[1.34079016662704 0.090970111819239 -0.0761303141254697 -117.834612716817;-0.0454687322416574 0.848319827814984 -0.157410487257774 -52.5171616267352;0.0846894650785316 -0.0769888226823215 1.96868448722605 -178.31385970085;0 0 0 1] [1.34079016662704 0.090970111819239 -0.0761303141254697 -117.834612716817;-0.0454687322416574 0.848319827814984 -0.157410487257774 -52.5171616267352;0.0846894650785316 -0.0769888226823215 1.96868448722605 -178.31385970085;0 0 0 1] [1 2 3 3 4 4 4 5 5 5 5 6 6] [7268.78739683847 13785.5767882197 13197.5523593565 14772.5655075488 8415.29316834346 1915.37895810691 4934.85026557543 3371.27783269762 11612.3767569104 5253.78997253027 1235.48307225319 1763.45478242714 1039.94465577395] [1978673.63637758;932245.233323151;8371769.18084702;932189.425208317;8602807.2794439;578260.688879088;3072114.12307721;1246517.98131394;27017185.6351205;2916656.77134742;208989.082267024;336943.986693985;153570.099860793] -8.65899562835693 [-117.834612716817 -52.5171616267352 -178.31385970085] [0.0968703632861783 -0.0595174198155732 0.0397704817368853] [1.34423137220893 0.854738798116516 1.94531607279429] [0.042546458098377 0.0397404453126089 -0.403901823942718] [-117.834612716817 -52.5171616267352 -178.31385970085] [0.0968703632861783 -0.0595174198155732 0.0397704817368853] [1.34423137220893 0.854738798116516 1.94531607279429] [0.042546458098377 0.0397404453126089 -0.403901823942718] /var/lib/condor/execute/dir_12393/ds/sub-AL011 sub-AL011_ses-7_acq-RARE_T1w /var/lib/condor/execute/dir_12393/ds/sub-AL011/sub-AL011_ses-7_acq-RARE_T1w.nii /var/lib/condor/execute/dir_12393/ds/sub-AL011/sub-AL011_ses-7_acq-RARE_T1w.nii /var/lib/condor/execute/dir_12393/ds/sub-AL011/mri/msub-AL011_ses-7_acq-RARE_T1w.nii /var/lib/condor/execute/dir_12393/ds/sub-AL011/mri/p0sub-AL011_ses-7_acq-RARE_T1w.nii ..93/ds/sub-AL011/sub-AL011_ses-7_acq-RARE_T1w /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/tpm/TPM.nii [1 1 2 3 4 2] mni [0 0.001 0.5 0.05 0.2] 0.0001 0.5 0.5 0.001 60 3 0 1 0 1.4 2 0.5 0 -Inf 0.5 0.5 0.5 2 0.5 0 1 optimal [1 0.3] ../derivatives/CAT12.8.1_1980 0 32 human 1070 1 1.5 12 Template_T1 /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_Dartel.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_T1_masked.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/brainmask.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/T1.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cat.nii 0.5 22 1 2 0 1 5 0 0.7 0.1 BCGWHw 2 1 1 1 0 2 10 1 1 /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii 0 csf gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii 0 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii 0 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/hammers.nii 0 csf gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/thalamus.nii 0 gm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii 0 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii 0 csf gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.nii 1 gm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii 1 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/anatomy3.nii 1 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/julichbrain.nii 1 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_100Parcels_17Networks_order.nii 1 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_200Parcels_17Networks_order.nii 1 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii 1 gm wm [false] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii 1 gm wm [false] Desikan /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_a2009s.freesurfer.annot 0 