Use pybids for filename generation

[Remi-Gau]

Could be done this way and should be able to handle optional entities.

from bids import BIDSLayout

config_file = "config_pybids.json"
target_dir = "."
layout = BIDSLayout(target_dir, validate=False, config=config_file)

entities = {
    "subject": "01",
    "session": "1",
    "sample": "A",
    "run": 1,
    "task": "nox",
    "suffix": "ephys",
}

# Define the pattern to build out of the components passed in a dictionary
pattern = "sub-{subject}/[ses-{session}]/sub-{subject}[_ses-{session}]_sample-{sample}_task-{task}[_run-{run}]_{suffix}.nwb"

layout.build_path(entities, pattern, validate=False)

[dumaatravaie]

Looks good ..

[Remi-Gau]

FYI I am using a modified config for pybids that should start providing some support for ephys and microscopy data (it is not complete yet).

https://gin.g-node.org/RemiGau/example_ephys_bids_conversion/src/master/code/config_pybids.json