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-94.0269696922037] [0.0842170223232003 0.06138391719134 -0.063168376604556] [1.0619602783285 0.975247873611118 1.46062451289749] [0.0252150151572101 -0.0825737379068723 0.000348679271241549] [-86.401225672277 -85.7496141713391 -94.0269696922037] [0.0842170223232003 0.06138391719134 -0.063168376604556] [1.0619602783285 0.975247873611118 1.46062451289749] [0.0252150151572101 -0.0825737379068723 0.000348679271241549] /var/lib/condor/execute/dir_30228/ds/sub-AL038 sub-AL038_ses-7_acq-RARE_T1w /var/lib/condor/execute/dir_30228/ds/sub-AL038/sub-AL038_ses-7_acq-RARE_T1w.nii /var/lib/condor/execute/dir_30228/ds/sub-AL038/sub-AL038_ses-7_acq-RARE_T1w.nii /var/lib/condor/execute/dir_30228/ds/sub-AL038/mri/msub-AL038_ses-7_acq-RARE_T1w.nii /var/lib/condor/execute/dir_30228/ds/sub-AL038/mri/p0sub-AL038_ses-7_acq-RARE_T1w.nii ..28/ds/sub-AL038/sub-AL038_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 6 0.511410645275092 4 0.123732700943947 0.471393704414368 [1.5 4.5 1.5] [1 1 1] 2.87228132326901 2612.25 [781.148498535156 12659.7763671875 8324.4296875 12458.552734375] [0.0626997798681259 1.01615142822266 0.668169856071472 0.999999940395355] T1 [984.959355028535 2530.13344211838 2791.74284064395 1853.69696182649] [0.0843474566936493 0.216669172048569 0.239072203636169 0.15874220430851] 4410.67138671875 0.354027569293976 1.10404479503632 0.343325316905975 [3 9 3] 5.74456264653803 10.5 [8.62400054931641 8.62400054931641 8.62400054931641 8.62400054931641] [8.624 8.624 8.624 8.624] 0.5 2.77291965484619 10.5 1.3113226890564 1.20408163265306 1.12785266131877 1.2 2.47465419769287 9.4278736114502 9.63816947112904 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 20220711-201654 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 [12625.15663 6603.69449 12361.50238 5619.47698 4856.51719 1469.41018] cat_main:skipLAS Skip LAS due to image contrast. Use global normalization. 0 cat_main_registration:Hydrocephalus Very large ventricles detected (1.00%% of TIV). Use seperate class and adapt schedule. </br> 1 6 0.511410645275092 4 0.123732700943947 0.471393704414368 6 0.511410645275092 [207.316756862745 15.4034509803922 194.792866666667 0 0] 0 0 430.394711901695 417.513074509804 [0.496551532203279 0.0368933380073837 0.466555129789337 0 0] [0.826410127108253 0.346041680515623] [0.844511568546295 0.559505057236693 1] [0.558990979639713 0.0721755153897607 0.421105382005241;0.916328595662388 0.0875042618112658 0.501599990339681;1.46391574812919 0.209349454266528 0.0772946276550783] [2.08891611148596 0.501813662748604 0.791938352104327;3.43816871302468 0.746215191857822 0.208061647895673] 8.25063566990614 [6.76780769043246 0.5 6.22907919880275 0.5 0.5] 1 7.33641835378635 5.82945987941252 [0 1 0 4976.64 0.554544175754647] [false] [0.0823189488591781 0.0772136897217782 0.365074942727463] [false] [123.647870588235 151.359019607843 294.533015686274 1639.70380392157 525.325850980392 2240.8297254902] 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 [0.0378321073949337 0.359165668487549 0.534756064414978 0 0] [0.206909106416004 0 0.206909106416004 0;0.125913170443959 0.0231581860038937 0.149071356447853 14815.310546875;0.286062343638627 0.0985060161760016 0.384568359814629 21006.2109375] [0.0833203122019768 0.737287878990173 1.17484557628632] [0.0592427290976048 0.459479182958603 0.714074313640594] 1.17484557628632

