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- <parameter>
- <opts>
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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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- <WMHC>2</WMHC>
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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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- <nproc>32</nproc>
- <species>human</species>
- <APP>1070</APP>
- <setCOM>1</setCOM>
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- <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>
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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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- <scale_cortex>0.7</scale_cortex>
- <add_parahipp>0.1</add_parahipp>
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- <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>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii</td>
- <td>0</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>
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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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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.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/aal3.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/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>
- <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/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>
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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>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <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>
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- <td>1</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>
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- <td>0</td>
- </tr>
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- <LAB>
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- <PH>25</PH>
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- <optimal>[1 0.3]</optimal>
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- <templates>
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- </templates>
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- <tissue_mnr>[0.018822068348527 0.217589527368546 0.640659272670746 0.999999940395355]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[4.94061597759868 32.450468288695 34.7626489921865 26.3347194599803]</tissue_std>
- <tissue_stdr>[0.014744320884347 0.0968421995639801 0.103742457926273 0.0785909220576286]</tissue_stdr>
- <contrast>122.974594116211</contrast>
- <contrastr>0.360086530447006</contrastr>
- <NCR>0.216771990060806</NCR>
- <ICR>0.359282791614532</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.0000016881662 2.00000004371772 1.9999999765939]</res_vx_vol>
- <res_RMS>2.00000056949276</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>2.68203544616699</contrastr>
- <NCR>3.44289398193359</NCR>
- <ICR>1.3508996963501</ICR>
- <SurfaceEulerNumber>6.10204081632653</SurfaceEulerNumber>
- <SurfaceDefectArea>1.76671401433718</SurfaceDefectArea>
- <SurfaceDefectNumber>3.2</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.65330123901367</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>2.10610771179199</SurfacePositionRMSE>
- <IQR>3.16223638834306</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>20220712-143736</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>102</SurfaceEulerNumber>
- <SurfaceDefectArea>3.06685605734872</SurfaceDefectArea>
- <SurfaceDefectNumber>44</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0826650634407997</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.105305388569832</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>102</EC_abs>
- <defect_size>3.06685605734872</defect_size>
- <vol_abs_CGW>[242.075399961477 702.74711306263 561.216293529213 0 0]</vol_abs_CGW>
- <vol_abs_WMH>1.69967204728357</vol_abs_WMH>
- <vol_rel_WMH>0.00112857121601892</vol_rel_WMH>
- <surf_TSA>2015.09789200472</surf_TSA>
- <vol_TIV>1506.03880655332</vol_TIV>
