diff --git a/.env.sample b/.env.sample
index 9d4cb5a54..9e0d0a433 100644
--- a/.env.sample
+++ b/.env.sample
@@ -1,137 +1,43 @@
-# Default values are optimized for production to avoid having to configure
-# much in production.
-#
-# However it should be easy to get going in development too. If you see an
-# uncommented option that means it's either mandatory to set or it's being
-# overwritten in development to make your life easier.
+##################### UI configuration ####################
+RAILS_ENV=development
+SITE=Testportal
+ORG=LIRMM
+ORG_URL=http://www.lirmm.fr
 
-# Enable BuildKit by default:
-#   https://docs.docker.com/develop/develop-images/build_enhancements
-export DOCKER_BUILDKIT=1
+UI_URL=http://localhost:3000
+API_URL=http://localhost:9393
+API_KEY=
 
-# Rather than use the directory name, let's control the name of the project.
-export COMPOSE_PROJECT_NAME=ontoportal-docker
+UI_THEME=ontoportal
 
-# In development we want all services to start but in production you don't
-# need the asset watchers to run since assets get built into the image.
-#
-# You can even choose not to run postgres and redis in prod if you plan to use
-# managed cloud services. Everything "just works", even optional depends_on!
-#export COMPOSE_PROFILES=postgres,redis,web,worker,cable
-export COMPOSE_PROFILES=db,cache,assets,web
+BIOMIXER_URL=
+BIOMIXER_APIKEY=
 
-# If you're running native Linux and your uid:gid isn't 1000:1000 you can set
-# these to match your values before you build your image. You can check what
-# your uid:gid is by running `id` from your terminal.
-#export UID=1000
-#export GID=1000
+ANNOTATOR_URL=
 
-# You can generate a more secure secret by running: ./run rails secret
-export SECRET_KEY_BASE=insecure_key_for_dev
+FAIRNESS_DISABLED=false
+FAIRNESS_URL=
 
-# Which environment is running? These should be "development" or "production".
-#export RAILS_ENV=production
-#export NODE_ENV=production
-export RAILS_ENV=development
-export NODE_ENV=development
+NCBO_ANNOTATORPLUS_ENABLED=false
+NCBO_ANNOTATOR_URL=
+NCBO_API_KEY=
 
-# The bind port for puma.
-#
-# Be warned that if you change this value you'll need to change 8000 in both
-# your Dockerfile and in a few spots in docker-compose.yml due to the nature of
-# how this value can be set (Docker Compose doesn't support nested ENV vars).
-#export PORT=8000
+SUPPORT_EMAIL=sifrportal-support@lirmm.fr
+RELEASE_VERSION="OntoPortal Appliance 3.0.1"
 
-# How many workers and threads should your app use? WEB_CONCURRENCY defaults
-# to the server's CPU count * 2. That is a good starting point. In development
-# it's a good idea to use 1 to avoid race conditions when debugging.
-#export WEB_CONCURRENCY=
-#export RAILS_MAX_THREADS=5
-#export WEB_CONCURRENCY=1
-#export RAILS_MAX_THREADS=1
+ANALYTICS_ID=
+USE_RECAPTCHA=false
+####################  Buidling the API for running tests ####################
+## An ontology that will be imported in the starting of the API server
+STARTER_ONTOLOGY=STY
+## API key of a remote API used to download the starter ontology
+OP_API_KEY=8b5b7825-538d-40e0-9e9e-5ab9274a9aeb
+## API url of the remote API used to download the starter ontology
+OP_API_URL="https://data.bioontology.org"
 
-# You'll always want to set POSTGRES_USER and POSTGRES_PASSWORD since the
-# postgres Docker image uses them for its default database user and password.
-export POSTGRES_USER=hello
-export POSTGRES_PASSWORD=password
-#export POSTGRES_DB=hello
-#export POSTGRES_HOST=postgres
-#export POSTGRES_PORT=5432
+## Image repositroy from which the ontoportal api will be built
+API_IMAGE_REPOSITORY=agroportal
+## Image tag/version from which the ontoportal api will be built
+API_IMAGE_TAG=stage
 
-# What's your full Redis connection URL? This will be used for caching, Sidekiq,
-# and Action Cable. You can always split them up later.
-#export REDIS_URL=redis://redis:6379/1
 
-# The bind port for puma but for Action Cable.
-#
-# Be warned that if you change this value you'll need to change 28080 in a few
-# spots in docker-compose.yml due to the nature of how this value can be set
-# (Docker Compose doesn't support nested ENV vars).
-#export CABLE_PORT=28080
-
-# The Action Cable address that will be accessible over HTTP. In production
-# you would typically have this reverse proxied to a sub-domain with nginx, in
-# which case you would set something like: ws://cable.example.com
-#
-# This is one case where it defaults to a development value because it's not
-# possible for me to know what domain name you'll be using.
-#export ACTION_CABLE_FRONTEND_URL=ws://localhost:28080
-
-# Comma separated list of RegExp origins to allow connections from for Action
-# Cable. The values will be converted into a proper RegExp, so omit the / /.
-#
-# Examples:
-#   http:\/\/localhost*
-#   http:\/\/example.*,https:\/\/example.*
-#export ACTION_CABLE_ALLOWED_REQUEST_ORIGINS=http:\/\/localhost*
-
-# If this is set then Rails will serve files from public/ in production. You
-# probably don't want this behavior unless you're testing prod mode locally,
-# because nginx would typically serve static files.
-#export RAILS_SERVE_STATIC_FILES=
-
-# Should Docker restart your containers if they go down in unexpected ways?
-#export DOCKER_RESTART_POLICY=unless-stopped
-export DOCKER_RESTART_POLICY=no
-
-# What health check test command do you want to run? In development, having it
-# curl your web server will result in a lot of log spam, so setting it to
-# /bin/true is an easy way to make the health check do basically nothing.
-#export DOCKER_WEB_HEALTHCHECK_TEST=curl localhost:8000/up
-export DOCKER_WEB_HEALTHCHECK_TEST=/bin/true
-
-# What ip:port should be published back to the Docker host for the app server?
-# If you're using Docker Toolbox or a custom VM you can't use 127.0.0.1. This
-# is being overwritten in dev to be compatible with more dev environments.
-#
-# If you have a port conflict because something else is using 8000 then you
-# can either stop that process or change 8000 to be something else.
-#
-# Use the default in production to avoid having puma directly accessible to
-# the internet since it'll very likely be behind nginx or a load balancer.
-#export DOCKER_WEB_PORT_FORWARD=127.0.0.1:8000
-export DOCKER_WEB_PORT_FORWARD=127.0.0.1:3000
-
-# This is the same as above except for Action Cable.
-#export DOCKER_CABLE_PORT_FORWARD=127.0.0.1:28080
-export DOCKER_CABLE_PORT_FORWARD=28080
-
-# What volume path should be used? In dev we want to volume mount everything
-# so that we can develop our code without rebuilding our Docker images.
-#export DOCKER_WEB_VOLUME=./public:/app/public
-
-
-export DOCKER_WEB_VOLUME=.:/app
-
-# What CPU and memory constraints will be added to your services? When left at
-# 0 they will happily use as much as needed.
-# export DOCKER_POSTGRES_CPUS=0
-# export DOCKER_POSTGRES_MEMORY=0
-# export DOCKER_REDIS_CPUS=0
-# export DOCKER_REDIS_MEMORY=0
-# export DOCKER_WEB_CPUS=0
-# export DOCKER_WEB_MEMORY=0
-# export DOCKER_WORKER_CPUS=0
-# export DOCKER_WORKER_MEMORY=0
-# export DOCKER_CABLE_CPUS=0
-# export DOCKER_CABLE_MEMORY=0
diff --git a/.github/workflows/docker-image.yml b/.github/workflows/docker-image.yml
new file mode 100644
index 000000000..b4c725d6e
--- /dev/null
+++ b/.github/workflows/docker-image.yml
@@ -0,0 +1,47 @@
+name: Docker branch Images build
+
+on:
+  push:
+    branches:
+      - development
+      - stage
+      - test
+  release:
+    types: [ published ]
+
+jobs:
+  push_to_registry:
+    name: Push Docker branch image to Docker Hub
+    runs-on: ubuntu-latest
+    steps:
+      - name: Check out the repo
+        uses: actions/checkout@v3
+
+      - name: Set up QEMU
+        uses: docker/setup-qemu-action@v2
+
+      - name: Set up Docker Buildx
+        uses: docker/setup-buildx-action@v2
+
+      - name: Log in to Docker Hub
+        uses: docker/login-action@v2
+        with:
+          username: ${{ secrets.DOCKERHUB_USERNAME }}
+          password: ${{ secrets.DOCKERHUB_TOKEN }}
+
+      - name: Extract metadata (tags, labels) for Docker
+        id: meta
+        uses: docker/metadata-action@v4
+        with:
+          images: agroportal/ontoportal_web_ui
+
+      - name: Build and push Docker image
+        uses: docker/build-push-action@v4
+        with:
+          context: .
+          platforms: linux/amd64,linux/arm64
+          build-args: |
+            RUBY_VERSION=2.7
+          push: true
+          tags: ${{ steps.meta.outputs.tags }}
+          labels: ${{ steps.meta.outputs.labels }}
diff --git a/.github/workflows/tests-real-data.yml b/.github/workflows/tests-real-data.yml
new file mode 100644
index 000000000..d2b410d5b
--- /dev/null
+++ b/.github/workflows/tests-real-data.yml
@@ -0,0 +1,52 @@
+# This workflow uses actions that are not certified by GitHub.
+# They are provided by a third-party and are governed by
+# separate terms of service, privacy policy, and support
+# documentation.
+# This workflow will download a prebuilt Ruby version, install dependencies and run tests with Rake
+# For more information see: https://github.com/marketplace/actions/setup-ruby-jruby-and-truffleruby
+name: "Run remote API tests CI"
+
+on:
+  push:
+  pull_request_target:
+    types: [ opened, reopened ]
+env:
+  API_URL: ${{ secrets.API_URL }}
+  API_KEY: ${{ secrets.API_KEY }}
+  BIOMIXER_URL: ${{ secrets.BIOMIXER_URL }}
+  FAIRNESS_URL: ${{ secrets.FAIRNESS_URL }}
+  ANNOTATOR_URL: ${{ secrets.ANNOTATOR_URL }}
+  DB_HOST: 127.0.0.1
+jobs:
+  test:
+    runs-on: ubuntu-latest
+    services:
+      mysql:
+        image: mysql:8.0
+        ports:
+          - "3306:3306"
+        env:
+          MYSQL_ROOT_PASSWORD: root
+      memcached:
+        image: memcached:1.6
+        ports:
+          - 11211:11211
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v3
+      # Add or replace dependency steps here
+      - name: Install Ruby and gems
+        uses: ruby/setup-ruby@v1
+        with:
+          ruby-version: 2.7.8
+          bundler-cache: true
+      # Add or replace database setup steps here
+      - name: set up config file
+        run: cp config/database.yml.sample config/database.yml
+      - name: Set up database schema
+        run: RAILS_ENV=test bin/rails db:setup
+      - name: Set up yarn
+        run: yarn install
+      # Add or replace test runners here
+      - name: Run tests
+        run:  RAILS_ENV=test bin/rails test test/controllers/* -v
\ No newline at end of file
diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index ec6dde7e7..9a3d8c966 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -4,28 +4,30 @@
 # documentation.
 # This workflow will download a prebuilt Ruby version, install dependencies and run tests with Rake
 # For more information see: https://github.com/marketplace/actions/setup-ruby-jruby-and-truffleruby
-name: "Ruby on Rails CI"
+name: "Run local API tests CI"
 