1 Destrieux /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_DK40.freesurfer.annot 0 1 HCP /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_HCP_MMP1.freesurfer.annot 0 0 Schaefer2018_100P_17N /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_100Parcels_17Networks_order.annot 1 0 Schaefer2018_200P_17N /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_200Parcels_17Networks_order.annot 0 0 Schaefer2018_400P_17N /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_400Parcels_17Networks_order.annot 1 0 Schaefer2018_600P_17N /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_600Parcels_17Networks_order.annot 1 0 0 1 3 5 7 9 11 13 13 15 17 19 21 23 25 27 0 0 0 /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii 0.5 [1 0.3] 0 pbt2x /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_Dartel.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_2_Dartel.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_3_Dartel.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_Dartel.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_5_Dartel.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_6_Dartel.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_2_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_3_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_GS.nii [true] [0.96 0.9999] /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_2_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_3_GS.nii /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_GS.nii 1 10 78.2480210703591 2.5 0.247814983129501 0.985225796699524 [1.5 4.5 1.5] [1 1 1] 2.87228132326901 1377 [2244.1279296875 10692.6103515625 NaN 11065.0966796875] [0.202811419963837 0.966336846351624 NaN 1] [1599.21980540363 2308.17824468807 2312.8551050318 1468.91322141542] [0.181297525763512 0.261669486761093 0.26219967007637 0.166525155305862] NaN NaN 0 NaN [3 9 3] 5.74456264653803 10.5 [8.62400054931641 8.62400054931641 NaN 8.62400054931641] [8.624 8.624 8.624 8.624] NaN NaN 0.5 NaN 1.40816326530612 10.5 1.125 4.95629978179932 10.5 5.26778717548681 voxel dimensions RMS error of voxel size brain next to the image boundary mean within the tissue classes standard deviation within the tissue classes contrast between tissue classes contrast between tissue classes noise to contrast ratio inhomogeneity to contrast ratio average Euler number (characteristic) average area of topological defects average number of defects RMSE of the expected boundary intensity Ym of the IS, OS, and CS RMSE of the expected boundary position Ypp of the IS, OS, and CS Percentual area of self-intersections of the IS and OS. total intracranial volume (GM+WM+VT) relative tissue volume (CSF,GM,WM) relative WMH volume total surface area LINUX 7771 9.3 12.8.1 1980 /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/cat_vol_qa.m /code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/cat_stat_marks.m cat12 20220711-221918 cat_run_job:failedBGD cat_run_job1639: Detection of background failed. 1 cat_run_job1639:nonT1contrast A non-T1 contrast was detected and the NEW EXPERIMENTAL </br>PIPELINE is used! If it is was a high-resolution T1 image, </br>the initial segmentation might have failed, probably due </br>to alignment problems (please check the image orientation). 1 [14338.64026 7268.7874 13785.57679 5309.76938 3671.26078 1336.59133] cat_main:skipLAS Skip LAS due to image contrast. Use global normalization. 