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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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- </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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- <expertgui>1</expertgui>
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- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</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/cobra.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/hammers.nii</td>
- <td>0</td>
- <td>
- <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>
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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>
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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/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>[false]</td>
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- <tr>
- <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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- <item>gm</item>
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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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- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_62438/ds/code/Tian_Subcortex_S2_7T.nii</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>
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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>
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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>
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- <td>0</td>
- </tr>
- </satlas>
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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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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_GS.nii</item>
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- </templates>
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- <qualitymeasures>
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- <SurfaceEulerNumber>16</SurfaceEulerNumber>
- <SurfaceDefectArea>0.656802714839495</SurfaceDefectArea>
- <SurfaceDefectNumber>12.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0652859434485435</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.066094771027565</SurfacePositionRMSE>
- <res_vx_vol>[0.999824503383949 1.00000001470689 0.999999987532486]</res_vx_vol>
- <res_vx_voli>[0.999824502025757 1.00000001470293 0.999999988115412]</res_vx_voli>
- <res_RMS>0.999941505296804</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[21.2779998779297 97.7529983520508 277.147003173828 420.006011962891]</tissue_mn>
- <tissue_mnr>[0.0506611801683903 0.23274190723896 0.659864366054535 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[17.9120738733908 47.0849823240823 45.0057600392069 26.7315653426253]</tissue_std>
- <tissue_stdr>[0.0449230372905731 0.118087969720364 0.112873330712318 0.0670421048998833]</tissue_stdr>
- <contrast>150.482635498047</contrast>
- <contrastr>0.35828685760498</contrastr>
- <res_ECR>0.400875091552734</res_ECR>
- <NCR>0.172899842262268</NCR>
- <ICR>0.286601334810257</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.9996490067679 2.00000002941378 1.99999997506497]</res_vx_vol>
- <res_RMS>1.99988301059361</res_RMS>
- <res_ECR>2.94324016571045</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>2.70903038978577</contrastr>
- <NCR>2.8130898475647</NCR>
- <ICR>1.17063820362091</ICR>
- <SurfaceEulerNumber>1.71428571428571</SurfaceEulerNumber>
- <SurfaceDefectArea>1.16420067870987</SurfaceDefectArea>
- <SurfaceDefectNumber>1.625</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.30571889877319</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.32189536094666</SurfacePositionRMSE>
- <SIQR>2.74986755026338</SIQR>
- <IQR>2.60007694371225</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>20231030-234232</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>16</SurfaceEulerNumber>
- <SurfaceDefectArea>0.656802714839495</SurfaceDefectArea>
- <SurfaceDefectNumber>12.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0652859434485435</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.066094771027565</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>16</EC_abs>
- <defect_size>0.656802714839495</defect_size>
- <vol_abs_CGW>[216.099555192553 575.393046720149 447.347098578754 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.254637657421816</vol_abs_WMH>
- <vol_rel_WMH>0.000205545283478402</vol_rel_WMH>
- <surf_TSA>1625.28831656858</surf_TSA>
- <vol_TIV>1238.83970049146</vol_TIV>
