| 123456789101112131415161718192021222324252627282930313233343536373839404142434445464748495051525354555657585960616263646566676869707172737475767778798081828384858687888990919293949596979899100101102103104105106107108109110111112113114115116117118119120121122123124125126127128129130131132133134135136137138139140141142143144145146147148149150151152 |
- ------------------------------------------------------------------------
- CAT12.8.1 r1980: 1/1: ./dir_4169/ds/sub-030/sub-030_ses-t1_T1w.n
- ------------------------------------------------------------------------
- SANLM denoising (medium): 9s
- APP: Rough bias correction:
- Initialize 4s
- Estimate background 4s
- Initial correction 4s
- Refine background 2s
- Final correction 4s
- Final scaling 4s
- 27s
- Correct center-of-mass 3s
- Affine registration 6s
- SPM preprocessing 1 (estimate 1 - TPM registration): 50s
- SPM preprocessing 1 (estimate 2): 47s
- SPM preprocessing 2 (write):
- Write Segmentation 11s
- Update Segmentation 13s
- Update Skull-Stripping 29s
- Update probability maps 6s
- 59s
- Global intensity correction: 10s
- SANLM denoising after intensity normalization (medium): 6s
- Fast Optimized Shooting registration 25s
- Local adaptive segmentation (LASstr=0.50):
- Prepare maps 3s
- Prepare partitions 2s
- Prepare segments (LASmod = 1.05) 9s
- Estimate local tissue thresholds (WM) 11s
- Estimate local tissue thresholds (GM) 15s
- Intensity transformation 0s
- SANLM denoising after LAS (medium) 11s
- 53s
- ROI segmentation (partitioning):
- Atlas -> subject space 6s
- Major structures 2s
- Ventricle detection 8s
- Blood vessel detection 6s
- WMH detection (WMHCstr=0.50 > WMHCstr'=0.05) 18s
- Manual stroke lesion detection 0s
- Closing of deep structures 1s
- Side alignment 2s
- Final corrections 3s
- 47s
- Blood vessel correction (BVCstr=0.50): 1s
- Amap using initial SPM12 segmentations (MRF filter strength 0.05): 19s
- AMAP peaks: [CSF,GM,WM] = [0.360.06,0.680.07,0.980.05]
- Final cleanup (gcutstr=0.25):
- Level 1 cleanup (ROI estimation) 3s
- Level 1 cleanup (brain masking) 2s
- Level 2 cleanup (CSF correction) 1s
- Level 3 cleanup (CSF/WM PVE) 2s
- 8s
- 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 | 0.0832 0.0000 0.0832 | 32.0000
- 2 | 2.50 | 0.0805 0.0012 0.0817 | 29.4886
- 3 | 2.50 | 0.0796 0.0019 0.0815 | 26.9772
- 4 | 2.50 | 0.0792 0.0021 0.0813 | 24.6107
- 5 | 2.50 | 0.0789 0.0023 0.0812 | 22.6548
- 6 | 2.50 | 0.0786 0.0024 0.0810 | 20.6989
- 7 | 2.50 | 0.0782 0.0025 0.0808 | 18.9688
- 8 | 2.50 | 0.0779 0.0027 0.0806 | 17.4455
- 9 | 2.50 | 0.0776 0.0028 0.0803 | 15.9223
- 10 | 2.50 | 0.0772 0.0029 0.0801 | 14.6627
- 11 | 2.50 | 0.0768 0.0030 0.0798 | 13.4764
- 12 | 2.50 | 0.0765 0.0031 0.0796 | 12.3015
- 13 | 2.50 | 0.0761 0.0032 0.0793 | 11.3776
- 14 | 2.50 | 0.0757 0.0033 0.0790 | 10.4537
- 15 | 2.25 | 0.0746 0.0034 0.0780 | 9.5920
- 16 | 2.25 | 0.0715 0.0050 0.0765 | 8.8725
- 29 | 2.00 | 0.0721 0.0023 0.0743 | 3.3283
- 30 | 2.00 | 0.0657 0.0048 0.0705 | 3.1221
- 31 | 2.00 | 0.0635 0.0058 0.0693 | 2.9160
- 43 | 1.75 | 0.0621 0.0034 0.0656 | 1.5785
