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- <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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- <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>
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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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- <add_parahipp>0.1</add_parahipp>
- <colormap>BCGWHw</colormap>
- <report/>
- <verb>2</verb>
- <ignoreErrors>1</ignoreErrors>
- <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>
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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/hammers.nii</td>
- <td>0</td>
- <td>
- <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/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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- <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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- <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>
- <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>
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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>
- <item>gm</item>
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- <td>[false]</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <tr>
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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>
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- <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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- <tr>
- <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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- <VT>15</VT>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
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- <tissue_mn>[0 25269.1328125 52818.390625 75683.375]</tissue_mn>
- <tissue_mnr>[0 0.333879590034485 0.697886347770691 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[9596.75406845475 9309.22303967995 7624.79183434693 4275.72587072772]</tissue_std>
- <tissue_stdr>[0.126801356673241 0.123002216219902 0.100745931267738 0.056494913995266]</tissue_stdr>
- <contrast>22864.984375</contrast>
- <contrastr>0.302113711833954</contrastr>
- <NCR>0.124133169651031</NCR>
- <ICR>0.294110268354416</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000021853208 1.99999999259668 1.99999997583631]</res_vx_vol>
- <res_RMS>2.00000006232169</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[1.89584374427795 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>3.55162763595581</contrastr>
- <NCR>2.11302280426025</NCR>
- <ICR>1.18926155567169</ICR>
- <SurfaceEulerNumber>2.3265306122449</SurfaceEulerNumber>
- <SurfaceDefectArea>1.22490833131626</SurfaceDefectArea>
- <SurfaceDefectNumber>2.05</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.32479524612427</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.35703682899475</SurfacePositionRMSE>
- <IQR>2.06190700278638</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>20220713-021859</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>28</SurfaceEulerNumber>
- <SurfaceDefectArea>0.89963332526503</SurfaceDefectArea>
- <SurfaceDefectNumber>21</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0662397593259811</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0678518414497375</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>28</EC_abs>
- <defect_size>0.89963332526503</defect_size>
- <vol_abs_CGW>[186.858907623617 543.432823232697 457.653187781414 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.615505939758573</vol_abs_WMH>
- <vol_rel_WMH>0.000518126665724874</vol_rel_WMH>
- <surf_TSA>1593.29708403848</surf_TSA>
- <vol_TIV>1187.94491863773</vol_TIV>
- <vol_rel_CGW>[0.157295935772761 0.457456246250775 0.385247817976465 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.46434557955687 0.631458336087523]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.46858191490173 0.825830532545344 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.79484860168357 0.290663208321712 0.266332127436107;2.48012375431498 0.184022522387483 0.483829307192593;3.17178819401396 0.304292035064986 0.2498385653713]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.776359360494032 0.232821600195 0.540668662674651;4.29521441815794 0.402821330554552 0.459331337325349]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.99947829320205</vol_TIV>
