ds004169_ReproVBM/sub-1103/report/cat_sub-1103_ses-02_T1w.xml

<?xml version="1.0" encoding="utf-8"?>
<S>
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   </SPMpreprocessing>
   <filedata>
      <path>/var/lib/condor/execute/dir_2068184/ds/sub-1103</path>
      <file>sub-1103_ses-02_T1w</file>
      <fname>/var/lib/condor/execute/dir_2068184/ds/sub-1103/sub-1103_ses-02_T1w.nii</fname>
      <F>/var/lib/condor/execute/dir_2068184/ds/sub-1103/sub-1103_ses-02_T1w.nii</F>
      <Fm>/var/lib/condor/execute/dir_2068184/ds/sub-1103/mri/msub-1103_ses-02_T1w.nii</Fm>
      <Fp0>/var/lib/condor/execute/dir_2068184/ds/sub-1103/mri/p0sub-1103_ses-02_T1w.nii</Fp0>
      <fnames>..184/ds/sub-1103/sub-1103_ses-02_T1w</fnames>
   </filedata>
   <parameter>
      <opts>
         <tpm>
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         <ngaus>[1 1 2 3 4 2]</ngaus>
         <affreg>mni</affreg>
         <warpreg>[0 0.001 0.5 0.05 0.2]</warpreg>
         <tol>0.0001</tol>
         <accstr>0.5</accstr>
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         <biasreg>0.001</biasreg>
         <biasfwhm>60</biasfwhm>
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         <biasacc>0</biasacc>
      </opts>
      <extopts>
         <uhrlim>1.4</uhrlim>
         <gcutstr>2</gcutstr>
         <cleanupstr>0.5</cleanupstr>
         <spm_kamap>0</spm_kamap>
         <NCstr>-Inf</NCstr>
         <LASstr>0.5</LASstr>
         <BVCstr>0.5</BVCstr>
         <regstr>0.5</regstr>
         <WMHC>2</WMHC>
         <WMHCstr>0.5</WMHCstr>
         <SLC>0</SLC>
         <mrf>1</mrf>
         <restype>optimal</restype>
         <resval>[1 0.3]</resval>
         <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
         <bids_yes>0</bids_yes>
         <nproc>64</nproc>
         <species>human</species>
         <APP>1070</APP>
         <setCOM>1</setCOM>
         <vox>1.5</vox>
         <bb>12</bb>
         <shootingsurf>Template_T1</shootingsurf>
         <pth_templates>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym</pth_templates>
         <darteltpm>
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         </darteltpm>
         <shootingtpm>
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         </shootingtpm>
         <shootingT1>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_T1_masked.nii</item>
         </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>
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         </cat12atlas>
         <pbtres>0.5</pbtres>
         <SRP>22</SRP>
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         <pbtlas>0</pbtlas>
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         <scale_cortex>0.7</scale_cortex>
         <add_parahipp>0.1</add_parahipp>
         <colormap>BCGWHw</colormap>
         <report/>
         <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>
         <gifti_dat>1</gifti_dat>
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               <td>
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                  <item>gm</item>
                  <item>wm</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/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>
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               <td>
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            <tr>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/hammers.nii</td>
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               <td>
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                  <item>wm</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>
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            <tr>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
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               <td>
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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>
               <td>
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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>
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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/mori.nii</td>
