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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>
- <LASstr>0.5</LASstr>
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- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
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- <species>human</species>
- <APP>1070</APP>
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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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- <report/>
- <verb>2</verb>
- <ignoreErrors>1</ignoreErrors>
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- <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>
- <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/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>
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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>
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- </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>
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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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- <td>1</td>
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- <td>1</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>
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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>
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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>[3.24200010299683 17.9890594482422 38.5587577819824 62.3400192260742]</tissue_mn>
- <tissue_mnr>[0.0520051196217537 0.288563579320908 0.618523359298706 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[1.57360678613224 8.48050399111175 7.61776673419012 5.0801875661438]</tissue_std>
- <tissue_stdr>[0.0266270656138659 0.143498957157135 0.128900542855263 0.0859620645642281]</tissue_stdr>
- <contrast>21.9968376159668</contrast>
- <contrastr>0.352852582931519</contrastr>
- <NCR>0.16027994453907</NCR>
- <ICR>0.50798511505127</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.87500006533793 1.79998740081355 1.875]</res_vx_vol>
- <res_RMS>1.85033374359914</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[8.62343978881836 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[8.62399999998759 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>2.7905445098877</contrastr>
- <NCR>2.63192558288574</NCR>
- <ICR>1.71970510482788</ICR>
- <SurfaceEulerNumber>3.75510204081633</SurfaceEulerNumber>
- <SurfaceDefectArea>1.39518370216619</SurfaceDefectArea>
- <SurfaceDefectNumber>2.525</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.60812497138977</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.93461608886719</SurfacePositionRMSE>
- <IQR>2.43103705077373</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>20220709-171815</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>56</SurfaceEulerNumber>
- <SurfaceDefectArea>1.58073480866475</SurfaceDefectArea>
- <SurfaceDefectNumber>30.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0804062485694885</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0967308059334755</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>56</EC_abs>
- <defect_size>1.58073480866475</defect_size>
- <vol_abs_CGW>[263.120959608138 828.129443943583 595.222458863659 0 0]</vol_abs_CGW>
- <vol_abs_WMH>1.15285846835448</vol_abs_WMH>
- <vol_rel_WMH>0.000683591473095719</vol_rel_WMH>
- <surf_TSA>2325.44216038767</surf_TSA>
- <vol_TIV>1686.47286241538</vol_TIV>
- <vol_rel_CGW>[0.156018496041077 0.491042258905684 0.352939245053239 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.45723755046599 0.631917615145432]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.48575854301453 0.765600868151279 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.82539004301509 0.272614532770865 0.273322326685105;2.48419196504726 0.180738911360647 0.431918925949323;3.13149215115336 0.266254855489462 0.294758747365571]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.771226523639106 0.293627707118136 0.640621430203336;4.02765387649075 0.341106134182137 0.359378569796664]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>2.72464675130425</vol_TIV>
- <vol_rel_CGW>[0.651912644415902 6.66886240850726 4.18856402753661 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.06835914730957</vol_rel_WMH>
- <surf_TSA>8.62399078823611</surf_TSA>