0.534756064414978

[108.024521568627 220.807082352941 200.379560784314 1680.83265098039 529.368117647059 2237.23850196078] [12625.15663 6603.69449 12361.50238] [-3.29765367507935 828.093322753906 7897.5224609375 12412.2236328125 13122.2412109375 36424.47265625] [0 0.1 1 2 3 4] [0.563669262145136 0.627659204745336 0.979960040879563] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 1.69100778643541 1.88297761423601 2.93988012263869 4 5 6] [0.563670615415998 0.627659493353199 0.979958880231682] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 1.69101184624799 1.8829784800596 2.93987664069505 4 5 6] [0.295078082146545 0.472299124413942 0.999063875541267] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 0.885234246439635 1.41689737324183 2.9971916266238 4 5 6] [0.295074983387904 0.472309610518864 0.999046642867521] [0 0.333333333333333 0.666666666666667 1 1.33333333333333 1.66666666666667 2] [0 0.885224950163713 1.41692883155659 2.99713992860256 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 [0.0216557513922453 0.108588390052319 0.228007569909096 0.315775096416473 0.479637891054153 0.766467273235321] [0.299938524070583 0 0.299938524070583 0;0.256116809116809 0.0325933887871388 0.288710197903948 50051.22265625;0.18300495834908 0.141794709782061 0.324799668131141 306154.0625;0.135857060726174 0.180788374052805 0.31664543477898 584817.125;0.112937397426363 0.179761758109046 0.292699155535408 943400.3125;0.320608462099988 0.175087714572188 0.495696176672175 306290.21875] [0.031151108443737 0.164097443223 0.332268267869949 0.454170048236847 0.755034804344177 1.58160889148712] [0.0138056669384241 0.0717649608850479 0.142453476786613 0.171167925000191 0.275478720664978 0.714198470115662] 1.58160889148712

0.766467273235321

------------------------------------------------------------------------ CAT12.8.1 r1980: 1/1: ./ds/sub-AL038/sub-AL038_ses-7_acq-RARE_T1w.n ------------------------------------------------------------------------ SANLM denoising (medium): 2s ------------------------------------------------------------------------ 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 3s Estimate background 4s Initial correction 4s Refine background 2s Final correction 2s Final scaling 3s 20s Correct center-of-mass 9s Affine registration 5s SPM preprocessing 1 (estimate 1 - TPM registration): 13s Use initial fine affine registration. 