| 123456789101112131415161718192021222324252627282930313233343536373839404142434445464748495051525354555657585960616263646566676869707172737475767778798081828384858687888990919293949596979899100101102103104105106107108109110111112113114115116117118119120121122123124125126127128129130131132133134135136137138139140141142143144145146147148149150151152153154155 |
- ------------------------------------------------------------------------
- CAT12.8.1 r1980: 1/1: ./execute/dir_13301/ds/sub-429/sub-429_T1w.n
- ------------------------------------------------------------------------
- SANLM denoising (medium): 93s
- APP: Rough bias correction:
- Initialize 8s
- Estimate background 13s
- Initial correction 11s
- Refine background 5s
- Final correction 9s
- Final scaling 11s
- 65s
- Correct center-of-mass 15s
- Affine registration 13s
- SPM preprocessing 1 (estimate 1 - TPM registration): 105s
- SPM preprocessing 1 (estimate 2): 78s
- SPM preprocessing 2 (write):
- Write Segmentation 21s
- Update Segmentation 24s
- Update Skull-Stripping 50s
- Update probability maps 11s
- 106s
- Global intensity correction: 19s
- SANLM denoising after intensity normalization (medium): 9s
- Fast Optimized Shooting registration 44s
- Local adaptive segmentation (LASstr=0.50):
- Prepare maps 4s
- Prepare partitions 3s
- Prepare segments (LASmod = 1.00) 19s
- Estimate local tissue thresholds (WM) 28s
- Estimate local tissue thresholds (GM) 38s
- Intensity transformation 0s
- SANLM denoising after LAS (medium) 36s
- 133s
- ROI segmentation (partitioning):
- Atlas -> subject space 9s
- Major structures 4s
- Ventricle detection 16s
- Blood vessel detection 13s
- WMH detection (WMHCstr=0.48 > WMHCstr'=0.09) 33s
- Manual stroke lesion detection 0s
- Closing of deep structures 2s
- Side alignment 4s
- Final corrections 6s
- 86s
- Blood vessel correction (BVCstr=0.50): 2s
- Amap using initial SPM12 segmentations (MRF filter strength 0.06): 39s
- AMAP peaks: [CSF,GM,WM] = [0.360.05,0.680.08,0.980.05]
- Final cleanup (gcutstr=0.24):
- Level 1 cleanup (ROI estimation) 5s
- Level 1 cleanup (brain masking) 4s
- Level 2 cleanup (CSF correction) 2s
- Level 3 cleanup (CSF/WM PVE) 3s
- 15s
- Optimized Shooting registration with 2.50:-0.25:1.50 mm (regstr=0.50):
- Template: "/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii"
- 1 | 2.50 | 0.0874 0.0000 0.0874 | 32.0000
- 2 | 2.50 | 0.0846 0.0012 0.0858 | 29.4886
- 3 | 2.50 | 0.0837 0.0019 0.0856 | 26.9772
- 4 | 2.50 | 0.0833 0.0021 0.0854 | 24.6107
- 5 | 2.50 | 0.0829 0.0023 0.0852 | 22.6548
- 6 | 2.50 | 0.0826 0.0024 0.0850 | 20.6989
- 7 | 2.50 | 0.0823 0.0025 0.0848 | 18.9688
- 8 | 2.50 | 0.0820 0.0026 0.0846 | 17.4455
- 9 | 2.50 | 0.0816 0.0027 0.0844 | 15.9223
- 10 | 2.50 | 0.0813 0.0029 0.0841 | 14.6627
- 11 | 2.50 | 0.0809 0.0030 0.0839 | 13.4764
- 12 | 2.50 | 0.0806 0.0030 0.0836 | 12.3015
- 13 | 2.50 | 0.0802 0.0032 0.0833 | 11.3776
- 14 | 2.50 | 0.0798 0.0032 0.0830 | 10.4537
- 15 | 2.25 | 0.0804 0.0033 0.0837 | 9.5920
- 16 | 2.25 | 0.0771 0.0049 0.0820 | 8.8725
- 17 | 2.25 | 0.0758 0.0055 0.0813 | 8.1530
- 18 | 2.25 | 0.0750 0.0058 0.0807 | 7.5234
- 29 | 2.00 | 0.0770 0.0028 0.0798 | 3.3283
- 30 | 2.00 | 0.0712 0.0054 0.0766 | 3.1221
