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- <F>/var/lib/condor/execute/dir_19516/ds/sub-29/sub-29_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_19516/ds/sub-29/mri/msub-29_T1w.nii</Fm>
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- <fnames>..19516/ds/sub-29/sub-29_T1w</fnames>
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- <parameter>
- <opts>
- <tpm>
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- </tpm>
- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
- <warpreg>[0 0.001 0.5 0.05 0.2]</warpreg>
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- <extopts>
- <uhrlim>1.4</uhrlim>
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- <cleanupstr>0.5</cleanupstr>
- <spm_kamap>0</spm_kamap>
- <NCstr>-Inf</NCstr>
- <LASstr>0.5</LASstr>
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- <WMHC>2</WMHC>
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- <SLC>0</SLC>
- <mrf>1</mrf>
- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
- <bids_yes>0</bids_yes>
- <nproc>64</nproc>
- <species>human</species>
- <APP>1070</APP>
- <setCOM>1</setCOM>
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- <bb>12</bb>
- <shootingsurf>Template_T1</shootingsurf>
- <pth_templates>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym</pth_templates>
- <darteltpm>
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- </darteltpm>
- <shootingtpm>
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- </shootingtpm>
- <shootingT1>
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- </shootingT1>
- <brainmask>
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- </brainmask>
- <T1>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/T1.nii</item>
- </T1>
- <cat12atlas>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cat.nii</item>
- </cat12atlas>
- <pbtres>0.5</pbtres>
- <SRP>22</SRP>
- <reduce_mesh>1</reduce_mesh>
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- <scale_cortex>0.7</scale_cortex>
- <add_parahipp>0.1</add_parahipp>
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- <report/>
- <verb>2</verb>
- <ignoreErrors>1</ignoreErrors>
- <expertgui>1</expertgui>
- <subfolders>1</subfolders>
- <experimental>0</experimental>
- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii</td>
- <td>0</td>
- <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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- <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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- <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>
- <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/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>
- <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_200Parcels_17Networks_order.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/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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- <item>gm</item>
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- <td>[false]</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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- <tr>
- <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>
- <td>0</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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- <LAB>
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- <PH>25</PH>
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- <new_release>0</new_release>
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- <shooting>
- <shootingtpm>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
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- </shootingtpms>
- <templates>
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- </templates>
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- <tissue_mnr>[0.0289443749934435 0.218328163027763 0.655084192752838 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[17.5957876221759 18.0438678688051 15.1948845639075 8.5818403970624]</tissue_std>
- <tissue_stdr>[0.127750530838966 0.131003722548485 0.110319279134274 0.0623066537082195]</tissue_stdr>
- <contrast>50.3814849853516</contrast>
- <contrastr>0.355196803808212</contrastr>
- <NCR>0.15321347117424</NCR>
- <ICR>0.299464225769043</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>[8.62399864196777 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>2.75538110733032</contrastr>
- <NCR>2.53048324584961</NCR>
- <ICR>1.20254027843475</ICR>
- <SurfaceEulerNumber>2.93877551020408</SurfaceEulerNumber>
- <SurfaceDefectArea>1.36407840794187</SurfaceDefectArea>
- <SurfaceDefectNumber>2.175</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.36003112792969</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.5007495880127</SurfacePositionRMSE>
- <IQR>2.37385376442658</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>20220703-110658</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>40</SurfaceEulerNumber>
- <SurfaceDefectArea>1.4563136317675</SurfaceDefectArea>
