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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
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- <resval>[1 0.3]</resval>
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- <species>human</species>
- <APP>1070</APP>
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- <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>
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- </shootingT1>
- <brainmask>
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- </brainmask>
- <T1>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/T1.nii</item>
- </T1>
- <cat12atlas>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cat.nii</item>
- </cat12atlas>
- <pbtres>0.5</pbtres>
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- <verb>2</verb>
- <ignoreErrors>1</ignoreErrors>
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- <fontsize>10</fontsize>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii</td>
- <td>0</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/lpba40.nii</td>
- <td>0</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii</td>
- <td>0</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/hammers.nii</td>
- <td>0</td>
- <td>
- <item>csf</item>
- <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/thalamus.nii</td>
- <td>0</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/suit.nii</td>
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- <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/ibsr.nii</td>
- <td>0</td>
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- <item>csf</item>
- <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/aal3.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/mori.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/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>
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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_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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- <td>1</td>
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- <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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- <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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- <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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- <td>Schaefer2018_100P_17N</td>
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- <td>1</td>
- <td>0</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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- <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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- <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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- <LAB>
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- <optimal>[1 0.3]</optimal>
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- <res_BB>0</res_BB>
- <tissue_mn>[10.8920001983643 81.3676605224609 161.254791259766 277.878753662109]</tissue_mn>
- <tissue_mnr>[0.0391969494521618 0.292817115783691 0.5803062915802 0.999999940395355]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[24.8182603735116 40.0558098467725 36.2937279370254 26.3916517228213]</tissue_std>
- <tissue_stdr>[0.0929569005966187 0.150029197335243 0.135938301682472 0.0988500416278839]</tissue_stdr>
- <contrast>96.1377716064453</contrast>
- <contrastr>0.345970213413239</contrastr>
- <NCR>0.150240376591682</NCR>
- <ICR>0.507467985153198</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.875 1.80000305175781 1.875]</res_vx_vol>
- <res_RMS>1.8503387965755</res_RMS>
- <res_BB>0.5</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>2.89378023147583</contrastr>
- <NCR>2.48780345916748</NCR>
- <ICR>1.71842265129089</ICR>
- <SurfaceEulerNumber>4.16326530612245</SurfaceEulerNumber>
- <SurfaceDefectArea>1.50017460055136</SurfaceDefectArea>
- <SurfaceDefectNumber>2.6</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.74437940120697</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>2.04175186157227</SurfacePositionRMSE>
- <IQR>2.30699594545348</IQR>
- </qualityratings>
- <ratings_help>
- <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>20220709-180751</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>64</SurfaceEulerNumber>
- <SurfaceDefectArea>2.00069840220544</SurfaceDefectArea>
- <SurfaceDefectNumber>32</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0872189700603485</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.102087587118149</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>64</EC_abs>
- <defect_size>2.00069840220544</defect_size>
