Merge pull request #657 from EpistasisLab/update_mongodb

Update mongo to v5

.coveragerc

@@ -9,6 +9,10 @@ relative_files = True
 ; regardless of whether it runs locally or within a Docker container.
 parallel = True
 
+; omit scikit-surprise (custom package) GH runner tests Coveralls on python3.12?
+omit = 
+  /src/scikit-surprise/surprise/*
+
 [paths]
 ; the first path is the path on the local (travis) filesystem
 ; the second path is the path as it appears within the Docker container

.github/workflows/aliro_tests.yml

@@ -26,13 +26,13 @@ jobs:
 
       # Runs a single command using the runners shell
       - name: Build Docker Images
-        run: docker-compose -f ./docker-compose-int-test.yml build -m 8g
+        run: docker compose -f ./docker-compose-int-test.yml build -m 8g
 
       # Runs a set of commands using the runners shell
       - name: Run Integration Tests
         run: |
-          docker-compose -f ./docker-compose-int-test.yml run tester bash -c "sh /root/wait_pennai.sh && npm test"
-          docker-compose -f ./docker-compose-int-test.yml down
+          docker compose -f ./docker-compose-int-test.yml run tester bash -c "sh /root/wait_pennai.sh && npm test"
+          docker compose -f ./docker-compose-int-test.yml down
   
   build_web_app:
     name: Unit Tests for Webapp
@@ -50,13 +50,13 @@ jobs:
       # Runs a single command using the runners shell
       - name: Build Docker Images
         run: |
-          docker-compose -f ./docker-compose-unit-test.yml build -m 8g
+          docker compose -f ./docker-compose-unit-test.yml build -m 8g
 
       # Runs a set of commands using the runners shell
       - name: Run Unit Tests
         run: |
           git lfs fetch --all
-          docker-compose -f ./docker-compose-unit-test.yml up --abort-on-container-exit -V
+          docker compose -f ./docker-compose-unit-test.yml up --abort-on-container-exit -V
       - name: Coveralls
         uses: AndreMiras/coveralls-python-action@develop
         with:
@@ -77,13 +77,13 @@ jobs:
       - name: Build Docker Images
         run: |
           pip install coveralls
-          docker-compose -f ./docker-compose-unit-test.yml build -m 8g
+          docker compose -f ./docker-compose-unit-test.yml build -m 8g
       # Runs a set of commands using the runners shell
       - name: Run Unit Tests
         run: |
           git lfs fetch --all
           git lfs pull
-          docker run -v $(pwd):/appsrc -w /appsrc aliro_unit_tester coverage run -m nose -s -v ai/tests/test_sklearn_api.py
+          docker run -v $(pwd):/appsrc -w /appsrc aliro-unit_tester coverage run -m nose -s -v ai/tests/test_sklearn_api.py
           coverage combine
       - name: Coveralls
         uses: AndreMiras/coveralls-python-action@develop
@@ -145,11 +145,11 @@ jobs:
 
       - name: Build Docker Images
         run: |
-          docker-compose -f ./docker-compose-doc-builder.yml build -m 8g
+          docker compose -f ./docker-compose-doc-builder.yml build -m 8g
       # Building docs # Tell GitHub not to use jekyll to compile the docs
       - name: Building Docs
         run: |
-          docker-compose -f ./docker-compose-doc-builder.yml up --abort-on-container-exit --force-recreate
+          docker compose -f ./docker-compose-doc-builder.yml up --abort-on-container-exit --force-recreate
           sudo touch target/ai_docs/html/.nojekyll
       - name: Deploy
         uses: JamesIves/[email protected]

docker/dbmongo/Dockerfile

@@ -1,5 +1,5 @@
 # Stage 1: Build stage with all necessary files
-FROM mongo:4.4.18 AS builder
+FROM mongo:5.0.29 AS builder
 
 WORKDIR /opt/
 
@@ -21,7 +21,7 @@ RUN apt-get update && apt-get install -y dos2unix && \
     apt-get clean
 
 # Stage 2: Final runtime image
-FROM mongo:4.4.18
+FROM mongo:5.0.29
 
 # Copy required configurations and scripts from the builder stage
 COPY --from=builder /etc/mongod.conf /etc/