               <td>1</td>
               <td>
                  <item>gm</item>
                  <item>wm</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>
                  <item>wm</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>
               <td>
                  <item>gm</item>
                  <item>wm</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/Schaefer2018_100Parcels_17Networks_order.nii</td>
               <td>1</td>
               <td>
                  <item>gm</item>
                  <item>wm</item>
               </td>
               <td>[false]</td>
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            <tr>
               <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>
               <td>
                  <item>gm</item>
                  <item>wm</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/Schaefer2018_400Parcels_17Networks_order.nii</td>
               <td>1</td>
               <td>
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            <tr>
               <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>
               <td>
                  <item>gm</item>
                  <item>wm</item>
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               <td>[false]</td>
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         </atlas>
         <satlas>
            <tr>
               <td>Desikan</td>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_a2009s.freesurfer.annot</td>
               <td>0</td>
               <td>1</td>
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            <tr>
               <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>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_HCP_MMP1.freesurfer.annot</td>
               <td>0</td>
               <td>0</td>
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            <tr>
               <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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            <tr>
               <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>
            </tr>
         </satlas>
         <LAB>
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            <CT>1</CT>
            <CB>3</CB>
            <BG>5</BG>
            <BV>7</BV>
            <TH>9</TH>
            <ON>11</ON>
            <MB>13</MB>
            <BS>13</BS>
            <VT>15</VT>
            <NV>17</NV>
            <HC>19</HC>
            <HD>21</HD>
            <HI>23</HI>
            <PH>25</PH>
            <LE>27</LE>
         </LAB>
         <new_release>0</new_release>
         <lazy>0</lazy>
         <affmod>0</affmod>
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            <shooting>
               <shootingtpm>
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               </shootingtpm>
               <regstr>0.5</regstr>
            </shooting>
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         <restypes>
            <optimal>[1 0.3]</optimal>
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         <LASmyostr>0</LASmyostr>
         <pbtmethod>pbt2x</pbtmethod>
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            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_2_Dartel.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_3_Dartel.nii</item>
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         <shootingtpms>
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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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            <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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         <version_segment>1639</version_segment>
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      <IQR>2.32197237585864</IQR>
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      <qualitymeasures>
         <res_vx_vol>voxel dimensions</res_vx_vol>
         <res_RMS>RMS error of voxel size</res_RMS>
         <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>1980</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>20220709-153010</date>
   </software>
