Migrate to Postgresql

.github/workflows/test.yml

@@ -6,18 +6,18 @@ jobs:
   test:
     env:
       RAILS_ENV: "test"
-      TEST_DATABASE_URL: "mysql2://root:[email protected]:3306/unipept_test"
+      TEST_DATABASE_URL: "postgresql://unipept:[email protected]:5432/unipept_test"
     runs-on: ubuntu-latest
     services:
-      mysql:
-        image: mariadb:10.9
+      psql:
+        image: postgres:16.2
         env:
-          MYSQL_DATABASE: "unipept_test"
-          MYSQL_ROOT_PASSWORD: "unipept"
-          MYSQL_HOST: "localhost"
+          POSTGRES_DB: "unipept_test"
+          POSTGRES_PASSWORD: "unipept"
+          POSTGRES_USER: "unipept"
         ports:
-          - 3306:3306
-        options: --health-cmd "mysqladmin ping -h localhost" --health-interval 10s --health-timeout 5s --health-retries 5
+          - 5432:5432
+        options: --health-cmd "pg_isready" --health-interval 10s --health-timeout 5s --health-retries 5
     steps:
       - uses: actions/checkout@v4
       - name: Use ruby from .ruby-version

Gemfile

@@ -6,8 +6,8 @@ ruby "3.1.2"
 # Bundle edge Rails instead: gem "rails", github: "rails/rails", branch: "main"
 gem "rails", "~> 7.0.3", ">= 7.0.3.1"
 
-# Use mysql as the database for Active Record
-gem "mysql2", "~> 0.5", "> 0.5.5"
+# Use Postgres as the database for Active Record
+gem "pg", "~> 1.5.6"
 
 # Use the Puma web server [https://github.com/puma/puma]
 gem "puma", "~> 5.0"

Gemfile.lock

@@ -119,7 +119,6 @@ GEM
     minitest (5.18.0)
     msgpack (1.5.6)
     multi_json (1.15.0)
-    mysql2 (0.5.6)
     net-imap (0.2.3)
       digest
       net-protocol
@@ -150,6 +149,7 @@ GEM
     parallel (1.22.1)
     parser (3.1.2.1)
       ast (~> 2.4.1)
+    pg (1.5.6)
     public_suffix (5.0.0)
     puma (5.6.5)
       nio4r (~> 2.0)
@@ -253,9 +253,9 @@ DEPENDENCIES
   debug
   jbuilder
   multi_json (~> 1.15.0)
-  mysql2 (~> 0.5, > 0.5.5)
   octokit (~> 5.4)
   oj (~> 3.13)
+  pg (~> 1.5.6)
   puma (~> 5.0)
   rails (~> 7.0.3, >= 7.0.3.1)
   rails-controller-testing (~> 1.0)

config/database.yml

@@ -1,16 +1,16 @@
 default: &default
-  adapter: mysql2
-  username: root
+  adapter: postgresql
+  username: unipept
   password: unipept
   pool: <%= ENV.fetch("RAILS_MAX_THREADS") { 5 } %>
 
 development:
   <<: *default
-  username: unipept
   database: unipept
   # setup local port forwarding for this to work
   host: 127.0.0.1
-  port: 3306
+  port: 5432
+  schema_search_path: "unipept"
 
 # Warning: The database defined as "test" will be erased and
 # re-generated from your development database when you run "rake".