 on:
   push:
   pull_request_target:
     types: [ opened, reopened ]
 env:
-  API_URL: ${{ secrets.API_URL }}
-  API_KEY: ${{ secrets.API_KEY }}
+  API_URL: http://localhost:9393
+  REMOTE_API_KEY: 8b5b7825-538d-40e0-9e9e-5ab9274a9aeb
+  REMOTE_API_URL: https://data.bioontology.org
   BIOMIXER_URL: ${{ secrets.BIOMIXER_URL }}
   FAIRNESS_URL: ${{ secrets.FAIRNESS_URL }}
   ANNOTATOR_URL: ${{ secrets.ANNOTATOR_URL }}
+  DB_HOST: 127.0.0.1
 jobs:
   test:
     runs-on: ubuntu-latest
     services:
       mysql:
-        image: mysql:latest
+        image: mysql:8.0
         ports:
           - "3306:3306"
         env:
-          MYSQL_ROOT_PASSWORD: 'bp_user'
+          MYSQL_ROOT_PASSWORD: root
       memcached:
         image: memcached:1.6
         ports:
@@ -39,6 +41,10 @@ jobs:
         with:
           ruby-version: 2.7.8
           bundler-cache: true
+
+      - name: Run OntoPortal API
+        run: bin/run_api -k ${{ env.REMOTE_API_KEY }} -r agroportal -t stage -s STY -u ${{ env.REMOTE_API_URL }}
+
       # Add or replace database setup steps here
       - name: set up config file
         run: cp config/database.yml.sample config/database.yml
@@ -48,4 +54,4 @@ jobs:
         run: yarn install
       # Add or replace test runners here
       - name: Run tests
-        run: RAILS_ENV=test bin/rails test -v
\ No newline at end of file
+        run:  RAILS_ENV=test bin/rails test -v
\ No newline at end of file
diff --git a/Dockerfile b/Dockerfile
index 88f019fdb..25a479745 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -1,50 +1,50 @@
-FROM ruby:2.7.5-alpine AS app
-
+# Make sure it matches the Ruby version in .ruby-version and Gemfile
+ARG RUBY_VERSION=3.2.0
+FROM ruby:${RUBY_VERSION}-alpine
+
+# Install libvips for Active Storage preview support
+RUN apk add --no-cache build-base \
+                       libxml2-dev \
+                       libxslt-dev \
+                       mariadb-dev \
+                       git \
+                       tzdata \
+                       nodejs yarn \
+                       less \
+                       bash \
+                       docker \
+                       docker-compose \
+    && mkdir /node_modules
+
+# Rails app lives here
 WORKDIR /app
 
-ARG UID=1000
-ARG GID=1000
-
-RUN apk add --no-cache \
-    build-base \
-    libxml2-dev \
-    libxslt-dev \
-    mariadb-dev \
-    git \
-    nodejs \
-    tzdata \
-    yarn \
-    less \
-  && addgroup --gid ${GID} ruby \
-  && adduser  -u ${UID} -G ruby -D  ruby \
-  && chown ruby:ruby -R /app \
-  && mkdir /node_modules \
-  && chown ruby:ruby -R /node_modules /app
-
-USER ruby
-
-COPY --chown=ruby:ruby bin/ ./bin
-RUN chmod 0755 bin/*
-
+# Set production environment
 ARG RAILS_ENV="production"
+ARG BUNDLE_WITHOUT="development test"
 
-ENV RAILS_ENV="${RAILS_ENV}" \
-    NODE_ENV="${NODE_ENV}" \
-    PATH="${PATH}:/home/ruby/.local/bin:/node_modules/.bin" \
-    USER="ruby" \
-    BUNDLE_PATH=/usr/local/bundle
-
-COPY --chown=ruby:ruby Gemfile* ./
-RUN bundle install --jobs "$(nproc)"
-RUN gem install rails 
-
+ENV RAILS_LOG_TO_STDOUT="1" \
+    RAILS_SERVE_STATIC_FILES="true" \
+    RAILS_ENV="${RAILS_ENV}" \
+    BUNDLE_PATH=/usr/local/bundle \
+    BUNDLE_WITHOUT="${BUNDLE_WITHOUT}"
 
+RUN gem update --system --no-document && \
+    gem install -N bundler
+COPY Gemfile* .
+RUN bundle install
 
 RUN echo "--modules-folder /node_modules" > .yarnrc
-COPY --chown=ruby:ruby package.json *yarn* ./
+COPY package.json *yarn* ./
 RUN yarn install
 
+COPY . .
+
+# Precompile bootsnap code for faster boot times
+RUN bundle exec bootsnap precompile --gemfile app/ lib/
+
 
+ENV BINDING="0.0.0.0"
 EXPOSE 3000
 
-CMD ["sh"]
\ No newline at end of file
+CMD ["bash"]
\ No newline at end of file
diff --git a/Gemfile b/Gemfile
index fd3d45f4b..64968c1a5 100644
--- a/Gemfile
+++ b/Gemfile
@@ -57,7 +57,7 @@ gem 'i18n'
 gem 'rails-i18n', '~> 7.0.0'
 gem 'iconv'
 gem 'multi_json'
-gem 'mysql2', '0.5.3'
+gem 'mysql2'
 gem 'oj'
 gem 'open_uri_redirections'
 gem 'pry'
diff --git a/Gemfile.lock b/Gemfile.lock
index f7c16a9bc..fa8c7a40a 100644
--- a/Gemfile.lock
+++ b/Gemfile.lock
@@ -90,6 +90,7 @@ GEM
     ast (2.4.2)
     autoprefixer-rails (10.4.15.0)
       execjs (~> 2)
+    base64 (0.2.0)
     bcrypt_pbkdf (1.1.0)
     better_html (2.0.2)
       actionview (>= 6.0)
@@ -100,7 +101,7 @@ GEM
       smart_properties
     bindata (2.4.15)
     bindex (0.8.1)
-    bootsnap (1.16.0)
+    bootsnap (1.17.0)
       msgpack (~> 1.2)
     bootstrap (4.2.1)
       autoprefixer-rails (>= 9.1.0)
@@ -143,7 +144,7 @@ GEM
     cube-ruby (0.0.3)
     daemons (1.4.1)
     dalli (3.2.6)
-    date (3.3.3)
+    date (3.3.4)
     debug (1.8.0)
       irb (>= 1.5.0)
       reline (>= 0.3.1)
@@ -174,7 +175,7 @@ GEM
     flamegraph (0.9.5)
     globalid (1.2.1)
       activesupport (>= 6.1)
-    graphql (2.1.3)
+    graphql (2.1.6)
       racc (~> 1.4)
     graphql-client (0.18.0)
       activesupport (>= 3.0)
@@ -208,14 +209,15 @@ GEM
       rainbow (>= 2.2.2, < 4.0)
       terminal-table (>= 1.5.1)
     iconv (1.0.8)
-    importmap-rails (1.2.1)
+    importmap-rails (1.2.3)
       actionpack (>= 6.0.0)
+      activesupport (>= 6.0.0)
       railties (>= 6.0.0)
     inline_svg (1.9.0)
       activesupport (>= 3.0)
       nokogiri (>= 1.6)
     io-console (0.6.0)
-    irb (1.8.3)
+    irb (1.9.0)
       rdoc
       reline (>= 0.3.8)
     iso-639 (0.3.6)
@@ -273,18 +275,18 @@ GEM
     multi_json (1.15.0)
     multi_xml (0.6.0)
     multipart-post (2.3.0)
-    mysql2 (0.5.3)
+    mysql2 (0.5.5)
     net-ftp (0.2.0)
       net-protocol
       time
-    net-http (0.3.2)
+    net-http (0.4.0)
       uri
-    net-imap (0.4.1)
+    net-imap (0.4.4)
       date
       net-protocol
     net-pop (0.1.2)
       net-protocol
-    net-protocol (0.2.1)
+    net-protocol (0.2.2)
       timeout
     net-scp (4.0.0)
       net-ssh (>= 2.6.5, < 8.0.0)
@@ -292,7 +294,8 @@ GEM
       net-protocol
     net-ssh (7.2.0)
     netrc (0.11.0)
-    newrelic_rpm (9.5.0)
+    newrelic_rpm (9.6.0)
+      base64
     nio4r (2.5.9)
     nokogiri (1.15.4-x86_64-darwin)
       racc (~> 1.4)
@@ -390,7 +393,7 @@ GEM
       thor (~> 1.0)
       zeitwerk (~> 2.5)
     rainbow (3.1.1)
-    rake (13.0.6)
+    rake (13.1.0)
     rb-fsevent (0.11.2)
     rb-inotify (0.10.1)
       ffi (~> 1.0)
@@ -489,9 +492,9 @@ GEM
       rack (>= 1, < 3)
     thor (1.2.2)
     tilt (2.3.0)
-    time (0.2.2)
+    time (0.3.0)
       date
-    timeout (0.4.0)
+    timeout (0.4.1)
     turbo-rails (1.5.0)
       actionpack (>= 6.0.0)
       activejob (>= 6.0.0)
@@ -505,7 +508,7 @@ GEM
       concurrent-ruby (~> 1.0)
     unf (0.1.4)
       unf_ext
-    unf_ext (0.0.8.2)
+    unf_ext (0.0.9)
     unicode-display_width (2.5.0)
     uri (0.12.2)
     version_gem (1.1.3)
@@ -533,7 +536,6 @@ GEM
     zeitwerk (2.6.11)
 