- <vol_rel_CGW>[0.160736495572438 0.466619525343386 0.372643979084176 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.40185082472185 0.615320703421725]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.40669775009155 0.723226787233161 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.81426012975026 0.256438778854709 0.29965655059462;2.4274002177453 0.174384952195093 0.421642201498466;3.06264886276489 0.253767412933265 0.278701247906914]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.823603172897449 0.286372267805993 0.599714980300109;3.9881404001925 0.369181318542521 0.400285019699891]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.2632417369557</vol_TIV>
- <vol_rel_CGW>[0.736646831401544 6.23023572814989 4.54245652090833 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.11285712160189</vol_rel_WMH>
- <surf_TSA>8.62196400362642</surf_TSA>
- <SQR>5.14403367166578</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.269486427307129 1 1 9191.99585215387 0.445049234888683]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00802095793187618 0 0.106395892798901]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[874.542401713209 519.193665298895 473.387010290846 570.483885798511 1876.64929332367 9091.64277708151]</SPMvols0>
- <SPMvols1>[721.136324926899 474.932544950911 270.305039880902 910.791648516899 1685.10906223326 8520.69431441361]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[115.094398498535 233.652404785156 334.779388427734]</T3th>
- <Tth>
- <T3th>[0 20.4124336242676 6.31525659561157 115.094398498535 233.652404785156 334.779388427734 444.621887207031 1033.04809570312]</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>[0.0215030554682016 0.0740766599774361 0.0810321494936943 0 0]</dtc>
- <ll>[0.0846459860799789 0 0.0846459860799789 0;0.196607738554406 0.00969719171237831 0.206304930266784 2067.90673828125;0.196607738554406 0.00969719171237831 0.206304930266784 2067.90673828125]</ll>
- <rmsdtc>[0.0481887459754944 0.0948140025138855 0.103702746331692]</rmsdtc>
- <rmsgdt>[0.0347356759011745 0.0422824770212173 0.0518019795417786]</rmsgdt>
- <rmsdt>0.103702746331692</rmsdt>
- <dt>0.0810321494936943</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>[0.00931081268936396 0.0355979241430759 0.0466795265674591 0.0539521314203739 0.0589696206152439 0.0651009008288383]</dtc>
- <ll>[0.0860934749373808 0 0.0860934749373808 0;0.221882295482295 0.0148549507783883 0.236737246260684 7603.8779296875;0.205571182466042 0.016038754640311 0.221609937106353 11543.2841796875;0.186586269512702 0.0180823388602319 0.204668608372934 19497.6796875;0.174034342982806 0.0191605348163007 0.193194877799106 33518.5390625;0.174034342982806 0.0191605348163007 0.193194877799106 33518.5390625]</ll>
- <rmsdtc>[0.0108722792938352 0.0387170761823654 0.056439395993948 0.0765676647424698 0.0977203398942947 0.102558098733425]</rmsdtc>
- <rmsgdt>[0.00326486839912832 0.0122061623260379 0.0260028075426817 0.0452569983899593 0.0635524019598961 0.0679089799523354]</rmsgdt>
- <rmsdt>0.102558098733425</rmsdt>
- <dt>0.0651009008288383</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_4546/ds/sub-09/sub-09_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 72s</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 5s</item>
- <item>38s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 9s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 67s</item>
- <item>SPM preprocessing 1 (estimate 2): 77s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 16s</item>
- <item>Update Segmentation 18s</item>
- <item>Update Skull-Stripping 40s</item>
- <item>Update probability maps 9s</item>
- <item>83s</item>
- <item>Global intensity correction: 16s</item>
- <item>SANLM denoising after intensity normalization (medium): 10s</item>
- <item>Fast Optimized Shooting registration 33s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.19) 14s</item>
- <item>Estimate local tissue thresholds (WM) 19s</item>
- <item>Estimate local tissue thresholds (GM) 26s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 39s</item>
- <item>109s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 8s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 14s</item>
- <item>Blood vessel detection 9s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.03) 22s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 5s</item>
- <item>66s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 34s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 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 | 0.0861 0.0000 0.0861 | 32.0000</item>
- <item>2 | 2.50 | 0.0831 0.0013 0.0844 | 29.4886</item>
- <item>3 | 2.50 | 0.0823 0.0019 0.0842 | 26.9772</item>