- <vol_abs_CGW>[159.77409234529 668.941845877863 421.266033500564 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.735487575083971</vol_abs_WMH>
- <vol_rel_WMH>0.000588398546316423</vol_rel_WMH>
- <surf_TSA>1838.49670496436</surf_TSA>
- <vol_TIV>1249.98197172372</vol_TIV>
- <vol_rel_CGW>[0.127821117391767 0.535161195129396 0.337017687478837 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.46371636802337 0.632252009125531]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.48945999145508 0.757912327143298 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.84266825739114 0.268078453403121 0.270781144781145;2.48045742389316 0.178134595806505 0.415683501683502;3.12499975582553 0.256173333464416 0.313535353535354]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.776343728045787 0.304947778887152 0.672981337334709;3.96970220490038 0.300995105162981 0.327018662665291]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.51777071248212</vol_TIV>
- <vol_rel_CGW>[0.5 7.46122836080093 3.90261651362854 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.05883985463164</vol_rel_WMH>
- <surf_TSA>8.59999631003324</surf_TSA>
- <SQR>6.10579702194304</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.104951604207357 1 1 11135.8530010208 0.534557339283646]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0428634770214558 0.0412148833274841 0.24761226773262]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[812.348280303093 369.610413868462 306.617600957173 622.903206701796 1288.35163627083 9714.97432331035]</SPMvols0>
- <SPMvols1>[695.373091517082 342.361554480914 169.144643733212 516.870896992438 781.820612162658 9936.69141566574]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[86.0644989013672 186.579895019531 274.926696777344]</T3th>
- <Tth>
- <T3th>[0 0 14.3782501220703 86.0644989013672 186.579895019531 274.926696777344 369.357788085938 989.941467285156]</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>[0.0165820922702551 0.0571562871336937 0.0623515881597996 0 0]</dtc>
- <ll>[0.0825971624001163 0 0.0825971624001163 0;0.202478672132916 0.00822498016998548 0.210703652302901 1753.96057128906;0.202478672132916 0.00822498016998548 0.210703652302901 1753.96057128906]</ll>
- <rmsdtc>[0.0454037711024284 0.0772570595145226 0.088548481464386]</rmsdtc>
- <rmsgdt>[0.0334113091230392 0.0424032770097256 0.053952731192112]</rmsgdt>
- <rmsdt>0.088548481464386</rmsdt>
- <dt>0.0623515881597996</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>[0.00611246470361948 0.0209620669484138 0.0318629406392574 0.042170412838459 0.0506487004458904 0.0560941398143768]</dtc>
- <ll>[0.0833598349941229 0 0.0833598349941229 0;0.223723580586081 0.00974456368284493 0.233468144268926 4987.99853515625;0.209151238620448 0.0134900802769024 0.222641318897351 9708.97265625;0.190853731131848 0.0171420648906306 0.207995796022479 18483.80859375;0.174891588490145 0.0210149213023329 0.195906509792478 36762.515625;0.174891588490145 0.0210149213023329 0.195906509792478 36762.515625]</ll>
- <rmsdtc>[0.0074505927041173 0.0260271057486534 0.0433441624045372 0.0713545456528664 0.100058779120445 0.107264146208763]</rmsdtc>
- <rmsgdt>[0.0026866770349443 0.0107513656839728 0.0263906121253967 0.049161184579134 0.071158193051815 0.0778762996196747]</rmsgdt>
- <rmsdt>0.107264146208763</rmsdt>
- <dt>0.0560941398143768</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./dir_8839/ds/sub-1185/sub-1185_ses-02_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 68s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 8s</item>
- <item>Estimate background 8s</item>
- <item>Initial correction 14s</item>
- <item>Refine background 4s</item>
- <item>Final correction 8s</item>
- <item>Final scaling 6s</item>
- <item>56s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 16s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 8s</item>
- <item>Use initial fine affine registration. 71s</item>
- <item>SPM preprocessing 1 (estimate 2): 55s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 20s</item>
- <item>Update Segmentation 21s</item>
- <item>Update Skull-Stripping 49s</item>
- <item>Update probability maps 11s</item>
- <item>100s</item>
- <item>Global intensity correction: 20s</item>
- <item>SANLM denoising after intensity normalization (medium): 24s</item>
- <item>Fast Optimized Shooting registration 34s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.25) 15s</item>
- <item>Estimate local tissue thresholds (WM) 22s</item>
- <item>Estimate local tissue thresholds (GM) 32s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 49s</item>
