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- <uhrlim>1.4</uhrlim>
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- <species>human</species>
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- <darteltpm>
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- </darteltpm>
- <shootingtpm>
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- </shootingtpm>
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- </shootingT1>
- <brainmask>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/brainmask.nii</item>
- </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>
- <pbtres>0.5</pbtres>
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- <verb>2</verb>
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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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- <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>
- <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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- <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/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>
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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>[false]</td>
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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_812231/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>
- <LAB>
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- <CT>1</CT>
- <CB>3</CB>
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- <VT>15</VT>
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- <HI>23</HI>
- <PH>25</PH>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>58</SurfaceEulerNumber>
- <SurfaceDefectArea>1.07729166851271</SurfaceDefectArea>
- <SurfaceDefectNumber>33.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0714949816465378</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0753118842840195</SurfacePositionRMSE>
- <res_vx_vol>[1.00000002787301 1.00000002787301 1]</res_vx_vol>
- <res_vx_voli>[1.00000002943219 1.00000002943219 1]</res_vx_voli>
- <res_RMS>1.000000018582</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[4.80200004577637 121.526000976562 270.928985595703 391.528991699219]</tissue_mn>
- <tissue_mnr>[0.0122647369280457 0.310388267040253 0.691976845264435 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[5.14496362439573 50.6509633037916 36.2823657251136 22.6190481692986]</tissue_std>
- <tissue_stdr>[0.0133038647472858 0.130973443388939 0.0938190668821335 0.0584884136915207]</tissue_stdr>
- <contrast>122.097503662109</contrast>
- <contrastr>0.311847925186157</contrastr>
- <res_ECR>0.324874818325043</res_ECR>
- <NCR>0.144337296485901</NCR>
- <ICR>0.297205328941345</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000005574601 2.00000005574601 2]</res_vx_vol>
- <res_RMS>2.00000003716401</res_RMS>
- <res_ECR>2.55548357963562</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>3.40561437606812</contrastr>
- <NCR>2.40306210517883</NCR>
- <ICR>1.19693779945374</ICR>
- <SurfaceEulerNumber>3.85714285714286</SurfaceEulerNumber>
- <SurfaceDefectArea>1.26932291712818</SurfaceDefectArea>
- <SurfaceDefectNumber>2.675</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.4298996925354</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.50623774528503</SurfacePositionRMSE>
- <SIQR>2.38935039576749</SIQR>
- <IQR>2.26143211751716</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>20231031-022836</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>58</SurfaceEulerNumber>
- <SurfaceDefectArea>1.07729166851271</SurfaceDefectArea>
- <SurfaceDefectNumber>33.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0714949816465378</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0753118842840195</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>58</EC_abs>
- <defect_size>1.07729166851271</defect_size>
- <vol_abs_CGW>[221.701436579727 781.297618539611 569.560911958217 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.360823550651416</vol_abs_WMH>
- <vol_rel_WMH>0.000229449787738124</vol_rel_WMH>
- <surf_TSA>2149.38053125408</surf_TSA>
- <vol_TIV>1572.55996707756</vol_TIV>
- <vol_rel_CGW>[0.140981228837802 0.496831685211709 0.362187085950489 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.61347341192656 0.652226363828047]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.6006236076355 0.765197062563893 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.95982078494662 0.252320091222037 0.305231715097732;2.61968383959449 0.188508922113579 0.406298938576649;3.30737880788989 0.275023530017149 0.288469346325619]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.960382536361219 0.332954100908864 0.4893219434063;4.28607311537923 0.347221764698193 0.5106780565937]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.67742854618316</vol_TIV>