- <vol_rel_CGW>[0.174437060022233 0.464461258782623 0.361101681195145 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.49151970285464 0.630731535794194]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.47498488426208 0.772697206576742 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.88057635373471 0.265857156695303 0.297797710588717;2.51247816024329 0.181605303258521 0.451768574004348;3.20466709992672 0.291363765709227 0.250433715406935]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.860305375709921 0.278664217240316 0.529849137931034;4.18609236026067 0.325432589608025 0.470150862068966]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.59435181563748</vol_TIV>
- <vol_rel_CGW>[0.982705819364811 6.19147375687182 4.33515950422314 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.02055452834784</vol_rel_WMH>
- <surf_TSA>8.36091373019116</surf_TSA>
- <SQR>5.09884273179232</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 9828.67482007568 0.365308732331812]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00141498143784702 0.00125326833222061 0.0183435883373022]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[681.964673966264 402.004096668396 361.834821928725 391.353424961305 1474.66278192842 6993.36129138638]</SPMvols0>
- <SPMvols1>[603.003176896123 380.219481218258 221.707041521365 370.533969512295 654.754571614238 7598.47590159271]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[117.762901306152 293.752593994141 411.755187988281]</T3th>
- <Tth>
- <T3th>[-6.00470018386841 -6.00469589233398 7.55131244659424 117.762901306152 293.752593994141 411.755187988281 558.751342773438 967.406616210938]</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>[0.0203753802925348 0.0727116763591766 0.0802351161837578 0 0]</dtc>
- <ll>[0.0814043207615077 0 0.0814043207615077 0;0.191177294892566 0.0100608953908712 0.201238190283438 2145.4658203125;0.191177294892566 0.0100608953908712 0.201238190283438 2145.4658203125]</ll>
- <rmsdtc>[0.0448973253369331 0.0968616157770157 0.10778771340847]</rmsdtc>
- <rmsgdt>[0.0319235250353813 0.0453528165817261 0.0555414296686649]</rmsgdt>
- <rmsdt>0.10778771340847</rmsdt>
- <dt>0.0802351161837578</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>[0.00913188513368368 0.0331272669136524 0.0474062114953995 0.0552958957850933 0.0599204935133457 0.0670412480831146]</dtc>
- <ll>[0.0808613566111017 0 0.0808613566111017 0;0.211793650793651 0.0121706043956044 0.223964255189255 6229.828125;0.190281841903428 0.0157172542411062 0.205999096144534 11311.896484375;0.169745898993946 0.0176739199095868 0.187419818903533 19057.29296875;0.156228742140666 0.018281425198702 0.174510167339368 31980.666015625;0.156228742140666 0.018281425198702 0.174510167339368 31980.666015625]</ll>
- <rmsdtc>[0.0107308384031057 0.0391022972762585 0.0591936074197292 0.0832249149680138 0.104908250272274 0.109179742634296]</rmsdtc>
- <rmsgdt>[0.00319766742177308 0.0128583405166864 0.0282835252583027 0.0472041144967079 0.0645973309874535 0.06737020611763]</rmsgdt>
- <rmsdt>0.109179742634296</rmsdt>
- <dt>0.0670412480831146</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025377/ses-1/sub-0025377_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 29s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 4s</item>
- <item>Estimate background 3s</item>
- <item>Initial correction 3s</item>
- <item>Refine background 2s</item>
- <item>Final correction 3s</item>
- <item>Final scaling 3s</item>
- <item>21s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 5s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 4s</item>
- <item>Use initial fine affine registration. 44s</item>
- <item>SPM preprocessing 1 (estimate 2): 34s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 11s</item>
- <item>Update Segmentation 13s</item>
- <item>Update Skull-Stripping 28s</item>
- <item>Update probability maps 6s</item>
- <item>59s</item>
- <item>Global intensity correction: 11s</item>
- <item>SANLM denoising after intensity normalization (medium): 19s</item>
- <item>Fast Optimized Shooting registration 25s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 2s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.04) 9s</item>
- <item>Estimate local tissue thresholds (WM) 12s</item>
- <item>Estimate local tissue thresholds (GM) 17s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 32s</item>
- <item>78s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 2s</item>
- <item>Ventricle detection 9s</item>
- <item>Blood vessel detection 6s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.05) 19s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 2s</item>
- <item>Final corrections 3s</item>
- <item>48s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 24s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.07,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 3s</item>
- <item>Level 1 cleanup (brain masking) 2s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 2s</item>
