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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>
- <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>
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- <pbtres>0.5</pbtres>
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- <reduce_mesh>1</reduce_mesh>
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- <add_parahipp>0.1</add_parahipp>
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- <expertgui>1</expertgui>
- <subfolders>1</subfolders>
- <experimental>0</experimental>
- <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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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.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/hammers.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/thalamus.nii</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/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>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii</td>
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- <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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- <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>
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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>
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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_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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- <td>/var/lib/condor/execute/dir_1701946/ds/code/Tian_Subcortex_S2_7T.nii</td>
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- <item>gm</item>
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- <td>Desikan</td>
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- <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>
- </tr>
- <tr>
- <td>HCP</td>
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- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_100P_17N</td>
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- <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>
- <td>1</td>
- <td>0</td>
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- </satlas>
- <LAB>
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- <CT>1</CT>
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- <BV>7</BV>
- <TH>9</TH>
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- <VT>15</VT>
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- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
- <LE>27</LE>
- </LAB>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>26</SurfaceEulerNumber>
- <SurfaceDefectArea>0.539603218736342</SurfaceDefectArea>
- <SurfaceDefectNumber>15.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0737645700573921</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0779346078634262</SurfacePositionRMSE>
- <res_vx_vol>[0.999999940395355 1 0.999999940395355]</res_vx_vol>
- <res_vx_voli>[1 1 0.999999940395355]</res_vx_voli>
- <res_RMS>0.999999960263571</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[13.1619997024536 98.1539993286133 284.558013916016 445.996002197266]</tissue_mn>
- <tissue_mnr>[0.0295114740729332 0.220078200101852 0.638028144836426 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[20.7805165893818 53.5789051541244 49.0630092329192 31.2306694071448]</tissue_std>
- <tissue_stdr>[0.0480103604495525 0.123786263167858 0.113352939486504 0.0721539184451103]</tissue_stdr>
- <contrast>159.995498657227</contrast>
- <contrastr>0.358737528324127</contrastr>
- <res_ECR>0.3945472240448</res_ECR>
- <NCR>0.157709434628487</NCR>
- <ICR>0.342300623655319</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.99999988079071 2 1.99999988079071]</res_vx_vol>
- <res_RMS>1.99999992052714</res_RMS>
- <res_ECR>2.91095519065857</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>2.7022705078125</contrastr>
- <NCR>2.59502506256104</NCR>
- <ICR>1.30878126621246</ICR>
- <SurfaceEulerNumber>2.22448979591837</SurfaceEulerNumber>
- <SurfaceDefectArea>1.13490080468409</SurfaceDefectArea>
- <SurfaceDefectNumber>1.775</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.47529137134552</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.55869221687317</SurfacePositionRMSE>
- <SIQR>2.65773492670414</SIQR>
- <IQR>2.41480397419924</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>20231031-014951</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>26</SurfaceEulerNumber>
- <SurfaceDefectArea>0.539603218736342</SurfaceDefectArea>
- <SurfaceDefectNumber>15.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0737645700573921</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0779346078634262</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>26</EC_abs>