 PLATFORMS
-  x86_64-darwin-21
   x86_64-darwin-23
   x86_64-linux
   x86_64-linux-musl
@@ -573,7 +575,7 @@ DEPENDENCIES
   listen
   lookbook (~> 1.5.5)
   multi_json
-  mysql2 (= 0.5.3)
+  mysql2
   net-ftp (~> 0.2.0)
   net-http
   newrelic_rpm
diff --git a/README b/README
deleted file mode 100644
index 0d6affddc..000000000
--- a/README
+++ /dev/null
@@ -1,182 +0,0 @@
-== Welcome to Rails
-
-Rails is a web-application and persistence framework that includes everything
-needed to create database-backed web-applications according to the
-Model-View-Control pattern of separation. This pattern splits the view (also
-called the presentation) into "dumb" templates that are primarily responsible
-for inserting pre-built data in between HTML tags. The model contains the
-"smart" domain objects (such as Account, Product, Person, Post) that holds all
-the business logic and knows how to persist themselves to a database. The
-controller handles the incoming requests (such as Save New Account, Update
-Product, Show Post) by manipulating the model and directing data to the view.
-
-In Rails, the model is handled by what's called an object-relational mapping
-layer entitled Active Record. This layer allows you to present the data from
-database rows as objects and embellish these data objects with business logic
-methods. You can read more about Active Record in
-link:files/vendor/rails/activerecord/README.html.
-
-The controller and view are handled by the Action Pack, which handles both
-layers by its two parts: Action View and Action Controller. These two layers
-are bundled in a single package due to their heavy interdependence. This is
-unlike the relationship between the Active Record and Action Pack that is much
-more separate. Each of these packages can be used independently outside of
-Rails.  You can read more about Action Pack in
-link:files/vendor/rails/actionpack/README.html.
-
-
-== Getting started
-
-1. At the command prompt, start a new rails application using the rails command
-   and your application name. Ex: rails myapp
-   (If you've downloaded rails in a complete tgz or zip, this step is already done)
-2. Change directory into myapp and start the web server: <tt>script/server</tt> (run with --help for options)
-3. Go to http://localhost:3000/ and get "Welcome aboard: You’re riding the Rails!"
-4. Follow the guidelines to start developing your application
-
-
-== Web Servers
-
-By default, Rails will try to use Mongrel and lighttpd if they are installed, otherwise
-Rails will use the WEBrick, the webserver that ships with Ruby. When you run script/server,
-Rails will check if Mongrel exists, then lighttpd and finally fall back to WEBrick. This ensures
-that you can always get up and running quickly.
-
-Mongrel is a Ruby-based webserver with a C-component (which requires compilation) that is
-suitable for development and deployment of Rails applications. If you have Ruby Gems installed,
-getting up and running with mongrel is as easy as: <tt>gem install mongrel</tt>.
-More info at: http://mongrel.rubyforge.org
-
-If Mongrel is not installed, Rails will look for lighttpd. It's considerably faster than
-Mongrel and WEBrick and also suited for production use, but requires additional
-installation and currently only works well on OS X/Unix (Windows users are encouraged
-to start with Mongrel). We recommend version 1.4.11 and higher. You can download it from
-http://www.lighttpd.net.
-
-And finally, if neither Mongrel or lighttpd are installed, Rails will use the built-in Ruby
-web server, WEBrick. WEBrick is a small Ruby web server suitable for development, but not
-for production.
-
-But of course its also possible to run Rails on any platform that supports FCGI.
-Apache, LiteSpeed, IIS are just a few. For more information on FCGI,
-please visit: http://wiki.rubyonrails.com/rails/pages/FastCGI
-
-
-== Debugging Rails
-
-Have "tail -f" commands running on the server.log and development.log. Rails will
-automatically display debugging and runtime information to these files. Debugging
-info will also be shown in the browser on requests from 127.0.0.1.
-
-
-== Breakpoints
-
-Breakpoint support is available through the script/breakpointer client. This
-means that you can break out of execution at any point in the code, investigate
-and change the model, AND then resume execution! Example:
-
-  class WeblogController < ActionController::Base
-    def index
-      @posts = Post.find(:all)
-      breakpoint "Breaking out from the list"
-    end
-  end
-
-So the controller will accept the action, run the first line, then present you
-with a IRB prompt in the breakpointer window. Here you can do things like:
-
-Executing breakpoint "Breaking out from the list" at .../webrick_server.rb:16 in 'breakpoint'
-
-  >> @posts.inspect
-  => "[#<Post:0x14a6be8 @attributes={\"title\"=>nil, \"body\"=>nil, \"id\"=>\"1\"}>,
-       #<Post:0x14a6620 @attributes={\"title\"=>\"Rails you know!\", \"body\"=>\"Only ten..\", \"id\"=>\"2\"}>]"
-  >> @posts.first.title = "hello from a breakpoint"
-  => "hello from a breakpoint"
-
-...and even better is that you can examine how your runtime objects actually work:
-
-  >> f = @posts.first
-  => #<Post:0x13630c4 @attributes={"title"=>nil, "body"=>nil, "id"=>"1"}>
-  >> f.
-  Display all 152 possibilities? (y or n)
-
-Finally, when you're ready to resume execution, you press CTRL-D
-
-
-== Console
-
-You can interact with the domain model by starting the console through <tt>script/console</tt>.
-Here you'll have all parts of the application configured, just like it is when the
-application is running. You can inspect domain models, change values, and save to the
-database. Starting the script without arguments will launch it in the development environment.
-Passing an argument will specify a different environment, like <tt>script/console production</tt>.
-
-To reload your controllers and models after launching the console run <tt>reload!</tt>
-
-To reload your controllers and models after launching the console run <tt>reload!</tt>
-
-
-
-== Description of contents
-
-app
-  Holds all the code that's specific to this particular application.
-
-app/controllers
-  Holds controllers that should be named like weblogs_controller.rb for
-  automated URL mapping. All controllers should descend from ApplicationController
-  which itself descends from ActionController::Base.
-
-app/models
-  Holds models that should be named like post.rb.
-  Most models will descend from ActiveRecord::Base.
-
-app/views
-  Holds the template files for the view that should be named like
-  weblogs/index.rhtml for the WeblogsController#index action. All views use eRuby
-  syntax.
-
-app/views/layouts
-  Holds the template files for layouts to be used with views. This models the common
-  header/footer method of wrapping views. In your views, define a layout using the
-  <tt>layout :default</tt> and create a file named default.rhtml. Inside default.rhtml,
-  call <% yield %> to render the view using this layout.
-
-app/helpers
-  Holds view helpers that should be named like weblogs_helper.rb. These are generated
-  for you automatically when using script/generate for controllers. Helpers can be used to
-  wrap functionality for your views into methods.
-
-config
-  Configuration files for the Rails environment, the routing map, the database, and other dependencies.
-
-components
-  Self-contained mini-applications that can bundle together controllers, models, and views.
-
-db
-  Contains the database schema in schema.rb.  db/migrate contains all
-  the sequence of Migrations for your schema.
-
-doc
-  This directory is where your application documentation will be stored when generated
-  using <tt>rake doc:app</tt>
-
-lib
-  Application specific libraries. Basically, any kind of custom code that doesn't
-  belong under controllers, models, or helpers. This directory is in the load path.
-
-public
-  The directory available for the web server. Contains subdirectories for images, stylesheets,
-  and javascripts. Also contains the dispatchers and the default HTML files. This should be
-  set as the DOCUMENT_ROOT of your web server.
-
-script
-  Helper scripts for automation and generation.
-
-test
-  Unit and functional tests along with fixtures. When using the script/generate scripts, template
-  test files will be generated for you and placed in this directory.
-
-vendor
-  External libraries that the application depends on. Also includes the plugins subdirectory.
-  This directory is in the load path.
diff --git a/README.md b/README.md
index 33bdfb964..da0a39912 100644
--- a/README.md
+++ b/README.md
@@ -1,130 +1,15 @@
-bioportal_web_ui
-================
-
-A rails application for biological ontologies, see http://bioportal.bioontology.org/
-
-## Todo
-
-### Finir les metadata (grosse prio)
-
-#### Grosses tâches
-
-* Faire en sorte de bien récupèrer quand on a des array de metadata (en ajoutant les champs)
-  * Faire une method générique (genre une class) qui permet de facilement distinguer les types de metadata (pas besoin d'ajouter les champs en dur dans le code)
-
-* Passer à bootstrap pour faire le joli layout?
-  * Dans un premier temps import bootstrap seulement dans le form?
-  * On pourrait faire des col pour ranger les metadata par "dates", "description", "links" dans des panels bootstrap
-
-* Meilleur affichage des metadata :
-  * Bouton pour les valeurs qui reviennent tout le temps
-
-#### Plein de petits todo
-
-* Permettre de filtrer les ontos en fct des metadata 
-Voir col P : https://docs.google.com/spreadsheets/d/1r1twxJvXdQXrkX0Ocis6YY08nlO5cGneCAQ5F7U_CoA/edit#gid=0
-Surtout dans les pages browse et welcome (voir les trucs en orange). Page Landscape plus tard
-
-Le but c'est d'avoir des résultats visibles
-
-* 3 blocks dans edit submission metadata
-  * Origin
-  * Toutes les prop qui ont la valeur S (colonne Q de docs.google Review of metadata prop) pour Simple
-  * Toutes les prop qui ont la valeur C (colonne Q de docs.google Review of metadata prop) pour Complete
-
-
-**SEPARER License, onto hasSyntax, etc. Des meatdata de base de NCBO**
-
-**Change tout**
-* Premier bloc avec les metadata pas du tout extraites (formats, contact, file upload...)
-* 2eme bloc avec les metadata que le portal utilise: description, documentation...
-* Expliquer que quand on ajoute un fichier les metadata sont updatés avec les metadata contenues dans le fichier (après le bloc des metadata non extraites)a
-
-X Add contact > même type de bouton que Add new Language
-
-Petit ? quand tu le survoles on dit qu'on extrait normalement cette metadata de l'onto à partir de: list des metadata mappings
-Et on note "omv:description + rdfs:comment" quand on prend les valeurs de chaque propriété
-Trouver comment montrer qu'on prend omv:naturalLanguage plusieurs fois si remplis plusieurs fois
-
-Rassembler toutes les dates ensembles (au lieu de simple et complete) dans un même table
-
-X Attention date picker par défaut marche pas sur firefox (utiliser date picker de jQuery, celui used par NCBO)
-
-Mettre des espaces : HASCONTRIBUTOR & cie
-
-Afficher dans l'interface graphique quelle metadata on remplis par défaut (on les met toutes au même endroit ?)
-
-TODO list : mettre un champ text plus gros ? (comme description)
-
-Le but est d'éviter d'avoir un gros listing indigeste de metadata
-
-Exemple :
-Sous description ajouter bouton "voulez-vous ajouter un abstract?" 
-Sous release date "voulez-vous ajouter d'autre dates"
-Sous contact "voulez-vous ajouter d'autres peoples" ?
-Sous publisher "voulez-vous ajouter d'autre rôle d'institut etc"
-
-Depiction et logo à côté l'un de l'autre
-
-Generalizes, HASDISJUNCTIONSWITH, et toutes les metadata de relations entre onto: faire en sorte de pouvoir choisir des ontos dans BioPortal (pitit popip)
-
-Dans Default Properties sur le spreadsheet des metadata elles sont groupées
-
-
-* Dans browse: permettre de trier dans l'ordre alphabétique
-* Ajouter des petits drapeaux à côté des naturalLang (dans browse et dans la page de présentation des submissions)
-
-* IncludedInDataCatalog: faudrait avoir des boutons plutôt (voir avec logo, pour les catalogs connus comme ontobee)
-
-* Handling des metadata plus propre et
-
-
-### Fermer les issues
-
-
-
-### Page Welcome
-
-https://github.com/sifrproject/bioportal_web_ui/issues/12
-https://github.com/agroportal/agroportal_web_ui/issues/59
-
-
-Dans links par exemple on peut mettre "need an ontology mapper: yamplusplus.lirmm.fr"
-
-Feed twitter: https://support.twitter.com/articles/20170071
