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- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
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- <uhrlim>1.4</uhrlim>
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- <spm_kamap>0</spm_kamap>
- <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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- <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>
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- </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>
- <SRP>22</SRP>
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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>
- <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>
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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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- <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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- <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>
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- <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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- <item>gm</item>
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- <td>[false]</td>
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- <td>1</td>
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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>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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- <VT>15</VT>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
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- <LASmyostr>0</LASmyostr>
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- <tissue_mn>[16.1620006561279 288.428100585938 871.460754394531 1409.24279785156]</tissue_mn>
- <tissue_mnr>[0.0114685706794262 0.20466884970665 0.618389368057251 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[10.4580574930946 152.243441862369 152.426185945624 94.2251916358183]</tissue_std>
- <tissue_stdr>[0.00750714354217052 0.109285436570644 0.109416611492634 0.0676379948854446]</tissue_stdr>
- <contrast>501.867645263672</contrast>
- <contrastr>0.356125742197037</contrastr>
- <NCR>0.133350372314453</NCR>
- <ICR>0.313179403543472</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2 2 2]</res_vx_vol>
- <res_RMS>2</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>2.74144721031189</contrastr>
- <NCR>2.24533987045288</NCR>
- <ICR>1.23655605316162</ICR>
- <SurfaceEulerNumber>1.61224489795918</SurfaceEulerNumber>
- <SurfaceDefectArea>1.05991976163203</SurfaceDefectArea>
- <SurfaceDefectNumber>1.4</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.25441694259644</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.20638501644135</SurfacePositionRMSE>
- <IQR>2.14671421997546</IQR>
- </qualityratings>
- <ratings_help>
- <qualitymeasures>
- <res_vx_vol>voxel dimensions</res_vx_vol>
- <res_RMS>RMS error of voxel size</res_RMS>
- <res_BB>brain next to the image boundary</res_BB>
- <tissue_mn>mean within the tissue classes</tissue_mn>
- <tissue_std>standard deviation within the tissue classes</tissue_std>
- <contrast>contrast between tissue classes</contrast>
- <contrastr>contrast between tissue classes</contrastr>
- <NCR>noise to contrast ratio</NCR>
- <ICR>inhomogeneity to contrast ratio</ICR>
- <SurfaceEulerNumber>average Euler number (characteristic)</SurfaceEulerNumber>
- <SurfaceDefectArea>average area of topological defects</SurfaceDefectArea>
- <SurfaceDefectNumber>average number of defects</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>RMSE of the expected boundary intensity Ym of the IS, OS, and CS</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>RMSE of the expected boundary position Ypp of the IS, OS, and CS</SurfacePositionRMSE>
- <SurfaceSelfIntersections>Percentual area of self-intersections of the IS and OS.</SurfaceSelfIntersections>
- </qualitymeasures>
- <subjectmeasures>
- <vol_TIV>total intracranial volume (GM+WM+VT)</vol_TIV>
- <vol_rel_CGW>relative tissue volume (CSF,GM,WM)</vol_rel_CGW>
- <vol_rel_WMH>relative WMH volume</vol_rel_WMH>
- <surf_TSA>total surface area</surf_TSA>
- </subjectmeasures>
- </ratings_help>
- <software>
- <version_segment>1639</version_segment>
- <system>LINUX</system>
- <version_spm>7771</version_spm>
- <version_matlab>9.3</version_matlab>
- <version_cat>12.8.1</version_cat>
- <revision_cat>1980</revision_cat>
- <function>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/cat_vol_qa.m</function>
- <markdefs>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/cat_stat_marks.m</markdefs>
- <qamethod>cat12</qamethod>
- <date>20220711-085507</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>14</SurfaceEulerNumber>
- <SurfaceDefectArea>0.239679046528129</SurfaceDefectArea>
- <SurfaceDefectNumber>8</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.062720850110054</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0603192523121834</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>14</EC_abs>
