ProteinSequencing

Our senior project where we use an AI transformer model to take an incomplete protein scaffold and fill in the scaffold gaps

Advisors

• Dr. Letu Qingge
• TA Kushal Badal

Instructions:

1. Clone the repository or download and extract the zip file.
2. Navigate to project directory in command line of choice.
3. Create and activate a virtual environment:

   #create
   python -m venv venv
   #activate for windows:
   .\venv\Scripts\activate
   # activate for linux/mac
   source venv/bin/activate 

4. Install required packages using: pip install -r requirements.txt
5. Set up environment variables:

• For Linux/Mac, Run:

  chmod +x gen_env.sh
  ./gen_env.sh

• For Windows Powershell, Run:

  ./gen_env.ps1

6. If there are any errors with steps 4 and 5 and the next step, install the packages below using:

   # Use if there is an error with setting up the environmental variables
   pip install Django
   # Use the following if there is an error with running migrations
   pip install python-decouple
   pip install numpy
   pip install Scikit-learn
   pip install tqdm

7. Run Migrations and run the server:

    python manage.py migrate
    python manage.py runserver