- 31 | 2.00 | 0.0692 0.0064 0.0756 | 2.9160
- 43 | 1.75 | 0.0682 0.0037 0.0719 | 1.5785
- 44 | 1.75 | 0.0635 0.0062 0.0697 | 1.5194
- 45 | 1.75 | 0.0618 0.0072 0.0690 | 1.4626
- 57 | 1.50 | 0.0606 0.0053 0.0658 | 1.0900
- 58 | 1.50 | 0.0571 0.0075 0.0647 | 1.0730
- 59 | 1.50 | 0.0560 0.0083 0.0642 | 1.0579
- Shooting registration with 2.50:-0.25:1.50 mm takes: 222s
- Prepare output 14s
- 236s
- Jacobian determinant (RMS): 0.012 0.042 0.067 0.096 0.125 | 0.133084
- Template Matching: 0.087 0.225 0.207 0.185 0.168 | 0.167926
- Write result maps: 35s
- Surface and thickness estimation:
- lh:
- Thickness estimation (0.50 mm):
- WM distance: 61s
- CSF distance: 20s
- PBT2x thickness: 60s
- 150s
- Create initial surface 108s
- Topology correction: 149s
- Surface refinement: 90s
- Reduction of surface collisions with optimization: 88s
- Spherical mapping with areal smoothing 118s
- Spherical registration 346s
- rh:
- Thickness estimation (0.50 mm):
- WM distance: 53s
- CSF distance: 21s
- PBT2x thickness: 61s
- 143s
- Create initial surface 113s
- Topology correction: 118s
- Surface refinement: 102s
- Reduction of surface collisions with optimization: 90s
- Spherical mapping with areal smoothing 122s
- Spherical registration 360s
- Final surface processing results:
- Average thickness (FS): 2.4995 0.6423 mm
- Surface intensity / position RMSE: 0.0671 / 0.0674
- Euler number / defect number / defect size: 24.0 / 14.0 / 0.69%
- Display thickness: /var/lib/condor/execute/dir_13301/ds/sub-429/surf/lh.thickness.sub-429_T1w
- Display thickness: /var/lib/condor/execute/dir_13301/ds/sub-429/surf/rh.thickness.sub-429_T1w
- Show surfaces in orthview: /var/lib/condor/execute/dir_13301/ds/sub-429/sub-429_T1w.nii
- Surface ROI estimation: 46s
- Surface and thickness estimation takes: 2277s
- ROI estimation in native space:
- ROI estimation of 'cobra' atlas 11s
- ROI estimation of 'neuromorphometrics' atlas 39s
- ROI estimation of 'lpba40' atlas 11s
- ROI estimation of 'hammers' atlas 27s
- ROI estimation of 'thalamus' atlas 2s
- ROI estimation of 'ibsr' atlas 10s
- ROI estimation of 'aal3' atlas 16s
- ROI estimation of 'mori' atlas 23s
- ROI estimation of 'anatomy3' atlas 33s
- ROI estimation of 'julichbrain' atlas 44s
- ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 18s
- ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 33s
- ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 65s
- ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 111s
- Write results 112s
- 445s
- Quality check: 6s
- Print 'Graphics' figure to:
- /var/lib/condor/execute/dir_13301/ds/sub-429/report/catreport_sub-429_T1w.pdf
- ------------------------------------------------------------------------
- CAT preprocessing takes 65 minute(s) and 30 second(s).
- Image Quality Rating (IQR): 83.44% (B)
- GM volume (GMV): 43.53% (707.20 / 1624.77 ml)
- GM thickness (GMT): 2.50 0.64 mm
- Segmentations are saved in /var/lib/condor/execute/dir_13301/ds/sub-429/mri
- Reports are saved in /var/lib/condor/execute/dir_13301/ds/sub-429/report
- Labels are saved in /var/lib/condor/execute/dir_13301/ds/sub-429/label
- ------------------------------------------------------------------------
|