- <item>8s</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 | 0.0809 0.0000 0.0809 | 32.0000</item>
- <item>2 | 2.50 | 0.0787 0.0010 0.0797 | 29.4886</item>
- <item>3 | 2.50 | 0.0781 0.0016 0.0796 | 26.9772</item>
- <item>4 | 2.50 | 0.0777 0.0018 0.0795 | 24.6107</item>
- <item>5 | 2.50 | 0.0775 0.0019 0.0794 | 22.6548</item>
- <item>6 | 2.50 | 0.0772 0.0020 0.0792 | 20.6989</item>
- <item>7 | 2.50 | 0.0770 0.0021 0.0791 | 18.9688</item>
- <item>8 | 2.50 | 0.0767 0.0022 0.0789 | 17.4455</item>
- <item>9 | 2.50 | 0.0765 0.0023 0.0787 | 15.9223</item>
- <item>10 | 2.50 | 0.0762 0.0024 0.0785 | 14.6627</item>
- <item>11 | 2.50 | 0.0759 0.0024 0.0783 | 13.4764</item>
- <item>12 | 2.50 | 0.0756 0.0025 0.0781 | 12.3015</item>
- <item>13 | 2.50 | 0.0753 0.0026 0.0779 | 11.3776</item>
- <item>14 | 2.50 | 0.0750 0.0027 0.0777 | 10.4537</item>
- <item>15 | 2.25 | 0.0734 0.0027 0.0761 | 9.5920</item>
- <item>16 | 2.25 | 0.0706 0.0041 0.0747 | 8.8725</item>
- <item>29 | 2.00 | 0.0715 0.0018 0.0734 | 3.3283</item>
- <item>30 | 2.00 | 0.0655 0.0042 0.0697 | 3.1221</item>
- <item>31 | 2.00 | 0.0634 0.0052 0.0687 | 2.9160</item>
- <item>43 | 1.75 | 0.0620 0.0030 0.0650 | 1.5785</item>
- <item>44 | 1.75 | 0.0579 0.0051 0.0631 | 1.5194</item>
- <item>45 | 1.75 | 0.0566 0.0059 0.0625 | 1.4626</item>
- <item>57 | 1.50 | 0.0549 0.0043 0.0592 | 1.0900</item>
- <item>58 | 1.50 | 0.0521 0.0061 0.0582 | 1.0730</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 122s</item>
- <item>Prepare output 7s</item>
- <item>129s</item>
- <item>Jacobian determinant (RMS): 0.011 0.039 0.059 0.083 0.105 | 0.109180</item>
- <item>Template Matching: 0.081 0.212 0.190 0.170 0.156 | 0.156229</item>
- <item>Write result maps: 29s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 21s</item>
- <item>CSF distance: 10s</item>
- <item>PBT2x thickness: 28s</item>
- <item>63s</item>
- <item>Create initial surface 50s</item>
- <item>Topology correction: 52s</item>
- <item>Surface refinement: 49s</item>
- <item>Reduction of surface collisions with optimization: 43s</item>
- <item>Spherical mapping with areal smoothing 56s</item>
- <item>Spherical registration 215s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 17s</item>
- <item>CSF distance: 9s</item>
- <item>PBT2x thickness: 26s</item>
- <item>56s</item>
- <item>Create initial surface 50s</item>
- <item>Topology correction: 51s</item>
- <item>Surface refinement: 38s</item>
- <item>Reduction of surface collisions with optimization: 36s</item>
- <item>Spherical mapping with areal smoothing 57s</item>
- <item>Spherical registration 227s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4917 0.6305 mm</item>
- <item>Surface intensity / position RMSE: 0.0653 / 0.0661</item>
- <item>Euler number / defect number / defect size: 16.0 / 12.5 / 0.66%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_62438/ds/LMU_2/sub-0025377/ses-1/surf/lh.thickness.sub-0025377_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_62438/ds/LMU_2/sub-0025377/ses-1/surf/rh.thickness.sub-0025377_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_62438/ds/LMU_2/sub-0025377/ses-1/sub-0025377_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 6s</item>
- <item>Surface and thickness estimation takes: 1107s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 6s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 21s</item>
- <item>ROI estimation of 'lpba40' atlas 6s</item>
- <item>ROI estimation of 'hammers' atlas 15s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 5s</item>
- <item>ROI estimation of 'aal3' atlas 8s</item>
- <item>ROI estimation of 'mori' atlas 12s</item>
- <item>ROI estimation of 'anatomy3' atlas 17s</item>
- <item>ROI estimation of 'julichbrain' atlas 23s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 9s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 16s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 36s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 55s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 5s</item>
- <item>Write results 5s</item>
- <item>237s</item>
- <item>Quality check: 7s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_62438/ds/LMU_2/sub-0025377/ses-1/report/catreport_sub-0025377_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 33 minute(s) and 10 second(s).</item>
- <item>Image Quality Rating (IQR): 79.00% (C+)</item>
- <item>GM volume (GMV): 46.45% (575.39 / 1238.84 ml)</item>
- <item>GM thickness (GMT): 2.49 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_62438/ds/LMU_2/sub-0025377/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_62438/ds/LMU_2/sub-0025377/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_62438/ds/LMU_2/sub-0025377/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|