0 10 78.2480210703591 2.5 0.247814983129501 0.985225796699524 10 78.2480210703591 [263.938266666667 3.77463529411765 67.3642196078431 0 0] 0 0 434.848423956885 335.077121568627 [0.787694084964882 0.01126497469134 0.201040940343778 0 0] [0.506601438965568 0.483543132245373] [0.366287916898727 0.482647458107936 1] [0.13018145086326 0.083465001391059 0.534722563221213;0.578178962833708 0.124022803506503 0.346587282101645;1.1012226308099 0.150799616068779 0.118690154677142] [1.53153148682133 0.0837527592896744 0.593976698175423;1.86062186809572 0.152467835460441 0.406023301824577] 8.40367215488022 [10.5 0.5 1.4605053941052 0.5 0.5] 1 7.2954003310629 8.58653720704046 [0 1 0 4976.64 0.542404044958696] [false] [0.0783705306648803 0.0661933738811321 0.330798569087094] [false] [44.9296156862745 60.0752745098039 401.099678431373 1325.6246627451 819.673666666667 2324.25079607843] 16 1.5 3 0.5 [1 1 1 1 1] 0.015 [0.03 0.03 0.03 0.03 0.03;0.03 0.03 0.03 0.03 0.03;0.03 0.03 0.03 0.03 0.03;0.03 0.03 0.03 0.03 0.03;0.03 0.03 0.03 0.03 0.03] 15 0 2 1 Shooting_Template_0_GS_tr1.5_rr3.0-3.0_or1.5_regstr15.0 [0.0401935242116451 0.432831466197968 0.681703686714172 0 0] [0.242546041854242 0 0.242546041854242 0;0.144392632541298 0.0292080149931066 0.173600647534404 18685.65234375;0.30481671428337 0.130836587564713 0.435653301848083 27900.640625] [0.0876788720488548 0.888962924480438 1.42826724052429] [0.0619283057749271 0.531653642654419 0.815412282943726] 1.42826724052429

0.681703686714172

[33.9299725490196 92.5955921568627 303.181160784314 1360.01525882353 864.995392156863 2321.97802352941] [14338.64026 7268.7874 13785.57679] [-0.845198392868042 934.318725585938 7488.67626953125 13852.6953125 14950.740234375 25046.482421875] [0 0.1 1 2 3 4] [0.333868084984497 0.656570244581199 0.723315242865162] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 1.00160425495349 1.9697107337436 2.16994572859549 4 5 6] [0.333868144876872 0.656570247695865 0.723316285242575] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 1.00160443463062 1.9697107430876 2.16994885572772 4 5 6] [0.345496480167537 0.980949087673602 0.69569576419577] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 1.03648944050261 2.08708729258731 2.94284726302081 4 5 6] [0.345496488322691 0.980946637910127 0.695700353054298] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 1.03648946496807 2.08710105916289 2.94283991373038 4 5 6] 64 1.5 1.5 0.25 [1.66666666666667 1.5 1.33333333333333 1.16666666666667 1] 0.051 [0.0501 0.0501 0.0501 0.0501 0.0501;0.0501 0.0501 0.0501 0.0501 0.0501;0.0501 0.0501 0.0501 0.0501 0.0501;0.0501 0.0501 0.0501 0.0501 0.0501;0.0501 0.0501 0.0501 0.0501 0.0501] 0.5 0 2 1 Shooting_Template_0_GS_tr1.5_rr2.5-1.5_or1.5_regstr0.5 [0.0235182419419289 0.12008099257946 0.34332937002182 0.395501017570496 0.411729842424393 1.15917325019836] [0.265811940706008 0 0.265811940706008 0;0.264645767195767 0.0243642857142857 0.289010052910053 37414.40625;0.169435685153691 0.0602610293249244 0.229696714478616 130111.7578125;0.224382507382182 0.219129774305556 0.443512281687737 236281.5;0.202024387730778 0.229293987548539 0.431318375279318 401116.125;0.202024387730778 0.229293987548539 0.431318375279318 401116.125] [0.0319829694926739 0.176600441336632 0.530346810817719 1.20485270023346 2.47963380813599 2.23216223716736] [0.0127588929608464 0.0744070187211037 0.235600888729095 0.479053914546967 1.85845565795898 0.903569042682648] 2.23216223716736

1.15917325019836

