Skip to content

Commit

Permalink
Minor changes
Browse files Browse the repository at this point in the history
  • Loading branch information
Yasser Alemán Gómez committed Nov 14, 2024
1 parent bb42269 commit af643e8
Showing 1 changed file with 5 additions and 3 deletions.
8 changes: 5 additions & 3 deletions chimera/chimera.py
View file
Original file line number Diff line number Diff line change
Expand Up @@ -1217,8 +1217,10 @@ def build_parcellation(self, t1:str, bids_dir:str,

out_parc_spam = os.path.join(str(work_dir), fullid + '_atlas-' + atlas_str + '_probseg.nii.gz')
out_parc_maxp = os.path.join(str(work_dir), fullid + '_atlas-' + atlas_str + '_dseg.nii.gz')
out_parc_lut = out_parc_maxp.replace('.nii.gz', '.lut')
out_parc_tsv = out_parc_maxp.replace('.nii.gz', '.tsv')

if not os.path.isfile(out_parc_maxp) or force:
if not os.path.isfile(out_parc_maxp) or not os.path.isfile(out_parc_lut) or not os.path.isfile(out_parc_tsv) or force:
work_dir.mkdir(parents=True, exist_ok=True)

# Detecting the side
Expand Down Expand Up @@ -1318,12 +1320,12 @@ def build_parcellation(self, t1:str, bids_dir:str,
out_parc_maxp)

for side_cont, side in enumerate(sides_ids):
vol_indexes = np.array(self.supra_dict[supra][supra][atlas_code][side]['index'])-1
tmp_par_file = os.path.join(work_dir, fullid + '_hemi-' + side + '_atlas-' + atlas_str + '_dseg.nii.gz')
files2del.append(tmp_par_file)

tmp_parc = cltparc.Parcellation(parc_file=out_parc_maxp)
tmp_parc.index = vol_indexes + 1
tmp_parc.data = np.round(tmp_parc.data)
tmp_parc.index = np.array(self.supra_dict[supra][supra][atlas_code][side]['index'])
tmp_parc.name = self.supra_dict[supra][supra][atlas_code][side]['name']
tmp_parc.color = self.supra_dict[supra][supra][atlas_code][side]['color']

Expand Down

0 comments on commit af643e8

Please sign in to comment.