- <SQR>5.46990099733403</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.170955717563629 1 1 11002.2032063909 0.542280657138846]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0485022962093353 0.0466859862208366 0.285186976194382]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[1043.72734404582 524.185997070046 467.412204547243 3314.03541398596 2999.72023317181 5809.75192886299]</SPMvols0>
- <SPMvols1>[878.659126694545 484.550812886032 265.306902103357 3676.7864489593 2578.66859174671 5389.45882891465]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[19.6998996734619 43.8023986816406 61.6016998291016]</T3th>
- <Tth>
- <T3th>[0 0 3.32993388175964 19.6998996734619 43.8023986816406 61.6016998291016 82.5525970458984 308.669708251953]</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>[0.0183566492050886 0.065463550388813 0.0717679113149643 0 0]</dtc>
- <ll>[0.0826370098820778 0 0.0826370098820778 0;0.201796825908098 0.00962460026735303 0.211421426175451 2052.4267578125;0.201796825908098 0.00962460026735303 0.211421426175451 2052.4267578125]</ll>
- <rmsdtc>[0.0392447076737881 0.0864078626036644 0.0976920053362846]</rmsdtc>
- <rmsgdt>[0.0280593018978834 0.0443730615079403 0.0557468608021736]</rmsgdt>
- <rmsdt>0.0976920053362846</rmsdt>
- <dt>0.0717679113149643</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>[0.00768427597358823 0.0316823720932007 0.0386839509010315 0.047633521258831 0.0553646646440029 0.0615089312195778]</dtc>
- <ll>[0.0848177800703436 0 0.0848177800703436 0;0.224610057997558 0.0138924345619658 0.238502492559524 7111.18994140625;0.214504812341603 0.0162681921184272 0.230773004460031 11708.4130859375;0.194969764122596 0.0192058939992646 0.214175658121861 20709.177734375;0.178243702814698 0.0231201706252254 0.201363873439923 40445.33984375;0.178243702814698 0.0231201706252254 0.201363873439923 40445.33984375]</ll>
- <rmsdtc>[0.0088942376896739 0.0310432408004999 0.0501526519656181 0.0734162032604218 0.0996799990534782 0.107059843838215]</rmsdtc>
- <rmsgdt>[0.00282077142037451 0.011384385637939 0.0273685716092587 0.0486897304654121 0.0693302303552628 0.0756810307502747]</rmsgdt>
- <rmsdt>0.107059843838215</rmsdt>
- <dt>0.0615089312195778</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./dir_32256/ds/sub-0922/sub-0922_ses-01_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 143s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 11s</item>
- <item>Estimate background 14s</item>
- <item>Initial correction 31s</item>
- <item>Refine background 6s</item>
- <item>Final correction 15s</item>
- <item>Final scaling 10s</item>
- <item>98s</item>
- <item>Correct center-of-mass 6s</item>
- <item>Affine registration 32s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 127s</item>
- <item>SPM preprocessing 1 (estimate 2): 91s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 31s</item>
- <item>Update Segmentation 33s</item>
- <item>Update Skull-Stripping 73s</item>
- <item>Update probability maps 15s</item>
- <item>151s</item>
- <item>Global intensity correction: 27s</item>
- <item>SANLM denoising after intensity normalization (medium): 18s</item>
- <item>Fast Optimized Shooting registration 52s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 7s</item>
- <item>Prepare partitions 6s</item>
- <item>Prepare segments (LASmod = 1.16) 27s</item>
- <item>Estimate local tissue thresholds (WM) 34s</item>
- <item>Estimate local tissue thresholds (GM) 52s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 60s</item>
- <item>191s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 12s</item>
- <item>Major structures 6s</item>
- <item>Ventricle detection 32s</item>
- <item>Blood vessel detection 19s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.02) 48s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 3s</item>
- <item>Side alignment 6s</item>
- <item>Final corrections 7s</item>
- <item>134s</item>
- <item>Blood vessel correction (BVCstr=0.50): 3s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 51s</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) 7s</item>
- <item>Level 1 cleanup (brain masking) 5s</item>
- <item>Level 2 cleanup (CSF correction) 3s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 5s</item>
- <item>19s</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 | 0.0848 0.0000 0.0848 | 32.0000</item>
- <item>2 | 2.50 | 0.0827 0.0010 0.0837 | 29.4886</item>
- <item>3 | 2.50 | 0.0821 0.0015 0.0836 | 26.9772</item>
- <item>4 | 2.50 | 0.0818 0.0017 0.0835 | 24.6107</item>
- <item>5 | 2.50 | 0.0816 0.0018 0.0834 | 22.6548</item>
- <item>6 | 2.50 | 0.0813 0.0019 0.0832 | 20.6989</item>
- <item>7 | 2.50 | 0.0811 0.0019 0.0831 | 18.9688</item>
