Download Data

For the tutorials in this book, we will use partially-preprocessed data from two open multi-echo datasets: Euskalibur and Cambridge. For more information about these datasets, see Open Multi-Echo Datasets.

import os
from pprint import pprint

from tedana import datasets

DATA_DIR = os.path.abspath("../data")

euskalibur_dataset = datasets.fetch_euskalibur(
    n_subjects=5,
    low_resolution=False,
    data_dir=DATA_DIR,
)
pprint(euskalibur_dataset)

cambridge_dataset = datasets.fetch_cambridge(
    n_subjects=5,
    low_resolution=False,
    data_dir=DATA_DIR,
)
pprint(cambridge_dataset)

For now, we will use repo2data to download some data we’re storing on Google Drive.

import os

from repo2data.repo2data import Repo2Data

# Install the data if running locally, or point to cached data if running on neurolibre
DATA_REQ_FILE = os.path.join("../binder/data_requirement.json")

# Download data
repo2data = Repo2Data(DATA_REQ_FILE)
data_path = repo2data.install()
data_path = os.path.abspath(data_path[0])

---- repo2data starting ----
/opt/hostedtoolcache/Python/3.10.17/x64/lib/python3.10/site-packages/repo2data
Config from file :
../binder/data_requirement.json
Destination:
./../data/multi-echo-data-analysis

Info : Starting to download from Google drive https://drive.google.com/uc?id=1SVPP1vd2UobKf1djztpi-DcYAFOFXQtF ...

Downloading...
From (original): https://drive.google.com/uc?id=1SVPP1vd2UobKf1djztpi-DcYAFOFXQtF
From (redirected): https://drive.google.com/uc?id=1SVPP1vd2UobKf1djztpi-DcYAFOFXQtF&confirm=t&uuid=ae479ec7-b728-4298-99d2-f5346b14ad36
To: /home/runner/work/multi-echo-data-analysis/multi-echo-data-analysis/data/multi-echo-data-analysis/sub-04570.zip

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INFO patool: Extracting ./../data/multi-echo-data-analysis/sub-04570.zip ...

INFO patool: running /usr/bin/7z x -y -p- -aou -o./../data/multi-echo-data-analysis -- ./../data/multi-echo-data-analysis/sub-04570.zip

INFO patool: ... ./../data/multi-echo-data-analysis/sub-04570.zip extracted to `./../data/multi-echo-data-analysis'.

Info : sub-04570.zip Decompressed