CAT12 Segmentation Error

Bugs
1

Hello everyone,

When I run CAT12 segmentation on this MRI, I get the following error:

CAT Preprocessing error for BME4:

Input to SVD must not contain NaN or Inf.

25 - encode_qform0
109 - fun
20 - subsasgn
109 - create_vol
17 - spm_create_vol
83 - spm_write_vol
518 - cat_vol_sanlm_filter
236 - cat_vol_sanlm_file
151 - cat_vol_sanlm
269 - cat_run_job1639
40 - cat_run_newcatch
1084 - run_job
639 - cat_run
29 - cfg_run_cm
1717 - local_runcj
972 - cfg_util
469 - fill_run_job
247 - spm_jobman
359 - Compute
442 - ComputeInteractive
28 - process_segment_cat12
28 - bst_call
3004 - @(h,ev)bst_call(@process_segment_cat12,'ComputeInteractive',iSubject,iAnatomy)

Error:cat_io_report:CATgui: Error in cat_io_report GUI parameter report creation > incomple image parameters.
   Error:cat_io_report:Fig: Error in CAT report figure creation!

Warning: Matrix is singular, close to singular or badly scaled. Results may be inaccurate. RCOND = NaN.

My CAT12 and SPM are updated to the latest version. Is the issue with my MRI?

Thank you,

Jennifer

2

@jenny9898 Could you please share the MRI?
At the moment it crashes, look into the folder $HOME/.brainstorm/tmp/cat12, zip the .nii file, upload it somewhere and post the download link here.

@CGaser Any suggestion?

3

I apologize for the delay. I have messaged you the MRI.

Thank you,

Jennifer Meyer

4

Thank you for sharing this example file.
I tried processing the MRI from Brainstorm, with CAT12 r1982 and SPM12 7771, and it works.
Either your versions of CAT/SPM are not up-to-date, or you did something wrong when starting the computation.

In Brainstorm, here is the procedure I followed.

  • Create a new subject (Default anatomy: NO)
  • Right-click on the subject > Import MRI
  • Set the NAS/LPA/RPA fiducials in the middle of the markers visible in the MRI
  • "Apply the standard transformation FreeSurfer>Brainstorm?": NO
  • Anatomical atlases: Yes
  • Additional cortical maps: No

image
image564×813 27 KB

image
image970×645 132 KB

image