- <vol_rel_CGW>[0.5 6.77283917406087 4.35465312411079 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.02294497877381</vol_rel_WMH>
- <surf_TSA>8.6237674268907</surf_TSA>
- <SQR>5.55855960642318</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.3366429933 0.327595752170745]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00149460742250085 0.00127378804609179 0.0131566403433681]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[942.258549583102 509.179265266634 442.898633914086 415.863361734437 1027.40496243833 8738.99297716041]</SPMvols0>
- <SPMvols1>[804.187047337963 476.402451572542 248.164395000197 319.125563883164 884.486773633384 8802.2318593143]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[146.904098510742 285.911102294922 382.686706542969]</T3th>
- <Tth>
- <T3th>[-4.94296979904175 32.8230285644531 4.04263782501221 146.904098510742 285.911102294922 382.686706542969 500.578002929688 965.584899902344]</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>[0.0184241719543934 0.0634824931621552 0.0693697705864906 0 0]</dtc>
- <ll>[0.0828070974483543 0 0.0828070974483543 0;0.201358332639696 0.00964928589233545 0.211007618532032 2057.69091796875;0.201358332639696 0.00964928589233545 0.211007618532032 2057.69091796875]</ll>
- <rmsdtc>[0.0394834578037262 0.0846346989274025 0.0946666896343231]</rmsdtc>
- <rmsgdt>[0.0282707158476114 0.0430756211280823 0.0536870136857033]</rmsgdt>
- <rmsdt>0.0946666896343231</rmsdt>
- <dt>0.0693697705864906</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>[0.00800483301281929 0.0281937047839165 0.0399917997419834 0.0487915687263012 0.055718656629324 0.0622484721243382]</dtc>
- <ll>[0.0834153215199032 0 0.0834153215199032 0;0.224041971916972 0.0123355578449328 0.236377529761905 6314.263671875;0.205529325445456 0.0166166767813896 0.222146002226846 11959.2216796875;0.184336793615155 0.0200165226022516 0.204353316217406 21583.255859375;0.166612313238094 0.0237269485311141 0.190339261769208 41506.80859375;0.166612313238094 0.0237269485311141 0.190339261769208 41506.80859375]</ll>
- <rmsdtc>[0.00961053837090731 0.0341030135750771 0.0529563948512077 0.0790142416954041 0.105040490627289 0.111458867788315]</rmsdtc>
- <rmsgdt>[0.00325950095430017 0.0125322667881846 0.0283051356673241 0.050573717802763 0.0719181150197983 0.0774476379156113]</rmsgdt>
- <rmsdt>0.111458867788315</rmsdt>
- <dt>0.0622484721243382</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025761/ses-1/sub-0025761_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 53s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 6s</item>
- <item>Initial correction 6s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 5s</item>
- <item>37s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 9s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 73s</item>
- <item>SPM preprocessing 1 (estimate 2): 54s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 17s</item>
- <item>Update Segmentation 19s</item>
- <item>Update Skull-Stripping 42s</item>
- <item>Update probability maps 8s</item>
- <item>86s</item>
- <item>Global intensity correction: 16s</item>
- <item>SANLM denoising after intensity normalization (medium): 30s</item>
- <item>Fast Optimized Shooting registration 32s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.11) 15s</item>
- <item>Estimate local tissue thresholds (WM) 19s</item>
- <item>Estimate local tissue thresholds (GM) 26s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 47s</item>
- <item>116s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 7s</item>
- <item>Major structures 4s</item>
- <item>Ventricle detection 14s</item>
- <item>Blood vessel detection 10s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 27s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 4s</item>
- <item>Final corrections 4s</item>
- <item>71s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 35s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 4s</item>
- <item>Level 1 cleanup (brain masking) 3s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>11s</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 | 0.0834 0.0000 0.0834 | 32.0000</item>
- <item>2 | 2.50 | 0.0812 0.0011 0.0823 | 29.4886</item>
- <item>3 | 2.50 | 0.0805 0.0016 0.0822 | 26.9772</item>
