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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
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- <species>human</species>
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- <darteltpm>
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- <shootingtpm>
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- </shootingtpm>
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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_T1_masked.nii</item>
- </shootingT1>
- <brainmask>
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- </brainmask>
- <T1>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/T1.nii</item>
- </T1>
- <cat12atlas>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cat.nii</item>
- </cat12atlas>
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- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
- <td>0</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii</td>
- <td>0</td>
- <td>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/hammers.nii</td>
- <td>0</td>
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- <item>csf</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/thalamus.nii</td>
- <td>0</td>
- <td>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
- <td>0</td>
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- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
- <td>0</td>
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- <item>csf</item>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/anatomy3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/julichbrain.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_100Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_200Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <td>/var/lib/condor/execute/dir_3501863/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>0</td>
- <td>1</td>
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- <td>Destrieux</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_DK40.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
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- <tr>
- <td>HCP</td>
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- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_100P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_100Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <td>Schaefer2018_200P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_200Parcels_17Networks_order.annot</td>
- <td>0</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_400P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_400Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_600P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_600Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- </satlas>
- <LAB>
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- <BG>5</BG>
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- <PH>25</PH>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>20</SurfaceEulerNumber>
- <SurfaceDefectArea>0.758300459935643</SurfaceDefectArea>
- <SurfaceDefectNumber>16.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0623187087476254</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0646165758371353</SurfacePositionRMSE>
- <res_vx_vol>[1.00000001437265 1 1.00000001437265]</res_vx_vol>
- <res_vx_voli>[1.00000001476268 1 1.00000001476268]</res_vx_voli>
- <res_RMS>1.00000000958176</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[4.60099983215332 108.863998413086 255.634002685547 366.075012207031]</tissue_mn>
- <tissue_mnr>[0.0125684617087245 0.297381669282913 0.698310434818268 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[20.1236057819096 38.8153075663192 35.1775626885111 20.9839695451552]</tissue_std>
- <tissue_stdr>[0.0556709617376328 0.107380636036396 0.0973169952630997 0.0580511167645454]</tissue_stdr>
- <contrast>111.846748352051</contrast>
- <contrastr>0.305529594421387</contrastr>
- <res_ECR>0.282228767871857</res_ECR>
- <NCR>0.146245330572128</NCR>
- <ICR>0.305109918117523</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000002874529 2 2.00000002874529]</res_vx_vol>
- <res_RMS>2.00000001916353</res_RMS>
- <res_ECR>2.33790183067322</res_ECR>
- <res_BB>1</res_BB>
- <tissue_mn>[8.62400054931641 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[8.624 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>3.50038957595825</contrastr>
- <NCR>2.43045258522034</NCR>
- <ICR>1.2165424823761</ICR>
- <SurfaceEulerNumber>1.91836734693878</SurfaceEulerNumber>
