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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/tpm/TPM.nii</item>
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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>
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- <bids_folder>../derivatives/CAT12.8.1_2040</bids_folder>
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- <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>
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- </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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- <thick_measure>1</thick_measure>
- <thick_limit>5</thick_limit>
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- <add_parahipp>0.1</add_parahipp>
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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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- <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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- <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>
- <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_3344642/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>
- </tr>
- <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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- <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>
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- <CT>1</CT>
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- <VT>15</VT>
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- <HD>21</HD>
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- <PH>25</PH>
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- </shootingtpms>
- <templates>
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- </templates>
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- <AMAPframing>1</AMAPframing>
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- <qualitymeasures>
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- <SurfaceEulerNumber>18</SurfaceEulerNumber>
- <SurfaceDefectArea>0.55162486102837</SurfaceDefectArea>
- <SurfaceDefectNumber>10</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0624696984887123</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0615833625197411</SurfacePositionRMSE>
- <res_vx_vol>[0.999900817871094 1 1]</res_vx_vol>
- <res_vx_voli>[0.999900817871094 1 1]</res_vx_voli>
- <res_RMS>0.999966940383411</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[0 17.8460006713867 189.813003540039 354.748992919922]</tissue_mn>
- <tissue_mnr>[0 0.0503059923648834 0.535062849521637 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[3.177257059639 42.4832685869104 44.9314492521449 29.2245933587617]</tissue_std>
- <tissue_stdr>[0.00895635224878788 0.119755856692791 0.126657024025917 0.082381047308445]</tissue_stdr>
- <contrast>120.737373352051</contrast>
- <contrastr>0.340345919132233</contrastr>
- <res_ECR>0.401171743869781</res_ECR>
- <NCR>0.120526641607285</NCR>
- <ICR>0.249771282076836</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.99980163574219 2 2]</res_vx_vol>
- <res_RMS>1.99993388076682</res_RMS>
- <res_ECR>2.94475364685059</res_ECR>
- <res_BB>1</res_BB>
- <tissue_mn>[1.89584374427795 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>2.97814464569092</contrastr>
- <NCR>2.06124949455261</NCR>
- <ICR>1.07929384708405</ICR>
- <SurfaceEulerNumber>1.81632653061224</SurfaceEulerNumber>
- <SurfaceDefectArea>1.13790621525709</SurfaceDefectArea>
- <SurfaceDefectNumber>1.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.24939393997192</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.23166728019714</SurfacePositionRMSE>
- <SIQR>2.59851638597259</SIQR>
- <IQR>2.03220814700778</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>20231031-003929</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>18</SurfaceEulerNumber>
- <SurfaceDefectArea>0.55162486102837</SurfaceDefectArea>
- <SurfaceDefectNumber>10</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0624696984887123</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0615833625197411</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>18</EC_abs>
- <defect_size>0.55162486102837</defect_size>
- <vol_abs_CGW>[449.656440830425 553.028767518167 459.262903632759 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.436756677246094</vol_abs_WMH>
- <vol_rel_WMH>0.000298749780287459</vol_rel_WMH>
- <surf_TSA>1607.63783083119</surf_TSA>
- <vol_TIV>1461.94811198135</vol_TIV>
