JSON file creation for fmriprep-Python glob.glob(os.path.join) question-List to String

,
1

Hi guys,

I’m trying to loop through all folders in a BIDS directory and create a JSON file for each subject and session. These files will be used for fmriprep pre-processing. I’m trying to do glob.glob and write the list to string but getting the [0] index but it only gives me the first element. Could someone help.

Example:
mid_task = sorted(glob.glob(os.path.join(base_path, 'TERBO', 'YT', 'BIDS', f'sub-{subj}', f'ses-{sess}', 'func', '*task-mid*bold.nii.gz')))

Output of above code Example:
['/fs/ess/PCON0341/projects/TERBO/YT/BIDS/sub-YT7056167F/ses-1/func/sub-YT7056167F_ses-1_task-mid_run-01_bold.nii.gz', '/fs/ess/PCON0341/projects/TERBO/YT/BIDS/sub-YT7056167F/ses-1/func/sub-YT7056167F_ses-1_task-mid_run-02_bold.nii.gz']

Looking to get into JSON format:

    "mid": {
      "func": "/fs/ess/PCON0341/projects/TERBO/YT/BIDS/sub-YT7056167F/ses-1/func/sub-YT7056167F_ses-1_task-mid_run-01_bold.nii.gz",
"/fs/ess/PCON0341/projects/TERBO/YT/BIDS/sub-YT7056167F/ses-1/func/sub-YT7056167F_ses-1_task-mid_run-02_bold.nii.gz"
2

Hi @MadhavanSubhashini,

Sounds like using a Python dictionary would be a better route for you.

Best,
Steven

3

Hi. Thanks Steven I’ll check it out

–Subbi M.