- <defect_size>0.239679046528129</defect_size>
- <vol_abs_CGW>[254.087219607843 817.892568627451 615.542392156863 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.948666666666667</vol_abs_WMH>
- <vol_rel_WMH>0.000562165450439419</vol_rel_WMH>
- <surf_TSA>2278.52328554153</surf_TSA>
- <vol_TIV>1687.52218039216</vol_TIV>
- <vol_rel_CGW>[0.150568225152926 0.484670707224354 0.36476106762272 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.5908391773392 0.607962560520988]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.5560462474823 0.770218453960601 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[2.01659830381185 0.245354907839687 0.320771108716212;2.60767937868936 0.175637138346474 0.439175665867552;3.28847359961181 0.282394920121451 0.240053225416236]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.997720837253618 0.366952420719875 0.460522745771909;4.32300913064098 0.369843606656875 0.539477254228091]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>2.73574005822319</vol_TIV>
- <vol_rel_CGW>[0.554027032200542 6.5544308050351 4.40088124322413 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.05621654504394</vol_rel_WMH>
- <surf_TSA>8.62397727395391</surf_TSA>
- <SQR>5.38717581077853</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.182956088672985 1 1 9424.059 0.452018149681397]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00867441482841969 0.00590390618890524 0.154359370470047]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[961.169733333333 554.415839215686 575.580458823529 688.744321568627 2815.47428627451 6686.94466666667]</SPMvols0>
- <SPMvols1>[822.505862745098 527.604439215686 296.801494117647 1259.90750196078 2569.15204705882 6058.69296470588]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[364.907501220703 944.418395996094 1429.39172363281]</T3th>
- <Tth>
- <T3th>[0 0 22.884521484375 364.907501220703 944.418395996094 1429.39172363281 1961.6337890625 4458.48486328125]</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>[0.0189492292702198 0.0642553493380547 0.0698788315057755 0 0]</dtc>
- <ll>[0.0851658412388393 0 0.0851658412388393 0;0.204284374882766 0.00919287030150195 0.213477245184268 1960.36120605469;0.204284374882766 0.00919287030150195 0.213477245184268 1960.36120605469]</ll>
- <rmsdtc>[0.0410319939255714 0.0833578333258629 0.0922050699591637]</rmsdtc>
- <rmsgdt>[0.0294495820999146 0.0400989316403866 0.0495878159999847]</rmsgdt>
- <rmsdt>0.0922050699591637</rmsdt>
- <dt>0.0698788315057755</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>[0.00817155465483665 0.0288428571075201 0.0392629839479923 0.0470434874296188 0.0535094887018204 0.0595581717789173]</dtc>
- <ll>[0.0849520499635966 0 0.0849520499635966 0;0.220975320512821 0.0130843978937729 0.234059718406593 6697.576171875;0.200950128315215 0.0158414819921024 0.216791610307317 11401.3046875;0.181171442595189 0.0181077556845583 0.199279198279748 19525.0859375;0.164411285200871 0.0210333075642823 0.185444592765154 36794.6796875;0.164411285200871 0.0210333075642823 0.185444592765154 36794.6796875]</ll>
- <rmsdtc>[0.00951342657208443 0.0332658775150776 0.0492999441921711 0.0724181309342384 0.096904456615448 0.103856198489666]</rmsdtc>
- <rmsgdt>[0.00311076594516635 0.0117280445992947 0.0261149574071169 0.0461217015981674 0.0647537857294083 0.0704403668642044]</rmsgdt>
- <rmsdt>0.103856198489666</rmsdt>
- <dt>0.0595581717789173</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./dir_2361066/ds/sub-s201/sub-s201_ses-wk6_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 39s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 8s</item>
- <item>Estimate background 7s</item>
- <item>Initial correction 9s</item>
- <item>Refine background 4s</item>
- <item>Final correction 7s</item>
- <item>Final scaling 8s</item>
- <item>52s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 11s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 108s</item>
- <item>SPM preprocessing 1 (estimate 2): 83s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 22s</item>
- <item>Update Segmentation 25s</item>
- <item>Update Skull-Stripping 62s</item>
- <item>Update probability maps 11s</item>
- <item>120s</item>
- <item>Global intensity correction: 21s</item>
- <item>SANLM denoising after intensity normalization (medium): 12s</item>
- <item>Fast Optimized Shooting registration 47s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 6s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.00) 21s</item>
- <item>Estimate local tissue thresholds (WM) 24s</item>
- <item>Estimate local tissue thresholds (GM) 33s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 31s</item>
- <item>122s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 12s</item>
- <item>Major structures 5s</item>
- <item>Ventricle detection 23s</item>
- <item>Blood vessel detection 13s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 35s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 5s</item>
