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- <parameter>
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- <tpm>
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- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
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- <extopts>
- <uhrlim>1.4</uhrlim>
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- <spm_kamap>0</spm_kamap>
- <NCstr>-Inf</NCstr>
- <LASstr>0.5</LASstr>
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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
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- <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>
- <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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- <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>
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- <experimental>0</experimental>
- <print>2</print>
- <fontsize>10</fontsize>
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- <tr>
- <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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- <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/lpba40.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/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>
- </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/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>
- <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/ibsr.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/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>
- </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>
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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>
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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>
- <td>
- <item>gm</item>
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- </td>
- <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>
- <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_600Parcels_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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- <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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- <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>
- <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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- <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>
- </tr>
- </satlas>
- <LAB>
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- <VT>15</VT>
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- <shootingtpm>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
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- </shootingtpms>
- <templates>
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- </templates>
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- <qualitymeasures>
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- <SurfaceEulerNumber>28</SurfaceEulerNumber>
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- <res_BB>0</res_BB>
- <tissue_mn>[33.0530014038086 137.334548950195 374.789794921875 468.148040771484]</tissue_mn>
- <tissue_mnr>[0.0706037357449532 0.293357104063034 0.800579607486725 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[16.1359150974927 61.9290436562213 42.3476211113096 22.4113169049383]</tissue_std>
- <tissue_stdr>[0.0370859540998936 0.142334505915642 0.0973295867443085 0.0515090115368366]</tissue_stdr>
- <contrast>100.450424194336</contrast>
- <contrastr>0.21456977725029</contrastr>
- <NCR>0.235742896795273</NCR>
- <ICR>0.648629248142242</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.99999997407345 1.99999997407345 2]</res_vx_vol>
- <res_RMS>1.99999998271563</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>4.86478614807129</contrastr>
- <NCR>3.71522974967957</NCR>
- <ICR>2.0685248374939</ICR>
- <SurfaceEulerNumber>2.3265306122449</SurfaceEulerNumber>
- <SurfaceDefectArea>1.19322759885339</SurfaceDefectArea>
- <SurfaceDefectNumber>1.8</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.32914566993713</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.31758952140808</SurfacePositionRMSE>
- <IQR>3.40987493256528</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>20220711-032252</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>28</SurfaceEulerNumber>
- <SurfaceDefectArea>0.772910395413567</SurfaceDefectArea>
- <SurfaceDefectNumber>16</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0664572864770889</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0658794790506363</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>28</EC_abs>
- <defect_size>0.772910395413567</defect_size>
- <vol_abs_CGW>[402.184907078636 760.06643100773 748.851803851443 0 0]</vol_abs_CGW>
- <vol_abs_WMH>2.42441170099835</vol_abs_WMH>
