Data is from:

Jadhav, S. P., Rothschild, G., Roumis, D. K. & Frank, L. M. Coordinated Excitation and Inhibition of Prefrontal Ensembles during Awake Hippocampal Sharp-Wave Ripple Events. Neuron 90, 113–127 (2016).

Data is in the Matlab format (.mat files). See the Loren Frank Data Format Description Repository for more information.

1. Install miniconda (or anaconda) if it isn't already installed. Type into bash:

wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh;
bash miniconda.sh -b -p $HOME/miniconda
export PATH="$HOME/miniconda/bin:$PATH"
hash -r

2. Go to the local repository (.../Jadhav-2016-Data-Analysis) and install the anaconda environment for the repository. Type into bash:

conda update -q conda
conda info -a
conda env create -f environment.yml
source activate Jadhav-2016-Data-Analysis
python setup.py develop

3. Finally, to verify that the code has been installed correctly, run the tests:

pytest

Raw data should be placed in Jadhav-2016-Data-Analysis/Raw-Data. Each animal should have its own folder in the Raw-Data folder and the definition for that animal's folder should be placed in src.parameters.

Data generated by the code will be placed in Jadhav-2016-Data-Analysis/Processed-Data.