- <vol_rel_CGW>[0.674855168332624 6.06566534214754 4.76881856997961 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.05181266657249</vol_rel_WMH>
- <surf_TSA>8.2674122420698</surf_TSA>
- <SQR>5.04549495640882</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.596669077932099 11262 3259 4181.73539091919 0.367396774039614]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0 0 0.18007880449295]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[661.014594983365 408.592877323413 260.197894855791 501.557176189878 3026.79272151182 5948.54071950108]</SPMvols0>
- <SPMvols1>[588.742003929081 386.220898766285 167.315278349885 1130.43417209747 2555.92541092936 5539.38775977249]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[26587.3046875 56382.625 73836.796875]</T3th>
- <Tth>
- <T3th>[0 21.62109375 1027.27648925781 26587.3046875 56382.625 73836.796875 97461.546875 127928.4609375]</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>[0.021806987002492 0.0789903700351715 0.0872105434536934 0 0]</dtc>
- <ll>[0.0806404043551014 0 0.0806404043551014 0;0.182738616686909 0.0106492746634787 0.193387891350388 2270.9365234375;0.182738616686909 0.0106492746634787 0.193387891350388 2270.9365234375]</ll>
- <rmsdtc>[0.0458166785538197 0.102100029587746 0.113461643457413]</rmsdtc>
- <rmsgdt>[0.0327175930142403 0.0459412410855293 0.0564207658171654]</rmsgdt>
- <rmsdt>0.113461643457413</rmsdt>
- <dt>0.0872105434536934</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>[0.0103630144149065 0.0391899049282074 0.0559692941606045 0.0640003010630608 0.0695269256830215 0.0792099311947823]</dtc>
- <ll>[0.0819058729491422 0 0.0819058729491422 0;0.211602365689866 0.0152816763965201 0.226884042086386 7822.30810546875;0.188117369343571 0.0179708765016423 0.206088245845213 12933.85546875;0.167284756304532 0.019356599900118 0.18664135620465 20871.6796875;0.150935356528957 0.0217718886639803 0.172707245192937 38086.71875;0.150935356528957 0.0217718886639803 0.172707245192937 38086.71875]</ll>
- <rmsdtc>[0.0120552331209183 0.0450534000992775 0.0681143924593925 0.0950164943933487 0.119449876248837 0.12807634472847]</rmsdtc>
- <rmsgdt>[0.00362358381971717 0.0143739776685834 0.030793895944953 0.0523673333227634 0.0713701099157333 0.0773922204971313]</rmsgdt>
- <rmsdt>0.12807634472847</rmsdt>
- <dt>0.0792099311947823</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./dir_11908/ds/sub-026/sub-026_ses-t1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 20s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 7s</item>
- <item>Initial correction 6s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 6s</item>
- <item>40s</item>
- <item>Correct center-of-mass 6s</item>
- <item>Affine registration 10s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 77s</item>
- <item>SPM preprocessing 1 (estimate 2): 97s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 18s</item>
- <item>Update Segmentation 17s</item>
- <item>Update Skull-Stripping 40s</item>
- <item>Update probability maps 9s</item>
- <item>85s</item>
- <item>Global intensity correction: 16s</item>
- <item>SANLM denoising after intensity normalization (medium): 8s</item>
- <item>Fast Optimized Shooting registration 34s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.10) 12s</item>
- <item>Estimate local tissue thresholds (WM) 16s</item>
- <item>Estimate local tissue thresholds (GM) 19s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 15s</item>
- <item>72s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 7s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 10s</item>
- <item>Blood vessel detection 7s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 23s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 4s</item>
- <item>59s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 28s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.07,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 4s</item>
- <item>Level 1 cleanup (brain masking) 2s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 2s</item>
- <item>10s</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 | 0.0819 0.0000 0.0819 | 32.0000</item>
- <item>2 | 2.50 | 0.0791 0.0013 0.0803 | 29.4886</item>
- <item>3 | 2.50 | 0.0782 0.0019 0.0801 | 26.9772</item>
- <item>4 | 2.50 | 0.0778 0.0022 0.0800 | 24.6107</item>
