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- <fnames>.._3859/ds/sub-53/sub-53_T1w</fnames>
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- <parameter>
- <opts>
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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
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- <NCstr>-Inf</NCstr>
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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>
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- <expertgui>1</expertgui>
- <subfolders>1</subfolders>
- <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/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>
- <item>gm</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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- <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>
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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>
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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>
- </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>
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- <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_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>/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>
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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>
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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>
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- <optimal>[1 0.3]</optimal>
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- </shootingtpms>
- <templates>
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- <SurfaceEulerNumber>20</SurfaceEulerNumber>
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- <tissue_mnr>[0.03042565099895 0.2170280367136 0.674452185630798 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[14.6200441040509 19.9846240297872 18.1118435523278 10.0019078034757]</tissue_std>
- <tissue_stdr>[0.0917566269636154 0.125425174832344 0.113671451807022 0.0627728179097176]</tissue_stdr>
- <contrast>55.1777267456055</contrast>
- <contrastr>0.335763663053513</contrastr>
- <NCR>0.157928630709648</NCR>
- <ICR>0.397481560707092</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.19999694824219 2 2]</res_vx_vol>
- <res_RMS>2.06881500480146</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>3.04687833786011</contrastr>
- <NCR>2.59817171096802</NCR>
- <ICR>1.4456387758255</ICR>
- <SurfaceEulerNumber>1.91836734693878</SurfaceEulerNumber>
- <SurfaceDefectArea>1.14771316166442</SurfaceDefectArea>
- <SurfaceDefectNumber>1.75</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.29274427890778</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.32163894176483</SurfacePositionRMSE>
- <IQR>2.42756566522097</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>20220703-105415</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>20</SurfaceEulerNumber>
- <SurfaceDefectArea>0.590852646657678</SurfaceDefectArea>
- <SurfaceDefectNumber>15</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0646372139453888</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0660819485783577</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>20</EC_abs>
- <defect_size>0.590852646657678</defect_size>
- <vol_abs_CGW>[233.407735832902 705.488481763533 534.324150961334 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.685747676206103</vol_abs_WMH>
- <vol_rel_WMH>0.000465475288586612</vol_rel_WMH>
- <surf_TSA>1911.75674012959</surf_TSA>
- <vol_TIV>1473.22036855777</vol_TIV>
- <vol_rel_CGW>[0.158433687732271 0.478875052789408 0.362691259478321 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.583206710235 0.61258390140708]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.57696843147278 0.772415111543245 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.9927539268601 0.258719704293834 0.296400559136445;2.60334901466242 0.174498881635943 0.437634283347571;3.24857483896867 0.279732670333097 0.265965157515985]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.9298979444502 0.336801026728512 0.533004258614015;4.26107226317411 0.359738288560022 0.466995741385985]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.12666708143127</vol_TIV>
- <vol_rel_CGW>[0.695288931973254 6.45034218371782 4.3637079647687 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.04654752885866</vol_rel_WMH>
- <surf_TSA>8.61490291626733</surf_TSA>
- <SQR>5.30325352729605</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.177501600159228 25 5 10109.5414764023 0.470827992235438]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0346088260412216 0.0382147058844566 0.0650840103626251]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[835.984199568027 489.611425926418 406.765083985183 814.912288013922 2012.53874984619 8428.87786109263]</SPMvols0>
- <SPMvols1>[738.723801150872 461.775360618053 225.677295968059 601.07705797191 1080.46599101978 9183.81199034535]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[43.2831001281738 114.652099609375 166.355606079102]</T3th>
- <Tth>
- <T3th>[0 0 5.26031732559204 43.2831001281738 114.652099609375 166.355606079102 227.891860961914 777.310852050781]</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>[0.0206808242946863 0.0744524598121643 0.0819738358259201 0 0]</dtc>
- <ll>[0.0822564010955945 0 0.0822564010955945 0;0.192396111276542 0.00990043310414986 0.202296544380692 2111.24755859375;0.192396111276542 0.00990043310414986 0.202296544380692 2111.24755859375]</ll>
- <rmsdtc>[0.043033093214035 0.0981637835502625 0.107783608138561]</rmsdtc>
- <rmsgdt>[0.0301897618919611 0.0417909286916256 0.0511855781078339]</rmsgdt>
- <rmsdt>0.107783608138561</rmsdt>
- <dt>0.0819738358259201</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>[0.00979558937251568 0.0364138968288898 0.0513677373528481 0.0590662956237793 0.0635235160589218 0.0710013285279274]</dtc>
- <ll>[0.0833825800126597 0 0.0833825800126597 0;0.218431181318681 0.0137304029304029 0.232161584249084 7028.25;0.19481603405251 0.0163525764581006 0.211168610510611 11769.1455078125;0.174575559320839 0.0177465259519398 0.192322085272779 19135.58203125;0.161226411278913 0.0183140924101654 0.179540503689078 32037.8125;0.161226411278913 0.0183140924101654 0.179540503689078 32037.8125]</ll>