- <defect_size>0.539603218736342</defect_size>
- <vol_abs_CGW>[192.801337527752 685.692837560892 479.16924594909 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.558019574582577</vol_abs_WMH>
- <vol_rel_WMH>0.000411014663822977</vol_rel_WMH>
- <surf_TSA>1817.37425980151</surf_TSA>
- <vol_TIV>1357.66342103773</vol_TIV>
- <vol_rel_CGW>[0.142009672309197 0.50505362885654 0.352936698834263 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.66637453138357 0.644215472509478]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.67433452606201 0.785951991476904 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[2.02781349020481 0.270082379099816 0.285171181365311;2.68328906023864 0.186322767530122 0.424427670525895;3.35986064573966 0.274653841610404 0.290401148108794]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.919309362723826 0.335797681706488 0.585917854149204;4.28874068800737 0.305151748058802 0.414082145850796]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.0425842216683</vol_TIV>
- <vol_rel_CGW>[0.5 6.92050339182005 4.18851829802915 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.0411014663823</vol_rel_WMH>
- <surf_TSA>8.59269007417139</surf_TSA>
- <SQR>5.67198598886411</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 9371.64688281253 0.387007453188919]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00136184878647327 0.000916387536562979 0.284861862659454]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[805.69760295707 433.458342791319 286.021367265522 429.626037137389 994.260015247285 6821.22859734464]</SPMvols0>
- <SPMvols1>[733.896120962262 410.750657870293 173.971907277524 403.965587686479 772.117753978193 6877.0727273494]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[116.480003356934 300.030487060547 440.161102294922]</T3th>
- <Tth>
- <T3th>[-5.51106023788452 -5.51105499267578 7.1878080368042 116.480003356934 300.030487060547 440.161102294922 602.001647949219 1218.619140625]</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>[0.0175427068024874 0.0566226243972778 0.0616313293576241 0 0]</dtc>
- <ll>[0.0781124522562931 0 0.0781124522562931 0;0.190777818695838 0.00831815346377809 0.199095972159616 1773.82958984375;0.190777818695838 0.00831815346377809 0.199095972159616 1773.82958984375]</ll>
- <rmsdtc>[0.037884995341301 0.0758126825094223 0.0866157039999962]</rmsdtc>
- <rmsgdt>[0.0269393809139729 0.0399652868509293 0.0501338467001915]</rmsgdt>
- <rmsdt>0.0866157039999962</rmsdt>
- <dt>0.0616313293576241</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>[0.00794259738177061 0.0272683445364237 0.0387729667127132 0.0478071980178356 0.0546775348484516 0.060922559350729]</dtc>
- <ll>[0.0803102267715844 0 0.0803102267715844 0;0.214018788156288 0.0109631906288156 0.224981978785104 5611.783203125;0.195591474436997 0.0147971609976456 0.210388635434643 10649.6943359375;0.175491999583593 0.017569890615494 0.193061890199087 18945.12109375;0.159045551412436 0.0205469357814003 0.179592487193837 35943.84375;0.159045551412436 0.0205469357814003 0.179592487193837 35943.84375]</ll>
- <rmsdtc>[0.00918738450855017 0.0319868214428425 0.0491754375398159 0.0748782679438591 0.0996548309922218 0.106593236327171]</rmsdtc>
- <rmsgdt>[0.00301374727860093 0.0116156795993447 0.0262470208108425 0.0468265190720558 0.0668255165219307 0.0716434419155121]</rmsgdt>
- <rmsdt>0.106593236327171</rmsdt>
- <dt>0.060922559350729</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025332/ses-2/sub-0025332_ses-2_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 59s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 7s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 5s</item>
- <item>39s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 9s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 78s</item>
- <item>SPM preprocessing 1 (estimate 2): 62s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 17s</item>
- <item>Update Segmentation 20s</item>
- <item>Update Skull-Stripping 41s</item>
- <item>Update probability maps 8s</item>
- <item>85s</item>
- <item>Global intensity correction: 15s</item>
- <item>SANLM denoising after intensity normalization (medium): 27s</item>
- <item>Fast Optimized Shooting registration 36s</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) 15s</item>
- <item>Estimate local tissue thresholds (WM) 20s</item>
- <item>Estimate local tissue thresholds (GM) 31s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 42s</item>
- <item>118s</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 3s</item>
- <item>Final corrections 4s</item>
