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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_2040</bids_folder>
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- <nproc>1</nproc>
- <species>human</species>
- <APP>1070</APP>
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- <shootingsurf>Template_T1</shootingsurf>
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- <darteltpm>
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- </darteltpm>
- <shootingtpm>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
- </shootingtpm>
- <shootingT1>
- <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>
- </cat12atlas>
- <pbtres>0.5</pbtres>
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- <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/neuromorphometrics.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/lpba40.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/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>
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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>
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- <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>
- <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>
- <td>0</td>
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- <item>csf</item>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii</td>
- <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/anatomy3.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/julichbrain.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_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>[false]</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <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>/var/lib/condor/execute/dir_673665/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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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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- <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>
- <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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- <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>
- </tr>
- <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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- <CT>1</CT>
- <CB>3</CB>
- <BG>5</BG>
- <BV>7</BV>
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- <MB>13</MB>
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- <VT>15</VT>
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- <HI>23</HI>
- <PH>25</PH>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>34</SurfaceEulerNumber>
- <SurfaceDefectArea>1.44526928743069</SurfaceDefectArea>
- <SurfaceDefectNumber>16.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0767509192228317</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0824738889932632</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 10.1420001983643 45.935001373291 89.7200012207031]</tissue_mn>
- <tissue_mnr>[0 0.113040573894978 0.511981725692749 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[0.594256850076494 9.80278656018546 11.2321960329766 8.63459606995383]</tissue_std>
- <tissue_stdr>[0.00662345997989178 0.109259769320488 0.125191658735275 0.0962393656373024]</tissue_stdr>
- <contrast>30.1216659545898</contrast>
- <contrastr>0.335729658603668</contrastr>
- <res_ECR>0.341231524944305</res_ECR>
- <NCR>0.199646860361099</NCR>
- <ICR>0.33075937628746</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.87600004673004 1.87600004673004 2]</res_vx_vol>
- <res_RMS>1.91822420923296</res_RMS>
- <res_ECR>2.63893628120422</res_ECR>
- <res_BB>1</res_BB>
- <tissue_mn>[1.89584374427795 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[8.26424130240894 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>3.04738831520081</contrastr>
- <NCR>3.19705510139465</NCR>
- <ICR>1.28015720844269</ICR>
- <SurfaceEulerNumber>2.63265306122449</SurfaceEulerNumber>
- <SurfaceDefectArea>1.36131732185767</SurfaceDefectArea>
- <SurfaceDefectNumber>1.825</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.53501844406128</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.64947772026062</SurfacePositionRMSE>
- <SIQR>2.86054610721108</SIQR>
- <IQR>2.93782265818075</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>20231031-000559</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>34</SurfaceEulerNumber>
- <SurfaceDefectArea>1.44526928743069</SurfaceDefectArea>
- <SurfaceDefectNumber>16.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0767509192228317</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0824738889932632</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>34</EC_abs>
- <defect_size>1.44526928743069</defect_size>
