Update new BIDS folder for b0sim

[mathieuboudreau]

add "b0sim" after "derivatives" and before "subject"

b0-fieldmap-realistic-simulation/b0realsim/label_to_chi.py

Line 42 in 4f3c471

if not os.path.exists(bids_subject_dir / ".." / 'derivatives' / subject ):

[mathieuboudreau]

All of these instances :

b0-fieldmap-realistic-simulation/b0realsim/label_to_chi.py

Lines 38 to 50 in 4f3c471

	new_volume = nib.Nifti1Image(vol_data, vol.affine, vol.header, dtype=np.float64)
	# Check if the directory bids_subject_dir / ".." / 'derivatives' / subject / exists and if no, create it
	if not os.path.exists(bids_subject_dir / ".." / 'derivatives' / subject ):
	os.makedirs(bids_subject_dir / ".." / 'derivatives' / subject )
	# Check if the directory bids_subject_dir / ".." / 'derivatives' / subject / 'anat' exists and if no, create it
	if not os.path.exists(bids_subject_dir / ".." / 'derivatives' / subject / 'anat' ):
	os.makedirs(bids_subject_dir / ".." / 'derivatives' / subject / 'anat' )
	chi_file = bids_subject_dir / ".." / 'derivatives' / subject / 'anat' / (subject + '_T1w-chi.nii.gz')

[mathieuboudreau]

b0-fieldmap-realistic-simulation/b0realsim/label_to_chi.py

Line 41 in 4f3c471

Here, a new instance should be added to ensure that the "b0sim" folder exists, if not create it

[mathieuboudreau]

This line needs updating too:

b0-fieldmap-realistic-simulation/b0realsim/label_to_chi.py

Line 109 in 4f3c471

json_file = bids_subject_dir / ".." / 'derivatives' / subject / 'anat' / (subject + '_T1w-chi.json')

[mathieuboudreau]

These README lines too:

https://github.com/shimming-toolbox/b0-fieldmap-realistic-simulation/blame/4f3c471db542fa9b12f308aaeece401323980965/README.md#L107-L114

[mathieuboudreau]

In this file too, likely other files:

https://github.com/shimming-toolbox/b0-fieldmap-realistic-simulation/blame/4f3c471db542fa9b12f308aaeece401323980965/README.md#L118