- <SurfaceDefectArea>1.18957511498391</SurfaceDefectArea>
- <SurfaceDefectNumber>1.825</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.24637413024902</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.29233145713806</SurfacePositionRMSE>
- <SIQR>2.30204386725327</SIQR>
- <IQR>2.28253758227445</IQR>
- </qualityratings>
- <ratings_help>
- <qualitymeasures>
- <res_vx_vol>voxel dimensions</res_vx_vol>
- <res_RMS>RMS error of voxel size</res_RMS>
- <res_ECR>normalized gradient slope of the white matter boundary</res_ECR>
- <res_BB>brain next to the image boundary</res_BB>
- <tissue_mn>mean within the tissue classes</tissue_mn>
- <tissue_std>standard deviation within the tissue classes</tissue_std>
- <contrast>contrast between tissue classes</contrast>
- <contrastr>contrast between tissue classes</contrastr>
- <NCR>noise to contrast ratio</NCR>
- <ICR>inhomogeneity to contrast ratio</ICR>
- <SurfaceEulerNumber>average Euler number (characteristic)</SurfaceEulerNumber>
- <SurfaceDefectArea>average area of topological defects</SurfaceDefectArea>
- <SurfaceDefectNumber>average number of defects</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>RMSE of the expected boundary intensity Ym of the IS, OS, and CS</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>RMSE of the expected boundary position Ypp of the IS, OS, and CS</SurfacePositionRMSE>
- <SurfaceSelfIntersections>Percentual area of self-intersections of the IS and OS.</SurfaceSelfIntersections>
- </qualitymeasures>
- <subjectmeasures>
- <vol_TIV>total intracranial volume (GM+WM+VT)</vol_TIV>
- <vol_rel_CGW>relative tissue volume (CSF,GM,WM)</vol_rel_CGW>
- <vol_rel_WMH>relative WMH volume</vol_rel_WMH>
- <surf_TSA>total surface area</surf_TSA>
- </subjectmeasures>
- </ratings_help>
- <software>
- <version_segment>1639</version_segment>
- <system>LINUX</system>
- <version_spm>7771</version_spm>
- <version_matlab>9.3</version_matlab>
- <version_cat>12.8.1</version_cat>
- <revision_cat>2040</revision_cat>
- <function>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/cat_vol_qa.m</function>
- <markdefs>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/cat_stat_marks.m</markdefs>
- <qamethod>cat12</qamethod>
- <date>20231031-005033</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>20</SurfaceEulerNumber>
- <SurfaceDefectArea>0.758300459935643</SurfaceDefectArea>
- <SurfaceDefectNumber>16.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0623187087476254</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0646165758371353</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>20</EC_abs>
- <defect_size>0.758300459935643</defect_size>
- <vol_abs_CGW>[301.379914780702 672.885588494637 534.502070683325 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.577400017047941</vol_abs_WMH>
- <vol_rel_WMH>0.000382696464991605</vol_rel_WMH>
- <surf_TSA>1980.33777044654</surf_TSA>
- <vol_TIV>1508.76757395866</vol_TIV>
- <vol_rel_CGW>[0.199752380673154 0.445983596220283 0.354264023106563 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.51142317483151 0.633521811818999]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.50931978225708 0.72288170695278 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.87515456266842 0.254777858613048 0.292606994002236;2.52798448191182 0.184144361841615 0.434539239605571;3.20349936412432 0.268302680898781 0.272853766392193]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.907156608836222 0.294407045348806 0.533987707549766;4.11154046973844 0.324874188247522 0.466012292450234]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.2767123877087</vol_TIV>
- <vol_rel_CGW>[1.43736315864142 5.85961918499072 4.21235673682763 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03826964649916</vol_rel_WMH>
- <surf_TSA>8.62057441731454</surf_TSA>
- <SQR>4.83324707102189</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.3363315578 0.343799676546344]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00160716194659472 0.00149657414294779 0.0122807659208775]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[788.195403663907 487.256586935444 554.094788908865 609.344394461698 820.589667365457 8794.0342086666]</SPMvols0>
- <SPMvols1>[678.735620039911 458.18194293975 327.963201840093 494.873257748564 732.818700068105 8842.01052773017]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[129.775299072266 267.156097412109 354.137390136719]</T3th>
- <Tth>
- <T3th>[-5.05792999267578 -5.05792713165283 3.0794312953949 129.775299072266 267.156097412109 354.137390136719 466.318420410156 890.478454589844]</T3th>
