Open MLGBXXX opened 1 year ago
Topology Correction
Traceback (most recent call last):
File "/root/FastCSR/levelset2surf.py", line 106, in
@MLGBXXX Hello, I’m sorry that I only saw the reply now. This seems to be a compatibility issue caused by the relatively new installed nibabel package. You can try to solve it by gradually lowering the version, or modify the code to use get_fdata() instead of get_data().
HI author, I try to run the project with docker, but the render failed. It did not show what had happed in the error.
[INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py Please cite the following paper when using FastCSR:
[INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py The mri/orig.mgz file already exists, skip this step. [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py -----------------------Generate mri/filled.mgz file------------------------------- [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py The mri/filled.mgz file already exists, skip this step. [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py --------------------Generate mri/aseg.presurf.mgz file---------------------------- [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py The mri/aseg.presurf.mgz file already exists, skip this step. [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py ---------------------Generate mri/brainmask.mgz file------------------------------ [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py The mri/brainmask.mgz file already exists, skip this step. [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py -------------------------Generate mri/wm.mgz file--------------------------------- [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py The mri/wm.mgz file already exists, skip this step. [INFO] 2023-08-12 03:39:35 PID: 1 pipeline.py -------------------Generate mri/?h_levelset.nii.gz file--------------------------- [INFO] 2023-08-12 03:40:50 PID: 1 pipeline.py Levelset model regression inference completed. [INFO] 2023-08-12 03:40:50 PID: 1 pipeline.py -------------------Generate mri/brain.finalsurfs.mgz file------------------------- [INFO] 2023-08-12 03:40:50 PID: 1 pipeline.py The mri/brain.finalsurfs.mgz file already exists, skip this step. [INFO] 2023-08-12 03:40:50 PID: 1 pipeline.py -----------------------------Generate surface------------------------------------- [ERROR] 2023-08-12 03:41:07 PID: 1 pipeline.py Surface generation failed.