-https://twitter.com/agrohackathon
-
-
-## Resolve problems
-
-* Ca lag beaucoup sur des ontos avec beaucoup de submissions (comme TRANSMAT sur AgroPortal)
-
-* En particulier quand on ajoute une nouvelle submission
-
-* Add New submission bug parfois (avec uploadFile) : faire des tests, s'il faut ça fait un moment que ça plante sans qu'on s'en rende compte (on utilise beaucoup l'URL en ce moment)
-```ruby
-TypeError (no implicit conversion of Symbol into Integer):
-  app/controllers/submissions_controller.rb:28:in `[]'
-  app/controllers/submissions_controller.rb:28:in `create'
-
-
-# Following line bugs
-if @errors[:error][:uploadFilePath] && @errors[:error][:uploadFilePath].first[:options]
-end
+### Configuration
+```
+cp .env.sample .env 
 ```
 
-## How to
-
-### Add a facet filter for a metadata in browse
-
-In 3 files :
-* app/views/ontologies/browse.html.erb
-* public/browse/app.js
-* app/controllers/ontologies_controller.rb
-
-
-## Log to production.log
+### Run dev
+```bash 
+bin/ontoportal dev 
+```
 
-```ruby
-Rails.logger.warn "Submission params: #{params[:submission]}"
+### Run test with a local OntoPortal API  
+```bash 
+bin/ontoportal test 
 ```
+
diff --git a/README.rdoc b/README.rdoc
deleted file mode 100644
index 3e1c15c81..000000000
--- a/README.rdoc
+++ /dev/null
@@ -1,261 +0,0 @@
-== Welcome to Rails
-
-Rails is a web-application framework that includes everything needed to create
-database-backed web applications according to the Model-View-Control pattern.
-
-This pattern splits the view (also called the presentation) into "dumb"
-templates that are primarily responsible for inserting pre-built data in between
-HTML tags. The model contains the "smart" domain objects (such as Account,
-Product, Person, Post) that holds all the business logic and knows how to
-persist themselves to a database. The controller handles the incoming requests
-(such as Save New Account, Update Product, Show Post) by manipulating the model
-and directing data to the view.
-
-In Rails, the model is handled by what's called an object-relational mapping
-layer entitled Active Record. This layer allows you to present the data from
-database rows as objects and embellish these data objects with business logic
-methods. You can read more about Active Record in
-link:files/vendor/rails/activerecord/README.html.
-
-The controller and view are handled by the Action Pack, which handles both
-layers by its two parts: Action View and Action Controller. These two layers
-are bundled in a single package due to their heavy interdependence. This is
-unlike the relationship between the Active Record and Action Pack that is much
-more separate. Each of these packages can be used independently outside of
-Rails. You can read more about Action Pack in
-link:files/vendor/rails/actionpack/README.html.
-
-
-== Getting Started
-
-1. At the command prompt, create a new Rails application:
-       <tt>rails new myapp</tt> (where <tt>myapp</tt> is the application name)
-
-2. Change directory to <tt>myapp</tt> and start the web server:
-       <tt>cd myapp; rails server</tt> (run with --help for options)
-
-3. Go to http://localhost:3000/ and you'll see:
-       "Welcome aboard: You're riding Ruby on Rails!"
-
-4. Follow the guidelines to start developing your application. You can find
-the following resources handy:
-
-* The Getting Started Guide: http://guides.rubyonrails.org/getting_started.html
-* Ruby on Rails Tutorial Book: http://www.railstutorial.org/
-
-
-== Debugging Rails
-
-Sometimes your application goes wrong. Fortunately there are a lot of tools that
-will help you debug it and get it back on the rails.
-
-First area to check is the application log files. Have "tail -f" commands
-running on the server.log and development.log. Rails will automatically display
-debugging and runtime information to these files. Debugging info will also be
-shown in the browser on requests from 127.0.0.1.
-
-You can also log your own messages directly into the log file from your code
-using the Ruby logger class from inside your controllers. Example:
-
-  class WeblogController < ActionController::Base
-    def destroy
-      @weblog = Weblog.find(params[:id])
-      @weblog.destroy
-      logger.info("#{Time.now} Destroyed Weblog ID ##{@weblog.id}!")
-    end
-  end
-
-The result will be a message in your log file along the lines of:
-
-  Mon Oct 08 14:22:29 +1000 2007 Destroyed Weblog ID #1!
-
-More information on how to use the logger is at http://www.ruby-doc.org/core/
-
-Also, Ruby documentation can be found at http://www.ruby-lang.org/. There are
-several books available online as well:
-
-* Programming Ruby: http://www.ruby-doc.org/docs/ProgrammingRuby/ (Pickaxe)
-* Learn to Program: http://pine.fm/LearnToProgram/ (a beginners guide)
-
-These two books will bring you up to speed on the Ruby language and also on
-programming in general.
-
-
-== Debugger
-
-Debugger support is available through the debugger command when you start your
-Mongrel or WEBrick server with --debugger. This means that you can break out of
-execution at any point in the code, investigate and change the model, and then,
-resume execution! You need to install ruby-debug to run the server in debugging
-mode. With gems, use <tt>sudo gem install ruby-debug</tt>. Example:
-
-  class WeblogController < ActionController::Base
-    def index
-      @posts = Post.all
-      debugger
-    end
-  end
-
-So the controller will accept the action, run the first line, then present you
-with a IRB prompt in the server window. Here you can do things like:
-
-  >> @posts.inspect
-  => "[#<Post:0x14a6be8
-          @attributes={"title"=>nil, "body"=>nil, "id"=>"1"}>,
-       #<Post:0x14a6620
-          @attributes={"title"=>"Rails", "body"=>"Only ten..", "id"=>"2"}>]"
-  >> @posts.first.title = "hello from a debugger"
-  => "hello from a debugger"
-
-...and even better, you can examine how your runtime objects actually work:
-
-  >> f = @posts.first
-  => #<Post:0x13630c4 @attributes={"title"=>nil, "body"=>nil, "id"=>"1"}>
-  >> f.
-  Display all 152 possibilities? (y or n)
-
-Finally, when you're ready to resume execution, you can enter "cont".
-
-
-== Console
-
-The console is a Ruby shell, which allows you to interact with your
-application's domain model. Here you'll have all parts of the application
-configured, just like it is when the application is running. You can inspect
-domain models, change values, and save to the database. Starting the script
-without arguments will launch it in the development environment.
-
-To start the console, run <tt>rails console</tt> from the application
-directory.
-
-Options:
-
-* Passing the <tt>-s, --sandbox</tt> argument will rollback any modifications
-  made to the database.
-* Passing an environment name as an argument will load the corresponding
-  environment. Example: <tt>rails console production</tt>.
-
-To reload your controllers and models after launching the console run
-<tt>reload!</tt>
-
-More information about irb can be found at:
-link:http://www.rubycentral.org/pickaxe/irb.html
-
-
-== dbconsole
-
-You can go to the command line of your database directly through <tt>rails
-dbconsole</tt>. You would be connected to the database with the credentials
-defined in database.yml. Starting the script without arguments will connect you
-to the development database. Passing an argument will connect you to a different
-database, like <tt>rails dbconsole production</tt>. Currently works for MySQL,
-PostgreSQL and SQLite 3.
-
-== Description of Contents
-
-The default directory structure of a generated Ruby on Rails application:
-
-  |-- app
-  |   |-- assets
-  |   |   |-- images
-  |   |   |-- javascripts
-  |   |   `-- stylesheets
-  |   |-- controllers
-  |   |-- helpers
-  |   |-- mailers
-  |   |-- models
-  |   `-- views
-  |       `-- layouts
-  |-- config
-  |   |-- environments
-  |   |-- initializers
-  |   `-- locales
-  |-- db
-  |-- doc
-  |-- lib
-  |   |-- assets
-  |   `-- tasks
-  |-- log
-  |-- public
-  |-- script
-  |-- test
-  |   |-- fixtures
-  |   |-- functional
-  |   |-- integration
-  |   |-- performance
-  |   `-- unit
-  |-- tmp
-  |   `-- cache
-  |       `-- assets
-  `-- vendor
-      |-- assets
-      |   |-- javascripts
-      |   `-- stylesheets
-      `-- plugins
-
-app
-  Holds all the code that's specific to this particular application.
-
-app/assets
-  Contains subdirectories for images, stylesheets, and JavaScript files.
-
-app/controllers
-  Holds controllers that should be named like weblogs_controller.rb for
-  automated URL mapping. All controllers should descend from
-  ApplicationController which itself descends from ActionController::Base.
-
-app/models
-  Holds models that should be named like post.rb. Models descend from
-  ActiveRecord::Base by default.
-
-app/views
-  Holds the template files for the view that should be named like
-  weblogs/index.html.erb for the WeblogsController#index action. All views use
-  eRuby syntax by default.
-
-app/views/layouts
-  Holds the template files for layouts to be used with views. This models the
-  common header/footer method of wrapping views. In your views, define a layout
-  using the <tt>layout :default</tt> and create a file named default.html.erb.
-  Inside default.html.erb, call <% yield %> to render the view using this
-  layout.
-
-app/helpers
-  Holds view helpers that should be named like weblogs_helper.rb. These are
-  generated for you automatically when using generators for controllers.
-  Helpers can be used to wrap functionality for your views into methods.
-
-config
-  Configuration files for the Rails environment, the routing map, the database,
-  and other dependencies.
-
-db
-  Contains the database schema in schema.rb. db/migrate contains all the
-  sequence of Migrations for your schema.
-
-doc
-  This directory is where your application documentation will be stored when
-  generated using <tt>rake doc:app</tt>
-
-lib
-  Application specific libraries. Basically, any kind of custom code that
-  doesn't belong under controllers, models, or helpers. This directory is in
-  the load path.
-
-public
-  The directory available for the web server. Also contains the dispatchers and the
-  default HTML files. This should be set as the DOCUMENT_ROOT of your web
-  server.
-
-script
-  Helper scripts for automation and generation.
-
-test
-  Unit and functional tests along with fixtures. When using the rails generate
-  command, template test files will be generated for you and placed in this
-  directory.
-
-vendor
-  External libraries that the application depends on. Also includes the plugins
-  subdirectory. If the app has frozen rails, those gems also go here, under
-  vendor/rails/. This directory is in the load path.
diff --git a/app/assets/stylesheets/theme-variables.scss.erb b/app/assets/stylesheets/theme-variables.scss.erb
index 9c467c8af..2e43abe68 100644
--- a/app/assets/stylesheets/theme-variables.scss.erb
+++ b/app/assets/stylesheets/theme-variables.scss.erb
@@ -1,5 +1,5 @@
 <%# This file contains all the color themes of ontoportal alliance%>
-<% if (ui_theme = $UI_THEME.to_s.parameterize).present? && File.exists?(Rails.root.join('app', 'assets', 'stylesheets', 'themes', ui_theme)) 
+<% if (ui_theme = $UI_THEME.to_s.parameterize)
     case ui_theme
     when "agroportal" %>
         :root{
@@ -27,24 +27,17 @@
             --light-color: #F0F5F6;
             --admin-color: #145FF4;
         }
-    <% when "testportal" %>
+    
+    <% when "ontoportal" , "testportal" %>
         :root{
-            --primary-color: #3CB371;
-            --hover-color: #41C67C;
+            --primary-color: #5499a4;
+            --hover-color: #6B96B7;
             --secondary-color: #ffc107;
+            --light-color: #F0F5F6;
             --admin-color: #145FF4;
             --light-color: #F1F6FA;
             --error-color: #EB4335;
         }
-
-    <% when "ontoportal" %>
-        :root{
-            --primary-color: #3CB371;
-            --hover-color: #41C67C;
-            --secondary-color: #ffc107;
-            --light-color: #F0F5F6;
-            --error-color: #EB4335;
-        }
     <%# Here to add a new theme ... %>
     <% end %>
 <% end %>
diff --git a/app/components/link_field_component.rb b/app/components/link_field_component.rb
index 211851b71..91640461f 100644
--- a/app/components/link_field_component.rb
+++ b/app/components/link_field_component.rb
@@ -10,7 +10,7 @@ def initialize(value:, raw: false)
 