- <T3thx>[0 0.02 0.05 1 2 3 4 5]</T3thx>
- </Tth>
- </gintnorm>
- </tths>
- <reginitp>
- <opt>
- <nits>16</nits>
- <vxreg>1.5</vxreg>
- <rres>3</rres>
- <stepsize>0.5</stepsize>
- <resfac>[1 1 1 1 1]</resfac>
- <ll1th>0.015</ll1th>
- <ll3th>[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]</ll3th>
- <regstr>15</regstr>
- </opt>
- <fast>0</fast>
- <clsn>2</clsn>
- <regra>1</regra>
- <testfolder>Shooting_Template_0_GS_tr1.5_rr3.0-3.0_or1.5_regstr15.0</testfolder>
- <dtc>[0.0208931248635054 0.0771655440330505 0.08534986525774 0 0]</dtc>
- <ll>[0.0864831833612351 0 0.0864831833612351 0;0.202138783980389 0.011008784693687 0.213147568674076 2347.60131835938;0.202138783980389 0.011008784693687 0.213147568674076 2347.60131835938]</ll>
- <rmsdtc>[0.0464325286448002 0.101640976965427 0.112939342856407]</rmsdtc>
- <rmsgdt>[0.0333756804466248 0.0473531298339367 0.0579935312271118]</rmsgdt>
- <rmsdt>0.112939342856407</rmsdt>
- <dt>0.08534986525774</dt>
- </reginitp>
- <reg>
- <opt>
- <nits>64</nits>
- <vxreg>1.5</vxreg>
- <rres>1.5</rres>
- <stepsize>0.25</stepsize>
- <resfac>[1.66666666666667 1.5 1.33333333333333 1.16666666666667 1]</resfac>
- <ll1th>0.051</ll1th>
- <ll3th>[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]</ll3th>
- <regstr>0.5</regstr>
- </opt>
- <fast>0</fast>
- <clsn>2</clsn>
- <regra>1</regra>
- <testfolder>Shooting_Template_0_GS_tr1.5_rr2.5-1.5_or1.5_regstr0.5</testfolder>
- <dtc>[0.00929565541446209 0.0340947881340981 0.0483252108097076 0.0567220933735371 0.0628286227583885 0.070001095533371]</dtc>
- <ll>[0.085099818300199 0 0.085099818300199 0;0.222422313797314 0.0135855368589744 0.236007850656288 6954.0966796875;0.200224555968221 0.0169680149620612 0.217192570930282 12212.083984375;0.179128895005156 0.0192204481742547 0.198349343179411 20724.87109375;0.161975277431142 0.021972051952922 0.183947329384064 38436.875;0.161975277431142 0.021972051952922 0.183947329384064 38436.875]</ll>
- <rmsdtc>[0.0108638489618897 0.0395226888358593 0.0590024590492249 0.082483634352684 0.104261048138142 0.110575549304485]</rmsdtc>
- <rmsgdt>[0.00330654974095523 0.0128646865487099 0.0272081699222326 0.0461359694600105 0.0630273073911667 0.0679716989398003]</rmsgdt>
- <rmsdt>0.110575549304485</rmsdt>
- <dt>0.070001095533371</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025735/ses-1/sub-0025735_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 56s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 8s</item>
- <item>Estimate background 8s</item>
- <item>Initial correction 8s</item>
- <item>Refine background 4s</item>
- <item>Final correction 7s</item>
- <item>Final scaling 6s</item>
- <item>48s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 11s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 96s</item>
- <item>SPM preprocessing 1 (estimate 2): 88s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 22s</item>
- <item>Update Segmentation 24s</item>
- <item>Update Skull-Stripping 55s</item>
- <item>Update probability maps 11s</item>
- <item>111s</item>
- <item>Global intensity correction: 22s</item>
- <item>SANLM denoising after intensity normalization (medium): 34s</item>
- <item>Fast Optimized Shooting registration 41s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.04) 17s</item>
- <item>Estimate local tissue thresholds (WM) 25s</item>
- <item>Estimate local tissue thresholds (GM) 37s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 60s</item>
- <item>152s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 9s</item>
- <item>Major structures 4s</item>
- <item>Ventricle detection 16s</item>
- <item>Blood vessel detection 12s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.13) 29s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 4s</item>
- <item>Final corrections 6s</item>
- <item>83s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 39s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 5s</item>
- <item>Level 1 cleanup (brain masking) 4s</item>
- <item>Level 2 cleanup (CSF correction) 2s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>14s</item>
- <item>Optimized Shooting registration with 2.50:-0.25:1.50 mm (regstr=0.50):</item>
- <item>Template: "/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii"</item>
- <item>1 | 2.50 | 0.0851 0.0000 0.0851 | 32.0000</item>
- <item>2 | 2.50 | 0.0825 0.0012 0.0837 | 29.4886</item>
- <item>3 | 2.50 | 0.0818 0.0018 0.0836 | 26.9772</item>
- <item>4 | 2.50 | 0.0814 0.0020 0.0834 | 24.6107</item>
