xarray-behave 0.4.0

xarray tools for behaviorl data.

xarray-behave

Installation

Install a working conda installation with python 3.7 (see here).

Then in a terminal run:

conda create -n xb python=3.7 -y
conda activate xb
conda install pyqtgraph python-sounddevice -c conda-forge -y
pip install git+http://github.com/janclemenslab/xarray-behave#egg=xarray-behave[gui]

Old:

First, manually install dependencies:

conda install numpy scipy pandas xarray zarr h5py dask netCDF4 bottleneck toolz pytables
conda install pysoundfile -c conda-forge
pip install simpleaudio
pip install flammkuchen
pip install samplestamps

Install with GUI (requires extra dependencies):

conda install pyqtgraph scikit-image opencv
conda install pysoundfile pyside2 -c conda-forge
pip install defopt
pip install pyvideoreader --no-deps
pip install git+http://github.com/janclemenslab/xarray-behave#egg=xarray-behave[gui]

Install without GUI (e.g. on the cluster):

pip install git+http://github.com/janclemenslab/xarray-behave

For playback of sound you need a working installation of pysimpleaudio. See the docs if you have trouble installing.

Usage

See demo.ipynb.

Use xb datename for starting the UI. xb --help for usage/arguments/keys.