 
   def internal_link?
-    @value.to_s.include?(URI.parse($REST_URL).hostname) || @value.to_s.include?($UI_HOSTNAME)
+    @value.to_s.include?(URI.parse($REST_URL).hostname) || @value.to_s.include?(URI.parse($UI_URL).hostname)
   end
 
 end
diff --git a/app/controllers/admin_controller.rb b/app/controllers/admin_controller.rb
index 90af90d25..1731b7b08 100644
--- a/app/controllers/admin_controller.rb
+++ b/app/controllers/admin_controller.rb
@@ -9,7 +9,7 @@ class AdminController < ApplicationController
                      :$DEBUG_BEFORE, :$stdout, :$-0, :$-l, :$-I, :$DEBUG, :$',
                      :$gems_rake_task, :$_, :$CODERAY_DEBUG, :$-F, :$", :$0, :$=, :$FILENAME, :$?,
                      :$!, :$rdebug_in_irb, :$-K, :$TESTING, :$fileutils_rb_have_lchmod,
-                     :$EMAIL_EXCEPTIONS, :$binding, :$-v, :$>, :$SAFE, :$/,
+                     :$binding, :$-v, :$>, :$SAFE, :$/,
                      :$fileutils_rb_have_lchown, :$-p, :$-W, :$:, :$__dbg_interface,
                      :$stderr, :$\, :$&, :$<, :$debug, :$;, :$~, :$-a,
                      :$DEBUG_RDOC, :$CGI_ENV, :$LOAD_PATH, :$-d, :$*, :$., :$-w, :$+,
diff --git a/app/controllers/application_controller.rb b/app/controllers/application_controller.rb
index 1c3bc48a0..8273cfae2 100644
--- a/app/controllers/application_controller.rb
+++ b/app/controllers/application_controller.rb
@@ -76,9 +76,6 @@ def detect_locale
 
   $trial_license_initialized = false
 
-  if !$EMAIL_EXCEPTIONS.nil? && $EMAIL_EXCEPTIONS == true
-    include ExceptionNotifiable
-  end
 
   # See ActionController::RequestForgeryProtection for details
   protect_from_forgery
@@ -128,10 +125,7 @@ def domain_ontology_set
     Thread.current[:slice] = @subdomain_filter
   end
 
-  def anonymous_user
-    user = DataAccess.getUser($ANONYMOUS_USER)
-    user ||= User.new({"id" => 0})
-  end
+
 
   def ontology_not_found(ontology_acronym)
     not_found("Ontology #{ontology_acronym} not found")
diff --git a/app/helpers/application_helper.rb b/app/helpers/application_helper.rb
index 9c21ee7e6..443f76df5 100644
--- a/app/helpers/application_helper.rb
+++ b/app/helpers/application_helper.rb
@@ -305,13 +305,6 @@ def error_message_alert
     end
   end
 