- <item>8 | 2.50 | 0.0809 0.0020 0.0829 | 17.4455</item>
- <item>9 | 2.50 | 0.0807 0.0021 0.0827 | 15.9223</item>
- <item>10 | 2.50 | 0.0804 0.0022 0.0826 | 14.6627</item>
- <item>11 | 2.50 | 0.0802 0.0022 0.0824 | 13.4764</item>
- <item>12 | 2.50 | 0.0799 0.0023 0.0822 | 12.3015</item>
- <item>13 | 2.50 | 0.0796 0.0023 0.0820 | 11.3776</item>
- <item>14 | 2.50 | 0.0794 0.0024 0.0818 | 10.4537</item>
- <item>15 | 2.25 | 0.0804 0.0025 0.0829 | 9.5920</item>
- <item>16 | 2.25 | 0.0776 0.0038 0.0815 | 8.8725</item>
- <item>17 | 2.25 | 0.0766 0.0043 0.0809 | 8.1530</item>
- <item>18 | 2.25 | 0.0759 0.0045 0.0804 | 7.5234</item>
- <item>19 | 2.25 | 0.0753 0.0046 0.0799 | 6.9630</item>
- <item>20 | 2.25 | 0.0749 0.0046 0.0795 | 6.4027</item>
- <item>29 | 2.00 | 0.0776 0.0026 0.0802 | 3.3283</item>
- <item>30 | 2.00 | 0.0731 0.0046 0.0777 | 3.1221</item>
- <item>31 | 2.00 | 0.0715 0.0054 0.0769 | 2.9160</item>
- <item>43 | 1.75 | 0.0712 0.0031 0.0742 | 1.5785</item>
- <item>44 | 1.75 | 0.0665 0.0055 0.0721 | 1.5194</item>
- <item>45 | 1.75 | 0.0650 0.0064 0.0714 | 1.4626</item>
- <item>57 | 1.50 | 0.0641 0.0046 0.0687 | 1.0900</item>
- <item>58 | 1.50 | 0.0606 0.0069 0.0675 | 1.0730</item>
- <item>59 | 1.50 | 0.0594 0.0077 0.0671 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 209s</item>
- <item>Prepare output 18s</item>
- <item>228s</item>
- <item>Jacobian determinant (RMS): 0.009 0.031 0.050 0.073 0.100 | 0.107060</item>
- <item>Template Matching: 0.085 0.225 0.215 0.195 0.178 | 0.178244</item>
- <item>Write result maps: 39s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 51s</item>
- <item>CSF distance: 24s</item>
- <item>PBT2x thickness: 71s</item>
- <item>155s</item>
- <item>Create initial surface 129s</item>
- <item>Topology correction: 138s</item>
- <item>Surface refinement: 154s</item>
- <item>Reduction of surface collisions with optimization: 112s</item>
- <item>Spherical mapping with areal smoothing 124s</item>
- <item>Spherical registration 357s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 63s</item>
- <item>CSF distance: 24s</item>
- <item>PBT2x thickness: 69s</item>
- <item>164s</item>
- <item>Create initial surface 122s</item>
- <item>Topology correction: 134s</item>
- <item>Surface refinement: 144s</item>
- <item>Reduction of surface collisions with optimization: 106s</item>
- <item>Spherical mapping with areal smoothing 125s</item>
- <item>Spherical registration 360s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4575 0.6309 mm</item>
- <item>Surface intensity / position RMSE: 0.0804 / 0.0967</item>
- <item>Euler number / defect number / defect size: 56.0 / 30.5 / 1.58%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_32256/ds/sub-0922/surf/lh.thickness.sub-0922_ses-01_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_32256/ds/sub-0922/surf/rh.thickness.sub-0922_ses-01_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_32256/ds/sub-0922/sub-0922_ses-01_T1w.nii</item>
- <item>Surface ROI estimation: 11s</item>
- <item>Surface and thickness estimation takes: 2466s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 16s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 54s</item>
- <item>ROI estimation of 'lpba40' atlas 15s</item>
- <item>ROI estimation of 'hammers' atlas 36s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 13s</item>
- <item>ROI estimation of 'aal3' atlas 22s</item>
- <item>ROI estimation of 'mori' atlas 33s</item>
- <item>ROI estimation of 'anatomy3' atlas 45s</item>
- <item>ROI estimation of 'julichbrain' atlas 60s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 23s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 42s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 95s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 147s</item>
- <item>Write results 149s</item>
- <item>607s</item>
- <item>Quality check: 10s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_32256/ds/sub-0922/report/catreport_sub-0922_ses-01_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 78 minute(s) and 14 second(s).</item>
- <item>Image Quality Rating (IQR): 80.69% (B-)</item>
- <item>GM volume (GMV): 49.10% (828.13 / 1686.47 ml)</item>
- <item>GM thickness (GMT): 2.46 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_32256/ds/sub-0922/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_32256/ds/sub-0922/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_32256/ds/sub-0922/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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