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- <uhrlim>1.4</uhrlim>
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- <restype>optimal</restype>
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- <species>human</species>
- <APP>1070</APP>
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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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- <add_parahipp>0.1</add_parahipp>
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- <expertgui>1</expertgui>
- <subfolders>1</subfolders>
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- <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>
- <item>gm</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>
- <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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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
- <td>0</td>
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- <item>csf</item>
- <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/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>
- <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/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_2276438/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>
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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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- <CT>1</CT>
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- <VT>15</VT>
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- <PH>25</PH>
- <LE>27</LE>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_GS.nii</item>
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- </templates>
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- <qualitymeasures>
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- <SurfaceEulerNumber>12</SurfaceEulerNumber>
- <SurfaceDefectArea>0.516502451695415</SurfaceDefectArea>
- <SurfaceDefectNumber>11</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0566134005784988</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0546473935246468</SurfacePositionRMSE>
- <res_vx_vol>[0.999999978177199 0.999999980976474 1.00000001476031]</res_vx_vol>
- <res_vx_voli>[0.999999978360321 0.999999980836525 1.00000001404275]</res_vx_voli>
- <res_RMS>0.999999991304663</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[10.5815000534058 67.1230010986328 210.04899597168 319.191009521484]</tissue_mn>
- <tissue_mnr>[0.0331509970128536 0.210291013121605 0.658066749572754 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[7.80465607628768 34.7040792337203 34.4395220467659 20.9662527401042]</tissue_std>
- <tissue_stdr>[0.0252897460013628 0.112453050911427 0.111595794558525 0.0679378062486649]</tissue_stdr>
- <contrast>112.884239196777</contrast>
- <contrastr>0.353657335042953</contrastr>
- <res_ECR>0.410142302513123</res_ECR>
- <NCR>0.149676918983459</NCR>
- <ICR>0.291241407394409</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.9999999563544 1.99999996195295 2.00000002952063]</res_vx_vol>
- <res_RMS>1.99999998260933</res_RMS>
- <res_ECR>2.9905219078064</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>2.77847337722778</contrastr>
- <NCR>2.4797146320343</NCR>
- <ICR>1.18214631080627</ICR>
- <SurfaceEulerNumber>1.51020408163265</SurfaceEulerNumber>
- <SurfaceDefectArea>1.12912561292385</SurfaceDefectArea>
- <SurfaceDefectNumber>1.55</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.13226795196533</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.09294784069061</SurfacePositionRMSE>
- <SIQR>2.68413073442669</SIQR>
- <IQR>2.3212155413411</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>20231031-013851</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>12</SurfaceEulerNumber>
- <SurfaceDefectArea>0.516502451695415</SurfaceDefectArea>
- <SurfaceDefectNumber>11</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0566134005784988</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0546473935246468</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>12</EC_abs>
- <defect_size>0.516502451695415</defect_size>
- <vol_abs_CGW>[335.277594949404 532.411366144612 430.979580623674 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.707035275197096</vol_abs_WMH>
- <vol_rel_WMH>0.000544430894015445</vol_rel_WMH>
- <surf_TSA>1550.24240419835</surf_TSA>
- <vol_TIV>1298.66854171769</vol_TIV>