   <subjectmeasures>
      <software>
         <version_segment>1639</version_segment>
      </software>
      <qualitymeasures>
         <software>
            <version_segment>1639</version_segment>
         </software>
         <SurfaceEulerNumber>40</SurfaceEulerNumber>
         <SurfaceDefectArea>1.57036593824146</SurfaceDefectArea>
         <SurfaceDefectNumber>30.5</SurfaceDefectNumber>
         <SurfaceIntensityRMSE>0.0800033062696457</SurfaceIntensityRMSE>
         <SurfacePositionRMSE>0.0835985690355301</SurfacePositionRMSE>
      </qualitymeasures>
      <EC_abs>40</EC_abs>
      <defect_size>1.57036593824146</defect_size>
      <vol_abs_CGW>[204.152253522329 834.930666935269 633.176106816267 0 0]</vol_abs_CGW>
      <vol_abs_WMH>1.64754254511174</vol_abs_WMH>
      <vol_rel_WMH>0.000985219704747286</vol_rel_WMH>
      <surf_TSA>2279.41662419151</surf_TSA>
      <vol_TIV>1672.25902727387</vol_TIV>
      <vol_rel_CGW>[0.122081717121982 0.499283097485431 0.378635185392587 0 0]</vol_rel_CGW>
      <dist_thickness>
         <item>[2.55047364769845 0.607742532642446]</item>
      </dist_thickness>
      <dist_thickness_kmeans>[2.5806782245636 0.745199050468536 1]</dist_thickness_kmeans>
      <dist_thickness_kmeans_inner3>[1.93020018812981 0.258968010066236 0.26783460447254;2.55985914215181 0.170682539559125 0.415101565281179;3.1571916563941 0.249146841833673 0.317063830246281]</dist_thickness_kmeans_inner3>
      <dist_thickness_kmeans_outer2>[0.875674340451988 0.328598710098889 0.604638099823463;4.07850158463779 0.37741701735998 0.395361900176537]</dist_thickness_kmeans_outer2>
   </subjectmeasures>
   <subjectratings>
      <vol_TIV>2.5764053751641</vol_TIV>
      <vol_rel_CGW>[0.5 6.81686597495385 4.65005720891859 0.5 0.5]</vol_rel_CGW>
      <vol_rel_WMH>1.09852197047473</vol_rel_WMH>
      <surf_TSA>8.62397765490105</surf_TSA>
      <SQR>5.60661354627159</SQR>
   </subjectratings>
   <ppe>
      <affreg>
         <skullstrippedpara>[0.116458257039388 1 1 10992.6915864274 0.484243618836535]</skullstrippedpara>
         <skullstripped>[false]</skullstripped>
         <highBGpara>[0.0484061650931835 0.0461212731897831 0.289587676525116]</highBGpara>
         <highBG>[false]</highBG>
      </affreg>
      <SPMvols0>[1028.60193635063 575.743265302961 371.774450166085 1091.38971456228 1601.01308456125 8529.53192217547]</SPMvols0>
      <SPMvols1>[885.330235379934 539.73791324321 211.143373141745 967.454891734132 1133.96060670557 8704.33502667402]</SPMvols1>
      <tths>
         <gintnorm>
            <T3th>[91.160400390625 190.412292480469 274.524810791016]</T3th>
            <Tth>
               <T3th>[0 11.5337677001953 19.2974338531494 91.160400390625 190.412292480469 274.524810791016 366.20703125 1068.88000488281]</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>[0.014469550922513 0.0476133339107037 0.0512795001268387 0 0]</dtc>
         <ll>[0.0789032654077256 0 0.0789032654077256 0;0.198833396884144 0.00724529332759715 0.206078690211741 1545.04431152344;0.198833396884144 0.00724529332759715 0.206078690211741 1545.04431152344]</ll>
         <rmsdtc>[0.035677470266819 0.0647109001874924 0.074229933321476]</rmsdtc>
         <rmsgdt>[0.0266149267554283 0.0372276864945889 0.0468007288873196]</rmsgdt>
         <rmsdt>0.074229933321476</rmsdt>
         <dt>0.0512795001268387</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>[0.00594231765717268 0.0204325541853905 0.030941853299737 0.0404747948050499 0.0481465011835098 0.0536131523549557]</dtc>
         <ll>[0.0818109664410021 0 0.0818109664410021 0;0.222068513431013 0.00977185973748474 0.231840373168498 5001.970703125;0.205229335657874 0.013785953291907 0.219015288949781 9921.916015625;0.186356634156317 0.01706989538296 0.203426529539277 18405.990234375;0.170306250367993 0.0205985329826227 0.190904783350616 36034.10546875;0.170306250367993 0.0205985329826227 0.190904783350616 36034.10546875]</ll>
         <rmsdtc>[0.0073409341275692 0.0256002657115459 0.0430468283593655 0.0705622136592865 0.0984359383583069 0.10577804595232]</rmsdtc>
         <rmsgdt>[0.00278629176318645 0.0110067697241902 0.0261432118713856 0.047601904720068 0.0680327042937279 0.0741317272186279]</rmsgdt>