- <item>5 | 2.50 | 0.0774 0.0024 0.0798 | 22.6548</item>
- <item>6 | 2.50 | 0.0771 0.0025 0.0796 | 20.6989</item>
- <item>7 | 2.50 | 0.0768 0.0026 0.0794 | 18.9688</item>
- <item>8 | 2.50 | 0.0765 0.0027 0.0792 | 17.4455</item>
- <item>9 | 2.50 | 0.0761 0.0028 0.0789 | 15.9223</item>
- <item>10 | 2.50 | 0.0758 0.0029 0.0787 | 14.6627</item>
- <item>11 | 2.50 | 0.0754 0.0030 0.0785 | 13.4764</item>
- <item>12 | 2.50 | 0.0751 0.0031 0.0782 | 12.3015</item>
- <item>13 | 2.50 | 0.0747 0.0033 0.0779 | 11.3776</item>
- <item>14 | 2.50 | 0.0743 0.0033 0.0776 | 10.4537</item>
- <item>15 | 2.25 | 0.0739 0.0034 0.0773 | 9.5920</item>
- <item>16 | 2.25 | 0.0705 0.0051 0.0756 | 8.8725</item>
- <item>29 | 2.00 | 0.0715 0.0023 0.0738 | 3.3283</item>
- <item>30 | 2.00 | 0.0650 0.0049 0.0699 | 3.1221</item>
- <item>31 | 2.00 | 0.0627 0.0060 0.0687 | 2.9160</item>
- <item>43 | 1.75 | 0.0614 0.0035 0.0649 | 1.5785</item>
- <item>44 | 1.75 | 0.0572 0.0057 0.0629 | 1.5194</item>
- <item>45 | 1.75 | 0.0558 0.0065 0.0622 | 1.4626</item>
- <item>57 | 1.50 | 0.0542 0.0048 0.0590 | 1.0900</item>
- <item>58 | 1.50 | 0.0513 0.0066 0.0579 | 1.0730</item>
- <item>59 | 1.50 | 0.0503 0.0073 0.0576 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 156s</item>
- <item>Prepare output 9s</item>
- <item>165s</item>
- <item>Jacobian determinant (RMS): 0.012 0.045 0.068 0.095 0.119 | 0.128076</item>
- <item>Template Matching: 0.082 0.212 0.188 0.167 0.151 | 0.150935</item>
- <item>Write result maps: 20s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 22s</item>
- <item>CSF distance: 11s</item>
- <item>PBT2x thickness: 33s</item>
- <item>70s</item>
- <item>Create initial surface 66s</item>
- <item>Topology correction: 63s</item>
- <item>Surface refinement: 69s</item>
- <item>Reduction of surface collisions with optimization: 46s</item>
- <item>Spherical mapping with areal smoothing 61s</item>
- <item>Spherical registration 284s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 25s</item>
- <item>CSF distance: 11s</item>
- <item>PBT2x thickness: 31s</item>
- <item>71s</item>
- <item>Create initial surface 62s</item>
- <item>Topology correction: 59s</item>
- <item>Surface refinement: 71s</item>
- <item>Reduction of surface collisions with optimization: 43s</item>
- <item>Spherical mapping with areal smoothing 56s</item>
- <item>Spherical registration 277s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4643 0.6314 mm</item>
- <item>Surface intensity / position RMSE: 0.0662 / 0.0679</item>
- <item>Euler number / defect number / defect size: 28.0 / 21.0 / 0.90%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_11908/ds/sub-026/surf/lh.thickness.sub-026_ses-t1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_11908/ds/sub-026/surf/rh.thickness.sub-026_ses-t1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_11908/ds/sub-026/sub-026_ses-t1_T1w.nii</item>
- <item>Surface ROI estimation: 6s</item>
- <item>Surface and thickness estimation takes: 1366s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 6s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 24s</item>
- <item>ROI estimation of 'lpba40' atlas 7s</item>
- <item>ROI estimation of 'hammers' atlas 17s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 6s</item>
- <item>ROI estimation of 'aal3' atlas 10s</item>
- <item>ROI estimation of 'mori' atlas 14s</item>
- <item>ROI estimation of 'anatomy3' atlas 21s</item>
- <item>ROI estimation of 'julichbrain' atlas 28s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 11s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 20s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 46s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 67s</item>
- <item>Write results 68s</item>
- <item>278s</item>
- <item>Quality check: 4s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_11908/ds/sub-026/report/catreport_sub-026_ses-t1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 41 minute(s) and 22 second(s).</item>
- <item>Image Quality Rating (IQR): 84.38% (B)</item>
- <item>GM volume (GMV): 45.75% (543.43 / 1187.94 ml)</item>
- <item>GM thickness (GMT): 2.46 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_11908/ds/sub-026/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_11908/ds/sub-026/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_11908/ds/sub-026/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|