Open inikishev opened 4 months ago
this can be fixed by going into mri_preprocessor.py and changing line 151
run_hd_bet(ref_co, ref_sk, mode="fast", device=self.device, do_tta=False)
into
run_hd_bet(ref_co, ref_sk, mode="fast", device=self.device, do_tta=False, bet=True)
Hi! I ran the code
this is what it printed (i added some prints to some defs after to try to see where it fails)
I am having the following issue:
this is the coregistration folder, it worked![image](https://github.com/ReubenDo/MRIPreprocessor/assets/76593873/b04623b2-3fb9-4836-adf0-f1b5d71f302b)
and this is the skullstripping folder, which caused the issue. For some reason there is no![image](https://github.com/ReubenDo/MRIPreprocessor/assets/76593873/31b081cd-e09b-4fe7-9cc4-a2f010127088)
patient001_T1.nii.gz
in it