- <vol_rel_CGW>[0.307573461154524 0.378282076488103 0.314144462357373 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.33942943618592 0.595798046453413]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.31430506706238 0.695992862983518 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.78882724498065 0.228111291937459 0.344699237156759;2.38233486341246 0.171473946105516 0.420454022194594;3.01871380534481 0.255460266013622 0.234846740648647]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.893410385203021 0.274454863261077 0.470461013090495;3.97034272062092 0.381269712797351 0.529538986909505]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.09088402328463</vol_TIV>
- <vol_rel_CGW>[3.37380497763153 4.64371545416851 3.49181864865972 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.02987497802875</vol_rel_WMH>
- <surf_TSA>8.31229987024382</surf_TSA>
- <SQR>3.87678961965137</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11533.192 0.488785989721103]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0012701713712886 0.00113238010089844 0.0562643148005009]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[732.628693824678 402.412068269139 560.338375797077 1048.44674760287 971.934721294986 8499.95201029579]</SPMvols0>
- <SPMvols1>[624.012601001904 375.911206745641 450.53783967725 297.329773941549 875.471121081782 8909.94797336231]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[41.7028007507324 198.769393920898 351.847412109375]</T3th>
- <Tth>
- <T3th>[-5.03874015808105 -5.03873872756958 1.74554002285004 41.7028007507324 198.769393920898 351.847412109375 506.919738769531 970.987365722656]</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>[0.0233780927956104 0.0925908982753754 0.104935236275196 0 0]</dtc>
- <ll>[0.08842203873737 0 0.08842203873737 0;0.19620868366878 0.0142811286349256 0.210489812303706 3045.42211914062;0.19620868366878 0.0142811286349256 0.210489812303706 3045.42211914062]</ll>
- <rmsdtc>[0.0481820963323116 0.122350201010704 0.141490921378136]</rmsdtc>
- <rmsgdt>[0.0337045453488827 0.0537596270442009 0.0708423554897308]</rmsgdt>
- <rmsdt>0.141490921378136</rmsdt>
- <dt>0.104935236275196</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>[0.0119061209261417 0.0582068897783756 0.0700629577040672 0.0792165473103523 0.0854059308767319 0.0988494977355003]</dtc>
- <ll>[0.0914283738637537 0 0.0914283738637537 0;0.224211767399267 0.0248094341422466 0.249021201541514 12699.3291015625;0.206788010343026 0.0255213684866308 0.232309378829657 18368.03515625;0.182198940179287 0.0254510732797476 0.207650013459034 27443.1796875;0.164535581154861 0.0278448303458479 0.192380411500709 48710.4375;0.164535581154861 0.0278448303458479 0.192380411500709 48710.4375]</ll>
- <rmsdtc>[0.013980932533741 0.0542872361838818 0.0909775868058205 0.119383834302425 0.146481618285179 0.154568657279015]</rmsdtc>
- <rmsgdt>[0.00383338332176208 0.0161324236541986 0.0365033447742462 0.0601654388010502 0.0818785279989243 0.0877526924014091]</rmsgdt>
- <rmsdt>0.154568657279015</rmsdt>
- <dt>0.0988494977355003</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0027229/ses-1/sub-0027229_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 44s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 7s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 4s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 5s</item>
- <item>41s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 10s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 86s</item>
- <item>SPM preprocessing 1 (estimate 2): 81s</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 10s</item>
- <item>103s</item>
- <item>Global intensity correction: 20s</item>
- <item>SANLM denoising after intensity normalization (medium): 30s</item>
- <item>Fast Optimized Shooting registration 43s</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) 17s</item>
- <item>Estimate local tissue thresholds (WM) 22s</item>
- <item>Estimate local tissue thresholds (GM) 33s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 51s</item>
- <item>133s</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 13s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.28) 24s</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>77s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 40s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.67 0.08,0.99 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>13s</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 | 0.0914 0.0000 0.0914 | 32.0000</item>
- <item>2 | 2.50 | 0.0877 0.0015 0.0892 | 29.4886</item>
- <item>3 | 2.50 | 0.0865 0.0023 0.0888 | 26.9772</item>
- <item>4 | 2.50 | 0.0859 0.0027 0.0886 | 24.6107</item>
- <item>5 | 2.50 | 0.0855 0.0029 0.0884 | 22.6548</item>
