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DCAN-Labs / BIBSnet

This BIDS App provides the utility of creating a nnU-Net anatomical MRI segmentation and mask with a infant brain trained model. It can easily be included in other processing pipelines and for circumventing JLF within Nibabies.
https://bibsnet.readthedocs.io/en/latest/
Apache License 2.0
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Add test data #135

Closed LuciMoore closed 5 days ago

LuciMoore commented 2 months ago

A short summary of what you would like to see in BIBSnet.

add some test data for NMIND certification - maybe some defaced BCP subjects?

Do you have any interest in helping implement the feature?

Yes!

Add any additional information or context about the request here.

No response

scott-huberty commented 1 month ago

@LuciMoore what do you think about the little test file I used in https://github.com/DCAN-Labs/BIBSnet/issues/133#issuecomment-2330389207 ?

i.e.


# Python
from pathlib import Path
import openneuro

Path("./ds004776").mkdir()

openneuro.download(dataset="ds004776", target_dir="./ds004776", include="sub-01")
singularity run --nv --cleanenv --no-home \
    -B /path/to/ds004776:/input \
    -B /path/to/derivatives:/output \
    /path/to/bibsnet.sif \
    /input /output participant \
    -participant 01 \
LuciMoore commented 1 week ago

@scott-huberty sorry I missed your message. yes I think this is a good idea!

LuciMoore commented 5 days ago

added Scott's rec to documentation (Testing at end of Usage section) https://github.com/DCAN-Labs/BIBSnet/commit/fa8864c29146814d6388966e4818a729a0035597