Merge pull request #358 from sanger/develop

Develop -> Master

.github/workflows/assign_issue_number.yml

@@ -0,0 +1,12 @@
+name: Assign Issue Number
+
+on:
+  issues:
+    types: [opened]
+
+jobs:
+  call-add-to-project:
+    uses: sanger/.github/.github/workflows/generate_issue_number.yml@master
+    secrets:
+      app_id: ${{ secrets.ISSUE_GEN_APP_ID }}
+      app_key: ${{ secrets.ISSUE_GEN_APP_KEY }}

.release-version

@@ -1 +1 @@
-2.2.5
+2.2.6

.rubocop.yml

@@ -8,11 +8,13 @@ require:
 
 AllCops:
   NewCops: enable
+  SuggestExtensions: false
   inherit_mode:
     merge:
       - Exclude
   Exclude:
     - 'db/views_schema.rb'
+    - db/migrate/*
 
 # Blocks are used to structure tests and are part of the rspec dsl.
 # The standard BlockLength limits are too stringent for this purpose.

.ruby-version

@@ -1 +1 @@
-3.1.4
+3.3.5

Dockerfile

@@ -1,4 +1,4 @@
-FROM ruby:3.1.4
+FROM ruby:3.3.5
 RUN apt-get update -qq && apt-get install -y
 # Install node and Yarn
 RUN curl -sL https://deb.nodesource.com/setup_16.x | bash -
@@ -10,14 +10,14 @@ ADD Gemfile /samples_extraction
 ADD Gemfile.lock /samples_extraction
 ADD package.json /samples_extraction
 ADD yarn.lock /samples_extraction
-RUN gem install bundler -v 2.2.26
+RUN gem install bundler -v 2.5.18
 RUN bundle install --jobs=5 --deployment --without development test
 RUN yarn install
 
 ADD . /samples_extraction/
 
 # Compiling assets
-RUN SE_REDIS_URI= SECRET_KEY_BASE=`bin/rake secret` WARREN_TYPE=log RAILS_ENV=production bundle exec rake assets:precompile
+RUN SE_REDIS_URI= SECRET_KEY_BASE=`bin/rails secret` WARREN_TYPE=log RAILS_ENV=production bundle exec rake assets:precompile
 
 # Generating sha
 RUN git rev-parse HEAD > REVISION

Gemfile

@@ -15,7 +15,7 @@ gem 'aasm'
 gem 'activerecord-import'
 gem 'activerecord-session_store'
 gem 'micro_token'
-gem 'rails', '~> 6.1'
+gem 'rails', '~> 7.0'
 gem 'tzinfo-data'
 
 # Rails views and UI