-  def anonymous_user
-    #
-    # TODO: Fix and failures from removing 'DataAccess' call here.
-    #
-    #user = DataAccess.getUser($ANONYMOUS_USER)
-    user ||= User.new({"id" => 0})
-  end
 
   def render_advanced_picker(custom_ontologies = nil, selected_ontologies = [], align_to_dom_id = nil)
     selected_ontologies ||= []
diff --git a/bin/ontoportal b/bin/ontoportal
new file mode 100755
index 000000000..fde87be37
--- /dev/null
+++ b/bin/ontoportal
@@ -0,0 +1,157 @@
+#!/usr/bin/env bash
+
+# Function to display script usage information
+show_help() {
+  echo "Usage: $0 {dev|test|run|help} [--reset-cache] [--api-url API_URL] [--api-key API_KEY]"
+  echo "  dev            : Start the Ontoportal Web UI development server."
+  echo "                  Example: $0 dev --api-url http://localhost:9393 --api-key my_api_key"
+  echo "                  Use --reset-cache to remove volumes: $0 dev --reset-cache"
+  echo "  test           : Run tests."
+  echo "  run            : Run a command in the Ontoportal Web UI Docker container."
+  echo "  help           : Show this help message."
+  echo
+  echo "Description:"
+  echo "  This script provides convenient commands for managing an Ontoportal Web UI"
+  echo "  application using Docker Compose. It includes options for starting the development server,"
+  echo "  running tests, and executing commands within the Ontoportal Web UI Docker container."
+  echo
+  echo "Goals:"
+  echo "  - Simplify common tasks related to Ontoportal Web UI development using Docker."
+  echo "  - Provide a consistent and easy-to-use interface for common actions."
+}
+# Function to update or create the .env file with API_URL and API_KEY
+update_env_file() {
+  local api_url="$1"
+  local api_key="$2"
+
+  # Update  the .env file with the provided values
+  file_content=$(<.env)
+
+  # Make changes to the variable
+  while IFS= read -r line; do
+        if [[ "$line" == "API_URL="* ]]; then
+          echo "API_URL=$api_url"
+        elif [[ "$line" == "API_KEY="* ]]; then
+          echo "API_KEY=$api_key"
+        else
+          echo "$line"
+        fi
+  done <<< "$file_content" > .env
+}
+
+# Function to create configuration files if they don't exist
+create_config_files() {
+  if [ ! -f ".env" ]; then
+      echo "Creating .env file from env.sample"
+      cp .env.sample .env
+  fi
+
+  if [ ! -f "config/bioportal_config_development.rb" ]; then
+    echo "Creating config/bioportal_config_development.rb file from config/bioportal_config_env.rb.sample"
+    cp config/bioportal_config_env.rb.sample config/bioportal_config_development.rb
+  fi
+
+  if [ ! -f "config/database.yml" ]; then
+    echo "Creating config/database.yml file from config/database.yml.sample"
+    cp config/database.yml.sample config/database.yml
+  fi
+}
+
+# Function to handle the "dev" option
+dev() {
+  echo "Starting Ontoportal Web UI development server..."
+  
+  create_config_files
+  local reset_cache=false
+  local api_url=""
+  local api_key=""
+
+  # Check for command line arguments
+  while [[ "$#" -gt 0 ]]; do
+    case $1 in
+      --reset-cache)
+        reset_cache=true
+        shift
+        ;;
+      --api-url)
+        api_url="$2"
+        shift 2
+        ;;
+      --api-key)
+        api_key="$2"
+        shift 2
+        ;;
+      *)
+        echo "Unknown option: $1"
+        show_help
+        exit 1
+        ;;
+    esac
+  done
+
+ 
+
+  # Check if arguments are provided
+  if [ -n "$api_url" ] && [ -n "$api_key" ]; then
+    # If arguments are provided, update the .env file
+    update_env_file "$api_url" "$api_key"
+  else
+    # If no arguments, fetch values from the .env file
+    source .env
+    api_url="$API_URL"
+    api_key="$API_KEY"
+  fi
+
+  if [ -z "$api_url" ] || [ -z "$api_key" ]; then
+    echo "Error: Missing required arguments. Please provide both --api-url and --api-key or update them in your .env"
+    exit 1
+  fi
+
+  # Check if --reset-cache is present and execute docker compose down --volumes
+  if [ "$reset_cache" = true ]; then
+    echo "Resetting cache. Running: docker compose down --volumes"
+    docker compose down --volumes
+  fi
+
+  echo "Run: bundle exec rails s -b 0.0.0.0 -p 3000"
+  docker compose run --rm -it --service-ports rails bash -c "(bundle check || bundle install) && bin/rails db:prepare && bundle exec rails s -b 0.0.0.0 -p 3000"
+}
+
+# Function to handle the "test" option
+test() {
+  echo "Running API..."
+  bin/run_api
+
+  echo "Running tests..."
+  echo "Run: API_URL=http://localhost:9393 bundle exec rails test -v $*"
+  docker compose run --rm -it test bash -c "(bundle check || bundle install) && RAILS_ENV=test bin/rails db:prepare && API_URL=http://localhost:9393 bundle exec rails test -v $*"
+
+  echo "Stopping API..."
+  bin/stop_api
+}
+
+# Function to handle the "run" option
+run() {
+  echo "Run: $*"
+  docker compose run --rm -it rails bash -c "$*"
+}
+
+# Main script logic
+case "$1" in
+  "run")
+    run "${@:2}"
+    ;;
+  "dev")
+    dev "${@:2}"
+    ;;
+  "test")
+    test "${@:2}"
+    ;;
+  "help")
+    show_help
+    ;;
+  *)
+    show_help
+    exit 1
+    ;;
+esac
diff --git a/bin/run_api b/bin/run_api
new file mode 100755
index 000000000..c44c794ba
--- /dev/null
+++ b/bin/run_api
@@ -0,0 +1,69 @@
+#!/bin/bash
+display_help() {
+  echo "Usage: $0 [options]"
+  echo "Options:"
+  echo "  -f             Remove tmp/ontoportal_docker"
+  echo "  -k API_KEY     API key"
+  echo "  -r REPOSITORY  Image repository"
+  echo "  -t TAG         Image tag"
+  echo "  -s ONTOLOGY    Starter ontology"
+  echo "  -u URL         Remote API URL"
+  echo "  -h             Display this help message"
+  exit 0
+}
+
+
+env_file_path="$(realpath "$(dirname "$0")")/../.env"
+
+# Read and parse the .env file
+if [ -f "$env_file_path" ]; then
+  while IFS='=' read -r key value; do
+    [[ "$key" =~ ^\s*# ]] && continue  # Skip commented lines
+    [[ "$value" ]] || continue  # Skip lines without values
+    export "$key"="$value"
+  done < "$env_file_path"
+fi
+
+
+while getopts ":k:r:t:s:u:fh" opt; do
+  case $opt in
+    k) api_key="$OPTARG" ;;
+    r) image_repository="$OPTARG" ;;
+    t) image_tag="$OPTARG" ;;
+    s) starter_ontology="$OPTARG" ;;
+    u) remote_api_url="$OPTARG" ;;
+    f) rm -fr tmp/ontoportal_docker ;;
+    h) display_help ;;
+    \?) echo "Invalid option: -$OPTARG" >&2; exit 1 ;;
+    :) echo "Option -$OPTARG requires an argument." >&2; exit 1 ;;
+  esac
+done
+
+
+
+if [ ! -d "tmp/ontoportal_docker" ]; then
+  git clone --depth=1 https://github.com/syphax-bouazzouni/ontoportal_docker.git tmp/ontoportal_docker
+fi
+
+# If an option is not provided, check and use the corresponding value from the environment variables
+api_key="${api_key:-$OP_API_KEY}"
+image_repository="${image_repository:-$API_IMAGE_REPOSITORY}"
+image_tag="${image_tag:-$API_IMAGE_TAG}"
+starter_ontology="${starter_ontology:-$STARTER_ONTOLOGY}"
+remote_api_url="${remote_api_url:-$OP_API_URL}"
+
+if curl -sSf http://localhost:9393 > /dev/null 2>&1;  then
+  echo "API is already running in http://localhost:9393"
+  exit 0
+fi
+
+# Check if the Docker Compose service exists
+docker compose ls -a --filter "name=ontoportal_docker" | grep -q "ontoportal_docker" && no_provision=true || no_provision=false
+(
+  cd tmp/ontoportal_docker || exit 1
+  command="./run -k $api_key -r $image_repository -t $image_tag -s $starter_ontology -u $remote_api_url"
+  [ "$no_provision" = true ] && command="$command --no-provision"
+  echo "Run: $command"
+  eval "$command"
+)
+
diff --git a/bin/stop_api b/bin/stop_api
new file mode 100755
index 000000000..930fc24dd
--- /dev/null
+++ b/bin/stop_api
@@ -0,0 +1,13 @@
+#!/usr/bin/env bash
+
+# Check if the directory exists
+if [ -d "tmp/ontoportal_docker" ]; then
+  # Check if the container is running
+  if docker ps --filter "name=ontoportal_docker-api" --format "{{.Names}}" | grep -q "ontoportal_docker-api"; then
+      container_names=$(docker ps --filter "name=ontoportal_docker-api" --format "{{.Names}}")
+      docker stop "$container_names"
+  fi
+
+   cd  "tmp/ontoportal_docker" && docker compose stop
+fi
+
diff --git a/config/bioportal_config_env.rb.sample b/config/bioportal_config_env.rb.sample
index 0f747779c..96624e79f 100644
--- a/config/bioportal_config_env.rb.sample
+++ b/config/bioportal_config_env.rb.sample
@@ -1,33 +1,17 @@
 # coding: utf-8
 
