Downloading ConWhAt Atlases

Setup

# Import the fetcher function

from conwhat.utils.fetchers import fetch_conwhat_atlas
import os,glob

# Define the output directory

atlas_dir = 'conwhat_atlases'

# Define which atlas to grab

atlas_name = 'CWL2k8Sc33Vol3d100s_v01'

Out:

/opt/hostedtoolcache/Python/3.8.12/x64/lib/python3.8/site-packages/nilearn/datasets/__init__.py:93: FutureWarning: Fetchers from the nilearn.datasets module will be updated in version 0.9 to return python strings instead of bytes and Pandas dataframes instead of Numpy arrays.
  warn("Fetchers from the nilearn.datasets module will be "

Download the atlases and take a look

fetch_conwhat_atlas(atlas_name,atlas_dir,remove_existing=True);

# The zipped and unzipped atlas folders are now there in the top-level atlas directory;

glob.glob(atlas_dir + '/*')


# The .zip file can be optionally removed automatically if desired.

# volumetric atlas folders contain a small number of fairly small .txt files

glob.glob('%s/%s/*.txt' %(atlas_dir,atlas_name))

# ...and a larger number of nifti images; one for each atlas structure

glob.glob('%s/%s/*.nii.gz' %(atlas_dir,atlas_name))[:5]

len(glob.glob('%s/%s/*.nii.gz' %(atlas_dir,atlas_name)))

Out:

dataset dir not present. creating


downloading data_file CWL2k8Sc33Vol3d100s_v01.zip...
wget https://www.nitrc.org/frs/download.php/10381/CWL2k8Sc33Vol3d100s_v01.zip --no-check-certificate


unzipping file...
unzip CWL2k8Sc33Vol3d100s_v01.zip


finished unzipping.

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