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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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- </shootingtpm>
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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_T1_masked.nii</item>
- </shootingT1>
- <brainmask>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/brainmask.nii</item>
- </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>
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- <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/neuromorphometrics.nii</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.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/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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- <item>gm</item>
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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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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.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/mori.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/anatomy3.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/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>
- <td>
- <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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- <item>gm</item>
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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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- <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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- <td>/var/lib/condor/execute/dir_3231614/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <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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- <tr>
- <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>
- <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>
- <td>1</td>
- <td>0</td>
- </tr>
- </satlas>
- <LAB>
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- <CB>3</CB>
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- <PH>25</PH>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>20</SurfaceEulerNumber>
- <SurfaceDefectArea>0.480211732794026</SurfaceDefectArea>
- <SurfaceDefectNumber>13.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0656843036413193</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0661857277154922</SurfacePositionRMSE>
- <res_vx_vol>[0.938000023365021 0.938000023365021 1]</res_vx_vol>
- <res_vx_voli>[0.937999963760376 0.938000023365021 1]</res_vx_voli>
- <res_RMS>0.95911210461648</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[0 8.79199981689453 51.0859985351562 99.5339965820312]</tissue_mn>
- <tissue_mnr>[0 0.0883316248655319 0.513251781463623 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[0.20985578271986 10.470568938124 12.7489734085732 8.96607590207606]</tissue_std>
- <tissue_stdr>[0.00210838299244642 0.10519590228796 0.128086626529694 0.0900805369019508]</tissue_stdr>
- <contrast>33.4417991638184</contrast>
- <contrastr>0.335983693599701</contrastr>
- <res_ECR>0.336073517799377</res_ECR>
- <NCR>0.195133417844772</NCR>
- <ICR>0.332337766885757</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.87600004673004 1.87600004673004 2]</res_vx_vol>
- <res_RMS>1.91822420923296</res_RMS>
- <res_ECR>2.61261987686157</res_ECR>
- <res_BB>1</res_BB>
- <tissue_mn>[1.89584374427795 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[2.06756176259378 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>3.0435779094696</contrastr>
- <NCR>3.13226270675659</NCR>
- <ICR>1.28407180309296</ICR>
- <SurfaceEulerNumber>1.91836734693878</SurfaceEulerNumber>
- <SurfaceDefectArea>1.12005293319851</SurfaceDefectArea>
- <SurfaceDefectNumber>1.675</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.31368613243103</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.3237144947052</SurfacePositionRMSE>
- <SIQR>2.80871859681328</SIQR>
- <IQR>2.87934027386998</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>20231031-010049</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>20</SurfaceEulerNumber>
- <SurfaceDefectArea>0.480211732794026</SurfaceDefectArea>
- <SurfaceDefectNumber>13.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0656843036413193</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0661857277154922</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>20</EC_abs>
- <defect_size>0.480211732794026</defect_size>
- <vol_abs_CGW>[225.480323874153 760.424747404682 541.736794964719 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.375182728293533</vol_abs_WMH>
- <vol_rel_WMH>0.000245595997716468</vol_rel_WMH>
- <surf_TSA>2132.40416554317</surf_TSA>
