CORR_cat12.8.1/BNU_2/sub-0025965/ses-1/report/cat_sub-0025965_ses-1_run-1_T1w.xml

<?xml version="1.0" encoding="utf-8"?>
<S>
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      <Affine_rotation>[0.10312627314273 -0.0223953392231204 0.0349152229930808]</Affine_rotation>
      <Affine_scaling>[1.06489751398367 1.08027205306338 1.1243114138873]</Affine_scaling>
      <Affine_shearing>[0.0293799145688721 0.00630257840482719 -0.0176399955695965]</Affine_shearing>
      <Affine0_translation>[-4.14301734027883 -43.8123013591047 -7.95269647530701]</Affine0_translation>
      <Affine0_rotation>[0.10312627314273 -0.0223953392231204 0.0349152229930808]</Affine0_rotation>
      <Affine0_scaling>[1.06489751398367 1.08027205306338 1.1243114138873]</Affine0_scaling>
      <Affine0_shearing>[0.0293799145688721 0.00630257840482719 -0.0176399955695965]</Affine0_shearing>
   </SPMpreprocessing>
   <filedata>
      <path>/var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1</path>
      <file>sub-0025965_ses-1_run-1_T1w</file>
      <fname>/var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/sub-0025965_ses-1_run-1_T1w.nii</fname>
      <F>/var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/sub-0025965_ses-1_run-1_T1w.nii</F>
      <Fm>/var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/mri/msub-0025965_ses-1_run-1_T1w.nii</Fm>
      <Fp0>/var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/mri/p0sub-0025965_ses-1_run-1_T1w.nii</Fp0>
      <fnames>..s/BNU_2/sub-0025965/ses-1/sub-0025965_ses-1_run-1_T1w</fnames>
   </filedata>
   <parameter>
      <opts>
         <tpm>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/tpm/TPM.nii</item>
         </tpm>
         <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>
         <biasstr>0.5</biasstr>
         <biasreg>0.001</biasreg>
         <biasfwhm>60</biasfwhm>
         <samp>3</samp>
         <redspmres>0</redspmres>
         <fwhm>1</fwhm>
         <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_2040</bids_folder>
         <bids_yes>0</bids_yes>
         <nproc>1</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>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_Dartel.nii</item>
         </darteltpm>
         <shootingtpm>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
         </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>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cat.nii</item>
         </cat12atlas>
         <pbtres>0.5</pbtres>
         <SRP>22</SRP>
         <reduce_mesh>1</reduce_mesh>
         <vdist>2</vdist>
         <pbtlas>0</pbtlas>
         <thick_measure>1</thick_measure>
         <thick_limit>5</thick_limit>
         <close_parahipp>0</close_parahipp>
         <scale_cortex>0.7</scale_cortex>
         <add_parahipp>0.1</add_parahipp>
         <colormap>BCGWHw</colormap>
         <report/>
         <verb>2</verb>
         <ignoreErrors>1</ignoreErrors>
         <expertgui>1</expertgui>
         <subfolders>1</subfolders>
         <experimental>0</experimental>
         <print>2</print>
         <fontsize>10</fontsize>
         <send_info>1</send_info>
         <gifti_dat>1</gifti_dat>
         <atlas>
            <tr>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii</td>
               <td>0</td>
               <td>
                  <item>csf</item>
                  <item>gm</item>
                  <item>wm</item>
               </td>
               <td>[false]</td>
            </tr>
            <tr>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
               <td>0</td>
               <td>
                  <item>gm</item>
                  <item>wm</item>
               </td>
               <td>[false]</td>
            </tr>
            <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>
                  <item>wm</item>
               </td>
               <td>[false]</td>
            </tr>
            <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>
                  <item>gm</item>
                  <item>wm</item>
               </td>
               <td>[false]</td>
            </tr>
            <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>
               </td>
               <td>[false]</td>
            </tr>
            <tr>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
               <td>0</td>
               <td>
                  <item>gm</item>
                  <item>wm</item>
               </td>
               <td>[false]</td>
            </tr>
            <tr>
               <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
               <td>0</td>
               <td>