-#local IP address lookup.  This doesn't make connection to external hosts
-require 'socket'
-def local_ip   
-  orig, Socket.do_not_reverse_lookup = Socket.do_not_reverse_lookup, true  # turn off reverse DNS resolution temporarily
-
-  UDPSocket.open do |s|
-    s.connect '8.8.8.8', 1 #google
-    s.addr.last
-  end
-ensure
-  Socket.do_not_reverse_lookup = orig
-end
-
-$LOCAL_IP = local_ip
-
 # Organization info
-$ORG = "NCBO"
-$ORG_URL = "http://www.bioontology.org"
+$ORG = ENV['ORG']
+$ORG_URL = ENV['ORG_URL']
 
 # Site name (required)
-$SITE = "BioPortal"
-$SITE_URL = "localhost"
+$SITE = ENV['SITE']
 
 # Full string for site, EX: "NCBO BioPortal", do not modify
 $ORG_SITE = ($ORG.nil? || $ORG.empty?) ? $SITE : "#{$ORG} #{$SITE}"
 
 # The URL for the BioPortal Rails UI (this application)
-$UI_URL = "http://localhost:3000"
+$UI_URL = ENV['UI_URL']
 
 
 # If you are running a PURL server to provide URLs for ontologies in your BioPortal instance, enable this option
@@ -41,14 +25,24 @@ $PURL_PREFIX = "http://purl.bioontology.org/ontology"
 $ANNOTATOR_DISABLED = false
 
 # Unique string representing the UI's id for use with the BioPortal Core
-$API_KEY = ""
+$API_KEY = ENV['API_KEY']
 
 # BioPortal API service address
-$REST_URL = "http://example.org:8080/"
+$REST_URL = ENV['API_URL']
 
 # Annotator REST service address
 #$ANNOTATOR_URL = "http://services.stageportal.lirmm.fr/annotator"
-$ANNOTATOR_URL = "#{$REST_URL}/annotator"
+$ANNOTATOR_URL = ENV['ANNOTATOR_URL']
+
+# NCBO annotator URL and apikey
+$NCBO_ANNOTATORPLUS_ENABLED = ENV['NCBO_ANNOTATORPLUS_ENABLED']
+$NCBO_ANNOTATOR_URL = ENV['NCBO_ANNOTATOR_URL']
+$NCBO_API_KEY = ENV['NCBO_API_KEY']
+
+# Fairness Assessment.
+$FAIRNESS_DISABLED = ENV['FAIRNESS_DISABLED']
+$FAIRNESS_URL  = ENV['FAIRNESS_URL']
+
 
 # Announcements sympa mailing list REQUEST address, EX: list-request@lists.example.org
 $ANNOUNCE_LIST_SERVICE ||= "SERVICE_EXAMPLE"
@@ -97,7 +91,7 @@ $MULTIPLE_RECOGNIZERS = false
 
 # Remove download for these ontologies. Default:
 # ["CPT","ICD10","ICNP","ICPC2P","MDDB","MEDDRA","MSHFRE","MSHSPA_1","NDDF","NDFRT","NIC","RCD","SCTSPA","SNOMEDCT","WHO-ART"]
-$RESTRICTED_DOWNLOADS = ["MDRFRE", "WHO-ARTFRE", "MSHFRE", "CIM-10"]
+$RESTRICTED_DOWNLOADS = []
 
 # Ontolobridge endpoint url
 $ONTOLOBRIDGE_BASE_URL = "https://ontolobridge.ccs.miami.edu/api-test/requests"
@@ -111,38 +105,21 @@ $NEW_TERM_REQUEST_ONTOLOGIES = []
 # Legacy REST core service address (BioPortal v3.x and lower)
 $LEGACY_REST_URL = "http://example.org:8080/bioportal"
 
-# Max number of children to return when rendering a tree view
-$MAX_CHILDREN = 2500
-
-# Max number of children that it's possible to display (more than this is either too slow or not helpful to users)
-$MAX_POSSIBLE_DISPLAY = 10000
 
 # Release version text (appears in footer of all pages, except 404 and 500 errors)
-$RELEASE_VERSION = "4.24 (February 2016)"
+$RELEASE_VERSION = ENV['RELEASE_VERSION']
 
 # Enable Slices, filtering of ontologies based on subdomain and ontology groups
 $ENABLE_SLICES = false
 
 # Google Analytics ID (optional)
-$ANALYTICS_ID = ""
+$ANALYTICS_ID = ENV['ANALYTICS_ID']
 
-# A user id for user 'anonymous' for use when a user is required for an action on the REST service but you don't want to require a user to login
-$ANONYMOUS_USER = 0
 
-# Redis server to use for NCBO::Resolver
-$REDIS_HOST = ""
-$REDIS_PORT = 6379
-
-# Cube metrics reporting
-$ENABLE_CUBE = false
-$CUBE_HOST = "localhost"
-$CUBE_PORT = 1180
 
 # Enable client request caching
-$CLIENT_REQUEST_CACHING = false
+$CLIENT_REQUEST_CACHING = true
 
-# If you don't use Airbrake you can have exceptions emailed to the $ERROR_EMAIL address by setting this to 'true'
-$EMAIL_EXCEPTIONS = false
 
 # Email settings
 ActionMailer::Base.smtp_settings = {
@@ -153,13 +130,13 @@ ActionMailer::Base.smtp_settings = {
 
 # Announcements mailman mailing list REQUEST address, EX: list-request@lists.example.org
 # NOTE: You must use the REQUEST address for the mailing list. ONLY WORKS WITH MAILMAN LISTS.
-$ANNOUNCE_LIST = "sifrportal-users@lirmm.fr"
+$ANNOUNCE_LIST = ENV['SUPPORT_EMAIL']
 
 # Email addresses used for sending notifications (errors, feedback, support)
-$SUPPORT_EMAIL = "sifrportal-support@lirmm.fr"
+$SUPPORT_EMAIL = ENV['SUPPORT_EMAIL']
 
 # Email used to send notifications
-$NOTIFICATION_EMAIL = "notifications@bioportal.lirmm.fr"
+$NOTIFICATION_EMAIL = ENV['SUPPORT_EMAIL']
 
 # reCAPTCHA
 # In order to use reCAPTCHA on the account creation and feedback submission pages:
@@ -175,29 +152,11 @@ ENV['USE_RECAPTCHA'] = 'false'
 
 # Custom BioPortal logging
 require 'log'
-$REMOTE_LOGGING = false
-
-##
-# Flex Options
-##
-
-# URL to pull Flex apps from
-$FLEX_URL = "/flex"
-
-# Flex App API keys
-$ANNOTATOR_FLEX_APIKEY = ""
-$SEARCH_FLEX_APIKEY = ""
-$RECOMMENDER_FLEX_APIKEY = ""
-$FLEXOVIZ_APIKEY = ""
 
 # URL where BioMixer GWT app is located
 #$BIOMIXER_URL = "http://bioportal-integration.bio-mixer.appspot.com"
-$BIOMIXER_URL = "http://#{$SITE_URL}/BioMixer"
-
-# Array with all the additional ontology metadata to display in the ontology details
-$ADDITIONAL_ONTOLOGY_METADATA = ["naturalLanguage", "hasLicense", "notes", "modificationDate", "URI", "hasContributor", "hasCreator", "endorsedBy", "hasDomain",
-                                 "keyClasses", "keywords", "isOfType", "knowUsage", "designedForOntologyTask", "hasFormalityLevel", "usedImports", "usedKnowledgeRepresentationParadigm",
-                                 "usedOntologyEngineeringMethodology", "usedOntologyEngineeringTool"]
+$BIOMIXER_URL = ENV['BIOMIXER_URL']
+$BIOMIXER_APIKEY = ENV['BIOMIXER_APIKEY']
 
 ##
 # Custom Ontology Details
@@ -215,35 +174,78 @@ $FRONT_NOTICE = ''
 # EX: $SITE_NOTICE = { :unique_key => 'Put your message here (can include <a href="/link">html</a> if you use single quotes).' }
 $SITE_NOTICE = { }
 