- <vol_TIV>1527.64186624355</vol_TIV>
- <vol_rel_CGW>[0.147600251640527 0.497776844303537 0.354622904055936 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.51838512774156 0.608708753005881]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.50404143333435 0.677778269153872 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.9328166131634 0.235412990458751 0.307287413191857;2.53480428950897 0.174403257652211 0.421889064409407;3.18660793248045 0.250459636847693 0.270823522398736]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.964960687776028 0.348110137538456 0.527566379164553;4.02220188626156 0.30383721864277 0.472433620835447]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.37845155612523</vol_TIV>
- <vol_rel_CGW>[0.500722910210619 6.78981401407214 4.21880215617701 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.02455959977165</vol_rel_WMH>
- <surf_TSA>8.62368971682126</surf_TSA>
- <SQR>5.56774606626401</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 12685.5210364575 0.501348363301154]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00145600165706128 0.00141034740954638 0.0423363298177719]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[945.885001749059 470.700458271923 318.669893500546 592.796919130634 1081.69822692913 9845.63565904674]</SPMvols0>
- <SPMvols1>[836.217741519782 445.612459136631 172.48477755987 471.153129377788 864.352022769277 9895.88075094814]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[11.5623998641968 56.2755012512207 99.5084991455078]</T3th>
- <Tth>
- <T3th>[-1.161749958992 -1.16174590587616 0.232880994677544 11.5623998641968 56.2755012512207 99.5084991455078 143.481552124023 300.435729980469]</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>[0.0210245680063963 0.0754587799310684 0.0830539539456367 0 0]</dtc>
- <ll>[0.081749899666898 0 0.081749899666898 0;0.191398061910311 0.00971046759157765 0.201108529501889 2070.73779296875;0.191398061910311 0.00971046759157765 0.201108529501889 2070.73779296875]</ll>
- <rmsdtc>[0.0453537851572037 0.0980472192168236 0.108081005513668]</rmsdtc>
- <rmsgdt>[0.0324381366372108 0.0440780557692051 0.0538662374019623]</rmsgdt>
- <rmsdt>0.108081005513668</rmsdt>
- <dt>0.0830539539456367</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>[0.00993438437581062 0.037341296672821 0.0525189638137817 0.0601939707994461 0.0664552375674248 0.0742960050702095]</dtc>
- <ll>[0.0835071293287838 0 0.0835071293287838 0;0.218436462148962 0.0132934800442613 0.231729942193223 6804.60009765625;0.198074477186708 0.0156788952560191 0.213753372442727 11284.2890625;0.178481186217392 0.0176491624156521 0.196130348633044 19030.59765625;0.162054967608024 0.0207244433727784 0.182779410980803 36254.3671875;0.162054967608024 0.0207244433727784 0.182779410980803 36254.3671875]</ll>
- <rmsdtc>[0.0113271353766322 0.0417679771780968 0.0617968961596489 0.0853806883096695 0.106985665857792 0.113789930939674]</rmsdtc>
- <rmsgdt>[0.00322046689689159 0.0125961313024163 0.0269887652248144 0.0461346246302128 0.0638830661773682 0.0691701769828796]</rmsgdt>
- <rmsdt>0.113789930939674</rmsdt>
- <dt>0.0742960050702095</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0027406/ses-2/sub-0027406_ses-2_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 37s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 5s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 4s</item>
- <item>36s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 8s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 72s</item>
- <item>SPM preprocessing 1 (estimate 2): 51s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 17s</item>
- <item>Update Segmentation 19s</item>
- <item>Update Skull-Stripping 43s</item>
- <item>Update probability maps 10s</item>
- <item>88s</item>
- <item>Global intensity correction: 15s</item>
- <item>SANLM denoising after intensity normalization (medium): 25s</item>
- <item>Fast Optimized Shooting registration 31s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.00) 13s</item>
- <item>Estimate local tissue thresholds (WM) 18s</item>
- <item>Estimate local tissue thresholds (GM) 27s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 39s</item>
- <item>107s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 8s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 13s</item>
- <item>Blood vessel detection 9s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 22s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 5s</item>
- <item>65s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 32s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.98 0.04]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 4s</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>11s</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 | 0.0835 0.0000 0.0835 | 32.0000</item>