                  <item>csf</item>
                  <item>gm</item>
                  <item>wm</item>
               </td>
               <td>[false]</td>
            </tr>
            <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>
               </td>
               <td>[false]</td>
            </tr>
            <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>
               </td>
               <td>[false]</td>
            </tr>
            <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>
               </td>
               <td>[false]</td>
            </tr>
            <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>
               </td>
               <td>[false]</td>
            </tr>
            <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>
            </tr>
            <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>
               </td>
               <td>[false]</td>
            </tr>
            <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>
                  <item>gm</item>
                  <item>wm</item>
               </td>
               <td>[false]</td>
            </tr>
            <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>
               </td>
               <td>[false]</td>
            </tr>
            <tr>
               <td>/var/lib/condor/execute/dir_2321434/ds/code/Tian_Subcortex_S2_7T.nii</td>
               <td>1</td>
               <td>
                  <item>gm</item>
                  <item>wm</item>
                  <item>csf</item>
               </td>
               <td>[false]</td>
            </tr>
         </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>
            </tr>
            <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>
            </tr>
            <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>
            </tr>
            <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>
            </tr>
            <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>
            </tr>
            <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>
            </tr>
            <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>
            <NB>0</NB>
            <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>
         <regmethod>
            <shooting>
               <shootingtpm>
                  <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
               </shootingtpm>
               <regstr>0.5</regstr>
            </shooting>
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         <restypes>
            <optimal>[1 0.3]</optimal>
         </restypes>
         <LASmyostr>0</LASmyostr>
         <pbtmethod>pbt2x</pbtmethod>
         <darteltpms>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_Dartel.nii</item>
            <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>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_Dartel.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_5_Dartel.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_6_Dartel.nii</item>
         </darteltpms>
         <shootingtpms>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_2_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_3_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_GS.nii</item>
         </shootingtpms>
         <templates>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_2_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_3_GS.nii</item>
            <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_GS.nii</item>
         </templates>
         <inv_weighting>0</inv_weighting>
         <AMAPframing>1</AMAPframing>
      </extopts>
   </parameter>
   <qualitymeasures>
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         <version_segment>1639</version_segment>
      </software>
      <SurfaceEulerNumber>20</SurfaceEulerNumber>
      <SurfaceDefectArea>0.738426698116929</SurfaceDefectArea>
      <SurfaceDefectNumber>8.5</SurfaceDefectNumber>
      <SurfaceIntensityRMSE>0.0651285648345947</SurfaceIntensityRMSE>
      <SurfacePositionRMSE>0.06862673163414</SurfacePositionRMSE>
      <res_vx_vol>[1.33000004291534 1 1]</res_vx_vol>
      <res_vx_voli>[1 1 1]</res_vx_voli>
      <res_RMS>1.12084791031237</res_RMS>
      <res_BB>NaN</res_BB>
      <tissue_mn>[5.23299980163574 24.6959991455078 166.985000610352 300.740997314453]</tissue_mn>
      <tissue_mnr>[0.0174003541469574 0.0821171700954437 0.555245220661163 1]</tissue_mnr>
      <tissue_weighting>T1</tissue_weighting>
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      <tissue_stdr>[0.0104206083342433 0.122710384428501 0.123656585812569 0.0839539542794228]</tissue_stdr>