------------------------------------------------------------------------ CAT12.8.1 r1980: 1/1: ./ds/sub-AL011/sub-AL011_ses-7_acq-RARE_T1w.n ------------------------------------------------------------------------ SANLM denoising (medium): 1s ------------------------------------------------------------------------ WARNING 01: cat_run_job:failedBGD cat_run_job1639: Detection of background failed. ------------------------------------------------------------------------ Internal resampling (1.50x4.50x1.50mm > 1.00x1.00x1.00mm): 1s APP: Rough bias correction: Initialize 2s Estimate background 3s Initial correction 3s Refine background 1s Final correction 2s Final scaling 3s 17s Correct center-of-mass 10s Affine registration 45s SPM preprocessing 1 (estimate 1 - TPM registration): 11s Use initial fine affine registration. 28s SPM preprocessing 1 (estimate 2): 29s ---------------------------------------------------------------------------- WARNING 02: cat_run_job1639:nonT1contrast A non-T1 contrast was detected and the NEW EXPERIMENTAL PIPELINE is used! If it is was a high-resolution T1 image, the initial segmentation might have failed, probably due to alignment problems (please check the image orientation). ---------------------------------------------------------------------------- SPM preprocessing 2 (write): Write Segmentation 6s Update segmentation 7s Update skull-stripping 5s Update probability maps 1s Update registration 23s 41s Global intensity correction: SANLM denoising after intensity normalization (medium): 1s ------------------------------------------------------------------------ NOTE 01: cat_main:skipLAS Skip LAS due to image contrast. Use global normalization. ------------------------------------------------------------------------ 13s SANLM denoising after LAS (medium) 12s 14s --- Update Ym and Ymi --- ROI segmentation (partitioning): Atlas -> subject space 2s Major structures 1s Ventricle detection 4s Blood vessel detection 1s Manual stroke lesion detection 0s Closing of deep structures 0s Side alignment 1s Final corrections 1s 10s Amap using initial SPM12 segmentations (MRF filter strength 0.07): 9s AMAP peaks: [1.09 0.12,0.36 0.10,0.66 0.05] --- Update Ym and Ymi --- 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 | 0.2658 0.0000 0.2658 | 32.0000 2 | 2.50 | 0.2487 0.0056 0.2543 | 29.4886 3 | 2.50 | 0.2428 0.0093 0.2521 | 26.9772 4 | 2.50 | 0.2395 0.0112 0.2507 | 24.6107 5 | 2.50 | 0.2368 0.0126 0.2495 | 22.6548 6 | 2.50 | 0.2345 0.0136 0.2481 | 20.6989 7 | 2.50 | 0.2316 0.0147 0.2463 | 18.9688 8 | 2.50 | 0.2291 0.0158 0.2449 | 17.4455 9 | 2.50 | 0.2265 0.0167 0.2432 | 15.9223 10 | 2.50 | 0.2236 0.0180 0.2416 | 14.6627 11 | 2.50 | 0.2207 0.0191 0.2398 | 13.4764 12 | 2.50 | 0.2177 0.0202 0.2378 | 12.3015 13 | 2.50 | 0.2143 0.0217 0.2360 | 11.3776 14 | 2.50 | 0.2111 0.0228 0.2339 | 10.4537 15 | 2.25 | 0.2646 0.0244 0.2890 | 9.5920 16 | 2.25 | 0.2469 0.0351 0.2820 | 8.8725 17 | 2.25 | 0.2380 0.0396 0.2776 | 8.1530 18 | 2.25 | 0.2309 0.0426 0.2736 | 7.5234 19 | 2.25 | 0.2245 0.0450 0.2696 | 6.9630 20 | 2.25 | 0.2185 0.0467 0.2652 | 6.4027 21 | 2.25 | 0.2123 0.0489 0.2612 | 5.9447 22 | 2.25 | 0.2064 0.0506 0.2570 | 5.5083 23 | 2.25 | 0.2005 0.0519 0.2525 | 5.0803 24 | 2.25 | 0.1932 0.0540 0.2472 | 4.7404 25 | 2.25 | 0.1875 0.0551 0.2427 | 4.4005 26 | 2.25 | 0.1817 0.0564 0.2381 | 4.0868 27 | 2.25 | 0.1758 0.0580 0.2338 | 3.8221 28 | 2.25 | 0.1702 0.0590 0.2292 | 3.5574 29 | 2.00 | 0.1694 0.0603 0.2297 | 3.3283 30 | 2.00 | 0.1621 0.0618 0.2239 | 3.1221 31 | 2.00 | 0.1567 0.0623 0.2191 | 2.9160 32 | 2.00 | 0.1502 0.0636 0.2138 | 2.7495 33 | 2.00 | 0.1452 0.0643 0.2095 | 2.5890 34 | 2.00 | 0.1401 0.0649 0.2050 | 2.4330 35 | 2.00 | 0.1351 0.0660 0.2012 | 2.3080 36 | 2.00 | 0.1304 0.0667 0.1971 | 2.1830 37 | 2.00 | 0.1257 0.0674 0.1931 | 2.0688 38 | 2.00 | 0.1212 0.0683 0.1895 | 1.9714 39 | 2.00 | 0.1169 