- <item>5 | 2.50 | 0.0811 0.0022 0.0832 | 22.6548</item>
- <item>6 | 2.50 | 0.0808 0.0023 0.0830 | 20.6989</item>
- <item>7 | 2.50 | 0.0805 0.0024 0.0829 | 18.9688</item>
- <item>8 | 2.50 | 0.0802 0.0025 0.0827 | 17.4455</item>
- <item>9 | 2.50 | 0.0799 0.0025 0.0824 | 15.9223</item>
- <item>10 | 2.50 | 0.0796 0.0026 0.0822 | 14.6627</item>
- <item>11 | 2.50 | 0.0793 0.0027 0.0820 | 13.4764</item>
- <item>12 | 2.50 | 0.0789 0.0028 0.0817 | 12.3015</item>
- <item>13 | 2.50 | 0.0786 0.0029 0.0815 | 11.3776</item>
- <item>14 | 2.50 | 0.0783 0.0029 0.0812 | 10.4537</item>
- <item>15 | 2.25 | 0.0773 0.0030 0.0803 | 9.5920</item>
- <item>16 | 2.25 | 0.0741 0.0045 0.0787 | 8.8725</item>
- <item>29 | 2.00 | 0.0753 0.0020 0.0774 | 3.3283</item>
- <item>30 | 2.00 | 0.0689 0.0046 0.0735 | 3.1221</item>
- <item>31 | 2.00 | 0.0667 0.0057 0.0724 | 2.9160</item>
- <item>43 | 1.75 | 0.0657 0.0032 0.0689 | 1.5785</item>
- <item>44 | 1.75 | 0.0612 0.0056 0.0668 | 1.5194</item>
- <item>45 | 1.75 | 0.0597 0.0064 0.0661 | 1.4626</item>
- <item>57 | 1.50 | 0.0582 0.0046 0.0628 | 1.0900</item>
- <item>58 | 1.50 | 0.0550 0.0067 0.0617 | 1.0730</item>
- <item>59 | 1.50 | 0.0540 0.0073 0.0613 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 212s</item>
- <item>Prepare output 14s</item>
- <item>226s</item>
- <item>Jacobian determinant (RMS): 0.011 0.040 0.059 0.082 0.104 | 0.110576</item>
- <item>Template Matching: 0.085 0.222 0.200 0.179 0.162 | 0.161975</item>
- <item>Write result maps: 63s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 51s</item>
- <item>CSF distance: 21s</item>
- <item>PBT2x thickness: 60s</item>
- <item>140s</item>
- <item>Create initial surface 105s</item>
- <item>Topology correction: 113s</item>
- <item>Surface refinement: 95s</item>
- <item>Reduction of surface collisions with optimization: 81s</item>
- <item>Spherical mapping with areal smoothing 104s</item>
- <item>Spherical registration 334s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 43s</item>
- <item>CSF distance: 20s</item>
- <item>PBT2x thickness: 59s</item>
- <item>130s</item>
- <item>Create initial surface 105s</item>
- <item>Topology correction: 113s</item>
- <item>Surface refinement: 123s</item>
- <item>Reduction of surface collisions with optimization: 82s</item>
- <item>Spherical mapping with areal smoothing 102s</item>
- <item>Spherical registration 340s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5114 0.6332 mm</item>
- <item>Surface intensity / position RMSE: 0.0623 / 0.0646</item>
- <item>Euler number / defect number / defect size: 20.0 / 16.5 / 0.76%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3501863/ds/SWU_4/sub-0025735/ses-1/surf/lh.thickness.sub-0025735_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3501863/ds/SWU_4/sub-0025735/ses-1/surf/rh.thickness.sub-0025735_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_3501863/ds/SWU_4/sub-0025735/ses-1/sub-0025735_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 11s</item>
- <item>Surface and thickness estimation takes: 2090s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 14s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 52s</item>
- <item>ROI estimation of 'lpba40' atlas 15s</item>
- <item>ROI estimation of 'hammers' atlas 38s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 14s</item>
- <item>ROI estimation of 'aal3' atlas 22s</item>
- <item>ROI estimation of 'mori' atlas 34s</item>
- <item>ROI estimation of 'anatomy3' atlas 51s</item>
- <item>ROI estimation of 'julichbrain' atlas 67s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 28s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 57s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 121s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 165s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 12s</item>
- <item>Write results 14s</item>
- <item>696s</item>
- <item>Quality check: 16s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_3501863/ds/SWU_4/sub-0025735/ses-1/report/catreport_sub-0025735_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 67 minute(s) and 13 second(s).</item>
- <item>Image Quality Rating (IQR): 82.17% (B-)</item>
- <item>GM volume (GMV): 44.60% (672.89 / 1508.77 ml)</item>
- <item>GM thickness (GMT): 2.51 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_3501863/ds/SWU_4/sub-0025735/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_3501863/ds/SWU_4/sub-0025735/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_3501863/ds/SWU_4/sub-0025735/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|