Vtools website

1. git clone https://github.com/vatlab/vtools_web.git
   cd vtools_website/app/
   

2. Set the main script for flask

   export FLASK_APP=main.py
   

3. If doing development

   export FLASK_ENV=development
   

4. Set the path for project storage

   export PROJECT_FOLDER=PATH_TO_PROJECT_STORAGE
   

5. Set the path for vtools_web folder (the folder created by git clone)

   export WORK_FOLDER=PATH_TO_VTOOLS_WEB
   

6. run

   flask run
   

Docker version: On Digital Ocean

1. In /home/vtools_user/vtools_web folder, set .env for enviromental parameters, current setting is

   REFERENCE_FOLDER=/home/vtools_user/.variant_tools
   PROJECT_FOLDER=/home/vtools_user/testProject
   

   .variant_tools folder has all the reference files for variantTools to use. These two folders will be mounted into docker containters.
2. A docker network has been created on digital ocean.

   docker network create vtoolsnet
   

3. Run docker-compose,

   docker-compose  up --build -d
   

Tests:

1. To make selenium work, install following packages first

   pip install selenium
   pip install nose2
   pip install Flask-Testing
   pip install urllib2
   

2. Download chrome driver (https://chromedriver.chromium.org/getting-started).
3. Start Flask in app folder, then run tests:

   cd tests
   nose2