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- <uhrlim>1.4</uhrlim>
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- <species>human</species>
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- <darteltpm>
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- <shootingtpm>
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- <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>
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- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii</td>
- <td>0</td>
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- <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>
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- <item>csf</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/thalamus.nii</td>
- <td>0</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
- <td>0</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/ibsr.nii</td>
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- <item>csf</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>
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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/mori.nii</td>
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- <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/anatomy3.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/julichbrain.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_100Parcels_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_200Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <td>/var/lib/condor/execute/dir_579390/ds/code/Tian_Subcortex_S2_7T.nii</td>
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- <item>gm</item>
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- <td>0</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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- <tr>
- <td>HCP</td>
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- <td>0</td>
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- <td>Schaefer2018_100P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_100Parcels_17Networks_order.annot</td>
- <td>1</td>
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- <td>Schaefer2018_200P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_200Parcels_17Networks_order.annot</td>
- <td>0</td>
- <td>0</td>
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- <tr>
- <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>
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- <td>0</td>
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- </satlas>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>44</SurfaceEulerNumber>
- <SurfaceDefectArea>2.27372183824212</SurfaceDefectArea>
- <SurfaceDefectNumber>21.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0817554295063019</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.118834473192692</SurfacePositionRMSE>
- <res_vx_vol>[0.999999971688579 0.9765624526338 0.9765625]</res_vx_vol>
- <res_vx_voli>[1.00000003167338 0.9765624526338 0.9765625]</res_vx_voli>
- <res_RMS>0.984436976766847</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[7.14300012588501 185.996994018555 406.239990234375 579.181030273438]</tissue_mn>
- <tissue_mnr>[0.0123329320922494 0.321137934923172 0.70140415430069 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[13.724272377309 73.848771193775 53.34353460664 32.845130208845]</tissue_std>
- <tissue_stdr>[0.0239918883889914 0.129097655415535 0.0932517275214195 0.0574177391827106]</tissue_stdr>
- <contrast>175.100555419922</contrast>
- <contrastr>0.302324384450912</contrastr>
- <res_ECR>0.298446118831635</res_ECR>
- <NCR>0.142839595675468</NCR>
- <ICR>0.319919556379318</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.99999994337716 1.9531249052676 1.953125]</res_vx_vol>
- <res_RMS>1.96887395353369</res_RMS>
- <res_ECR>2.42064332962036</res_ECR>
- <res_BB>1</res_BB>
- <tissue_mn>[8.62400054931641 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[8.624 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>3.5484676361084</contrastr>
- <NCR>2.38156175613403</NCR>
- <ICR>1.25327277183533</ICR>
- <SurfaceEulerNumber>3.14285714285714</SurfaceEulerNumber>
- <SurfaceDefectArea>1.56843045956053</SurfaceDefectArea>
- <SurfaceDefectNumber>2.075</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.63510859012604</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>2.37668943405151</SurfacePositionRMSE>
- <SIQR>2.31085587096893</SIQR>
- <IQR>2.23845198609928</IQR>
- </qualityratings>
- <ratings_help>
- <qualitymeasures>
- <res_vx_vol>voxel dimensions</res_vx_vol>
- <res_RMS>RMS error of voxel size</res_RMS>
- <res_ECR>normalized gradient slope of the white matter boundary</res_ECR>
- <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>2040</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>20231031-035449</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>44</SurfaceEulerNumber>
- <SurfaceDefectArea>2.27372183824212</SurfaceDefectArea>