      <contrast>103.096168518066</contrast>
      <contrastr>0.342807173728943</contrastr>
      <res_ECR>0.421620547771454</res_ECR>
      <NCR>0.0999852642416954</NCR>
      <ICR>0.296011537313461</ICR>
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   <qualityratings>
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      <res_RMS>2.24169582062474</res_RMS>
      <res_ECR>3.04908418655396</res_ECR>
      <res_BB>NaN</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>2.94122552871704</contrastr>
      <NCR>1.76636910438538</NCR>
      <ICR>1.19397699832916</ICR>
      <SurfaceEulerNumber>1.91836734693878</SurfaceEulerNumber>
      <SurfaceDefectArea>1.18460667452923</SurfaceDefectArea>
      <SurfaceDefectNumber>1.425</SurfaceDefectNumber>
      <SurfaceIntensityRMSE>1.30257129669189</SurfaceIntensityRMSE>
      <SurfacePositionRMSE>1.3725346326828</SurfacePositionRMSE>
      <SIQR>2.68909918321161</SIQR>
      <IQR>2.09155528285119</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>20231031-000632</date>
   </software>
   <subjectmeasures>
      <software>
         <version_segment>1639</version_segment>
      </software>
      <qualitymeasures>
         <software>
            <version_segment>1639</version_segment>
         </software>
         <SurfaceEulerNumber>20</SurfaceEulerNumber>
         <SurfaceDefectArea>0.738426698116929</SurfaceDefectArea>
         <SurfaceDefectNumber>8.5</SurfaceDefectNumber>
         <SurfaceIntensityRMSE>0.0651285648345947</SurfaceIntensityRMSE>
         <SurfacePositionRMSE>0.06862673163414</SurfacePositionRMSE>
      </qualitymeasures>
      <EC_abs>20</EC_abs>
      <defect_size>0.738426698116929</defect_size>
      <vol_abs_CGW>[332.394662745098 681.023415686274 473.651360784314 0 0]</vol_abs_CGW>
      <vol_abs_WMH>0.838380392156863</vol_abs_WMH>
      <vol_rel_WMH>0.00056378025803492</vol_rel_WMH>
      <surf_TSA>1915.35657242995</surf_TSA>
      <vol_TIV>1487.06943921569</vol_TIV>
      <vol_rel_CGW>[0.223523296208959 0.457963426405603 0.318513277385438 0 0]</vol_rel_CGW>
      <dist_thickness>
         <item>[2.45327590124991 0.628633865246548]</item>
      </dist_thickness>
      <dist_thickness_kmeans>[2.45511889457703 0.726984460284023 1]</dist_thickness_kmeans>
      <dist_thickness_kmeans_inner3>[1.82583419722277 0.247087056052031 0.294013268535562;2.4772644497442 0.18248366309953 0.434776275540607;3.13487180980136 0.262020924766878 0.271210455923832]</dist_thickness_kmeans_inner3>
      <dist_thickness_kmeans_outer2>[0.859288098103313 0.280880264016905 0.532135922330097;4.08091271480205 0.360748851595391 0.467864077669903]</dist_thickness_kmeans_outer2>
   </subjectmeasures>
   <subjectratings>
      <vol_TIV>1.17849668182203</vol_TIV>
      <vol_rel_CGW>[1.86428333708618 6.07477418113511 3.57028156223847 0.5 0.5]</vol_rel_CGW>
      <vol_rel_WMH>1.05637802580349</vol_rel_WMH>
      <surf_TSA>8.61534331028813</surf_TSA>
      <SQR>4.97657393398412</SQR>
   </subjectratings>
   <ppe>
      <affreg>
         <skullstrippedpara>[0 1 0 11156.849 0.404265200182671]</skullstrippedpara>
         <skullstripped>[false]</skullstripped>
         <highBGpara>[0.00201204582117498 0.00170369341503829 0.0160630382597446]</highBGpara>
         <highBG>[false]</highBG>
      </affreg>
      <SPMvols0>[844.927749019608 398.652745098039 729.496215686274 850.516047058824 1080.09000784314 8013.79505882353]</SPMvols0>
      <SPMvols1>[687.981741176471 372.541603921569 402.352623529412 481.556788235294 891.460705882353 8305.25563529412]</SPMvols1>
      <tths>
         <gintnorm>
            <T3th>[41.9981994628906 186.013000488281 310.775695800781]</T3th>
            <Tth>
               <T3th>[-57.356861114502 -57.356861114502 -7.67933082580566 41.9981994628906 186.013000488281 310.775695800781 445.164428710938 673.558227539062]</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>[0.0205088872462511 0.0832871496677399 0.0944787934422493 0 0]</dtc>
         <ll>[0.0943884084395477 0 0.0943884084395477 0;0.223773915083612 0.0138978397144991 0.237671754798111 2963.6865234375;0.223773915083612 0.0138978397144991 0.237671754798111 2963.6865234375]</ll>
         <rmsdtc>[0.048543818295002 0.121579840779305 0.139628827571869]</rmsdtc>
         <rmsgdt>[0.0351285636425018 0.0678541734814644 0.0876764729619026]</rmsgdt>
         <rmsdt>0.139628827571869</rmsdt>
         <dt>0.0944787934422493</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>[0.00894578173756599 0.0453008748590946 0.0512679889798164 0.0608757734298706 0.0686951652169228 0.0775639563798904]</dtc>
