omni_logger
-      pony
-      rack
-      rack-test
-      rsolr
-      rubyzip
-
-GIT
-  remote: https://github.com/ontoportal-lirmm/sparql-client.git
-  revision: 59251e59346c9a69a67c88552ba55a1244eec602
-  branch: development
-  specs:
-    sparql-client (3.2.2)
-      net-http-persistent (~> 4.0, >= 4.0.2)
-      rdf (~> 3.2, >= 3.2.11)
-
-GIT
-  remote: https://github.com/palexander/rack-post-body-to-params.git
-  revision: 0fd30e710386d0cb8a3a6833d9549d7b655d5398
-  branch: multipart_support
-  specs:
-    rack-post-body-to-params (0.1.8)
-      activesupport (>= 2.3)
-
-GIT
-  remote: https://github.com/palexander/shotgun.git
-  revision: db198224aaab2e4cb9b049adccb30e387d88bc3b
-  branch: ncbo
-  specs:
-    shotgun (0.9)
-      rack (>= 1.0)
-
-GEM
-  remote: https://rubygems.org/
-  specs:
-    activesupport (3.2.22.5)
-      i18n (~> 0.6, >= 0.6.4)
-      multi_json (~> 1.0)
-    addressable (2.8.7)
-      public_suffix (>= 2.0.2, < 7.0)
-    airbrussh (1.5.3)
-      sshkit (>= 1.6.1, != 1.7.0)
-    backports (3.25.0)
-    base64 (0.2.0)
-    bcrypt (3.1.20)
-    bcrypt_pbkdf (1.1.1)
-    bigdecimal (1.4.2)
-    builder (3.3.0)
-    capistrano (3.19.1)
-      airbrussh (>= 1.0.0)
-      i18n
-      rake (>= 10.0.0)
-      sshkit (>= 1.9.0)
-    capistrano-bundler (2.1.1)
-      capistrano (~> 3.1)
-    capistrano-locally (0.3.0)
-      capistrano (~> 3.0)
-    capistrano-rbenv (2.2.0)
-      capistrano (~> 3.1)
-      sshkit (~> 1.3)
-    coderay (1.1.3)
-    concurrent-ruby (1.3.4)
-    connection_pool (2.4.1)
-    crack (1.0.0)
-      bigdecimal
-      rexml
-    cube-ruby (0.0.3)
-    dante (0.2.0)
-    date (3.3.4)
-    declarative (0.0.20)
-    docile (1.4.1)
-    domain_name (0.6.20240107)
-    ed25519 (1.3.0)
-    faraday (1.10.3)
-      faraday-em_http (~> 1.0)
-      faraday-em_synchrony (~> 1.0)
-      faraday-excon (~> 1.1)
-      faraday-httpclient (~> 1.0)
-      faraday-multipart (~> 1.0)
-      faraday-net_http (~> 1.0)
-      faraday-net_http_persistent (~> 1.0)
-      faraday-patron (~> 1.0)
-      faraday-rack (~> 1.0)
-      faraday-retry (~> 1.0)
-      ruby2_keywords (>= 0.0.4)
-    faraday-em_http (1.0.0)
-    faraday-em_synchrony (1.0.0)
-    faraday-excon (1.1.0)
-    faraday-httpclient (1.0.1)
-    faraday-multipart (1.0.4)
-      multipart-post (~> 2)
-    faraday-net_http (1.0.2)
-    faraday-net_http_persistent (1.2.0)
-    faraday-patron (1.0.0)
-    faraday-rack (1.0.0)
-    faraday-retry (1.0.3)
-    ffi (1.17.0)
-    gapic-common (0.21.1)
-      faraday (>= 1.9, < 3.a)
-      faraday-retry (>= 1.0, < 3.a)
-      google-protobuf (~> 3.18)
-      googleapis-common-protos (>= 1.4.0, < 2.a)
-      googleapis-common-protos-types (>= 1.11.0, < 2.a)
-      googleauth (~> 1.9)
-      grpc (~> 1.59)
-    get_process_mem (0.2.7)
-      ffi (~> 1.0)
-    google-analytics-data (0.6.1)
-      google-analytics-data-v1beta (>= 0.11, < 2.a)
-      google-cloud-core (~> 1.6)
-    google-analytics-data-v1beta (0.13.1)
-      gapic-common (>= 0.21.1, < 2.a)
-      google-cloud-errors (~> 1.0)