- <item>4 | 2.50 | 0.0802 0.0018 0.0820 | 24.6107</item>
- <item>5 | 2.50 | 0.0800 0.0020 0.0819 | 22.6548</item>
- <item>6 | 2.50 | 0.0797 0.0020 0.0817 | 20.6989</item>
- <item>7 | 2.50 | 0.0795 0.0021 0.0816 | 18.9688</item>
- <item>8 | 2.50 | 0.0792 0.0022 0.0814 | 17.4455</item>
- <item>9 | 2.50 | 0.0790 0.0023 0.0812 | 15.9223</item>
- <item>10 | 2.50 | 0.0787 0.0024 0.0811 | 14.6627</item>
- <item>11 | 2.50 | 0.0784 0.0024 0.0809 | 13.4764</item>
- <item>12 | 2.50 | 0.0782 0.0025 0.0806 | 12.3015</item>
- <item>13 | 2.50 | 0.0779 0.0026 0.0804 | 11.3776</item>
- <item>14 | 2.50 | 0.0776 0.0026 0.0802 | 10.4537</item>
- <item>15 | 2.25 | 0.0777 0.0027 0.0803 | 9.5920</item>
- <item>16 | 2.25 | 0.0747 0.0041 0.0788 | 8.8725</item>
- <item>29 | 2.00 | 0.0770 0.0019 0.0788 | 3.3283</item>
- <item>30 | 2.00 | 0.0706 0.0045 0.0751 | 3.1221</item>
- <item>31 | 2.00 | 0.0685 0.0055 0.0740 | 2.9160</item>
- <item>43 | 1.75 | 0.0680 0.0031 0.0711 | 1.5785</item>
- <item>44 | 1.75 | 0.0631 0.0058 0.0688 | 1.5194</item>
- <item>45 | 1.75 | 0.0614 0.0067 0.0681 | 1.4626</item>
- <item>57 | 1.50 | 0.0603 0.0048 0.0651 | 1.0900</item>
- <item>58 | 1.50 | 0.0567 0.0072 0.0639 | 1.0730</item>
- <item>59 | 1.50 | 0.0555 0.0079 0.0634 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 165s</item>
- <item>Prepare output 10s</item>
- <item>176s</item>
- <item>Jacobian determinant (RMS): 0.010 0.034 0.053 0.079 0.105 | 0.111459</item>
- <item>Template Matching: 0.083 0.224 0.206 0.184 0.167 | 0.166612</item>
- <item>Write result maps: 33s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 35s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 48s</item>
- <item>105s</item>
- <item>Create initial surface 90s</item>
- <item>Topology correction: 103s</item>
- <item>Surface refinement: 82s</item>
- <item>Reduction of surface collisions with optimization: 79s</item>
- <item>Spherical mapping with areal smoothing 88s</item>
- <item>Spherical registration 288s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 31s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 47s</item>
- <item>101s</item>
- <item>Create initial surface 89s</item>
- <item>Topology correction: 103s</item>
- <item>Surface refinement: 93s</item>
- <item>Reduction of surface collisions with optimization: 80s</item>
- <item>Spherical mapping with areal smoothing 107s</item>
- <item>Spherical registration 329s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.6136 0.6520 mm</item>
- <item>Surface intensity / position RMSE: 0.0715 / 0.0753</item>
- <item>Euler number / defect number / defect size: 58.0 / 33.5 / 1.08%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_812231/ds/SWU_4/sub-0025761/ses-1/surf/lh.thickness.sub-0025761_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_812231/ds/SWU_4/sub-0025761/ses-1/surf/rh.thickness.sub-0025761_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_812231/ds/SWU_4/sub-0025761/ses-1/sub-0025761_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 1842s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 10s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 35s</item>
- <item>ROI estimation of 'lpba40' atlas 12s</item>
- <item>ROI estimation of 'hammers' atlas 28s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 10s</item>
- <item>ROI estimation of 'aal3' atlas 16s</item>
- <item>ROI estimation of 'mori' atlas 24s</item>
- <item>ROI estimation of 'anatomy3' atlas 37s</item>
- <item>ROI estimation of 'julichbrain' atlas 52s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 20s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 35s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 76s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 95s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 8s</item>
- <item>Write results 9s</item>
- <item>462s</item>
- <item>Quality check: 12s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_812231/ds/SWU_4/sub-0025761/ses-1/report/catreport_sub-0025761_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 53 minute(s) and 59 second(s).</item>
- <item>Image Quality Rating (IQR): 82.39% (B-)</item>
- <item>GM volume (GMV): 49.68% (781.30 / 1572.56 ml)</item>
- <item>GM thickness (GMT): 2.61 0.65 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_812231/ds/SWU_4/sub-0025761/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_812231/ds/SWU_4/sub-0025761/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_812231/ds/SWU_4/sub-0025761/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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