- <item>4 | 2.50 | 0.0818 0.0022 0.0840 | 24.6107</item>
- <item>5 | 2.50 | 0.0815 0.0023 0.0838 | 22.6548</item>
- <item>6 | 2.50 | 0.0812 0.0024 0.0836 | 20.6989</item>
- <item>7 | 2.50 | 0.0809 0.0025 0.0834 | 18.9688</item>
- <item>8 | 2.50 | 0.0806 0.0026 0.0832 | 17.4455</item>
- <item>9 | 2.50 | 0.0803 0.0027 0.0829 | 15.9223</item>
- <item>10 | 2.50 | 0.0799 0.0028 0.0827 | 14.6627</item>
- <item>11 | 2.50 | 0.0796 0.0028 0.0824 | 13.4764</item>
- <item>12 | 2.50 | 0.0793 0.0029 0.0822 | 12.3015</item>
- <item>13 | 2.50 | 0.0789 0.0030 0.0819 | 11.3776</item>
- <item>14 | 2.50 | 0.0786 0.0030 0.0816 | 10.4537</item>
- <item>15 | 2.25 | 0.0778 0.0031 0.0809 | 9.5920</item>
- <item>16 | 2.25 | 0.0751 0.0045 0.0796 | 8.8725</item>
- <item>17 | 2.25 | 0.0740 0.0050 0.0789 | 8.1530</item>
- <item>29 | 2.00 | 0.0755 0.0023 0.0778 | 3.3283</item>
- <item>30 | 2.00 | 0.0703 0.0045 0.0748 | 3.1221</item>
- <item>31 | 2.00 | 0.0685 0.0053 0.0739 | 2.9160</item>
- <item>43 | 1.75 | 0.0677 0.0030 0.0708 | 1.5785</item>
- <item>44 | 1.75 | 0.0636 0.0053 0.0688 | 1.5194</item>
- <item>45 | 1.75 | 0.0622 0.0060 0.0682 | 1.4626</item>
- <item>57 | 1.50 | 0.0611 0.0044 0.0655 | 1.0900</item>
- <item>58 | 1.50 | 0.0580 0.0064 0.0644 | 1.0730</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 140s</item>
- <item>Prepare output 10s</item>
- <item>151s</item>
- <item>Jacobian determinant (RMS): 0.011 0.039 0.056 0.077 0.098 | 0.102558</item>
- <item>Template Matching: 0.086 0.222 0.206 0.187 0.174 | 0.174034</item>
- <item>Write result maps: 25s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 30s</item>
- <item>CSF distance: 15s</item>
- <item>PBT2x thickness: 44s</item>
- <item>95s</item>
- <item>Create initial surface 85s</item>
- <item>Topology correction: 98s</item>
- <item>Surface refinement: 86s</item>
- <item>Reduction of surface collisions with optimization: 75s</item>
- <item>Spherical mapping with areal smoothing 85s</item>
- <item>Spherical registration 301s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 27s</item>
- <item>CSF distance: 15s</item>
- <item>PBT2x thickness: 45s</item>
- <item>94s</item>
- <item>Create initial surface 90s</item>
- <item>Topology correction: 103s</item>
- <item>Surface refinement: 73s</item>
- <item>Reduction of surface collisions with optimization: 73s</item>
- <item>Spherical mapping with areal smoothing 87s</item>
- <item>Spherical registration 289s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4023 0.6141 mm</item>
- <item>Surface intensity / position RMSE: 0.0827 / 0.1053</item>
- <item>Euler number / defect number / defect size: 102.0 / 44.0 / 3.07%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_4546/ds/sub-09/surf/lh.thickness.sub-09_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_4546/ds/sub-09/surf/rh.thickness.sub-09_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_4546/ds/sub-09/sub-09_T1w.nii</item>
- <item>Surface ROI estimation: 8s</item>
- <item>Surface and thickness estimation takes: 1732s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 9s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 33s</item>
- <item>ROI estimation of 'lpba40' atlas 9s</item>
- <item>ROI estimation of 'hammers' atlas 23s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 9s</item>
- <item>ROI estimation of 'aal3' atlas 14s</item>
- <item>ROI estimation of 'mori' atlas 19s</item>
- <item>ROI estimation of 'anatomy3' atlas 28s</item>
- <item>ROI estimation of 'julichbrain' atlas 39s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 15s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 29s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 63s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 90s</item>
- <item>Write results 90s</item>
- <item>383s</item>
- <item>Quality check: 5s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_4546/ds/sub-09/report/catreport_sub-09_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 50 minute(s) and 51 second(s).</item>
- <item>Image Quality Rating (IQR): 73.38% (C)</item>
- <item>GM volume (GMV): 46.66% (702.75 / 1506.04 ml)</item>
- <item>GM thickness (GMT): 2.40 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_4546/ds/sub-09/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_4546/ds/sub-09/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_4546/ds/sub-09/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|