-    google-apis-analytics_v3 (0.16.0)
-      google-apis-core (>= 0.15.0, < 2.a)
-    google-apis-core (0.15.0)
-      addressable (~> 2.5, >= 2.5.1)
-      googleauth (~> 1.9)
-      httpclient (>= 2.8.1, < 3.a)
-      mini_mime (~> 1.0)
-      representable (~> 3.0)
-      retriable (>= 2.0, < 4.a)
-      rexml
-    google-cloud-core (1.7.1)
-      google-cloud-env (>= 1.0, < 3.a)
-      google-cloud-errors (~> 1.0)
-    google-cloud-env (2.1.1)
-      faraday (>= 1.0, < 3.a)
-    google-cloud-errors (1.4.0)
-    google-protobuf (3.25.3)
-    googleapis-common-protos (1.6.0)
-      google-protobuf (>= 3.18, < 5.a)
-      googleapis-common-protos-types (~> 1.7)
-      grpc (~> 1.41)
-    googleapis-common-protos-types (1.16.0)
-      google-protobuf (>= 3.18, < 5.a)
-    googleauth (1.11.0)
-      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 (1.65.2)
-      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)
-    htmlentities (4.3.4)
-    http-accept (1.7.0)
-    http-cookie (1.0.7)
-      domain_name (~> 0.5)
-    httpclient (2.8.3)
-    i18n (0.9.5)
-      concurrent-ruby (~> 1.0)
-    json (2.7.2)
-    json-ld (3.0.2)
-      multi_json (~> 1.12)
-      rdf (>= 2.2.8, < 4.0)
-    json-schema (2.8.1)
-      addressable (>= 2.4)
-    jwt (2.9.0)
-      base64
-    kgio (2.11.4)
-    libxml-ruby (5.0.3)
-    link_header (0.0.8)
-    logger (1.6.1)
-    macaddr (1.7.2)
-      systemu (~> 2.6.5)
-    mail (2.8.1)
-      mini_mime (>= 0.1.1)
-      net-imap
-      net-pop
-      net-smtp
-    method_source (1.1.0)
-    mime-types (3.5.2)
-      mime-types-data (~> 3.2015)
-    mime-types-data (3.2024.0903)
-    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 (2.4.1)
-    net-http-persistent (4.0.4)
-      connection_pool (~> 2.2)
-    net-imap (0.4.16)
-      date
-      net-protocol
-    net-pop (0.1.2)
-      net-protocol
-    net-protocol (0.2.2)
-      timeout
-    net-scp (4.0.0)
-      net-ssh (>= 2.6.5, < 8.0.0)
-    net-sftp (4.0.0)
-      net-ssh (>= 5.0.0, < 8.0.0)
-    net-smtp (0.5.0)
-      net-protocol
-    net-ssh (7.2.3)
-    netrc (0.11.0)
-    newrelic_rpm (9.13.0)
-    oj (3.16.1)
-    omni_logger (0.1.4)
-      logger
-    os (1.1.4)
-    ostruct (0.6.0)
-    parallel (1.26.3)
-    parseconfig (1.1.2)
-    pony (1.13.1)
-      mail (>= 2.0)
-    pry (0.14.2)
-      coderay (~> 1.1)
-      method_source (~> 1.0)
-    public_suffix (5.1.1)
-    rack (1.6.13)
-    rack-accept (0.4.5)
-      rack (>= 0.4)
-    rack-attack (6.6.1)
-      rack (>= 1.0, < 3)
-    rack-cache (1.13.0)
-      rack (>= 0.4)
-    rack-cors (1.0.6)
-      rack (>= 1.6.0)
-    rack-mini-profiler (3.3.1)
-      rack (>= 1.2.0)
-    rack-protection (1.5.5)
-      rack
-    rack-test (2.1.0)
-      rack (>= 1.3)
-    rack-timeout (0.7.0)
-    raindrops (0.20.1)
-    rake (10.5.0)
-    rdf (3.2.11)
-      link_header (~> 0.0, >= 0.0.8)
-    rdf-raptor (3.2.0)
-      ffi (~> 1.15)
-      rdf (~> 3.2)
-    rdf-rdfxml (3.2.2)
-      builder (~> 3.2)
-      htmlentities (~> 4.3)
-      rdf (~> 3.2)
-      rdf-xsd (~> 3.2)
-    rdf-vocab (3.2.7)