- <SurfaceDefectNumber>23.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0680015534162521</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0750374794006348</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>40</EC_abs>
- <defect_size>1.4563136317675</defect_size>
- <vol_abs_CGW>[219.360418848255 696.489044835468 505.960746384475 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.490879711225921</vol_abs_WMH>
- <vol_rel_WMH>0.000345249814461788</vol_rel_WMH>
- <surf_TSA>1914.34346250758</surf_TSA>
- <vol_TIV>1421.8102100682</vol_TIV>
- <vol_rel_CGW>[0.154282489529832 0.489860770378109 0.355856740092059 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.5383931396013 0.62564900796252]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.55632328987122 0.731102513622294 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.8850928733786 0.259437713170608 0.265833686835576;2.54969553829024 0.180959358701307 0.442874037509802;3.20281410966286 0.265329467203729 0.291292275654622]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.87723638871904 0.298407453795081 0.570420492991783;4.10557080967592 0.333627473808452 0.429579507008217]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.01132478207339</vol_TIV>
- <vol_rel_CGW>[0.620734366555886 6.64764314615857 4.24096156774532 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03452498144618</vol_rel_WMH>
- <surf_TSA>8.61522140889615</surf_TSA>
- <SQR>5.45463845331219</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.178796404617623 25 5 10093.6266984787 0.562910412404166]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0387705489993095 0.0430392473936081 0.0328003913164139]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[832.23052595146 460.838429368711 396.298822817335 691.180072592043 2026.33363227904 8565.30489576745]</SPMvols0>
- <SPMvols1>[723.197900727066 434.180755759056 218.573997586209 529.250561136492 1183.31499423364 9203.56203157624]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[39.2067985534668 97.1165008544922 144.2998046875]</T3th>
- <Tth>
- <T3th>[0 1.4180908203125 5.67130422592163 39.2067985534668 97.1165008544922 144.2998046875 196.846313476562 628.26416015625]</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>[0.0203589368611574 0.0701848641037941 0.0769883692264557 0 0]</dtc>
- <ll>[0.0822745785325849 0 0.0822745785325849 0;0.196652196034664 0.00917231020521001 0.205824506239874 1955.97680664062;0.196652196034664 0.00917231020521001 0.205824506239874 1955.97680664062]</ll>
- <rmsdtc>[0.0429764650762081 0.0922076180577278 0.102073274552822]</rmsdtc>
- <rmsgdt>[0.0304721966385841 0.0415512882173061 0.051272451877594]</rmsgdt>
- <rmsdt>0.102073274552822</rmsdt>
- <dt>0.0769883692264557</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>[0.00936530623584986 0.0347576700150967 0.0481851100921631 0.0554627738893032 0.060245119035244 0.0676180720329285]</dtc>
- <ll>[0.0836210808104545 0 0.0836210808104545 0;0.220994444444444 0.0127614774114774 0.233755921855922 6532.28125;0.200913503422202 0.0157141754813905 0.216627678903593 11309.6806640625;0.181437145497611 0.0178047571426783 0.199241902640289 19198.37109375;0.168381217227169 0.0186734060571251 0.187054623284294 32666.37890625;0.168381217227169 0.0186734060571251 0.187054623284294 32666.37890625]</ll>
- <rmsdtc>[0.0110185984522104 0.0405066013336182 0.0604726821184158 0.085161954164505 0.108296044170856 0.113219417631626]</rmsdtc>
- <rmsgdt>[0.00320970383472741 0.012561172246933 0.0279819741845131 0.0483442693948746 0.0661752447485924 0.0705565735697746]</rmsgdt>
- <rmsdt>0.113219417631626</rmsdt>
- <dt>0.0676180720329285</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_19516/ds/sub-29/sub-29_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 81s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 15s</item>
- <item>Initial correction 10s</item>
- <item>Refine background 5s</item>
- <item>Final correction 8s</item>
- <item>Final scaling 8s</item>
- <item>61s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 11s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 70s</item>
- <item>SPM preprocessing 1 (estimate 2): 53s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 20s</item>
- <item>Update Segmentation 21s</item>
- <item>Update Skull-Stripping 46s</item>
- <item>Update probability maps 11s</item>
- <item>98s</item>
- <item>Global intensity correction: 18s</item>
- <item>SANLM denoising after intensity normalization (medium): 9s</item>
- <item>Fast Optimized Shooting registration 41s</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) 16s</item>
- <item>Estimate local tissue thresholds (WM) 25s</item>
- <item>Estimate local tissue thresholds (GM) 37s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 36s</item>
- <item>125s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 8s</item>
- <item>Major structures 4s</item>
- <item>Ventricle detection 19s</item>
- <item>Blood vessel detection 11s</item>
- <item>WMH detection (WMHCstr=0.48 > WMHCstr'=0.00) 26s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 4s</item>
- <item>Final corrections 5s</item>