- <rmsdtc>[0.0116866994649172 0.0434165298938751 0.0640946105122566 0.0873158201575279 0.106710143387318 0.111061997711658]</rmsdtc>
- <rmsgdt>[0.00326705607585609 0.012643032707274 0.0271051116287708 0.0456980317831039 0.061322346329689 0.0652812942862511]</rmsgdt>
- <rmsdt>0.111061997711658</rmsdt>
- <dt>0.0710013285279274</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_3859/ds/sub-53/sub-53_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 112s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 9s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 4s</item>
- <item>Final correction 6s</item>
- <item>Final scaling 7s</item>
- <item>46s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 9s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 71s</item>
- <item>SPM preprocessing 1 (estimate 2): 49s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 16s</item>
- <item>Update Segmentation 18s</item>
- <item>Update Skull-Stripping 39s</item>
- <item>Update probability maps 9s</item>
- <item>83s</item>
- <item>Global intensity correction: 16s</item>
- <item>SANLM denoising after intensity normalization (medium): 17s</item>
- <item>Fast Optimized Shooting registration 33s</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) 13s</item>
- <item>Estimate local tissue thresholds (WM) 20s</item>
- <item>Estimate local tissue thresholds (GM) 27s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 35s</item>
- <item>105s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 7s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 11s</item>
- <item>Blood vessel detection 9s</item>
- <item>WMH detection (WMHCstr=0.48 > WMHCstr'=0.00) 25s</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>64s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 32s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.24):</item>
- <item>Level 1 cleanup (ROI estimation) 4s</item>
- <item>Level 1 cleanup (brain masking) 3s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>11s</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 0.0820 | 29.4886</item>
- <item>3 | 2.50 | 0.0801 0.0017 0.0819 | 26.9772</item>
- <item>4 | 2.50 | 0.0798 0.0019 0.0817 | 24.6107</item>
- <item>5 | 2.50 | 0.0795 0.0021 0.0816 | 22.6548</item>
- <item>6 | 2.50 | 0.0792 0.0022 0.0814 | 20.6989</item>
- <item>7 | 2.50 | 0.0789 0.0023 0.0812 | 18.9688</item>
- <item>8 | 2.50 | 0.0786 0.0024 0.0810 | 17.4455</item>
- <item>9 | 2.50 | 0.0783 0.0025 0.0808 | 15.9223</item>
- <item>10 | 2.50 | 0.0780 0.0026 0.0806 | 14.6627</item>
- <item>11 | 2.50 | 0.0777 0.0027 0.0804 | 13.4764</item>
- <item>12 | 2.50 | 0.0774 0.0028 0.0802 | 12.3015</item>
- <item>13 | 2.50 | 0.0771 0.0029 0.0800 | 11.3776</item>
- <item>14 | 2.50 | 0.0767 0.0030 0.0797 | 10.4537</item>
- <item>15 | 2.25 | 0.0760 0.0031 0.0790 | 9.5920</item>
- <item>16 | 2.25 | 0.0728 0.0046 0.0774 | 8.8725</item>
- <item>29 | 2.00 | 0.0734 0.0021 0.0755 | 3.3283</item>
- <item>30 | 2.00 | 0.0672 0.0045 0.0716 | 3.1221</item>
- <item>31 | 2.00 | 0.0649 0.0055 0.0704 | 2.9160</item>
- <item>43 | 1.75 | 0.0635 0.0032 0.0667 | 1.5785</item>
- <item>44 | 1.75 | 0.0595 0.0052 0.0647 | 1.5194</item>
- <item>45 | 1.75 | 0.0582 0.0059 0.0641 | 1.4626</item>
- <item>57 | 1.50 | 0.0566 0.0043 0.0609 | 1.0900</item>
- <item>58 | 1.50 | 0.0537 0.0061 0.0598 | 1.0730</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 142s</item>
- <item>Prepare output 10s</item>
- <item>152s</item>
- <item>Jacobian determinant (RMS): 0.012 0.043 0.064 0.087 0.107 | 0.111062</item>
- <item>Template Matching: 0.083 0.218 0.195 0.175 0.161 | 0.161226</item>
- <item>Write result maps: 24s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 28s</item>
- <item>CSF distance: 14s</item>
- <item>PBT2x thickness: 44s</item>
- <item>93s</item>
- <item>Create initial surface 86s</item>
- <item>Topology correction: 92s</item>
- <item>Surface refinement: 98s</item>
- <item>Reduction of surface collisions with optimization: 67s</item>
- <item>Spherical mapping with areal smoothing 80s</item>
- <item>Spherical registration 313s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 35s</item>
- <item>CSF distance: 15s</item>
- <item>PBT2x thickness: 46s</item>
- <item>103s</item>
- <item>Create initial surface 86s</item>
- <item>Topology correction: 94s</item>
- <item>Surface refinement: 74s</item>
- <item>Reduction of surface collisions with optimization: 69s</item>
- <item>Spherical mapping with areal smoothing 88s</item>
- <item>Spherical registration 302s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5832 0.6126 mm</item>
- <item>Surface intensity / position RMSE: 0.0646 / 0.0661</item>
- <item>Euler number / defect number / defect size: 20.0 / 15.0 / 0.59%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3859/ds/sub-53/surf/lh.thickness.sub-53_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3859/ds/sub-53/surf/rh.thickness.sub-53_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_3859/ds/sub-53/sub-53_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1737s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 7s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 27s</item>
- <item>ROI estimation of 'lpba40' atlas 8s</item>
- <item>ROI estimation of 'hammers' atlas 19s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 7s</item>
- <item>ROI estimation of 'aal3' atlas 11s</item>
- <item>ROI estimation of 'mori' atlas 16s</item>
- <item>ROI estimation of 'anatomy3' atlas 24s</item>
- <item>ROI estimation of 'julichbrain' atlas 31s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 12s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 22s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 50s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 75s</item>
- <item>Write results 76s</item>
- <item>312s</item>
- <item>Quality check: 4s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_3859/ds/sub-53/report/catreport_sub-53_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 49 minute(s) and 25 second(s).</item>
- <item>Image Quality Rating (IQR): 80.72% (B-)</item>
- <item>GM volume (GMV): 47.89% (705.49 / 1473.22 ml)</item>
- <item>GM thickness (GMT): 2.58 0.61 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_3859/ds/sub-53/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_3859/ds/sub-53/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_3859/ds/sub-53/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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