- <vol_rel_WMH>0.00126859280789003</vol_rel_WMH>
- <surf_TSA>2386.80780492157</surf_TSA>
- <vol_TIV>1911.10314193781</vol_TIV>
- <vol_rel_CGW>[0.210446468457391 0.397710837436562 0.391842694106047 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.35287465361755 0.694739835140305]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.36959433555603 0.858023688210725 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.51754657979896 0.318323852859318 0.268010744259451;2.3304041250102 0.211059134391387 0.426749861516111;3.04747512255771 0.301639200302573 0.305239394224438]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.68285556324676 0.116121048718424 0.388598619145363;4.21894622511233 0.432160113465552 0.611401380854637]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>5.25381176615935</vol_TIV>
- <vol_rel_CGW>[1.62942651683533 4.99265153442101 4.88726102920343 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.126859280789</vol_rel_WMH>
- <surf_TSA>8.62399730155125</surf_TSA>
- <SQR>4.40714288922837</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.122229766845703 1 1 9204.08776136974 0.35867874455481]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0817793905735016 0.0781426727771759 0.425331354141235]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[920.030207196436 723.863769213949 628.980708962142 518.563496177358 1664.34238371619 6748.92603049809]</SPMvols0>
- <SPMvols1>[766.557328876381 671.773774504313 416.59197728829 711.370044052057 1275.65937432197 6643.84533522013]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[186.750701904297 370.682800292969 465.593902587891]</T3th>
- <Tth>
- <T3th>[0 0 33.9217071533203 186.750701904297 370.682800292969 465.593902587891 605.015502929688 1180.71948242188]</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>[0.0195093397051096 0.0761430636048317 0.0835069566965103 0 0]</dtc>
- <ll>[0.0851407213275935 0 0.0851407213275935 0;0.201072024268692 0.0110009114424578 0.21207293571115 2345.92236328125;0.201072024268692 0.0110009114424578 0.21207293571115 2345.92236328125]</ll>
- <rmsdtc>[0.0454513058066368 0.0966661423444748 0.107680052518845]</rmsdtc>
- <rmsgdt>[0.0329740233719349 0.0485288985073566 0.0593557506799698]</rmsgdt>
- <rmsdt>0.107680052518845</rmsdt>
- <dt>0.0835069566965103</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>[0.00931106228381395 0.0347813069820404 0.0503248050808907 0.0598341301083565 0.066503569483757 0.0746689140796661]</dtc>
- <ll>[0.0845848258027301 0 0.0845848258027301 0;0.22437380952381 0.0132855702457265 0.237659379769536 6800.55126953125;0.202674993608555 0.0169514420351474 0.219626435643702 12200.15625;0.181321262747247 0.0195470449478425 0.20086830769509 21077.03125;0.164140810202401 0.022716233337411 0.186857043539812 39738.7109375;0.164140810202401 0.022716233337411 0.186857043539812 39738.7109375]</ll>
- <rmsdtc>[0.0108915800228715 0.0395173206925392 0.0600498914718628 0.0861885324120522 0.110619567334652 0.118043065071106]</rmsdtc>
- <rmsgdt>[0.00342691596597433 0.0132840424776077 0.029085548594594 0.0508336462080479 0.070340558886528 0.0761087983846664]</rmsgdt>
- <rmsdt>0.118043065071106</rmsdt>
- <dt>0.0746689140796661</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./ds/sub-4/sub-4_ses-timepoint1_run-0_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 53s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 9s</item>
- <item>Initial correction 10s</item>
- <item>Refine background 4s</item>
- <item>Final correction 8s</item>
- <item>Final scaling 7s</item>
- <item>51s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 11s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 94s</item>
- <item>SPM preprocessing 1 (estimate 2): 73s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 21s</item>
- <item>Update Segmentation 27s</item>
- <item>Update Skull-Stripping 52s</item>
- <item>Update probability maps 10s</item>
- <item>110s</item>
- <item>Global intensity correction: 20s</item>
- <item>SANLM denoising after intensity normalization (medium): 14s</item>
- <item>Fast Optimized Shooting registration 41s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 5s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.00) 21s</item>
- <item>Estimate local tissue thresholds (WM) 26s</item>
- <item>Estimate local tissue thresholds (GM) 35s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 33s</item>
- <item>127s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 10s</item>
- <item>Major structures 5s</item>
- <item>Ventricle detection 18s</item>
- <item>Blood vessel detection 16s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.14) 40s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 6s</item>
- <item>Final corrections 6s</item>
- <item>103s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 45s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.35 0.06,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 8s</item>