- <item>6 | 2.50 | 0.0851 0.0030 0.0881 | 20.6989</item>
- <item>7 | 2.50 | 0.0846 0.0032 0.0878 | 18.9688</item>
- <item>8 | 2.50 | 0.0842 0.0034 0.0875 | 17.4455</item>
- <item>9 | 2.50 | 0.0837 0.0035 0.0872 | 15.9223</item>
- <item>10 | 2.50 | 0.0832 0.0037 0.0869 | 14.6627</item>
- <item>11 | 2.50 | 0.0827 0.0038 0.0866 | 13.4764</item>
- <item>12 | 2.50 | 0.0822 0.0039 0.0862 | 12.3015</item>
- <item>13 | 2.50 | 0.0817 0.0041 0.0858 | 11.3776</item>
- <item>14 | 2.50 | 0.0812 0.0043 0.0854 | 10.4537</item>
- <item>15 | 2.25 | 0.0848 0.0044 0.0892 | 9.5920</item>
- <item>16 | 2.25 | 0.0807 0.0065 0.0872 | 8.8725</item>
- <item>17 | 2.25 | 0.0788 0.0074 0.0861 | 8.1530</item>
- <item>18 | 2.25 | 0.0775 0.0078 0.0853 | 7.5234</item>
- <item>19 | 2.25 | 0.0765 0.0081 0.0845 | 6.9630</item>
- <item>20 | 2.25 | 0.0756 0.0081 0.0837 | 6.4027</item>
- <item>21 | 2.25 | 0.0747 0.0083 0.0830 | 5.9447</item>
- <item>29 | 2.00 | 0.0767 0.0050 0.0817 | 3.3283</item>
- <item>30 | 2.00 | 0.0712 0.0075 0.0787 | 3.1221</item>
- <item>31 | 2.00 | 0.0689 0.0085 0.0774 | 2.9160</item>
- <item>43 | 1.75 | 0.0675 0.0049 0.0724 | 1.5785</item>
- <item>44 | 1.75 | 0.0625 0.0076 0.0701 | 1.5194</item>
- <item>45 | 1.75 | 0.0607 0.0085 0.0692 | 1.4626</item>
- <item>57 | 1.50 | 0.0595 0.0063 0.0658 | 1.0900</item>
- <item>58 | 1.50 | 0.0560 0.0086 0.0646 | 1.0730</item>
- <item>59 | 1.50 | 0.0548 0.0093 0.0641 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 224s</item>
- <item>Prepare output 14s</item>
- <item>238s</item>
- <item>Jacobian determinant (RMS): 0.014 0.054 0.091 0.119 0.146 | 0.154569</item>
- <item>Template Matching: 0.091 0.224 0.207 0.182 0.165 | 0.164536</item>
- <item>Write result maps: 46s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 55s</item>
- <item>CSF distance: 19s</item>
- <item>PBT2x thickness: 52s</item>
- <item>132s</item>
- <item>Create initial surface 89s</item>
- <item>Topology correction: 80s</item>
- <item>Surface refinement: 89s</item>
- <item>Reduction of surface collisions with optimization: 57s</item>
- <item>Spherical mapping with areal smoothing 86s</item>
- <item>Spherical registration 322s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 42s</item>
- <item>CSF distance: 17s</item>
- <item>PBT2x thickness: 51s</item>
- <item>116s</item>
- <item>Create initial surface 85s</item>
- <item>Topology correction: 80s</item>
- <item>Surface refinement: 95s</item>
- <item>Reduction of surface collisions with optimization: 56s</item>
- <item>Spherical mapping with areal smoothing 83s</item>
- <item>Spherical registration 340s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.3394 0.5957 mm</item>
- <item>Surface intensity / position RMSE: 0.0625 / 0.0616</item>
- <item>Euler number / defect number / defect size: 18.0 / 10.0 / 0.55%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3344642/ds/IBA_TRT/sub-0027229/ses-1/surf/lh.thickness.sub-0027229_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3344642/ds/IBA_TRT/sub-0027229/ses-1/surf/rh.thickness.sub-0027229_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_3344642/ds/IBA_TRT/sub-0027229/ses-1/sub-0027229_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 9s</item>
- <item>Surface and thickness estimation takes: 1814s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 9s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 34s</item>
- <item>ROI estimation of 'lpba40' atlas 10s</item>
- <item>ROI estimation of 'hammers' atlas 24s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 9s</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 40s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 16s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 28s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 66s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 119s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 11s</item>
- <item>Write results 13s</item>
- <item>433s</item>
- <item>Quality check: 16s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_3344642/ds/IBA_TRT/sub-0027229/ses-1/report/catreport_sub-0027229_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 56 minute(s) and 25 second(s).</item>
- <item>Image Quality Rating (IQR): 84.68% (B)</item>
- <item>GM volume (GMV): 37.83% (553.03 / 1461.95 ml)</item>
- <item>GM thickness (GMT): 2.34 0.60 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_3344642/ds/IBA_TRT/sub-0027229/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_3344642/ds/IBA_TRT/sub-0027229/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_3344642/ds/IBA_TRT/sub-0027229/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|