38s SPM preprocessing 1 (estimate 2): 41s ---------------------------------------------------------------------------- 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 8s Update segmentation 10s Update skull-stripping 8s Update probability maps 1s Update registration 29s 55s Global intensity correction: SANLM denoising after intensity normalization (medium): 4s ------------------------------------------------------------------------ NOTE 01: cat_main:skipLAS Skip LAS due to image contrast. Use global normalization. ------------------------------------------------------------------------ 20s SANLM denoising after LAS (medium) 17s 21s --- Update Ym and Ymi --- ROI segmentation (partitioning): Atlas -> subject space 3s Major structures 1s Ventricle detection 5s Blood vessel detection 1s Manual stroke lesion detection 0s Closing of deep structures 1s Side alignment 1s Final corrections 2s 13s Amap using initial SPM12 segmentations (MRF filter strength 0.07): 17s AMAP peaks: [0.86 0.13,0.25 0.09,0.64 0.09] --- 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" ------------------------------------------------------------------------------------------------------ WARNING 03: cat_main_registration:Hydrocephalus Very large ventricles detected (1.00 1 | 2.50 | 0.2999 0.0000 0.2999 | 32.0000 2 | 2.50 | 0.2692 0.0088 0.2779 | 29.4886 3 | 2.50 | 0.2501 0.0189 0.2689 | 26.9772 4 | 2.50 | 0.2405 0.0242 0.2647 | 24.6107 5 | 2.50 | 0.2373 0.0249 0.2622 | 22.6548 6 | 2.50 | 0.2345 0.0253 0.2598 | 20.6989 7 | 2.50 | 0.2308 0.0260 0.2568 | 18.9688 8 | 2.50 | 0.2271 0.0272 0.2543 | 17.4455 9 | 2.50 | 0.2245 0.0271 0.2516 | 15.9223 10 | 2.50 | 0.2209 0.0283 0.2491 | 14.6627 11 | 2.50 | 0.2182 0.0284 0.2466 | 13.4764 12 | 2.50 | 0.2145 0.0293 0.2438 | 12.3015 13 | 2.50 | 0.2114 0.0299 0.2413 | 11.3776 14 | 2.50 | 0.2078 0.0309 0.2386 | 10.4537 15 | 2.25 | 0.2561 0.0326 0.2887 | 10.0000 16 | 2.25 | 0.2394 0.0427 0.2821 | 9.2366 17 | 2.25 | 0.2324 0.0445 0.2769 | 8.4743 18 | 2.25 | 0.2256 0.0469 0.2725 | 7.8084 19 | 2.25 | 0.2197 0.0485 0.2682 | 7.2165 20 | 2.25 | 0.2140 0.0497 0.2636 | 6.6255 21 | 2.25 | 0.2081 0.0514 0.2595 | 6.1431 22 | 2.25 | 0.2026 0.0527 0.2553 | 5.6842 23 | 2.25 | 0.1971 0.0537 0.2508 | 5.2347 24 | 2.25 | 0.1902 0.0557 0.2459 | 4.8782 25 | 2.25 | 0.1848 0.0566 0.2413 | 4.5223 26 | 2.25 | 0.1790 0.0577 0.2367 | 4.1941 27 | 2.25 | 0.1732 0.0589 0.2322 | 3.9176 28 | 2.25 | 0.1677 0.0598 0.2275 | 3.6415 29 | 2.00 | 0.1830 0.1418 0.3248 | 8.0000 30 | 2.00 | 0.1965 0.0943 0.2908 | 7.1626 31 | 2.00 | 0.2008 0.0721 0.2730 | 6.3645 32 | 2.00 | 0.1990 0.0657 0.2647 | 5.7493 33 | 2.00 | 0.1948 0.0626 0.2575 | 5.1811 34 | 2.00 | 0.1917 0.0593 0.2510 | 4.6535 35 | 2.00 | 0.1831 0.0618 0.2449 | 4.2477 36 | 2.00 | 0.1783 0.0603 0.2386 | 3.8576 37 | 2.00 | 0.1705 0.0615 0.2320 | 3.5153 38 | 2.00 | 0.1634 0.0641 0.2275 | 3.2341 39 | 2.00 | 0.1569 0.0627 0.2196 | 2.9628 40 | 2.00 | 0.1490 0.0642 0.2132 | 2.7387 41 | 2.00 | 0.1428 0.0657 0.2085 | 2.5412 42 | 2.00 | 0.1369 0.0652 0.2022 | 2.3500 43 | 1.75 | 0.1359 0.1808 0.3166 | 6.0000 44 | 1.75 | 0.1646 0.1021 0.2666 | 5.1658 45 | 1.75 | 0.1732 0.0756 0.2488 | 4.4483 46 | 1.75 | 0.1712 0.0670 0.2382 | 3.9240 47 | 1.75 | 0.1677 0.0617 0.2293 | 3.4471 48 | 1.75 | 0.1616 0.0596 0.2212 | 3.0545 49 | 1.75 | 0.1537 0.0598 0.2135 | 2.7438 50 | 1.75 | 0.1469 0.0591 0.2060 | 2.4574 51 | 1.75 | 0.1392 0.0600 0.1992 | 2.2329 52 | 1.75 | 0.1323 0.0609 0.1932 | 2.0402 53 | 1.75 | 0.1255 0.0608 0.1863 | 1.8601 54 | 1.75 | 0.1191 0.0623 0.1814 | 1.7267 55 | 1.75 | 0.1131 0.0626 0.1757 | 1.6021 56 | 1.75 | 0.1086 0.0621 0.1708 | 1.4898 57 | 1.50 | 0.1129 0.1798 0.2927 | 4.0000 58 | 1.50 | 0.1337 0.1072 0.2409 | 3.1096 59 | 1.50 | 0.1376 0.0806 0.2182 | 2.4742 60 | 1.50 | 0.1331 0.0709 0.2041 | 2.0222 61 | 1.50 | 0.1243 0.0629 0.1873 | 1.6486 62 | 1.50 | 0.1158 0.0601 0.1759 | 1.3868 63 | 1.50 | 0.1069 0.0584 0.1652 | 1.1786 Shooting registration with 2.50:-0.25:1.50 mm takes: 523s Prepare output 7s 530s Jacobian determinant (RMS): 0.031 0.164 0.332 0.454 0.755 | 1.581609 Template Matching: 0.300 0.256 0.183 0.136 0.113 | 0.320608 Write result maps: 15s Surface and thickness estimation: lh: Thickness estimation (0.50 mm ): WM distance: 7s CSF distance: 2s PBT2x thickness: 8s 20s Create initial surface 27s Topology correction: 22s Surface refinement: 37s Reduction of surface collisions with optimization: 20s Spherical mapping with areal smoothing 31s Spherical registration 313s rh: Thickness estimation (0.50 mm ): WM distance: 7s CSF distance: 3s PBT2x thickness: 8s 19s Create initial surface 25s Topology correction: 23s Surface refinement: 30s Reduction of surface collisions with optimization: 15s Spherical mapping with areal smoothing 31s Spherical registration 340s Final surface processing results: Average thickness (FS): 0.8272 0.2915 mm Surface intensity / position RMSE: 0.1237 / 0.4714 Euler number / defect number / defect size: 6.0 / 4.0 / 0.51% Display thickness: /var/lib/condor/execute/dir_30228/ds/sub-AL038/surf/lh.thickness.sub-AL038_ses-7_acq-RARE_T1w Display thickness: /var/lib/condor/execute/dir_30228/ds/sub-AL038/surf/rh.thickness.sub-AL038_ses-7_acq-RARE_T1w Show surfaces in orthview: /var/lib/condor/execute/dir_30228/ds/sub-AL038/sub-AL038_ses-7_acq-RARE_T1w.nii Surface ROI estimation: 1617s Surface and thickness estimation takes: 1578s ROI estimation in native space: ROI estimation of 'cobra' atlas 4s ROI estimation of 'neuromorphometrics' atlas 13s ROI estimation of 'lpba40' atlas 4s ROI estimation of 'hammers' atlas 9s ROI estimation of 'thalamus' atlas 1s ROI estimation of 'ibsr' atlas 3s ROI estimation of 'aal3' atlas 5s ROI estimation of 'mori' atlas 7s ROI estimation of 'anatomy3' atlas 11s ROI estimation of 'julichbrain' atlas 15s ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 6s ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 11s ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 24s ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 36s Write results 36s 148s Quality check: 2s Print 'Graphics' figure to: /var/lib/condor/execute/dir_30228/ds/sub-AL038/report/catreport_sub-AL038_ses-7_acq-RARE_T1w.pdf ------------------------------------------------------------------------ CAT preprocessing takes 33 minute(s) and 33 second(s). Image Quality Rating (IQR): 8.62% (F) GM volume (GMV): 3.69% (15.40 / 417.51 ml) GM thickness (GMT): 0.83 0.35 mm Segmentations are saved in /var/lib/condor/execute/dir_30228/ds/sub-AL038/mri Reports are saved in /var/lib/condor/execute/dir_30228/ds/sub-AL038/report Labels are saved in /var/lib/condor/execute/dir_30228/ds/sub-AL038/label ------------------------------------------------------------------------