T-Cell Mtb Infection Web Application

Dependencies

• Flask
• Werkzeug
• Jinja2
• MySQLdb
• numpy
• pandas
• rpy2

Install with

sudo pip install Flask
sudo pip install Werkzeug
sudo pip install Jinja2
sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose
sudo pip install rpy2

Database setup

Open mysql

mysql -u <user_name> -p

Make the database

CREATE DATABASE tcell;

Create structure of database

cat data/createDatabase.sql | mysql -u <user_name> -p

Enter all data (sql file for database needs to be downloaded from website).

zcat ../tcell_web_data/tcell.sql.gz | mysql -u <user_name> -p

see settings.cfg, create MySQL database and adjust user/database settings accordingly

Run in Development mode

TCELL_SETTINGS=settings.cfg ./app.py