         <rmsdt>0.10577804595232</rmsdt>
         <dt>0.0536131523549557</dt>
      </reg>
   </ppe>
   <catlog>
      <item>------------------------------------------------------------------------</item>
      <item>CAT12.8.1 r1980: 1/1: ./dir_2068184/ds/sub-1103/sub-1103_ses-02_T1w.n</item>
      <item>------------------------------------------------------------------------</item>
      <item>SANLM denoising (medium): 196s</item>
      <item>APP: Rough bias correction:</item>
      <item>Initialize 10s</item>
      <item>Estimate background 13s</item>
      <item>Initial correction 26s</item>
      <item>Refine background 5s</item>
      <item>Final correction 12s</item>
      <item>Final scaling 11s</item>
      <item>88s</item>
      <item>Correct center-of-mass 4s</item>
      <item>Affine registration 26s</item>
      <item>SPM preprocessing 1 (estimate 1 - TPM registration): 113s</item>
      <item>SPM preprocessing 1 (estimate 2): 102s</item>
      <item>SPM preprocessing 2 (write):</item>
      <item>Write Segmentation 27s</item>
      <item>Update Segmentation 30s</item>
      <item>Update Skull-Stripping 67s</item>
      <item>Update probability maps 14s</item>
      <item>138s</item>
      <item>Global intensity correction: 26s</item>
      <item>SANLM denoising after intensity normalization (medium): 28s</item>
      <item>Fast Optimized Shooting registration 46s</item>
      <item>Local adaptive segmentation (LASstr=0.50):</item>
      <item>Prepare maps 6s</item>
      <item>Prepare partitions 3s</item>
      <item>Prepare segments (LASmod = 1.17) 24s</item>
      <item>Estimate local tissue thresholds (WM) 33s</item>
      <item>Estimate local tissue thresholds (GM) 51s</item>
      <item>Intensity transformation 0s</item>
      <item>SANLM denoising after LAS (medium) 61s</item>
      <item>184s</item>
      <item>ROI segmentation (partitioning):</item>
      <item>Atlas -&gt; subject space 12s</item>
      <item>Major structures 6s</item>
      <item>Ventricle detection 22s</item>
      <item>Blood vessel detection 18s</item>
      <item>WMH detection (WMHCstr=0.50 &gt; WMHCstr'=0.00) 48s</item>
      <item>Manual stroke lesion detection 0s</item>
      <item>Closing of deep structures 3s</item>
      <item>Side alignment 6s</item>
      <item>Final corrections 7s</item>
      <item>121s</item>
      <item>Blood vessel correction (BVCstr=0.50): 3s</item>
      <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 52s</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) 7s</item>
      <item>Level 1 cleanup (brain masking) 4s</item>
      <item>Level 2 cleanup (CSF correction) 2s</item>
      <item>Level 3 cleanup (CSF/WM PVE) 5s</item>
      <item>19s</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 | 0.0818 0.0000 0.0818 | 32.0000</item>
      <item>2 | 2.50 | 0.0801 0.0009 0.0810 | 29.4886</item>
      <item>3 | 2.50 | 0.0796 0.0013 0.0810 | 26.9772</item>
      <item>4 | 2.50 | 0.0794 0.0015 0.0809 | 24.6107</item>
      <item>5 | 2.50 | 0.0792 0.0016 0.0808 | 22.6548</item>
      <item>6 | 2.50 | 0.0791 0.0016 0.0807 | 20.6989</item>
      <item>7 | 2.50 | 0.0789 0.0017 0.0806 | 18.9688</item>
      <item>8 | 2.50 | 0.0787 0.0017 0.0804 | 17.4455</item>
      <item>9 | 2.50 | 0.0785 0.0018 0.0803 | 15.9223</item>
      <item>10 | 2.50 | 0.0783 0.0018 0.0801 | 14.6627</item>
      <item>11 | 2.50 | 0.0781 0.0019 0.0800 | 13.4764</item>
      <item>12 | 2.50 | 0.0779 0.0019 0.0798 | 12.3015</item>
      <item>13 | 2.50 | 0.0777 0.0019 0.0797 | 11.3776</item>
      <item>14 | 2.50 | 0.0775 0.0020 0.0795 | 10.4537</item>
      <item>15 | 2.25 | 0.0766 0.0020 0.0786 | 9.5920</item>
      <item>16 | 2.25 | 0.0740 0.0033 0.0773 | 8.8725</item>
      <item>29 | 2.00 | 0.0758 0.0015 0.0773 | 3.3283</item>
      <item>30 | 2.00 | 0.0702 0.0037 0.0739 | 3.1221</item>
      <item>31 | 2.00 | 0.0684 0.0046 0.0730 | 2.9160</item>
      <item>43 | 1.75 | 0.0678 0.0026 0.0704 | 1.5785</item>
      <item>44 | 1.75 | 0.0635 0.0049 0.0684 | 1.5194</item>
      <item>45 | 1.75 | 0.0621 0.0057 0.0678 | 1.4626</item>
      <item>57 | 1.50 | 0.0610 0.0041 0.0651 | 1.0900</item>
