How to download data from figshare?#
Following How to download data from the server?, this notebook shows how to download the same data from figshare.
[1]:
from polpo.preprocessing.load.pregnancy import (
FigsharePregnancyDataLoader,
PregnancyPilotMriLoader,
)
[2]:
SESSION_ID = 1
folder_name = f"ses-{str(SESSION_ID).zfill(2)}"
loader = FigsharePregnancyDataLoader(
data_dir="~/.herbrain/data/pregnancy/mri",
remote_path=f"mri/{folder_name}",
)
loader()
[2]:
'/home/luisfpereira/.herbrain/data/pregnancy/mri/ses-01'
The most general FigShareDataLoader
could also be used, but FigsharePregnancyDataLoader
has more guard rails at instantiation.
PregnancyPilotMriLoader
conveniently wraps FigsharePregnancyDataLoader
for the use case shown in this slide. The following is equivalent to the above (except it outputs a list
).
[3]:
loader = PregnancyPilotMriLoader(subset=[SESSION_ID])
loader()
[3]:
['/home/luisfpereira/.herbrain/data/pregnancy/mri/ses-01/BrainNormalizedToTemplate.nii.gz']
Tip: ListSqueeze
it if needed!