sturnus

django database & website for experiment data

Quickstart

1. make sure you are running Python 2.7
2. install virtualenv & virtualenvwrapper
3. make sure you have access to pg_config locally
4. then, setup your virtual environment

mkvirtualenv --no-site-packages --distribute sturnus

5. and install the requirements

pip install -r requirements.txt

6. setup a local development database
7. run ./manage.py syncdb --all to build the database
8. run ./manage.py migrate --fake to run the south migrations

Goals

1. Maintain the core electrophysiology data in a neo-compatible format
2. Modularize experimental components
3. Make data easily available for analysis in Matlab & Python (& R?)

Approach

1. data maintained using Django ORM + PostgreSQL database
2. utilize Postgres arrays for array data (LFP, spike waveforms, intracellular traces)
3. each experimental module developed as a separate Django 'app'
4. data available for querying from external services through the Tastypie RESTful API
5. data overview & exploration through django admin interface