      <item>58 | 1.50 | 0.0578 0.0062 0.0640 | 1.0730</item>
      <item>59 | 1.50 | 0.0568 0.0069 0.0636 | 1.0579</item>
      <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 195s</item>
      <item>Prepare output 17s</item>
      <item>211s</item>
      <item>Jacobian determinant (RMS): 0.007 0.026 0.043 0.071 0.098 | 0.105778</item>
      <item>Template Matching: 0.082 0.222 0.205 0.186 0.170 | 0.170306</item>
      <item>Write result maps: 37s</item>
      <item>Surface and thickness estimation:</item>
      <item>lh:</item>
      <item>Thickness estimation (0.50 mm ):</item>
      <item>WM distance: 50s</item>
      <item>CSF distance: 23s</item>
      <item>PBT2x thickness: 74s</item>
      <item>156s</item>
      <item>Create initial surface 120s</item>
      <item>Topology correction: 146s</item>
      <item>Surface refinement: 133s</item>
      <item>Reduction of surface collisions with optimization: 109s</item>
      <item>Spherical mapping with areal smoothing 120s</item>
      <item>Spherical registration 332s</item>
      <item>rh:</item>
      <item>Thickness estimation (0.50 mm ):</item>
      <item>WM distance: 44s</item>
      <item>CSF distance: 22s</item>
      <item>PBT2x thickness: 68s</item>
      <item>142s</item>
      <item>Create initial surface 117s</item>
      <item>Topology correction: 130s</item>
      <item>Surface refinement: 114s</item>
      <item>Reduction of surface collisions with optimization: 99s</item>
      <item>Spherical mapping with areal smoothing 117s</item>
      <item>Spherical registration 358s</item>
      <item>Final surface processing results:</item>
      <item>Average thickness (FS): 2.5503 0.6072 mm</item>
      <item>Surface intensity / position RMSE: 0.0800 / 0.0836</item>
      <item>Euler number / defect number / defect size: 40.0 / 30.5 / 1.57%</item>
      <item>Display thickness: /var/lib/condor/execute/dir_2068184/ds/sub-1103/surf/lh.thickness.sub-1103_ses-02_T1w</item>
      <item>Display thickness: /var/lib/condor/execute/dir_2068184/ds/sub-1103/surf/rh.thickness.sub-1103_ses-02_T1w</item>
      <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2068184/ds/sub-1103/sub-1103_ses-02_T1w.nii</item>
      <item>Surface ROI estimation: 10s</item>
      <item>Surface and thickness estimation takes: 2327s</item>
      <item>ROI estimation in native space:</item>
      <item>ROI estimation of 'cobra' atlas 13s</item>
      <item>ROI estimation of 'neuromorphometrics' atlas 46s</item>
      <item>ROI estimation of 'lpba40' atlas 13s</item>
      <item>ROI estimation of 'hammers' atlas 32s</item>
      <item>ROI estimation of 'thalamus' atlas 3s</item>
      <item>ROI estimation of 'ibsr' atlas 11s</item>
      <item>ROI estimation of 'aal3' atlas 18s</item>
      <item>ROI estimation of 'mori' atlas 27s</item>
      <item>ROI estimation of 'anatomy3' atlas 39s</item>
      <item>ROI estimation of 'julichbrain' atlas 52s</item>
      <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 21s</item>
      <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 35s</item>
      <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 82s</item>
      <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 122s</item>
      <item>Write results 124s</item>
      <item>516s</item>
      <item>Quality check: 9s</item>
      <item>Print 'Graphics' figure to:</item>
      <item>/var/lib/condor/execute/dir_2068184/ds/sub-1103/report/catreport_sub-1103_ses-02_T1w.pdf</item>
      <item>------------------------------------------------------------------------</item>
      <item>CAT preprocessing takes 73 minute(s) and 24 second(s).</item>
      <item>Image Quality Rating (IQR): 81.78% (B-)</item>
      <item>GM volume (GMV): 49.93% (834.93 / 1672.26 ml)</item>
      <item>GM thickness (GMT): 2.55 0.61 mm</item>
      <item>Segmentations are saved in /var/lib/condor/execute/dir_2068184/ds/sub-1103/mri</item>
      <item>Reports are saved in /var/lib/condor/execute/dir_2068184/ds/sub-1103/report</item>
      <item>Labels are saved in /var/lib/condor/execute/dir_2068184/ds/sub-1103/label</item>
      <item>------------------------------------------------------------------------</item>
   </catlog>
</S>