         <ll>[0.0904897014517873 0 0.0904897014517873 0;0.223456456043956 0.0191711195054945 0.242627575549451 9813.216796875;0.212566102830021 0.0210735987103175 0.233639701540338 15166.921875;0.191423175228514 0.0223854532268991 0.213808628455413 24137.607421875;0.173486443988149 0.0255829717829963 0.199069415771145 44753.6484375;0.173486443988149 0.0255829717829963 0.199069415771145 44753.6484375]</ll>
         <rmsdtc>[0.0107968905940652 0.0420570485293865 0.073661781847477 0.102223202586174 0.13218155503273 0.140944838523865]</rmsdtc>
         <rmsgdt>[0.00350834568962455 0.0154541144147515 0.0366931296885014 0.0607878528535366 0.0842306911945343 0.0923453569412231]</rmsgdt>
         <rmsdt>0.140944838523865</rmsdt>
         <dt>0.0775639563798904</dt>
      </reg>
   </ppe>
   <catlog>
      <item>------------------------------------------------------------------------</item>
      <item>CAT12.8.1 r2040: 1/1: ./sub-0025965/ses-1/sub-0025965_ses-1_run-1_T1w.n</item>
      <item>------------------------------------------------------------------------</item>
      <item>SANLM denoising (medium): 36s</item>
      <item>Internal resampling (1.33x1.00x1.00mm &gt; 1.00x1.00x1.00mm): 1s</item>
      <item>APP: Rough bias correction:</item>
      <item>Initialize 7s</item>
      <item>Estimate background 6s</item>
      <item>Initial correction 6s</item>
      <item>Refine background 3s</item>
      <item>Final correction 5s</item>
      <item>Final scaling 6s</item>
      <item>41s</item>
      <item>Correct center-of-mass 3s</item>
      <item>Affine registration 10s</item>
      <item>SPM preprocessing 1 (estimate 1 - TPM registration): 75s</item>
      <item>SPM preprocessing 1 (estimate 2): 75s</item>
      <item>SPM preprocessing 2 (write):</item>
      <item>Write Segmentation 18s</item>
      <item>Update Segmentation 20s</item>
      <item>Update Skull-Stripping 44s</item>
      <item>Update probability maps 9s</item>
      <item>91s</item>
      <item>Global intensity correction: 17s</item>
      <item>SANLM denoising after intensity normalization (medium): 26s</item>
      <item>Fast Optimized Shooting registration 39s</item>
      <item>Local adaptive segmentation (LASstr=0.50):</item>
      <item>Prepare maps 4s</item>
      <item>Prepare partitions 2s</item>
      <item>Prepare segments (LASmod = 1.00) 14s</item>
      <item>Estimate local tissue thresholds (WM) 18s</item>
      <item>Estimate local tissue thresholds (GM) 27s</item>
      <item>Intensity transformation 0s</item>
      <item>SANLM denoising after LAS (medium) 36s</item>
      <item>106s</item>
      <item>ROI segmentation (partitioning):</item>
      <item>Atlas -&gt; subject space 9s</item>
      <item>Major structures 3s</item>
      <item>Ventricle detection 14s</item>
      <item>Blood vessel detection 9s</item>
      <item>WMH detection (WMHCstr=0.50 &gt; WMHCstr'=0.24) 24s</item>
      <item>Manual stroke lesion detection 0s</item>
      <item>Closing of deep structures 2s</item>
      <item>Side alignment 4s</item>
      <item>Final corrections 5s</item>
      <item>70s</item>
      <item>Blood vessel correction (BVCstr=0.50): 2s</item>
      <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 32s</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) 2s</item>
      <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
      <item>12s</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 | 0.0905 0.0000 0.0905 | 32.0000</item>
      <item>2 | 2.50 | 0.0874 0.0013 0.0887 | 29.4886</item>
      <item>3 | 2.50 | 0.0864 0.0020 0.0884 | 26.9772</item>
      <item>4 | 2.50 | 0.0859 0.0023 0.0882 | 24.6107</item>
      <item>5 | 2.50 | 0.0855 0.0025 0.0880 | 22.6548</item>
      <item>6 | 2.50 | 0.0852 0.0026 0.0878 | 20.6989</item>
      <item>7 | 2.50 | 0.0848 0.0027 0.0876 | 18.9688</item>
      <item>8 | 2.50 | 0.0845 0.0029 0.0874 | 17.4455</item>
      <item>9 | 2.50 | 0.0841 0.0030 0.0871 | 15.9223</item>
      <item>10 | 2.50 | 0.0838 0.0031 0.0868 | 14.6627</item>
      <item>11 | 2.50 | 0.0834 0.0032 0.0866 | 13.4764</item>
      <item>12 | 2.50 | 0.0830 0.0033 0.0863 | 12.3015</item>
      <item>13 | 2.50 | 0.0826 0.0034 0.0860 | 11.3776</item>
      <item>14 | 2.50 | 0.0822 0.0034 0.0857 | 10.4537</item>
      <item>15 | 2.25 | 0.0833 0.0035 0.0869 | 9.5920</item>
      <item>16 | 2.25 | 0.0797 0.0053 0.0851 | 8.8725</item>
      <item>17 | 2.25 | 0.0783 0.0060 0.0843 | 8.1530</item>
      <item>18 | 2.25 | 0.0774 0.0062 0.0837 | 7.5234</item>
      <item>19 | 2.25 | 0.0767 0.0064 0.0831 | 6.9630</item>
      <item>20 | 2.25 | 0.0761 0.0064 0.0825 | 6.4027</item>