- <item>Final corrections 6s</item>
- <item>101s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 37s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.99 0.04]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 6s</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>14s</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 | 0.0850 0.0000 0.0850 | 32.0000</item>
- <item>2 | 2.50 | 0.0821 0.0013 0.0834 | 29.4886</item>
- <item>3 | 2.50 | 0.0813 0.0019 0.0832 | 26.9772</item>
- <item>4 | 2.50 | 0.0809 0.0021 0.0830 | 24.6107</item>
- <item>5 | 2.50 | 0.0806 0.0022 0.0828 | 22.6548</item>
- <item>6 | 2.50 | 0.0803 0.0023 0.0826 | 20.6989</item>
- <item>7 | 2.50 | 0.0801 0.0024 0.0824 | 18.9688</item>
- <item>8 | 2.50 | 0.0798 0.0025 0.0822 | 17.4455</item>
- <item>9 | 2.50 | 0.0795 0.0025 0.0820 | 15.9223</item>
- <item>10 | 2.50 | 0.0792 0.0026 0.0818 | 14.6627</item>
- <item>11 | 2.50 | 0.0789 0.0027 0.0815 | 13.4764</item>
- <item>12 | 2.50 | 0.0786 0.0027 0.0813 | 12.3015</item>
- <item>13 | 2.50 | 0.0782 0.0028 0.0811 | 11.3776</item>
- <item>14 | 2.50 | 0.0779 0.0029 0.0808 | 10.4537</item>
- <item>15 | 2.25 | 0.0767 0.0029 0.0797 | 9.5920</item>
- <item>16 | 2.25 | 0.0737 0.0044 0.0780 | 8.8725</item>
- <item>29 | 2.00 | 0.0749 0.0020 0.0769 | 3.3283</item>
- <item>30 | 2.00 | 0.0689 0.0043 0.0733 | 3.1221</item>
- <item>31 | 2.00 | 0.0670 0.0053 0.0723 | 2.9160</item>
- <item>43 | 1.75 | 0.0660 0.0030 0.0690 | 1.5785</item>
- <item>44 | 1.75 | 0.0617 0.0053 0.0670 | 1.5194</item>
- <item>45 | 1.75 | 0.0604 0.0060 0.0664 | 1.4626</item>
- <item>57 | 1.50 | 0.0589 0.0044 0.0632 | 1.0900</item>
- <item>58 | 1.50 | 0.0558 0.0064 0.0622 | 1.0730</item>
- <item>59 | 1.50 | 0.0548 0.0070 0.0618 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 230s</item>
- <item>Prepare output 14s</item>
- <item>243s</item>
- <item>Jacobian determinant (RMS): 0.010 0.033 0.049 0.072 0.097 | 0.103856</item>
- <item>Template Matching: 0.085 0.221 0.201 0.181 0.164 | 0.164411</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: 63s</item>
- <item>CSF distance: 23s</item>
- <item>PBT2x thickness: 68s</item>
- <item>162s</item>
- <item>Create initial surface 111s</item>
- <item>Topology correction: 126s</item>
- <item>Surface refinement: 144s</item>
- <item>Reduction of surface collisions with optimization: 87s</item>
- <item>Spherical mapping with areal smoothing 121s</item>
- <item>Spherical registration 304s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 63s</item>
- <item>CSF distance: 23s</item>
- <item>PBT2x thickness: 68s</item>
- <item>164s</item>
- <item>Create initial surface 116s</item>
- <item>Topology correction: 126s</item>
- <item>Surface refinement: 147s</item>
- <item>Reduction of surface collisions with optimization: 95s</item>
- <item>Spherical mapping with areal smoothing 123s</item>
- <item>Spherical registration 311s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5908 0.6080 mm</item>
- <item>Surface intensity / position RMSE: 0.0627 / 0.0603</item>
- <item>Euler number / defect number / defect size: 14.0 / 8.0 / 0.24%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2361066/ds/sub-s201/surf/lh.thickness.sub-s201_ses-wk6_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2361066/ds/sub-s201/surf/rh.thickness.sub-s201_ses-wk6_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2361066/ds/sub-s201/sub-s201_ses-wk6_T1w.nii</item>
- <item>Surface ROI estimation: 11s</item>
- <item>Surface and thickness estimation takes: 2272s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 19s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 70s</item>
- <item>ROI estimation of 'lpba40' atlas 20s</item>
- <item>ROI estimation of 'hammers' atlas 49s</item>
- <item>ROI estimation of 'thalamus' atlas 4s</item>
- <item>ROI estimation of 'ibsr' atlas 17s</item>
- <item>ROI estimation of 'aal3' atlas 26s</item>
- <item>ROI estimation of 'mori' atlas 41s</item>
- <item>ROI estimation of 'anatomy3' atlas 56s</item>
- <item>ROI estimation of 'julichbrain' atlas 74s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 27s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 35s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 121s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 178s</item>
- <item>Write results 179s</item>
- <item>738s</item>
- <item>Quality check: 7s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_2361066/ds/sub-s201/report/catreport_sub-s201_ses-wk6_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 69 minute(s) and 38 second(s).</item>
- <item>Image Quality Rating (IQR): 83.53% (B)</item>
- <item>GM volume (GMV): 48.47% (817.89 / 1687.52 ml)</item>
- <item>GM thickness (GMT): 2.59 0.61 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2361066/ds/sub-s201/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2361066/ds/sub-s201/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2361066/ds/sub-s201/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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