tjiagoM
commented
6 years ago I confirm I have the same issue.
Closed atheyers closed 2 years ago
tjiagoM
commented
6 years ago I confirm I have the same issue.
Description
VisualQC loads but I get this warning message every time:
Extracting feature type: cortical Traceback (most recent call last): File "/usr/local/lib/python3.5/dist-packages/visualqc/workflows.py", line 345, in extract_features self.feature_paths[feat_type] = self.feature_extractor(self, feat_type) File "/usr/local/lib/python3.5/dist-packages/visualqc/readers.py", line 166, in gather_freesurfer_data [read_aparc_stats_wholebrain(qcw.in_dir, id) for id in qcw.id_list]) File "/usr/local/lib/python3.5/dist-packages/visualqc/readers.py", line 166, in
[read_aparc_stats_wholebrain(qcw.in_dir, id) for id in qcw.id_list])
File "/usr/local/lib/python3.5/dist-packages/visualqc/readers.py", line 75, in read_aparc_stats_wholebrain
hm_data = read_aparc_stats_in_hemi(stats_path, subset)
File "/usr/local/lib/python3.5/dist-packages/visualqc/readers.py", line 121, in read_aparc_stats_in_hemi
roi_stats_values[idx, :] = [stat[feat] for feat in subset]
TypeError: 'NoneType' object is not iterable
Unable to extract cortical features - skipping them.
Extracting feature type: subcortical
Traceback (most recent call last):
File "/usr/local/lib/python3.5/dist-packages/visualqc/workflows.py", line 345, in extract_features
self.feature_paths[feat_type] = self.feature_extractor(self, feat_type)
File "/usr/local/lib/python3.5/dist-packages/visualqc/readers.py", line 168, in gather_freesurfer_data
features = np.vstack([read_aseg_stats(qcw.fs_dir, id) for id in qcw.id_list])
File "/usr/local/lib/python3.5/dist-packages/visualqc/readers.py", line 168, in
features = np.vstack([read_aseg_stats(qcw.fs_dir, id) for id in qcw.id_list])
AttributeError: 'FreesurferRatingWorkflow' object has no attribute 'fs_dir'
Unable to extract subcortical features - skipping them.
Features required for outlier detection are not available - skipping it.