Dear CAT12 expert,
I am performing a VBM longitudinal studies on stroke patients and I´m having issues in the segmentation step in one of them. For preprocessing I have introduced the T1 image with the lesion areas set to zero (lesion masked).
The error I find is " Error using cat_main_gintnorm (line 376)"
I have also run the segmentation on the T1 image without taking out the lesion and runs well but I understand this will be less accurate due to tissue misclassification
Any idea on how may I solve this?
Thank you in advance
Best
Maria Jose
Running 'Longitudinal Rigid Registration'
Estimated noise sd for "F:\VBM_10patientsDone\P09\p09_t1\P09_T1_masked.img,1" = 9.04208
Estimated noise sd for "F:\VBM_10patientsDone\P09\p09_t2\P09_T1_masked.img,1" = 10.5562
Estimated noise sd for "F:\VBM_10patientsDone\P09\p09_t3\P09_T3_masked.img,1" = 8.92616
APP:
Initialize 4s
Estimate background 5s
Initial correction 2s
Refine background 6s
Final correction 2s
Final scaling 9s
APP-noise ~ 16%, APP-bias ~ 57% (BWP-level), APP-inv ~ 0.00
55s
Done 'Longitudinal Rigid Registration'
Running 'CAT12: Segmentation'
------------------------------------------------------------------------
CAT12.3 r1318: 1/1: F:\VBM_10patientsDone\P09\p09_t1\avg_P09_T1_masked.n
------------------------------------------------------------------------
SANLM denoising (NCstr=-Inf): 38s
APP: Rough bias correction:
Initialize 10s
Estimate background 9s
Initial correction 14s
Refine background 12s
Final correction 11s
Background correction 1s
Final scaling 3s
60s
Coarse affine registration 8s
Affine registration 18s
SPM preprocessing 1 (estimate): 446s
SPM preprocessing 2 (write): 88s
Global intensity correction:
------------------------------------------------------------------------
CAT Preprocessing error for avg_P09_T1_masked:
------------------------------------------------------------------------
Bad tissue contrast (C=373.01, G=690.27, W=-0.14)
------------------------------------------------------------------------
376 - cat_main_gintnorm
526 - cat_main
674 - cat_run_job1070
16 - cat_run_newcatch
392 - 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:
F:\VBM_10patientsDone\P09\p09_t1\report\catreport_avg_P09_T1_masked.pdf
Failed 'CAT12: Segmentation'
Error using cat_main_gintnorm (line 376)
Bad tissue contrast (C=373.01, G=690.27, W=-0.14)