- <vol_abs_CGW>[202.334720082131 700.924825020851 457.211697756703 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.36948962013638</vol_abs_WMH>
- <vol_rel_WMH>0.000271589437906618</vol_rel_WMH>
- <surf_TSA>1906.88827339079</surf_TSA>
- <vol_TIV>1360.47124285969</vol_TIV>
- <vol_rel_CGW>[0.148723996294715 0.515207380310017 0.336068623395268 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.53596623871492 0.623402277628486]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.55670809745789 0.753244067093097 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.92255050826423 0.254371072371055 0.282016150006026;2.55659670349812 0.178023567513594 0.416620677843537;3.19237129517184 0.257668231765376 0.301363172150437]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.848192471892178 0.331204907985145 0.624387431536466;4.09862855871976 0.360945972728152 0.375612568463534]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.03713636187802</vol_TIV>
- <vol_rel_CGW>[0.520905105867732 7.10286243372876 3.88557154086328 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.02715894379066</vol_rel_WMH>
- <surf_TSA>8.61427429035553</surf_TSA>
- <SQR>5.81427801800841</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 12685.5210364575 0.46710951610827]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00141794863156974 0.0013723170850426 0.0417444743216038]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[841.844706111254 404.400273460959 360.489533816586 675.5685769803 985.374342484582 9989.89592476838]</SPMvols0>
- <SPMvols1>[753.972464999957 381.856865947589 187.374708602885 576.528848770095 784.206374888916 10001.7235984907]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[12.3875999450684 51.1451988220215 89.4142990112305]</T3th>
- <Tth>
- <T3th>[-1.00226998329163 -1.00227344036102 0.184989556670189 12.3875999450684 51.1451988220215 89.4142990112305 127.92765045166 181.508926391602]</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>[0.0216189380735159 0.0757811516523361 0.0836852863430977 0 0]</dtc>
- <ll>[0.0813347494759623 0 0.0813347494759623 0;0.188848635157188 0.0101782671686839 0.199026902325872 2170.4951171875;0.188848635157188 0.0101782671686839 0.199026902325872 2170.4951171875]</ll>
- <rmsdtc>[0.0473817177116871 0.0996152982115746 0.110423117876053]</rmsdtc>
- <rmsgdt>[0.0337235517799854 0.0455054864287376 0.0558567233383656]</rmsgdt>
- <rmsdt>0.110423117876053</rmsdt>
- <dt>0.0836852863430977</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>[0.0105795683339238 0.0383898206055164 0.0536299087107182 0.0621483661234379 0.0688553974032402 0.0773738771677017]</dtc>
- <ll>[0.0829135657035174 0 0.0829135657035174 0;0.215805204517705 0.0139533567994505 0.229758561317155 7142.37451171875;0.194222567499222 0.0167459955444852 0.210968563043707 12052.2939453125;0.174240460083356 0.0186963384760524 0.192936798559408 20159.73828125;0.15789101742187 0.0216055950399948 0.179496612461864 37795.8125;0.15789101742187 0.0216055950399948 0.179496612461864 37795.8125]</ll>
- <rmsdtc>[0.0123399924486876 0.0440423116087914 0.065186008810997 0.0903895050287247 0.112614408135414 0.119066685438156]</rmsdtc>
- <rmsgdt>[0.00337922479957342 0.0133051220327616 0.0293261520564556 0.0494489558041096 0.0669779106974602 0.0720777809619904]</rmsgdt>
- <rmsdt>0.119066685438156</rmsdt>
- <dt>0.0773738771677017</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0027328/ses-2/sub-0027328_ses-2_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 45s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 8s</item>
- <item>Estimate background 6s</item>
- <item>Initial correction 9s</item>
- <item>Refine background 4s</item>
- <item>Final correction 6s</item>
- <item>Final scaling 6s</item>
- <item>47s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 10s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 91s</item>
- <item>SPM preprocessing 1 (estimate 2): 83s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 20s</item>
- <item>Update Segmentation 21s</item>
- <item>Update Skull-Stripping 51s</item>
- <item>Update probability maps 11s</item>
- <item>104s</item>
- <item>Global intensity correction: 20s</item>
- <item>SANLM denoising after intensity normalization (medium): 27s</item>
- <item>Fast Optimized Shooting registration 35s</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) 16s</item>
- <item>Estimate local tissue thresholds (WM) 22s</item>
- <item>Estimate local tissue thresholds (GM) 31s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 48s</item>
- <item>127s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 8s</item>
- <item>Major structures 4s</item>
- <item>Ventricle detection 15s</item>
- <item>Blood vessel detection 10s</item>
- <item>WMH detection (WMHCstr=0.50 > 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>73s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 35s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</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 | 0.0829 0.0000 0.0829 | 32.0000</item>