      <item>21 | 2.25 | 0.0755 0.0064 0.0820 | 5.9447</item>
      <item>22 | 2.25 | 0.0750 0.0064 0.0814 | 5.5083</item>
      <item>23 | 2.25 | 0.0745 0.0064 0.0809 | 5.0803</item>
      <item>29 | 2.00 | 0.0764 0.0044 0.0808 | 3.3283</item>
      <item>30 | 2.00 | 0.0723 0.0063 0.0787 | 3.1221</item>
      <item>31 | 2.00 | 0.0709 0.0070 0.0779 | 2.9160</item>
      <item>43 | 1.75 | 0.0702 0.0039 0.0741 | 1.5785</item>
      <item>44 | 1.75 | 0.0653 0.0066 0.0719 | 1.5194</item>
      <item>45 | 1.75 | 0.0638 0.0075 0.0713 | 1.4626</item>
      <item>57 | 1.50 | 0.0625 0.0054 0.0680 | 1.0900</item>
      <item>58 | 1.50 | 0.0590 0.0078 0.0668 | 1.0730</item>
      <item>59 | 1.50 | 0.0578 0.0085 0.0664 | 1.0579</item>
      <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 238s</item>
      <item>Prepare output 11s</item>
      <item>248s</item>
      <item>Jacobian determinant (RMS): 0.011 0.042 0.074 0.102 0.132 | 0.140945</item>
      <item>Template Matching: 0.090 0.223 0.213 0.191 0.173 | 0.173486</item>
      <item>Write result maps: 92s</item>
      <item>Surface and thickness estimation:</item>
      <item>lh:</item>
      <item>Thickness estimation (0.50 mm ):</item>
      <item>WM distance: 42s</item>
      <item>CSF distance: 18s</item>
      <item>PBT2x thickness: 52s</item>
      <item>120s</item>
      <item>Create initial surface 87s</item>
      <item>Topology correction: 91s</item>
      <item>Surface refinement: 77s</item>
      <item>Reduction of surface collisions with optimization: 57s</item>
      <item>Spherical mapping with areal smoothing 83s</item>
      <item>Spherical registration 247s</item>
      <item>rh:</item>
      <item>Thickness estimation (0.50 mm ):</item>
      <item>WM distance: 41s</item>
      <item>CSF distance: 17s</item>
      <item>PBT2x thickness: 51s</item>
      <item>117s</item>
      <item>Create initial surface 86s</item>
      <item>Topology correction: 90s</item>
      <item>Surface refinement: 69s</item>
      <item>Reduction of surface collisions with optimization: 55s</item>
      <item>Spherical mapping with areal smoothing 81s</item>
      <item>Spherical registration 263s</item>
      <item>Final surface processing results:</item>
      <item>Average thickness (FS): 2.4538 0.6277 mm</item>
      <item>Surface intensity / position RMSE: 0.0651 / 0.0686</item>
      <item>Euler number / defect number / defect size: 20.0 / 8.5 / 0.74%</item>
      <item>Display thickness: /var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/surf/lh.thickness.sub-0025965_ses-1_run-1_T1w</item>
      <item>Display thickness: /var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/surf/rh.thickness.sub-0025965_ses-1_run-1_T1w</item>
      <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/sub-0025965_ses-1_run-1_T1w.nii</item>
      <item>Surface ROI estimation: 8s</item>
      <item>Surface and thickness estimation takes: 1626s</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 13s</item>
      <item>ROI estimation of 'aal3' atlas 23s</item>
      <item>ROI estimation of 'mori' atlas 34s</item>
      <item>ROI estimation of 'anatomy3' atlas 50s</item>
      <item>ROI estimation of 'julichbrain' atlas 65s</item>
      <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 25s</item>
      <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 34s</item>
      <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 105s</item>
      <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 156s</item>
      <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 11s</item>
      <item>Write results 12s</item>
      <item>639s</item>
      <item>Quality check: 13s</item>
      <item>Print 'Graphics' figure to:</item>
      <item>/var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/report/catreport_sub-0025965_ses-1_run-1_T1w.pdf</item>
      <item>------------------------------------------------------------------------</item>
      <item>CAT preprocessing takes 55 minute(s) and 42 second(s).</item>
      <item>Image Quality Rating (IQR): 84.08% (B)</item>
      <item>GM volume (GMV): 45.80% (681.02 / 1487.07 ml)</item>
      <item>GM thickness (GMT): 2.45 0.63 mm</item>
      <item>Segmentations are saved in /var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/mri</item>
      <item>Reports are saved in /var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/report</item>
      <item>Labels are saved in /var/lib/condor/execute/dir_2321434/ds/BNU_2/sub-0025965/ses-1/label</item>
      <item>------------------------------------------------------------------------</item>
   </catlog>
</S>