- <SurfaceDefectNumber>21.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0817554295063019</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.118834473192692</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>44</EC_abs>
- <defect_size>2.27372183824212</defect_size>
- <vol_abs_CGW>[216.973046783812 688.40054120152 515.049424572622 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.44278162790738</vol_abs_WMH>
- <vol_rel_WMH>0.000311725186083828</vol_rel_WMH>
- <surf_TSA>1965.56587718921</surf_TSA>
- <vol_TIV>1420.42301255795</vol_TIV>
- <vol_rel_CGW>[0.152752415911003 0.484644739711602 0.362602844377395 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.4638203981213 0.693555080084915]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.51131296157837 0.898458584546277 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.72259153215793 0.332561199787454 0.266993409032805;2.4886463146737 0.202744686049583 0.418934844828554;3.18664816753558 0.302434782888158 0.314071746138641]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.624762171898085 0.247133991800185 0.659381183666127;4.19239054312957 0.338507172135428 0.340618816333873]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.00993092063974</vol_TIV>
- <vol_rel_CGW>[0.593254596102781 6.55396443447562 4.36212004988137 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03117251860838</vol_rel_WMH>
- <surf_TSA>8.61974867256252</surf_TSA>
- <SQR>5.38497942699747</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 10999.9991550415 0.344716611157258]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0014212743844837 0.00128873833455145 0.0230282656848431]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[835.935589802595 465.33099120646 401.110462843188 470.327395583204 867.804119988485 8468.53352674393]</SPMvols0>
- <SPMvols1>[716.959522373237 434.712638270755 232.148263801608 363.940741453958 724.22328178923 8528.26146003379]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[224.491394042969 426.475402832031 563.423095703125]</T3th>
- <Tth>
- <T3th>[-8.1491003036499 76.2171096801758 4.91506052017212 224.491394042969 426.475402832031 563.423095703125 732.888916015625 1419.96813964844]</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>[0.019994493573904 0.0691085830330849 0.0753412172198296 0 0]</dtc>
- <ll>[0.0822354454477103 0 0.0822354454477103 0;0.193839413206689 0.00935484152309606 0.203194254729785 1994.90124511719;0.193839413206689 0.00935484152309606 0.203194254729785 1994.90124511719]</ll>
- <rmsdtc>[0.043054137378931 0.0882101655006409 0.0977917090058327]</rmsdtc>
- <rmsgdt>[0.0308411289006472 0.0419479683041573 0.0518561713397503]</rmsgdt>
- <rmsdt>0.0977917090058327</rmsdt>
- <dt>0.0753412172198296</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>[0.00908552668988705 0.0323844961822033 0.0443081967532635 0.0514927096664906 0.0564175471663475 0.0630777552723885]</dtc>
- <ll>[0.0826596987532306 0 0.0826596987532306 0;0.215704471916972 0.0129388984279609 0.228643370344933 6623.0986328125;0.195063333493119 0.0154404331719667 0.210503766665086 11112.6650390625;0.175650890962577 0.0172955729456482 0.192946463908225 18649.33203125;0.162211293260994 0.018151372652132 0.180362665913126 31753.158203125;0.162211293260994 0.018151372652132 0.180362665913126 31753.158203125]</ll>
- <rmsdtc>[0.0104409800842404 0.0366489663720131 0.0541048459708691 0.077673114836216 0.102509841322899 0.107665680348873]</rmsdtc>
- <rmsgdt>[0.00327088916674256 0.0123913334682584 0.0273557957261801 0.0476323366165161 0.0669597461819649 0.0708713755011559]</rmsgdt>
- <rmsdt>0.107665680348873</rmsdt>
- <dt>0.0630777552723885</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0027213/ses-3/sub-0027213_ses-3_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 31s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 4s</item>
- <item>Estimate background 4s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 2s</item>
- <item>Final correction 4s</item>
- <item>Final scaling 3s</item>
- <item>25s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 5s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 47s</item>
- <item>SPM preprocessing 1 (estimate 2): 40s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 11s</item>
- <item>Update Segmentation 13s</item>
- <item>Update Skull-Stripping 27s</item>
- <item>Update probability maps 6s</item>
- <item>57s</item>
- <item>Global intensity correction: 10s</item>
- <item>SANLM denoising after intensity normalization (medium): 17s</item>
- <item>Fast Optimized Shooting registration 21s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 2s</item>
- <item>Prepare partitions 1s</item>
- <item>Prepare segments (LASmod = 1.04) 9s</item>
- <item>Estimate local tissue thresholds (WM) 12s</item>
- <item>Estimate local tissue thresholds (GM) 17s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 29s</item>
- <item>73s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 5s</item>
- <item>Major structures 2s</item>
- <item>Ventricle detection 6s</item>
- <item>Blood vessel detection 6s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 13s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 2s</item>