- <item>2 | 2.50 | 0.0802 0.0012 0.0814 | 29.4886</item>
- <item>3 | 2.50 | 0.0793 0.0019 0.0812 | 26.9772</item>
- <item>4 | 2.50 | 0.0789 0.0021 0.0810 | 24.6107</item>
- <item>5 | 2.50 | 0.0786 0.0023 0.0809 | 22.6548</item>
- <item>6 | 2.50 | 0.0783 0.0024 0.0807 | 20.6989</item>
- <item>7 | 2.50 | 0.0780 0.0025 0.0805 | 18.9688</item>
- <item>8 | 2.50 | 0.0777 0.0026 0.0803 | 17.4455</item>
- <item>9 | 2.50 | 0.0774 0.0027 0.0801 | 15.9223</item>
- <item>10 | 2.50 | 0.0771 0.0028 0.0799 | 14.6627</item>
- <item>11 | 2.50 | 0.0768 0.0029 0.0796 | 13.4764</item>
- <item>12 | 2.50 | 0.0764 0.0029 0.0794 | 12.3015</item>
- <item>13 | 2.50 | 0.0761 0.0031 0.0791 | 11.3776</item>
- <item>14 | 2.50 | 0.0757 0.0031 0.0789 | 10.4537</item>
- <item>15 | 2.25 | 0.0748 0.0032 0.0780 | 9.5920</item>
- <item>16 | 2.25 | 0.0719 0.0047 0.0766 | 8.8725</item>
- <item>29 | 2.00 | 0.0729 0.0021 0.0750 | 3.3283</item>
- <item>30 | 2.00 | 0.0668 0.0046 0.0714 | 3.1221</item>
- <item>31 | 2.00 | 0.0647 0.0056 0.0703 | 2.9160</item>
- <item>43 | 1.75 | 0.0637 0.0032 0.0669 | 1.5785</item>
- <item>44 | 1.75 | 0.0595 0.0055 0.0649 | 1.5194</item>
- <item>45 | 1.75 | 0.0581 0.0062 0.0643 | 1.4626</item>
- <item>57 | 1.50 | 0.0567 0.0045 0.0613 | 1.0900</item>
- <item>58 | 1.50 | 0.0536 0.0066 0.0602 | 1.0730</item>
- <item>59 | 1.50 | 0.0526 0.0072 0.0598 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 174s</item>
- <item>Prepare output 12s</item>
- <item>186s</item>
- <item>Jacobian determinant (RMS): 0.012 0.044 0.065 0.090 0.113 | 0.119067</item>
- <item>Template Matching: 0.083 0.216 0.194 0.174 0.158 | 0.157891</item>
- <item>Write result maps: 44s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 24s</item>
- <item>CSF distance: 14s</item>
- <item>PBT2x thickness: 44s</item>
- <item>89s</item>
- <item>Create initial surface 87s</item>
- <item>Topology correction: 92s</item>
- <item>Surface refinement: 75s</item>
- <item>Reduction of surface collisions with optimization: 69s</item>
- <item>Spherical mapping with areal smoothing 78s</item>
- <item>Spherical registration 288s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 24s</item>
- <item>CSF distance: 14s</item>
- <item>PBT2x thickness: 42s</item>
- <item>86s</item>
- <item>Create initial surface 86s</item>
- <item>Topology correction: 91s</item>
- <item>Surface refinement: 80s</item>
- <item>Reduction of surface collisions with optimization: 69s</item>
- <item>Spherical mapping with areal smoothing 79s</item>
- <item>Spherical registration 297s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5360 0.6232 mm</item>
- <item>Surface intensity / position RMSE: 0.0768 / 0.0825</item>
- <item>Euler number / defect number / defect size: 34.0 / 16.5 / 1.45%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_673665/ds/DC_1/sub-0027328/ses-2/surf/lh.thickness.sub-0027328_ses-2_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_673665/ds/DC_1/sub-0027328/ses-2/surf/rh.thickness.sub-0027328_ses-2_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_673665/ds/DC_1/sub-0027328/ses-2/sub-0027328_ses-2_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 9s</item>
- <item>Surface and thickness estimation takes: 1667s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 11s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 41s</item>
- <item>ROI estimation of 'lpba40' atlas 12s</item>
- <item>ROI estimation of 'hammers' atlas 29s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 11s</item>
- <item>ROI estimation of 'aal3' atlas 18s</item>
- <item>ROI estimation of 'mori' atlas 28s</item>
- <item>ROI estimation of 'anatomy3' atlas 42s</item>
- <item>ROI estimation of 'julichbrain' atlas 57s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 23s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 46s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 119s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 194s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 12s</item>
- <item>Write results 13s</item>
- <item>648s</item>
- <item>Quality check: 15s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_673665/ds/DC_1/sub-0027328/ses-2/report/catreport_sub-0027328_ses-2_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 56 minute(s) and 12 second(s).</item>
- <item>Image Quality Rating (IQR): 75.62% (C)</item>
- <item>GM volume (GMV): 51.52% (700.92 / 1360.47 ml)</item>
- <item>GM thickness (GMT): 2.54 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_673665/ds/DC_1/sub-0027328/ses-2/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_673665/ds/DC_1/sub-0027328/ses-2/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_673665/ds/DC_1/sub-0027328/ses-2/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|