-      rdf (~> 3.2, >= 3.2.4)
-    rdf-xsd (3.2.1)
-      rdf (~> 3.2)
-      rexml (~> 3.2)
-    redcarpet (3.6.0)
-    redis (5.3.0)
-      redis-client (>= 0.22.0)
-    redis-client (0.22.2)
-      connection_pool
-    redis-rack-cache (2.2.1)
-      rack-cache (>= 1.10, < 2)
-      redis-store (>= 1.6, < 2)
-    redis-store (1.11.0)
-      redis (>= 4, < 6)
-    representable (3.2.0)
-      declarative (< 0.1.0)
-      trailblazer-option (>= 0.1.1, < 0.2.0)
-      uber (< 0.2.0)
-    request_store (1.7.0)
-      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 (3.3.7)
-    rsolr (2.6.0)
-      builder (>= 2.1.2)
-      faraday (>= 0.9, < 3, != 2.0.0)
-    ruby-xxHash (0.4.0.2)
-    ruby2_keywords (0.0.5)
-    rubyzip (2.3.2)
-    rufus-scheduler (2.0.24)
-      tzinfo (>= 0.3.22)
-    signet (0.19.0)
-      addressable (~> 2.8)
-      faraday (>= 0.17.5, < 3.a)
-      jwt (>= 1.5, < 3.0)
-      multi_json (~> 1.10)
-    simplecov (0.22.0)
-      docile (~> 1.1)
-      simplecov-html (~> 0.11)
-      simplecov_json_formatter (~> 0.1)
-    simplecov-cobertura (2.1.0)
-      rexml
-      simplecov (~> 0.19)
-    simplecov-html (0.13.1)
-    simplecov_json_formatter (0.1.4)
-    sinatra (1.4.8)
-      rack (~> 1.5)
-      rack-protection (~> 1.4)
-      tilt (>= 1.3, < 3)
-    sinatra-advanced-routes (0.5.3)
-      sinatra (~> 1.0)
-    sinatra-contrib (1.4.7)
-      backports (>= 2.0)
-      multi_json
-      rack-protection
-      rack-test
-      sinatra (~> 1.4.0)
-      tilt (>= 1.3, < 3)
-    sshkit (1.23.1)
-      base64
-      net-scp (>= 1.1.2)
-      net-sftp (>= 2.1.2)
-      net-ssh (>= 2.8.0)
-      ostruct
-    systemu (2.6.5)
-    temple (0.10.3)
-    tilt (2.4.0)
-    timeout (0.4.1)
-    trailblazer-option (0.1.2)
-    tzinfo (2.0.6)
-      concurrent-ruby (~> 1.0)
-    uber (0.1.0)
-    unicorn (6.1.0)
-      kgio (~> 2.6)
-      raindrops (~> 0.7)
-    unicorn-worker-killer (0.4.5)
-      get_process_mem (~> 0)
-      unicorn (>= 4, < 7)
-    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)
-
-PLATFORMS
-  ruby
-
-DEPENDENCIES
-  activesupport (~> 3.2)
-  bcrypt_pbkdf (>= 1.0, < 2.0)
-  bigdecimal (= 1.4.2)
-  capistrano (~> 3)
-  capistrano-bundler
-  capistrano-locally
-  capistrano-rbenv
-  cube-ruby
-  ed25519 (>= 1.2, < 2.0)
-  faraday (~> 1.9)
-  ffi
-  goo!
-  google-apis-core (= 0.15.0)
-  google-protobuf (= 3.25.3)
-  haml (~> 5.2.2)
-  json-ld
-  json-schema (~> 2.0)
-  minitest (~> 4.0)
-  minitest-stub_any_instance
-  multi_json (~> 1.0)
-  ncbo_annotator!
-  ncbo_cron!
-  ncbo_ontology_recommender!
-  newrelic_rpm
-  oj
-  ontologies_linked_data!
-  parallel
-  parseconfig
-  pry
-  rack
-  rack-accept (~> 0.4)
-  rack-attack (~> 6.6.1)
-  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-rack-cache (~> 2.0)
-  redis-store (~> 1.10)
-  request_store
-  shotgun!
-  simplecov
-  simplecov-cobertura
-  sinatra (~> 1.0)
-  sinatra-advanced-routes
-  sinatra-contrib (~> 1.0)
-  sparql-client!
-  unicorn
-  unicorn-worker-killer
-  webmock (~> 3.19.1)
-
-BUNDLED WITH
-   2.1.4