Cellcounter Django app to count cells for haematological blood film analysis. Cellcounter is deployed at cellcountr.com.
Clone the repository:
git clone ...
Create a virtual environment:
virtualenv -p python3 .env
source .env/bin/activate
pip install --upgrade pip
pip install -r requirements.txt
(if you don't have virtualenv, then sudo pip install virtualenv)
(if you don't have pip, then sudo easy_install pip)
Update your database:
python manage.py migrate
Run the Django webserver locally, setting the DEBUG environment variable:
export DEBUG=True
export ALLOWED_HOSTS="127.0.0.1"
python manage.py runserver
To run the test suite locally, you also need the test requirements in your virtualenv:
pip install -r test-requirements.txt
export TEST=True
python manage.py test
To install npm from source for JavaScript testing:
curl https://nodejs.org/dist/node-latest.tar.gz | tar xvz
cd node-v*
./configure --prefix=$VIRTUAL_ENV
make install
npm ci
export DEBUG=True; export ALLOWED_HOSTS="127.0.0.1"
./test_integration
To run the test suite via docker:
docker build --target test -t cellcountr/cellcountr_test:latest .
docker run cellcountr/cellcountr_test:latest python manage.py test
To create the docker volume to store the media files:
sudo mkdir -p /var/www/mediafiles
docker volume create --driver local --opt type=none --opt device=/var/www/mediafiles --opt o=bind media_volume
To build and run the docker image:
cp env.dev.example env.dev
edit env.dev
docker compose build
docker compose up -d
docker compose exec web python manage.py migrate --no-input
To stop the docker image:
docker compose down -v