A project reproducing endocing models published by LeBel et al. 2023.
We documented our results in this Report.
# setup up conda environment and install git-annex
conda create -n enc python=3.9 conda-forge::git-annex
conda activate enc
# install dependencies
pip install -r requirements.txt
# install pre-commit
pre-commit install
# run pre-commit against all files once
pre-commit run --all-files
# Copy the config
cp config.example.yaml config.yaml# download empty dataset (ideally not within this repository)
cd <separate-data-dir>
datalad clone https://github.com/OpenNeuroDatasets/ds003020.git
cd ds003020
# Edit config.yaml such that your data path points to the ds003020 repository
# Stories: https://www.nature.com/articles/s41597-023-02437-z/tables/1
datalad get derivative/preprocessed_data/UTS02/alternateithicatom.hf5
datalad get derivative/preprocessed_data/UTS02/souls.hf5
datalad get derivative/preprocessed_data/UTS02/avatar.hf5
datalad get derivative/preprocessed_data/UTS02/legacy.hf5
datalad get derivative/preprocessed_data/UTS02/odetostepfather.hf5
datalad get derivative/TextGrids/alternateithicatom.TextGrid
datalad get derivative/TextGrids/souls.TextGrid
datalad get derivative/TextGrids/avatar.TextGrid
datalad get derivative/TextGrids/legacy.TextGrid
datalad get derivative/TextGrids/odetostepfather.TextGrid
datalad get stimuli/alternateithicatom.wav
datalad get stimuli/souls.wav
datalad get stimuli/avatar.wav
datalad get stimuli/legacy.wav
datalad get stimuli/odetostepfather.wav
datalad get derivative/pycortex-db/UTS02/
datalad get derivative/english1000sm.hf5- Find out the location of the pycortex config: In the ipython terminal:
import cortex
cortex.options.usercfg-
Open the config file (should be a
*/options.cfg) -
Modify the filestore entry to point towards
ds003020/derivative/pycortex-db -
To use
quickshowinstall inkscape: https://inkscape.org/release/inkscape-1.3.2/ -
Make sure inkscape is available in the terminal. Instructions Mac