- <item>72s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 34s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.07,0.98 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 | 0.0803 0.0000 0.0803 | 32.0000</item>
- <item>2 | 2.50 | 0.0783 0.0010 0.0793 | 29.4886</item>
- <item>3 | 2.50 | 0.0777 0.0015 0.0792 | 26.9772</item>
- <item>4 | 2.50 | 0.0774 0.0017 0.0791 | 24.6107</item>
- <item>5 | 2.50 | 0.0772 0.0018 0.0789 | 22.6548</item>
- <item>6 | 2.50 | 0.0770 0.0018 0.0788 | 20.6989</item>
- <item>7 | 2.50 | 0.0767 0.0019 0.0787 | 18.9688</item>
- <item>8 | 2.50 | 0.0765 0.0020 0.0785 | 17.4455</item>
- <item>9 | 2.50 | 0.0763 0.0020 0.0783 | 15.9223</item>
- <item>10 | 2.50 | 0.0761 0.0021 0.0782 | 14.6627</item>
- <item>11 | 2.50 | 0.0758 0.0022 0.0780 | 13.4764</item>
- <item>12 | 2.50 | 0.0756 0.0022 0.0778 | 12.3015</item>
- <item>13 | 2.50 | 0.0753 0.0023 0.0776 | 11.3776</item>
- <item>14 | 2.50 | 0.0751 0.0023 0.0774 | 10.4537</item>
- <item>15 | 2.25 | 0.0740 0.0024 0.0763 | 9.5920</item>
- <item>16 | 2.25 | 0.0713 0.0037 0.0750 | 8.8725</item>
- <item>29 | 2.00 | 0.0730 0.0016 0.0746 | 3.3283</item>
- <item>30 | 2.00 | 0.0672 0.0040 0.0712 | 3.1221</item>
- <item>31 | 2.00 | 0.0652 0.0049 0.0701 | 2.9160</item>
- <item>43 | 1.75 | 0.0642 0.0028 0.0671 | 1.5785</item>
- <item>44 | 1.75 | 0.0599 0.0051 0.0650 | 1.5194</item>
- <item>45 | 1.75 | 0.0585 0.0059 0.0644 | 1.4626</item>
- <item>57 | 1.50 | 0.0571 0.0042 0.0613 | 1.0900</item>
- <item>58 | 1.50 | 0.0540 0.0062 0.0602 | 1.0730</item>
- <item>59 | 1.50 | 0.0530 0.0068 0.0599 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 191s</item>
- <item>Prepare output 12s</item>
- <item>203s</item>
- <item>Jacobian determinant (RMS): 0.009 0.032 0.049 0.075 0.100 | 0.106593</item>
- <item>Template Matching: 0.080 0.214 0.196 0.175 0.159 | 0.159046</item>
- <item>Write result maps: 66s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 36s</item>
- <item>CSF distance: 18s</item>
- <item>PBT2x thickness: 53s</item>
- <item>113s</item>
- <item>Create initial surface 90s</item>
- <item>Topology correction: 106s</item>
- <item>Surface refinement: 101s</item>
- <item>Reduction of surface collisions with optimization: 71s</item>
- <item>Spherical mapping with areal smoothing 99s</item>
- <item>Spherical registration 322s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 35s</item>
- <item>CSF distance: 18s</item>
- <item>PBT2x thickness: 53s</item>
- <item>112s</item>
- <item>Create initial surface 86s</item>
- <item>Topology correction: 103s</item>
- <item>Surface refinement: 106s</item>
- <item>Reduction of surface collisions with optimization: 67s</item>
- <item>Spherical mapping with areal smoothing 93s</item>
- <item>Spherical registration 337s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.6664 0.6438 mm</item>
- <item>Surface intensity / position RMSE: 0.0738 / 0.0779</item>
- <item>Euler number / defect number / defect size: 26.0 / 15.5 / 0.54%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_1701946/ds/UPSM_1/sub-0025332/ses-2/surf/lh.thickness.sub-0025332_ses-2_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_1701946/ds/UPSM_1/sub-0025332/ses-2/surf/rh.thickness.sub-0025332_ses-2_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_1701946/ds/UPSM_1/sub-0025332/ses-2/sub-0025332_ses-2_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 1908s</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 9s</item>
- <item>ROI estimation of 'hammers' atlas 24s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 7s</item>
- <item>ROI estimation of 'aal3' atlas 12s</item>
- <item>ROI estimation of 'mori' atlas 18s</item>
- <item>ROI estimation of 'anatomy3' atlas 25s</item>
- <item>ROI estimation of 'julichbrain' atlas 33s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 14s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 23s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 54s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 79s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 7s</item>
- <item>Write results 8s</item>
- <item>356s</item>
- <item>Quality check: 12s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_1701946/ds/UPSM_1/sub-0025332/ses-2/report/catreport_sub-0025332_ses-2_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 54 minute(s) and 33 second(s).</item>
- <item>Image Quality Rating (IQR): 80.85% (B-)</item>
- <item>GM volume (GMV): 50.51% (685.69 / 1357.66 ml)</item>
- <item>GM thickness (GMT): 2.67 0.64 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_1701946/ds/UPSM_1/sub-0025332/ses-2/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_1701946/ds/UPSM_1/sub-0025332/ses-2/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_1701946/ds/UPSM_1/sub-0025332/ses-2/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|