- <item>129s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 8s</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) 28s</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>75s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 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) 5s</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 | 0.0834 0.0000 0.0834 | 32.0000</item>
- <item>2 | 2.50 | 0.0809 0.0011 0.0819 | 29.4886</item>
- <item>3 | 2.50 | 0.0802 0.0016 0.0818 | 26.9772</item>
- <item>4 | 2.50 | 0.0799 0.0017 0.0816 | 24.6107</item>
- <item>5 | 2.50 | 0.0797 0.0018 0.0815 | 22.6548</item>
- <item>6 | 2.50 | 0.0795 0.0018 0.0813 | 20.6989</item>
- <item>7 | 2.50 | 0.0794 0.0019 0.0812 | 18.9688</item>
- <item>8 | 2.50 | 0.0791 0.0019 0.0810 | 17.4455</item>
- <item>9 | 2.50 | 0.0789 0.0019 0.0809 | 15.9223</item>
- <item>10 | 2.50 | 0.0787 0.0020 0.0807 | 14.6627</item>
- <item>11 | 2.50 | 0.0785 0.0020 0.0805 | 13.4764</item>
- <item>12 | 2.50 | 0.0783 0.0020 0.0803 | 12.3015</item>
- <item>13 | 2.50 | 0.0781 0.0021 0.0802 | 11.3776</item>
- <item>14 | 2.50 | 0.0779 0.0021 0.0800 | 10.4537</item>
- <item>15 | 2.25 | 0.0770 0.0021 0.0791 | 9.5920</item>
- <item>16 | 2.25 | 0.0746 0.0032 0.0778 | 8.8725</item>
- <item>29 | 2.00 | 0.0767 0.0015 0.0782 | 3.3283</item>
- <item>30 | 2.00 | 0.0714 0.0037 0.0751 | 3.1221</item>
- <item>31 | 2.00 | 0.0697 0.0045 0.0742 | 2.9160</item>
- <item>43 | 1.75 | 0.0694 0.0025 0.0719 | 1.5785</item>
- <item>44 | 1.75 | 0.0650 0.0049 0.0699 | 1.5194</item>
- <item>45 | 1.75 | 0.0636 0.0057 0.0693 | 1.4626</item>
- <item>57 | 1.50 | 0.0627 0.0041 0.0668 | 1.0900</item>
- <item>58 | 1.50 | 0.0593 0.0063 0.0656 | 1.0730</item>
- <item>59 | 1.50 | 0.0583 0.0070 0.0653 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 161s</item>
- <item>Prepare output 11s</item>
- <item>172s</item>
- <item>Jacobian determinant (RMS): 0.007 0.026 0.043 0.071 0.100 | 0.107264</item>
- <item>Template Matching: 0.083 0.224 0.209 0.191 0.175 | 0.174892</item>
- <item>Write result maps: 30s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 24s</item>
- <item>CSF distance: 14s</item>
- <item>PBT2x thickness: 41s</item>
- <item>84s</item>
- <item>Create initial surface 73s</item>
- <item>Topology correction: 98s</item>
- <item>Surface refinement: 94s</item>
- <item>Reduction of surface collisions with optimization: 60s</item>
- <item>Spherical mapping with areal smoothing 74s</item>
- <item>Spherical registration 296s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 23s</item>
- <item>CSF distance: 14s</item>
- <item>PBT2x thickness: 40s</item>
- <item>82s</item>
- <item>Create initial surface 72s</item>
- <item>Topology correction: 94s</item>
- <item>Surface refinement: 76s</item>
- <item>Reduction of surface collisions with optimization: 62s</item>
- <item>Spherical mapping with areal smoothing 82s</item>
- <item>Spherical registration 299s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4638 0.6319 mm</item>
- <item>Surface intensity / position RMSE: 0.0872 / 0.1021</item>
- <item>Euler number / defect number / defect size: 64.0 / 32.0 / 2.00%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_8839/ds/sub-1185/surf/lh.thickness.sub-1185_ses-02_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_8839/ds/sub-1185/surf/rh.thickness.sub-1185_ses-02_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_8839/ds/sub-1185/sub-1185_ses-02_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1642s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 10s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 37s</item>
- <item>ROI estimation of 'lpba40' atlas 11s</item>
- <item>ROI estimation of 'hammers' atlas 26s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 9s</item>
- <item>ROI estimation of 'aal3' atlas 16s</item>
- <item>ROI estimation of 'mori' atlas 23s</item>
- <item>ROI estimation of 'anatomy3' atlas 33s</item>
- <item>ROI estimation of 'julichbrain' atlas 43s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 17s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 31s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 70s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 104s</item>
- <item>Write results 104s</item>
- <item>434s</item>
- <item>Quality check: 5s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_8839/ds/sub-1185/report/catreport_sub-1185_ses-02_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 51 minute(s) and 18 second(s).</item>
- <item>Image Quality Rating (IQR): 81.93% (B-)</item>
- <item>GM volume (GMV): 53.52% (668.94 / 1249.98 ml)</item>
- <item>GM thickness (GMT): 2.46 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_8839/ds/sub-1185/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_8839/ds/sub-1185/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_8839/ds/sub-1185/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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