Fix celery import bug

.env.example

@@ -1,6 +1,6 @@
 DEBUG=True
 REAL_DATABASE_URL="..." # for `fab pull_db` to work
-DATABASE_URL="postgres://postgres@localhost/star"
+DATABASE_URL="postgres://postgres:postgres@db/star"
 SECRET_KEY=nsPna8hFnaNIn32aasd0a21ldM
 PYTHONUNBUFFERED=True
 TANGO_API_URL="https://sandbox.tangocard.com/raas/v1/"
@@ -11,3 +11,4 @@ AWS_BUCKET_TEMPLATE="%s.yourname.stargeo.io"
 BIOPORTAL_API_KEY="o239hfnsf-2311-mmas-19204oifna0"
 FROM_EMAIL="no-reply@stargeo.org"
 ADMIN="Admin Name:admin.email@gmail.com"
+BROKER_URL="redis://redis:6379/0"

.github/workflows/build.yaml

@@ -7,6 +7,8 @@ jobs:
   release:
     name: Build and release image to Docker Hub
     runs-on: ubuntu-latest
+    env:
+      BUILD_IMAGE: bedasoftware/stargeo:latest
     steps:
       - uses: actions/checkout@v3
       - name: Set up Docker Buildx
@@ -16,11 +18,7 @@ jobs:
         with:
           username: ${{ secrets.DOCKERHUB_USERNAME }}
           password: ${{ secrets.DOCKERHUB_TOKEN }}
-      - name: Build and push
-        uses: docker/build-push-action@v4
-        with:
-          context: .
-          file: Dockerfile.prod
-          push: true
-          tags: bedasoftware/stargeo:latest
-          platforms: linux/amd64,linux/arm64
+      - run: >-
+          docker buildx build --platform linux/arm64,linux/amd64
+          -f Dockerfile.prod
+          --push -t ${{ env.BUILD_IMAGE }} .

.gitignore

@@ -15,3 +15,5 @@ frontend/npm-debug.log
 .ropeproject
 *bundle.js
 public
+
+.python-version

Dockerfile.prod

@@ -1,4 +1,4 @@
-FROM python:2.7-slim
+FROM python:3.6.9-slim
 # Install R and its meta package
 RUN apt-get update && apt-get install -y --no-install-recommends \
      r-base-core r-base-dev \
@@ -11,7 +11,7 @@ RUN mkdir -p /app/user /app/logs
 WORKDIR /app/user
 RUN pip install --upgrade pip
 ADD requirements.txt /app/user/requirements.txt
-RUN pip install --no-cache-dir -r requirements.txt
+RUN pip install --exists-action=s -r requirements.txt
 # Add code
 ADD . /app/user
 EXPOSE 8000

compose.prod.yaml

@@ -1,3 +1,4 @@
+name: stargeo-prod
 services:
   db:
     image: postgres:9.4
@@ -6,9 +7,9 @@ services:
       - POSTGRES_PASSWORD
     healthcheck:
       test: [ "CMD", "pg_isready", "-U", "${PGUSER:-postgres}" ]
-      interval: 5s
-      timeout: 5s
-      retries: 5
+      interval: 1s
+      timeout: 10s
+      retries: 50
 
   redis:
     image: redis:3
@@ -29,7 +30,7 @@ services:
       redis:
         condition: service_healthy
     ports:
-      - "8000:8000"
+      - "8001:8000"
     env_file: .env.prod
 
   celery:

requirements-dev.txt

@@ -5,7 +5,7 @@ flake8>=3.5.0
 flake8-print
 flake8-per-file-ignores
 pep8-naming
-pytest==2.6.4
+pytest~=2.9
 pytest-django==3.1.2
 lxml
 cssselect

requirements.freezed.txt

@@ -0,0 +1,64 @@
+amqp==1.4.9
+anyjson==0.3.3
+asn1crypto==0.24.0
+bcrypt==3.1.4
+billiard==3.3.0.23
+biopython==1.68
+boto==2.38.0
+celery==3.1.17
+certifi==2018.10.15
+cffi==1.11.5
+chardet==3.0.4
+coreapi==2.3.3
+coreschema==0.0.4
+cryptography==2.3.1
+dj-database-url==0.4.2
+Django==1.11.10
+django-cacheops==4.0.5
+django-datatable-view-compat==0.8.2
+django-filter==1.1.0
+django-jinja==2.4.1
+django-jinja-bootstrap-form==4.0.3
+django-pandas==0.4.5
+django-registration==2.0.4
+django-rest-swagger==2.1.1
+djangorestframework==3.5.3
+easydict==1.7
+Fabric3==1.13.1.post1
+ftptool==0.7.1
+funcy==1.11
+gunicorn==19.7.1
+handy==0.7
+honcho==0.6.4
+idna==2.6
+itypes==1.1.0
+Jinja2==2.10
+kombu==3.0.37
+MarkupSafe==1.0
+mygene==3.0.0
+numexpr==2.6.2
+numpy==1.14.1
+oauthlib==2.1.0
+openapi-codec==1.3.2
+pandas==0.22.0
+paramiko==2.4.2
+patsy==0.5.0
+pkg-resources==0.0.0
+psycopg2==2.7.3.2
+pyasn1==0.4.4
+pycparser==2.19
+PyNaCl==1.3.0
+python-dateutil==2.7.3
+pytz==2018.5
+redis==2.10.6
+requests==2.18.4
+requests-oauthlib==0.8.0
+rpy2==2.9.2
+scipy==1.0.0
+simplejson==3.16.0
+six==1.11.0
+statsmodels==0.8.0
+termcolor==1.1.0
+tqdm==4.19.5
+uritemplate==3.0.0
+urllib3==1.22

requirements.txt

@@ -20,7 +20,7 @@ tqdm==4.19.5
 requests==2.18.4
 ftptool==0.7.1
 django-cacheops==4.0.5
-pandas==0.22
+pandas==0.22.0
 termcolor==1.1.0
 numpy==1.16.1
 numexpr==2.6.2  # There is an issue with newer version
@@ -34,6 +34,6 @@ django-datatable-view-compat==0.8.2
 boto==2.38.0
 rpy2==2.8.6
 django-registration==2.0.4
-biopython==1.68
+biopython==1.76
 mygene==3.0.0
 requests-oauthlib==0.8.0