-# Used in browse for facetted search to avoid having to call the API (for performance)
-$FORMALITY_LEVELS = {
-    "http://w3id.org/nkos/nkostype#classification_schema" => "Classification scheme",
-    "http://w3id.org/nkos/nkostype#dictionary" => "Dictionary",
-    "http://w3id.org/nkos/nkostype#gazetteer" => "Gazetteer",
-    "http://w3id.org/nkos/nkostype#glossary" => "Glossary",
-    "http://w3id.org/nkos/nkostype#list" => "List",
-    "http://w3id.org/nkos/nkostype#name_authority_list" => "Name authority list",
-    "http://w3id.org/nkos/nkostype#ontology" => "Ontology",
-    "http://w3id.org/nkos/nkostype#semantic_network" => "Semantic network",
-    "http://w3id.org/nkos/nkostype#subject_heading_scheme" => "Subject heading scheme",
-    "http://w3id.org/nkos/nkostype#synonym_ring" => "Synonym ring",
-    "http://w3id.org/nkos/nkostype#taxonomy" => "Taxonomy",
-    "http://w3id.org/nkos/nkostype#terminology" => "Terminology",
-    "http://w3id.org/nkos/nkostype#thesaurus" => "Thesaurus"
+$HOME_PAGE_LOGOS = {
+  supported_by: [
+    {
+      img_src: 'logos/supports/numev.png',
+      url: 'http://www.lirmm.fr/numev',
+      target: '_blank'
+    },
+    {
+      img_src: 'logos/supports/anr.png',
+      url: 'https://anr.fr/en',
+      target: '_blank'
+    },
+    {
+      img_src: 'logos/supports/eu.png',
+      url: 'https://commission.europa.eu/research-and-innovation_en',
+      target: '_blank'
+    }
+  ],
+  with_the_collaboration_of: [
+    {
+      img_src: 'logos/collaboration/d2kab.png',
+      url: 'http://d2kab.mystrikingly.com',
+      target: '_blank'
+    },
+    {
+      img_src: 'logos/collaboration/lirmm.png',
+      url: 'http://www.lirmm.fr',
+      target: '_blank'
+    },
+    {
+      img_src: 'logos/collaboration/inrae.png',
+      url: 'https://www.inrae.fr/enm',
+      target: '_blank'
+    },
+    {
+      img_src: 'logos/collaboration/stanford.png',
+      url: 'https://www.stanford.edu',
+      target: '_blank'
+    }
+  ]
 }
-$IS_OF_TYPE = {
-    "http://omv.ontoware.org/2005/05/ontology#ApplicationOntology" => "Application Ontology",
-    "http://omv.ontoware.org/2005/05/ontology#CoreOntology" => "Core Ontology",
-    "http://omv.ontoware.org/2005/05/ontology#DomainOntology" => "Domain Ontology",
-    "http://omv.ontoware.org/2005/05/ontology#TaskOntology" => "Task Ontology",
-    "http://omv.ontoware.org/2005/05/ontology#UpperLevelOntology" => "Upper Level Ontology",
-    "http://omv.ontoware.org/2005/05/ontology#Vocabulary" => "Vocabulary"
-}
-$NATURAL_LANGUAGES = {
-    "http://lexvo.org/id/iso639-3/eng" => "English",
-    "http://lexvo.org/id/iso639-3/fra" => "French",
-    "http://lexvo.org/id/iso639-3/spa" => "Spanish",
-    "http://lexvo.org/id/iso639-3/por" => "Portuguese",
-    "http://lexvo.org/id/iso639-3/ita" => "Italian",
-    "http://lexvo.org/id/iso639-3/deu" => "German"
+
+$FOOTER_LINKS = {
+  social: [
+    { logo: 'social/people.svg', link: 'https://github.com/orgs/agroportal/people' },
+    { logo: 'social/github.svg', link: 'https://github.com/agroportal' },
+    { logo: 'social/twitter.svg', link: 'https://twitter.com/lagroportal' }
+  ],
+  sections: {
+    products: {
+      ontoportal: 'https://ontoportal.org/',
+      release_notes: 'https://doc.jonquetlab.lirmm.fr/share/e6158eda-c109-4385-852c-51a42de9a412/doc/release-notes-btKjZk5tU2',
+      api: 'https://data.agroportal.lirmm.fr/',
+      sparql: 'https://sparql.agroportal.lirmm.fr/test/'
+    },
+    support: {
+      contact_us: 'https://agroportal.lirmm.fr/feedback',
+      wiki: 'https://www.bioontology.org/wiki/',
+      documentation: 'https://ontoportal.github.io/documentation/'
+    },
+    agreements: {
+      terms: '',
+      privacy_policy: '',
+      cite_us: '',
+      acknowledgments: ''
+    },
+    about: {
+      about_us: 'https://github.com/agroportal/project-management',
+      projects: 'https://d2kab.mystrikingly.com/',
+      team: 'https://github.com/orgs/agroportal/people'
+    }
+  }
 }
+
+$UI_THEME = ENV['UI_THEME'] || 'ontoportal'
diff --git a/config/database.yml.sample b/config/database.yml.sample
index 463e3ebea..6edf6ed31 100644
--- a/config/database.yml.sample
+++ b/config/database.yml.sample
@@ -13,8 +13,8 @@ default: &default
   adapter: mysql2
   encoding: utf8mb4
   username: root
-  password: bp_user
-  host: 127.0.0.1
+  password: root
+  host: <%= ENV["DB_HOST"] %>
 
 development:
   <<: *default
diff --git a/config/environments/development.rb b/config/environments/development.rb
index b595b87cd..a7d82faf4 100644
--- a/config/environments/development.rb
+++ b/config/environments/development.rb
@@ -16,7 +16,9 @@
 
   # Enable server timing
   config.server_timing = true
-
+  
+   # Allow all hosts in development
+   config.hosts = nil
   # Enable/disable caching. By default caching is disabled.
   # Run rails dev:cache to toggle caching.
   if Rails.root.join("tmp/caching-dev.txt").exist?
diff --git a/config/initializers/omniauth.rb b/config/initializers/omniauth.rb
index af53788f9..c7c4027c3 100644
--- a/config/initializers/omniauth.rb
+++ b/config/initializers/omniauth.rb
@@ -1,5 +1,5 @@
 Rails.application.config.middleware.use OmniAuth::Builder do
-  $OMNIAUTH_PROVIDERS.each do |provider, config|
+  Array($OMNIAUTH_PROVIDERS).each do |provider, config|
     provider config[:strategy] || provider, config[:client_id], config[:client_secret], client_options: {}.merge(config[:client_options].to_h)
   end
 end
\ No newline at end of file
diff --git a/docker-compose.yml b/docker-compose.yml
index 38be0278f..03a188dd3 100644
--- a/docker-compose.yml
+++ b/docker-compose.yml
@@ -1,52 +1,80 @@
 x-app: &default-app
-  build:
-    context: "."
-    target: "app"
-    args:
-      - "UID=${UID:-1000}"
-      - "GID=${GID:-1000}"
-      - "RAILS_ENV=${RAILS_ENV:-production}"
-      - "NODE_ENV=${NODE_ENV:-production}"
-  depends_on:
-    - "db"
-    - "cache"
-  links:
-    - "db"
-    - "cache"
+  image: agroportal/ontoportal_web_ui:test
   env_file:
     - ".env"
   tty: true
   volumes:
-    - "${DOCKER_WEB_VOLUME}"
-    -  bundle:/usr/local/bundle
+    - .:/app
+    - bundle:/usr/local/bundle
     - node:/node_modules
+    - rails_cache:/app/tmp/cache
+    - assets:/app/public/assets
+    - /var/run/docker.sock:/var/run/docker.sock
+  tmpfs:
+    - /tmp
+    - /app/tmp/pids
 
 services:
   db:
-    environment:
-      MYSQL_ROOT_PASSWORD: 'bp_user'
-    image: "mysql:latest"
-    profiles: ["db"]
+    image: "mysql:8.0"
+    networks:
+      - default
+    volumes:
+      - mysql-data:/var/lib/mysql
     ports:
       - "3306:3306"
-    volumes:
-      - db-v:/var/lib/mysql
+    environment:
+      MYSQL_ROOT_PASSWORD: root
+    healthcheck:
+      test: ["CMD", "mysqladmin", "ping", "-h", "localhost"]
+      timeout: 5s
+      retries: 3  
+
   cache:
-    deploy:
-      resources:
-        limits:
-          cpus: "${DOCKER_REDIS_CPUS:-0}"
-          memory: "${DOCKER_REDIS_MEMORY:-0}"
-    image: "memcached:1.6.17-bullseye"
-    profiles: ["cache"]
+    image: memcached:latest
+    restart: unless-stopped
+    command: [ "-m", "1024" ]
+    networks:
+      - default
+    ports:
+      - "11211:11211"
+  node:
+    <<: *default-app
+    command: "yarn build --watch"
 
-  web:
+  rails:
     <<: *default-app
+    depends_on:
+      db:
+        condition: service_healthy
+      cache:
+        condition: service_started
+      node:
+        condition: service_started
+    links:
+      - db
+      - cache
+    environment:
+      BUNDLE_WITHOUT: ''
+      DB_HOST: db
+      CACHE_HOST: cache
     ports:
-      - "${DOCKER_WEB_PORT_FORWARD:-127.0.0.1:3000}:${PORT:-3000}"
-    profiles: ["web"]
-    command: "yarn build --watch"
+      - "3000:3000"
+  test:
+    <<: *default-app
+    depends_on:
+      - db
+      - cache
+    network_mode: 'host'
+    environment:
+      BUNDLE_WITHOUT: ''
+      DB_HOST: 127.0.0.1
+      CACHE_HOST: 127.0.0.1
+
+
 volumes:
-  db-v:
+  mysql-data:
   bundle:
+  rails_cache:
+  assets:
   node:
diff --git a/lib/log.rb b/lib/log.rb
index 00c815d60..edef5506f 100644
--- a/lib/log.rb
+++ b/lib/log.rb
@@ -12,13 +12,7 @@ class LOG
   #         :concept_id
   #         :concept_name
   def self.add(level, message, request = nil, remote_params = nil)
-    if request
-      if !$REMOTE_LOGGING.nil? && $REMOTE_LOGGING
-        remote(level, message, request, remote_params)
-      end
-    else
-      local(level, message)
-    end
+    local(level, message)
   end
 
   private
diff --git a/test/controllers/ontologies_controller_test.rb b/test/controllers/ontologies_controller_test.rb
index ed96305ca..c7fcdb06c 100644
--- a/test/controllers/ontologies_controller_test.rb
+++ b/test/controllers/ontologies_controller_test.rb
@@ -11,7 +11,7 @@ class OntologiesControllerTest < ActionDispatch::IntegrationTest
     assert_response :success
   end
 
-  ONTOLOGIES.sample(5).flat_map { |ont| PAGES.map { |page| [ont, page] } }.each do |ont, page|
+  ONTOLOGIES.flat_map { |ont| PAGES.map { |page| [ont, page] } }.each do |ont, page|
     test "should get page #{page} of #{ont.acronym} ontology" do
       path = "#{ontologies_path}/#{ont.acronym}?p=#{page}"
       get path