- <item>Level 1 cleanup (brain masking) 5s</item>
- <item>Level 2 cleanup (CSF correction) 2s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 5s</item>
- <item>20s</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 | 0.0846 0.0000 0.0846 | 32.0000</item>
- <item>2 | 2.50 | 0.0820 0.0012 0.0832 | 29.4886</item>
- <item>3 | 2.50 | 0.0812 0.0018 0.0830 | 26.9772</item>
- <item>4 | 2.50 | 0.0809 0.0020 0.0828 | 24.6107</item>
- <item>5 | 2.50 | 0.0806 0.0021 0.0827 | 22.6548</item>
- <item>6 | 2.50 | 0.0803 0.0022 0.0825 | 20.6989</item>
- <item>7 | 2.50 | 0.0800 0.0023 0.0823 | 18.9688</item>
- <item>8 | 2.50 | 0.0797 0.0024 0.0821 | 17.4455</item>
- <item>9 | 2.50 | 0.0794 0.0025 0.0819 | 15.9223</item>
- <item>10 | 2.50 | 0.0791 0.0026 0.0817 | 14.6627</item>
- <item>11 | 2.50 | 0.0788 0.0027 0.0815 | 13.4764</item>
- <item>12 | 2.50 | 0.0785 0.0027 0.0812 | 12.3015</item>
- <item>13 | 2.50 | 0.0781 0.0028 0.0810 | 11.3776</item>
- <item>14 | 2.50 | 0.0778 0.0029 0.0807 | 10.4537</item>
- <item>15 | 2.25 | 0.0777 0.0030 0.0807 | 9.5920</item>
- <item>16 | 2.25 | 0.0748 0.0044 0.0792 | 8.8725</item>
- <item>29 | 2.00 | 0.0761 0.0020 0.0781 | 3.3283</item>
- <item>30 | 2.00 | 0.0697 0.0046 0.0743 | 3.1221</item>
- <item>31 | 2.00 | 0.0676 0.0057 0.0732 | 2.9160</item>
- <item>43 | 1.75 | 0.0665 0.0033 0.0697 | 1.5785</item>
- <item>44 | 1.75 | 0.0620 0.0057 0.0676 | 1.5194</item>
- <item>45 | 1.75 | 0.0604 0.0065 0.0670 | 1.4626</item>
- <item>57 | 1.50 | 0.0591 0.0047 0.0638 | 1.0900</item>
- <item>58 | 1.50 | 0.0558 0.0069 0.0627 | 1.0730</item>
- <item>59 | 1.50 | 0.0547 0.0076 0.0623 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 220s</item>
- <item>Prepare output 16s</item>
- <item>236s</item>
- <item>Jacobian determinant (RMS): 0.011 0.040 0.060 0.086 0.111 | 0.118043</item>
- <item>Template Matching: 0.085 0.224 0.203 0.181 0.164 | 0.164141</item>
- <item>Write result maps: 33s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 87s</item>
- <item>CSF distance: 24s</item>
- <item>PBT2x thickness: 72s</item>
- <item>194s</item>
- <item>Create initial surface 134s</item>
- <item>Topology correction: 139s</item>
- <item>Surface refinement: 252s</item>
- <item>Reduction of surface collisions with optimization: 163s</item>
- <item>Spherical mapping with areal smoothing 127s</item>
- <item>Spherical registration 329s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 110s</item>
- <item>CSF distance: 25s</item>
- <item>PBT2x thickness: 72s</item>
- <item>217s</item>
- <item>Create initial surface 136s</item>
- <item>Topology correction: 142s</item>
- <item>Surface refinement: 157s</item>
- <item>Reduction of surface collisions with optimization: 113s</item>
- <item>Spherical mapping with areal smoothing 140s</item>
- <item>Spherical registration 356s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.3528 0.6946 mm</item>
- <item>Surface intensity / position RMSE: 0.0665 / 0.0659</item>
- <item>Euler number / defect number / defect size: 28.0 / 16.0 / 0.77%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_45508/ds/sub-4/surf/lh.thickness.sub-4_ses-timepoint1_run-0_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_45508/ds/sub-4/surf/rh.thickness.sub-4_ses-timepoint1_run-0_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_45508/ds/sub-4/sub-4_ses-timepoint1_run-0_T1w.nii</item>
- <item>Surface ROI estimation: 11s</item>
- <item>Surface and thickness estimation takes: 2763s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 11s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 40s</item>
- <item>ROI estimation of 'lpba40' atlas 11s</item>
- <item>ROI estimation of 'hammers' atlas 27s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 10s</item>
- <item>ROI estimation of 'aal3' atlas 17s</item>
- <item>ROI estimation of 'mori' atlas 24s</item>
- <item>ROI estimation of 'anatomy3' atlas 35s</item>
- <item>ROI estimation of 'julichbrain' atlas 43s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 18s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 33s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 72s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 102s</item>
- <item>Write results 104s</item>
- <item>449s</item>
- <item>Quality check: 9s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_45508/ds/sub-4/report/catreport_sub-4_ses-timepoint1_run-0_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 73 minute(s) and 26 second(s).</item>
- <item>Image Quality Rating (IQR): 70.90% (C-)</item>
- <item>GM volume (GMV): 39.77% (760.07 / 1911.10 ml)</item>
- <item>GM thickness (GMT): 2.35 0.69 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_45508/ds/sub-4/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_45508/ds/sub-4/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_45508/ds/sub-4/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|