- <item>Final corrections 3s</item>
- <item>37s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 22s</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) 3s</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>7s</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 | 0.0827 0.0000 0.0827 | 32.0000</item>
- <item>2 | 2.50 | 0.0800 0.0012 0.0812 | 29.4886</item>
- <item>3 | 2.50 | 0.0792 0.0018 0.0810 | 26.9772</item>
- <item>4 | 2.50 | 0.0789 0.0020 0.0809 | 24.6107</item>
- <item>5 | 2.50 | 0.0786 0.0021 0.0807 | 22.6548</item>
- <item>6 | 2.50 | 0.0783 0.0022 0.0805 | 20.6989</item>
- <item>7 | 2.50 | 0.0780 0.0023 0.0803 | 18.9688</item>
- <item>8 | 2.50 | 0.0777 0.0024 0.0801 | 17.4455</item>
- <item>9 | 2.50 | 0.0774 0.0025 0.0799 | 15.9223</item>
- <item>10 | 2.50 | 0.0771 0.0026 0.0797 | 14.6627</item>
- <item>11 | 2.50 | 0.0768 0.0026 0.0795 | 13.4764</item>
- <item>12 | 2.50 | 0.0765 0.0027 0.0792 | 12.3015</item>
- <item>13 | 2.50 | 0.0762 0.0028 0.0790 | 11.3776</item>
- <item>14 | 2.50 | 0.0759 0.0028 0.0788 | 10.4537</item>
- <item>15 | 2.25 | 0.0748 0.0029 0.0777 | 9.5920</item>
- <item>16 | 2.25 | 0.0719 0.0043 0.0762 | 8.8725</item>
- <item>29 | 2.00 | 0.0727 0.0019 0.0746 | 3.3283</item>
- <item>30 | 2.00 | 0.0669 0.0042 0.0712 | 3.1221</item>
- <item>31 | 2.00 | 0.0650 0.0051 0.0702 | 2.9160</item>
- <item>43 | 1.75 | 0.0638 0.0030 0.0668 | 1.5785</item>
- <item>44 | 1.75 | 0.0599 0.0050 0.0649 | 1.5194</item>
- <item>45 | 1.75 | 0.0586 0.0058 0.0643 | 1.4626</item>
- <item>57 | 1.50 | 0.0569 0.0042 0.0611 | 1.0900</item>
- <item>58 | 1.50 | 0.0541 0.0061 0.0601 | 1.0730</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 90s</item>
- <item>Prepare output 7s</item>
- <item>97s</item>
- <item>Jacobian determinant (RMS): 0.010 0.037 0.054 0.078 0.103 | 0.107666</item>
- <item>Template Matching: 0.083 0.216 0.195 0.176 0.162 | 0.162211</item>
- <item>Write result maps: 22s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 20s</item>
- <item>CSF distance: 9s</item>
- <item>PBT2x thickness: 28s</item>
- <item>60s</item>
- <item>Create initial surface 50s</item>
- <item>Topology correction: 71s</item>
- <item>Surface refinement: 52s</item>
- <item>Reduction of surface collisions with optimization: 46s</item>
- <item>Spherical mapping with areal smoothing 56s</item>
- <item>Spherical registration 185s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 21s</item>
- <item>CSF distance: 9s</item>
- <item>PBT2x thickness: 27s</item>
- <item>61s</item>
- <item>Create initial surface 49s</item>
- <item>Topology correction: 66s</item>
- <item>Surface refinement: 56s</item>
- <item>Reduction of surface collisions with optimization: 44s</item>
- <item>Spherical mapping with areal smoothing 55s</item>
- <item>Spherical registration 188s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4637 0.6933 mm</item>
- <item>Surface intensity / position RMSE: 0.0818 / 0.1188</item>
- <item>Euler number / defect number / defect size: 44.0 / 21.5 / 2.27%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_579390/ds/SWU_1/sub-0027213/ses-3/surf/lh.thickness.sub-0027213_ses-3_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_579390/ds/SWU_1/sub-0027213/ses-3/surf/rh.thickness.sub-0027213_ses-3_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_579390/ds/SWU_1/sub-0027213/ses-3/sub-0027213_ses-3_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 6s</item>
- <item>Surface and thickness estimation takes: 1101s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 5s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 20s</item>
- <item>ROI estimation of 'lpba40' atlas 6s</item>
- <item>ROI estimation of 'hammers' atlas 14s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 5s</item>
- <item>ROI estimation of 'aal3' atlas 8s</item>
- <item>ROI estimation of 'mori' atlas 12s</item>
- <item>ROI estimation of 'anatomy3' atlas 16s</item>
- <item>ROI estimation of 'julichbrain' atlas 22s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 9s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 15s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 35s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 52s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 4s</item>
- <item>Write results 5s</item>
- <item>225s</item>
- <item>Quality check: 7s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_579390/ds/SWU_1/sub-0027213/ses-3/report/catreport_sub-0027213_ses-3_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 31 minute(s) and 37 second(s).</item>
- <item>Image Quality Rating (IQR): 82.62% (B-)</item>
- <item>GM volume (GMV): 48.46% (688.40 / 1420.42 ml)</item>
- <item>GM thickness (GMT): 2.46 0.69 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_579390/ds/SWU_1/sub-0027213/ses-3/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_579390/ds/SWU_1/sub-0027213/ses-3/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_579390/ds/SWU_1/sub-0027213/ses-3/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|