This code requires Python 3.7
Create a Python virtual environment called venv and install Flask dependencies
In the top level directory:
python3 -m venv venv
source venv/bin/activate
pip install -r requirements.txtYou can set environment variables in the .flaskenv file. A template is provided for you to start from.
In the top level directory:
cp flaskenv.template .flaskenvYou will need to specify a database environment to use. The easiest for testing purposes is sqlite3 which is a filebased database system that will run locally on your system.
First you will need to make sure you install sqlite3 for you system. Information can be found at https://www.sqlite.org/index.html.
For linux we recommend using the packaged version that comes from your distribution. To make sure it installed, you can run from the terminal sqlite3
and the application should run. Type .q and return to exit.
Edit the DATABASE_URL
In .flaskenv, replace the words <ENTER FLASK TOP DIR> with path to your top level flask directory. You should already be in it, so you can find the path with pwd.
We provide some initial data for you to create a functioning database for testing purposes. To initialize this:
In the top level directory:
flask db upgrade
flask seed_test_db
flask update_pipeline_data
flask seed_test_experimentsIn the top level directory:
flask runThe application should now be live on http://localhost:5000/
If you would like to run the run the experiments portal with hot module replacement, in a separate terminal run:
npm start --prefix app/static/lib/experiments-portal
To build the experiments portal, run:
npm run build --prefix app/static/lib/experiments-portal
We use the pytest framework for testing all aspects of the application. This will be automatically run by TravisCI when a pull request is made.
The tests exists in the tests directory and should not effect any of the development or production builds to run. Please feel free to add unit and functional tests with any new feature. Pytest will automatically pick up any tests that start with test_ that are placed in the folder under a directory. Please adhere to the structure there.
For unit tests of classes and utilities, use the folder tests/unit_tests
For database specific testing, please use the folder tests/database_tests
for blueprint and route testing, please use the tests/blueprint_specific_tests folder and place it in the appropriate blueprint specific directory.
In order to keep the Python code maintainable and readable, please run ./lint.sh to make sure the coding is up to standards. TravisCI will be checking this.
Some experimental testing cases are being explored with AWS Cloud 9.
To run the application on a Cloud9 instance:
flask run --host=0.0.0.0 --port=8080This flask application is deployed on Heroku. More information will be available soon
docker build -t conp-portal .
docker run -d -p 4000:4000 -p 8080:8080 -v ${PWD}/app:/app/app --rm conp-portal
docker exec -it 1e3ad5006c5a567b42575dd941e2f52837b11229090b34b1486498a3221ba69f bash -c "cd /app/app/static/v2 && yarn dev"
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