Dear Volkmar,
Thank you so much for the suggestion. I tried it by moving my files to the desktop and running from there.
I am still getting the error below. Let me know or someone might be familiar with this.
Thank you for your help,
Arkadiy
Error pasted:
Write result maps: 1s
Quality check: 2s
Print 'Graphics' figure to:
/Volumes/Main_Drive/Users/arkadiymaksimovskiy/Desktop/CAT/report/catreport_avg_02_PreChronic_1_32_reg_bet.pdf
------------------------------------------------------------------------
CAT preprocessing takes 4 minute(s) and 28 second(s).
Image Quality Rating (IQR): 76.47% (C)
Segmentations are saved in /Volumes/Main_Drive/Users/arkadiymaksimovskiy/Desktop/CAT/mri
Reports are saved in /Volumes/Main_Drive/Users/arkadiymaksimovskiy/Desktop/CAT/report
------------------------------------------------------------------------
Done 'CAT12: Segmentation'
Running 'CAT12: Segmentation'
------------------------------------------------------------------------
CAT12.1 r1278: 1/4: ./Desktop/CAT/r02_PreChronic_1_32_reg_bet.n
------------------------------------------------------------------------
SANLM denoising (NCstr=-Inf): 1s
APP: Rough bias correction:
Initialize 0s
Estimate background 1s
Initial correction 0s
Refine background 1s
Final correction 0s
Background correction 0s
Final scaling 0s
3s
Coarse affine registration 3s
Affine registration 1s
SPM preprocessing 1 (estimate): 12s
SPM preprocessing 2 (write):
------------------------------------------------------------------------
CAT Preprocessing error for r02_PreChronic_1_32_reg_bet:
------------------------------------------------------------------------
ERROR:vbm_vol_gradient3: input must be 3d
------------------------------------------------------------------------
8 - cat_vol_grad
440 - cat_main
644 - cat_run_job1070
16 - cat_run_newcatch
395 - run_job
161 - cat_run
29 - cfg_run_cm
1688 - local_runcj
959 - cfg_util
469 - fill_run_job
247 - spm_jobman
53 - cat_long_multi_run
29 - cfg_run_cm
1688 - local_runcj
959 - cfg_util
703 - MenuFileRun_Callback
95 - gui_mainfcn
53 - cfg_ui
------------------------------------------------------------------------
Warning:cat_io_report:CATgui: Incomplete report creation in cat_io_report because of incomplete CAT parameters.
Print 'Graphics' figure to:
/Volumes/Main_Drive/Users/arkadiymaksimovskiy/Desktop/CAT/report/catreport_r02_PreChronic_1_32_reg_bet.pdf
Failed 'CAT12: Segmentation'
Error using cat_vol_gradient3
ERROR:vbm_vol_gradient3: input must be 3d
In file "/Applications/spm12/toolbox/cat12/cat_vol_grad.m" (???), function "cat_vol_grad" at line 8.
In file "/Applications/spm12/toolbox/cat12/cat_main.m" (v1274), function "cat_main" at line 440.
In file "/Applications/spm12/toolbox/cat12/cat_run_job1070.m" (v1250), function "cat_run_job1070" at line 644.
In file "/Applications/spm12/toolbox/cat12/cat_run_newcatch.m" (???), function "cat_run_newcatch" at line 16.
In file "/Applications/spm12/toolbox/cat12/cat_run.m" (v1245), function "run_job" at line 395.
In file "/Applications/spm12/toolbox/cat12/cat_run.m" (v1245), function "cat_run" at line 161.
No executable modules, but still unresolved dependencies or incomplete module inputs.
The following modules did not run:
Failed: CAT12: Segmentation
Skipped: Apply deformations (many images)
Skipped: Move/Delete Files
Skipped: Longitudinal Rigid Registration
Skipped: CAT12: Segmentation
Skipped: CAT12: Segmentation
Skipped: Apply deformations (many images)
Skipped: Move/Delete Files
Skipped: Longitudinal Rigid Registration
Skipped: CAT12: Segmentation
Skipped: CAT12: Segmentation
Skipped: Apply deformations (many images)
Skipped: Move/Delete Files
Skipped: Longitudinal Rigid Registration
Skipped: CAT12: Segmentation
Skipped: CAT12: Segmentation
Skipped: Apply deformations (many images)
Skipped: Move/Delete Files
Failed 'Segment longitudinal data'
Error using MATLABbatch system
Job execution failed. The full log of this run can be found in MATLAB command window, starting with the lines (look for the line showing the exact #job as displayed in this error message)
------------------
Running job #2
------------------
The following modules did not run:
Failed: Segment longitudinal data
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