0.0688 0.1857 | 1.8740 40 | 2.00 | 0.1117 0.0695 0.1811 | 1.7907 41 | 2.00 | 0.1079 0.0699 0.1778 | 1.7148 42 | 2.00 | 0.1043 0.0700 0.1743 | 1.6390 43 | 1.75 | 0.1009 0.0708 0.1716 | 1.5785 44 | 1.75 | 0.0967 0.0720 0.1686 | 1.5194 45 | 1.75 | 0.0935 0.0723 0.1658 | 1.4626 46 | 1.75 | 0.0907 0.0727 0.1634 | 1.4166 47 | 1.75 | 0.0881 0.0727 0.1609 | 1.3706 48 | 1.75 | 0.0856 0.0729 0.1585 | 1.3290 49 | 1.75 | 0.0823 0.0731 0.1554 | 1.2932 50 | 1.75 | 0.0803 0.0730 0.1533 | 1.2574 51 | 1.75 | 0.0784 0.0730 0.1514 | 1.2271 52 | 1.75 | 0.0765 0.0731 0.1496 | 1.1992 53 | 1.75 | 0.0748 0.0730 0.1478 | 1.1713 57 | 1.50 | 0.0762 0.0711 0.1473 | 1.0900 Problem with Shooting (dets: 0.00294326 .. 3.19305) 58 | 1.50 | 0.0701 0.0751 0.1452 | 1.0730 59 | 1.50 | 0.0673 0.0764 0.1438 | 1.0579 Shooting registration with 2.50:-0.25:1.50 mm takes: 259s Prepare output 5s 264s Jacobian determinant (RMS): 0.032 0.177 0.530 1.205 2.480 | 2.232162 Template Matching: 0.266 0.265 0.169 0.224 0.202 | 0.202024 Write result maps: 12s Surface and thickness estimation: lh: Thickness estimation (0.50 mm ): WM distance: 4s CSF distance: 1s PBT2x thickness: 5s 12s Create initial surface 18s Topology correction: 503s Surface refinement: 123s Reduction of surface collisions with optimization: 94s Spherical mapping with areal smoothing 58s Spherical registration 269s rh: Thickness estimation (0.50 mm ): WM distance: 4s CSF distance: 2s PBT2x thickness: 5s 12s Create initial surface 18s Topology correction: 888s Surface refinement: 188s Reduction of surface collisions with optimization: 192s Spherical mapping with areal smoothing 153s Spherical registration 265s Final surface processing results: Average thickness (FS): 0.4933 0.4310 mm Surface intensity / position RMSE: 0.2478 / 0.9852 Euler number / defect number / defect size: 10.0 / 2.5 / 78.25% Display thickness: /var/lib/condor/execute/dir_12393/ds/sub-AL011/surf/lh.thickness.sub-AL011_ses-7_acq-RARE_T1w Display thickness: /var/lib/condor/execute/dir_12393/ds/sub-AL011/surf/rh.thickness.sub-AL011_ses-7_acq-RARE_T1w Show surfaces in orthview: /var/lib/condor/execute/dir_12393/ds/sub-AL011/sub-AL011_ses-7_acq-RARE_T1w.nii Surface ROI estimation: 3179s Surface and thickness estimation takes: 3153s ROI estimation in native space: ROI estimation of 'cobra' atlas 3s ROI estimation of 'neuromorphometrics' atlas 11s ROI estimation of 'lpba40' atlas 3s ROI estimation of 'hammers' atlas 8s ROI estimation of 'thalamus' atlas 1s ROI estimation of 'ibsr' atlas 3s ROI estimation of 'aal3' atlas 4s ROI estimation of 'mori' atlas 7s ROI estimation of 'anatomy3' atlas 9s ROI estimation of 'julichbrain' atlas 12s ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 5s ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 9s ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 20s ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 30s Write results 31s 125s Quality check: 1s Print 'Graphics' figure to: /var/lib/condor/execute/dir_12393/ds/sub-AL011/report/catreport_sub-AL011_ses-7_acq-RARE_T1w.pdf ------------------------------------------------------------------------ CAT preprocessing takes 58 minute(s) and 55 second(s). Image Quality Rating (IQR): 52.32% (E-) GM volume (GMV): 1.13% ( 3.77 / 335.08 ml) GM thickness (GMT): 0.51 0.48 mm Segmentations are saved in /var/lib/condor/execute/dir_12393/ds/sub-AL011/mri Reports are saved in /var/lib/condor/execute/dir_12393/ds/sub-AL011/report Labels are saved in /var/lib/condor/execute/dir_12393/ds/sub-AL011/label ------------------------------------------------------------------------