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vkola-lab / ncomms2022

Multimodal deep learning for Alzheimer's disease dementia assessment
MIT License
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Preprocessing pipeline #10

Closed YasmineMH1997 closed 1 year ago

YasmineMH1997 commented 1 year ago

I have been trying to use your pipleine preprocessing on the OASIS3 dataset (Tw1). But nothing seems to happen. May you please guide me on how to properly use it.

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shangranq commented 1 year ago

Hi, the way to use the pipeline.sh through terminal can be found from the line 86 in pipeline.py, as below

call('bash pipeline.sh ' + path + ' ' + name + ' ' + root_folder + ' ' + step_7_f + ' ' + step_7_g, shell=True)

Comparing with your command, the missing parts are the argument "step_7_f" and "step_7_g". It should be helpful to refer to pipeline.py for more details of using it. The python script is just a for loop wrapper of the bash call to process all files from your data folder.