- <vol_rel_CGW>[0.258170259907849 0.409967092481054 0.331862647611096 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.41126048638213 0.663442184373265]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.39634823799133 0.864262337681609 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.69645379777017 0.332502279989449 0.281559102140023;2.41286012186435 0.19876324973518 0.473243676107235;3.17020170562412 0.324110998795429 0.245197221752742]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.699511972214671 0.148283280994052 0.515893313847278;4.28502028927113 0.349655026471147 0.484106686152722]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.24075336744997</vol_TIV>
- <vol_rel_CGW>[2.48653484029902 5.2127710574902 3.81003318267055 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.05444308940154</vol_rel_WMH>
- <surf_TSA>8.09914301903401</surf_TSA>
- <SQR>4.30608400578</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 10813.4397179205 0.431524270701776]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00137978815473616 0.00120568973943591 0.0471456311643124]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[634.09639087446 396.230695279058 509.85812753246 351.653720001368 795.512872829399 8537.11945781772]</SPMvols0>
- <SPMvols1>[555.637483170131 373.546268435122 335.855057679049 416.113212394053 664.390719475536 8467.93131457118]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[82.3862991333008 219.202697753906 309.105407714844]</T3th>
- <Tth>
- <T3th>[-4.33907985687256 -4.33908367156982 4.28972005844116 82.3862991333008 219.202697753906 309.105407714844 422.464965820312 771.254821777344]</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>[0.0231435913592577 0.0913228839635849 0.103848107159138 0 0]</dtc>
- <ll>[0.0899325000996492 0 0.0899325000996492 0;0.202468578984328 0.0138576777757001 0.216326256760028 2955.1220703125;0.202468578984328 0.0138576777757001 0.216326256760028 2955.1220703125]</ll>
- <rmsdtc>[0.0490227416157722 0.12659116089344 0.14273127913475]</rmsdtc>
- <rmsgdt>[0.0346182622015476 0.0579640828073025 0.0716331228613853]</rmsgdt>
- <rmsdt>0.14273127913475</rmsdt>
- <dt>0.103848107159138</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>[0.011080963537097 0.044613029807806 0.0627326145768166 0.0728245005011559 0.0794718116521835 0.0913865342736244]</dtc>
- <ll>[0.0883222886636168 0 0.0883222886636168 0;0.224023946886447 0.0184603823260073 0.242484329212454 9449.408203125;0.200383712512783 0.0201283448492244 0.220512057362007 14486.611328125;0.177726289145967 0.0210529139012466 0.198779203047213 22700.767578125;0.160311680232635 0.0231965091165134 0.183508189349148 40578.8828125;0.160311680232635 0.0231965091165134 0.183508189349148 40578.8828125]</ll>
- <rmsdtc>[0.0130428737029433 0.0499874502420425 0.0799871832132339 0.110864654183388 0.136793062090874 0.144806444644928]</rmsdtc>
- <rmsgdt>[0.00371933402493596 0.0152415102347732 0.0329549722373486 0.0550632029771805 0.0740263387560844 0.0801249668002129]</rmsgdt>
- <rmsdt>0.144806444644928</rmsdt>
- <dt>0.0913865342736244</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0026182/ses-2/sub-0026182_ses-2_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 38s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 5s</item>
- <item>Estimate background 4s</item>
- <item>Initial correction 4s</item>
- <item>Refine background 2s</item>
- <item>Final correction 3s</item>
- <item>Final scaling 3s</item>
- <item>27s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 7s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 55s</item>
- <item>SPM preprocessing 1 (estimate 2): 43s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 12s</item>
- <item>Update Segmentation 14s</item>
- <item>Update Skull-Stripping 29s</item>
- <item>Update probability maps 6s</item>
- <item>62s</item>
- <item>Global intensity correction: 11s</item>
- <item>SANLM denoising after intensity normalization (medium): 18s</item>
- <item>Fast Optimized Shooting registration 25s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 2s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.00) 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) 28s</item>
- <item>74s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 5s</item>
- <item>Major structures 2s</item>
- <item>Ventricle detection 7s</item>
- <item>Blood vessel detection 6s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.26) 12s</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>39s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 24s</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) 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>8s</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 | 0.0883 0.0000 0.0883 | 32.0000</item>
- <item>2 | 2.50 | 0.0853 0.0013 0.0866 | 29.4886</item>
- <item>3 | 2.50 | 0.0844 0.0020 0.0864 | 26.9772</item>