- <item>78s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 36s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.99 0.05]</item>
- <item>Final cleanup (gcutstr=0.24):</item>
- <item>Level 1 cleanup (ROI estimation) 5s</item>
- <item>Level 1 cleanup (brain masking) 3s</item>
- <item>Level 2 cleanup (CSF correction) 2s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>12s</item>
- <item>Optimized Shooting registration with 2.50:-0.25:1.50 mm (regstr=0.50):</item>
- <item>Template: "/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii"</item>
- <item>1 | 2.50 | 0.0836 0.0000 0.0836 | 32.0000</item>
- <item>2 | 2.50 | 0.0813 0.0011 0.0824 | 29.4886</item>
- <item>3 | 2.50 | 0.0806 0.0017 0.0823 | 26.9772</item>
- <item>4 | 2.50 | 0.0803 0.0019 0.0821 | 24.6107</item>
- <item>5 | 2.50 | 0.0800 0.0020 0.0820 | 22.6548</item>
- <item>6 | 2.50 | 0.0798 0.0021 0.0818 | 20.6989</item>
- <item>7 | 2.50 | 0.0795 0.0022 0.0817 | 18.9688</item>
- <item>8 | 2.50 | 0.0792 0.0023 0.0815 | 17.4455</item>
- <item>9 | 2.50 | 0.0790 0.0023 0.0813 | 15.9223</item>
- <item>10 | 2.50 | 0.0787 0.0024 0.0811 | 14.6627</item>
- <item>11 | 2.50 | 0.0784 0.0025 0.0809 | 13.4764</item>
- <item>12 | 2.50 | 0.0781 0.0026 0.0807 | 12.3015</item>
- <item>13 | 2.50 | 0.0778 0.0027 0.0805 | 11.3776</item>
- <item>14 | 2.50 | 0.0775 0.0027 0.0802 | 10.4537</item>
- <item>15 | 2.25 | 0.0767 0.0028 0.0795 | 9.5920</item>
- <item>16 | 2.25 | 0.0737 0.0043 0.0779 | 8.8725</item>
- <item>29 | 2.00 | 0.0749 0.0019 0.0768 | 3.3283</item>
- <item>30 | 2.00 | 0.0690 0.0043 0.0732 | 3.1221</item>
- <item>31 | 2.00 | 0.0670 0.0052 0.0722 | 2.9160</item>
- <item>43 | 1.75 | 0.0660 0.0030 0.0690 | 1.5785</item>
- <item>44 | 1.75 | 0.0618 0.0052 0.0670 | 1.5194</item>
- <item>45 | 1.75 | 0.0605 0.0059 0.0664 | 1.4626</item>
- <item>57 | 1.50 | 0.0591 0.0043 0.0634 | 1.0900</item>
- <item>58 | 1.50 | 0.0561 0.0062 0.0624 | 1.0730</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 171s</item>
- <item>Prepare output 13s</item>
- <item>184s</item>
- <item>Jacobian determinant (RMS): 0.011 0.041 0.060 0.085 0.108 | 0.113219</item>
- <item>Template Matching: 0.084 0.221 0.201 0.181 0.168 | 0.168381</item>
- <item>Write result maps: 27s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 34s</item>
- <item>CSF distance: 18s</item>
- <item>PBT2x thickness: 56s</item>
- <item>115s</item>
- <item>Create initial surface 99s</item>
- <item>Topology correction: 115s</item>
- <item>Surface refinement: 96s</item>
- <item>Reduction of surface collisions with optimization: 80s</item>
- <item>Spherical mapping with areal smoothing 102s</item>
- <item>Spherical registration 334s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 37s</item>
- <item>CSF distance: 19s</item>
- <item>PBT2x thickness: 55s</item>
- <item>117s</item>
- <item>Create initial surface 95s</item>
- <item>Topology correction: 109s</item>
- <item>Surface refinement: 112s</item>
- <item>Reduction of surface collisions with optimization: 81s</item>
- <item>Spherical mapping with areal smoothing 97s</item>
- <item>Spherical registration 334s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5385 0.6256 mm</item>
- <item>Surface intensity / position RMSE: 0.0680 / 0.0750</item>
- <item>Euler number / defect number / defect size: 40.0 / 23.5 / 1.46%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_19516/ds/sub-29/surf/lh.thickness.sub-29_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_19516/ds/sub-29/surf/rh.thickness.sub-29_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_19516/ds/sub-29/sub-29_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 1993s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 11s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 39s</item>
- <item>ROI estimation of 'lpba40' atlas 10s</item>
- <item>ROI estimation of 'hammers' atlas 22s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 8s</item>
- <item>ROI estimation of 'aal3' atlas 14s</item>
- <item>ROI estimation of 'mori' atlas 20s</item>
- <item>ROI estimation of 'anatomy3' atlas 29s</item>
- <item>ROI estimation of 'julichbrain' atlas 37s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 15s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 25s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 59s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 89s</item>
- <item>Write results 90s</item>
- <item>380s</item>
- <item>Quality check: 6s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_19516/ds/sub-29/report/catreport_sub-29_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 56 minute(s) and 31 second(s).</item>
- <item>Image Quality Rating (IQR): 81.26% (B-)</item>
- <item>GM volume (GMV): 48.99% (696.49 / 1421.81 ml)</item>
- <item>GM thickness (GMT): 2.54 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_19516/ds/sub-29/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_19516/ds/sub-29/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_19516/ds/sub-29/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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