- 44 | 1.75 | 0.0581 0.0055 0.0636 | 1.5194
- 45 | 1.75 | 0.0567 0.0063 0.0630 | 1.4626
- 57 | 1.50 | 0.0550 0.0046 0.0596 | 1.0900
- 58 | 1.50 | 0.0522 0.0064 0.0587 | 1.0730
- Shooting registration with 2.50:-0.25:1.50 mm takes: 110s
- Prepare output 7s
- 117s
- Jacobian determinant (RMS): 0.012 0.046 0.070 0.099 0.122 | 0.127636
- Template Matching: 0.083 0.215 0.191 0.170 0.157 | 0.156711
- Write result maps: 18s
- Surface and thickness estimation:
- lh:
- Thickness estimation (0.50 mm):
- WM distance: 31s
- CSF distance: 11s
- PBT2x thickness: 32s
- 78s
- Create initial surface 54s
- Topology correction: 58s
- Surface refinement: 51s
- Reduction of surface collisions with optimization: 39s
- Spherical mapping with areal smoothing 52s
- Spherical registration 175s
- rh:
- Thickness estimation (0.50 mm):
- WM distance: 39s
- CSF distance: 10s
- PBT2x thickness: 31s
- 84s
- Create initial surface 50s
- Topology correction: 60s
- Surface refinement: 66s
- Reduction of surface collisions with optimization: 38s
- Spherical mapping with areal smoothing 53s
- Spherical registration 166s
- Final surface processing results:
- Average thickness (FS): 2.4931 0.6336 mm
- Surface intensity / position RMSE: 0.0658 / 0.0667
- Euler number / defect number / defect size: 28.0 / 19.0 / 0.86%
- Display thickness: /var/lib/condor/execute/dir_4169/ds/sub-030/surf/lh.thickness.sub-030_ses-t1_T1w
- Display thickness: /var/lib/condor/execute/dir_4169/ds/sub-030/surf/rh.thickness.sub-030_ses-t1_T1w
- Show surfaces in orthview: /var/lib/condor/execute/dir_4169/ds/sub-030/sub-030_ses-t1_T1w.nii
- Surface ROI estimation: 5s
- Surface and thickness estimation takes: 1084s
- ROI estimation in native space:
- ROI estimation of 'cobra' atlas 9s
- ROI estimation of 'neuromorphometrics' atlas 33s
- ROI estimation of 'lpba40' atlas 10s
- ROI estimation of 'hammers' atlas 24s
- ROI estimation of 'thalamus' atlas 2s
- ROI estimation of 'ibsr' atlas 8s
- ROI estimation of 'aal3' atlas 13s
- ROI estimation of 'mori' atlas 20s
- ROI estimation of 'anatomy3' atlas 29s
- ROI estimation of 'julichbrain' atlas 39s
- ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 14s
- ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 17s
- ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 65s
- ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 97s
- Write results 98s
- 381s
- Quality check: 4s
- Print 'Graphics' figure to:
- /var/lib/condor/execute/dir_4169/ds/sub-030/report/catreport_sub-030_ses-t1_T1w.pdf
- ------------------------------------------------------------------------
- CAT preprocessing takes 33 minute(s) and 56 second(s).
- Image Quality Rating (IQR): 83.80% (B)
- GM volume (GMV): 46.32% (646.71 / 1396.33 ml)
- GM thickness (GMT): 2.49 0.63 mm
- Segmentations are saved in /var/lib/condor/execute/dir_4169/ds/sub-030/mri
- Reports are saved in /var/lib/condor/execute/dir_4169/ds/sub-030/report
- Labels are saved in /var/lib/condor/execute/dir_4169/ds/sub-030/label
- ------------------------------------------------------------------------
|