- <item>2 | 2.50 | 0.0811 0.0011 0.0822 | 29.4886</item>
- <item>3 | 2.50 | 0.0803 0.0017 0.0820 | 26.9772</item>
- <item>4 | 2.50 | 0.0799 0.0020 0.0819 | 24.6107</item>
- <item>5 | 2.50 | 0.0796 0.0021 0.0818 | 22.6548</item>
- <item>6 | 2.50 | 0.0794 0.0022 0.0816 | 20.6989</item>
- <item>7 | 2.50 | 0.0791 0.0023 0.0814 | 18.9688</item>
- <item>8 | 2.50 | 0.0788 0.0024 0.0812 | 17.4455</item>
- <item>9 | 2.50 | 0.0785 0.0025 0.0810 | 15.9223</item>
- <item>10 | 2.50 | 0.0782 0.0026 0.0808 | 14.6627</item>
- <item>11 | 2.50 | 0.0779 0.0027 0.0806 | 13.4764</item>
- <item>12 | 2.50 | 0.0776 0.0028 0.0803 | 12.3015</item>
- <item>13 | 2.50 | 0.0772 0.0029 0.0801 | 11.3776</item>
- <item>14 | 2.50 | 0.0769 0.0030 0.0799 | 10.4537</item>
- <item>15 | 2.25 | 0.0755 0.0031 0.0786 | 9.5920</item>
- <item>16 | 2.25 | 0.0728 0.0044 0.0772 | 8.8725</item>
- <item>29 | 2.00 | 0.0737 0.0020 0.0757 | 3.3283</item>
- <item>30 | 2.00 | 0.0680 0.0043 0.0723 | 3.1221</item>
- <item>31 | 2.00 | 0.0660 0.0052 0.0713 | 2.9160</item>
- <item>43 | 1.75 | 0.0648 0.0030 0.0679 | 1.5785</item>
- <item>44 | 1.75 | 0.0609 0.0051 0.0660 | 1.5194</item>
- <item>45 | 1.75 | 0.0595 0.0059 0.0654 | 1.4626</item>
- <item>57 | 1.50 | 0.0581 0.0043 0.0624 | 1.0900</item>
- <item>58 | 1.50 | 0.0551 0.0063 0.0613 | 1.0730</item>
- <item>59 | 1.50 | 0.0540 0.0069 0.0609 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 146s</item>
- <item>Prepare output 9s</item>
- <item>156s</item>
- <item>Jacobian determinant (RMS): 0.011 0.042 0.062 0.085 0.107 | 0.113790</item>
- <item>Template Matching: 0.084 0.218 0.198 0.178 0.162 | 0.162055</item>
- <item>Write result maps: 40s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 30s</item>
- <item>CSF distance: 13s</item>
- <item>PBT2x thickness: 38s</item>
- <item>86s</item>
- <item>Create initial surface 69s</item>
- <item>Topology correction: 78s</item>
- <item>Surface refinement: 86s</item>
- <item>Reduction of surface collisions with optimization: 56s</item>
- <item>Spherical mapping with areal smoothing 68s</item>
- <item>Spherical registration 226s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 23s</item>
- <item>CSF distance: 13s</item>
- <item>PBT2x thickness: 38s</item>
- <item>79s</item>
- <item>Create initial surface 68s</item>
- <item>Topology correction: 79s</item>
- <item>Surface refinement: 61s</item>
- <item>Reduction of surface collisions with optimization: 54s</item>
- <item>Spherical mapping with areal smoothing 66s</item>
- <item>Spherical registration 237s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5184 0.6087 mm</item>
- <item>Surface intensity / position RMSE: 0.0657 / 0.0662</item>
- <item>Euler number / defect number / defect size: 20.0 / 13.5 / 0.48%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3231614/ds/DC_1/sub-0027406/ses-2/surf/lh.thickness.sub-0027406_ses-2_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3231614/ds/DC_1/sub-0027406/ses-2/surf/rh.thickness.sub-0027406_ses-2_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_3231614/ds/DC_1/sub-0027406/ses-2/sub-0027406_ses-2_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 9s</item>
- <item>Surface and thickness estimation takes: 1402s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 17s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 66s</item>
- <item>ROI estimation of 'lpba40' atlas 21s</item>
- <item>ROI estimation of 'hammers' atlas 48s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 15s</item>
- <item>ROI estimation of 'aal3' atlas 30s</item>
- <item>ROI estimation of 'mori' atlas 41s</item>
- <item>ROI estimation of 'anatomy3' atlas 50s</item>
- <item>ROI estimation of 'julichbrain' atlas 79s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 41s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 60s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 90s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 127s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 11s</item>
- <item>Write results 12s</item>
- <item>701s</item>
- <item>Quality check: 10s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_3231614/ds/DC_1/sub-0027406/ses-2/report/catreport_sub-0027406_ses-2_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 49 minute(s) and 38 second(s).</item>
- <item>Image Quality Rating (IQR): 76.21% (C)</item>
- <item>GM volume (GMV): 49.78% (760.42 / 1527.64 ml)</item>
- <item>GM thickness (GMT): 2.52 0.61 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_3231614/ds/DC_1/sub-0027406/ses-2/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_3231614/ds/DC_1/sub-0027406/ses-2/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_3231614/ds/DC_1/sub-0027406/ses-2/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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