- <item>4 | 2.50 | 0.0839 0.0023 0.0862 | 24.6107</item>
- <item>5 | 2.50 | 0.0836 0.0025 0.0860 | 22.6548</item>
- <item>6 | 2.50 | 0.0832 0.0026 0.0858 | 20.6989</item>
- <item>7 | 2.50 | 0.0829 0.0027 0.0856 | 18.9688</item>
- <item>8 | 2.50 | 0.0825 0.0028 0.0854 | 17.4455</item>
- <item>9 | 2.50 | 0.0822 0.0029 0.0851 | 15.9223</item>
- <item>10 | 2.50 | 0.0818 0.0031 0.0849 | 14.6627</item>
- <item>11 | 2.50 | 0.0814 0.0032 0.0846 | 13.4764</item>
- <item>12 | 2.50 | 0.0810 0.0033 0.0843 | 12.3015</item>
- <item>13 | 2.50 | 0.0806 0.0034 0.0840 | 11.3776</item>
- <item>14 | 2.50 | 0.0802 0.0035 0.0837 | 10.4537</item>
- <item>15 | 2.25 | 0.0800 0.0036 0.0837 | 9.5920</item>
- <item>16 | 2.25 | 0.0763 0.0054 0.0817 | 8.8725</item>
- <item>17 | 2.25 | 0.0747 0.0062 0.0808 | 8.1530</item>
- <item>29 | 2.00 | 0.0755 0.0028 0.0783 | 3.3283</item>
- <item>30 | 2.00 | 0.0690 0.0056 0.0746 | 3.1221</item>
- <item>31 | 2.00 | 0.0668 0.0067 0.0735 | 2.9160</item>
- <item>43 | 1.75 | 0.0652 0.0039 0.0690 | 1.5785</item>
- <item>44 | 1.75 | 0.0607 0.0062 0.0669 | 1.5194</item>
- <item>45 | 1.75 | 0.0592 0.0070 0.0663 | 1.4626</item>
- <item>57 | 1.50 | 0.0574 0.0052 0.0626 | 1.0900</item>
- <item>58 | 1.50 | 0.0544 0.0071 0.0615 | 1.0730</item>
- <item>59 | 1.50 | 0.0534 0.0077 0.0612 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 139s</item>
- <item>Prepare output 7s</item>
- <item>146s</item>
- <item>Jacobian determinant (RMS): 0.013 0.050 0.080 0.111 0.137 | 0.144806</item>
- <item>Template Matching: 0.088 0.224 0.200 0.178 0.160 | 0.160312</item>
- <item>Write result maps: 30s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 41s</item>
- <item>CSF distance: 10s</item>
- <item>PBT2x thickness: 27s</item>
- <item>82s</item>
- <item>Create initial surface 49s</item>
- <item>Topology correction: 49s</item>
- <item>Surface refinement: 42s</item>
- <item>Reduction of surface collisions with optimization: 35s</item>
- <item>Spherical mapping with areal smoothing 49s</item>
- <item>Spherical registration 210s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 23s</item>
- <item>CSF distance: 9s</item>
- <item>PBT2x thickness: 27s</item>
- <item>64s</item>
- <item>Create initial surface 49s</item>
- <item>Topology correction: 49s</item>
- <item>Surface refinement: 41s</item>
- <item>Reduction of surface collisions with optimization: 34s</item>
- <item>Spherical mapping with areal smoothing 51s</item>
- <item>Spherical registration 207s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4113 0.6634 mm</item>
- <item>Surface intensity / position RMSE: 0.0566 / 0.0546</item>
- <item>Euler number / defect number / defect size: 12.0 / 11.0 / 0.52%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2276438/ds/UM/sub-0026182/ses-2/surf/lh.thickness.sub-0026182_ses-2_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2276438/ds/UM/sub-0026182/ses-2/surf/rh.thickness.sub-0026182_ses-2_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2276438/ds/UM/sub-0026182/ses-2/sub-0026182_ses-2_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 6s</item>
- <item>Surface and thickness estimation takes: 1074s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 7s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 25s</item>
- <item>ROI estimation of 'lpba40' atlas 7s</item>
- <item>ROI estimation of 'hammers' atlas 18s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 6s</item>
- <item>ROI estimation of 'aal3' atlas 11s</item>
- <item>ROI estimation of 'mori' atlas 16s</item>
- <item>ROI estimation of 'anatomy3' atlas 23s</item>
- <item>ROI estimation of 'julichbrain' atlas 29s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 13s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 25s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 54s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 75s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 7s</item>
- <item>Write results 8s</item>
- <item>321s</item>
- <item>Quality check: 9s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_2276438/ds/UM/sub-0026182/ses-2/report/catreport_sub-0026182_ses-2_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 34 minute(s) and 37 second(s).</item>
- <item>Image Quality Rating (IQR): 81.79% (B-)</item>
- <item>GM volume (GMV): 41.00% (532.41 / 1298.67 ml)</item>
- <item>GM thickness (GMT): 2.41 0.66 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2276438/ds/UM/sub-0026182/ses-2/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2276438/ds/UM/sub-0026182/ses-2/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2276438/ds/UM/sub-0026182/ses-2/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|