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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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- </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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- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
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- <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>
- <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/suit.nii</td>
- <td>0</td>
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- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
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- <item>csf</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.nii</td>
- <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_541944/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>
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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>
- <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>
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- <TH>9</TH>
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- <VT>15</VT>
- <NV>17</NV>
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- <HI>23</HI>
- <PH>25</PH>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>12</SurfaceEulerNumber>
- <SurfaceDefectArea>0.291438597333589</SurfaceDefectArea>
- <SurfaceDefectNumber>11.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0595071576535702</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0558823794126511</SurfacePositionRMSE>
- <res_vx_vol>[1 1 1]</res_vx_vol>
- <res_vx_voli>[1 1 1]</res_vx_voli>
- <res_RMS>1</res_RMS>
- <res_BB>191.921096801758</res_BB>
- <tissue_mn>[8.5959997177124 78.838996887207 243.522994995117 391.842010498047]</tissue_mn>
- <tissue_mnr>[0.0219374131411314 0.201200976967812 0.621482610702515 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[15.5680227217307 39.0550365604836 42.8793378452215 26.749078730119]</tissue_std>
- <tissue_stdr>[0.0406214892864227 0.101905919611454 0.111884631216526 0.0697961077094078]</tissue_stdr>
- <contrast>139.469055175781</contrast>
- <contrastr>0.355931878089905</contrastr>
- <res_ECR>0.356922566890717</res_ECR>
- <NCR>0.147397339344025</NCR>
- <ICR>0.264645487070084</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2 2 2]</res_vx_vol>
- <res_RMS>2</res_RMS>
- <res_ECR>2.71899271011353</res_ECR>
- <res_BB>10.5</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>2.74435520172119</contrastr>
- <NCR>2.44699025154114</NCR>
- <ICR>1.11618423461914</ICR>
- <SurfaceEulerNumber>1.51020408163265</SurfaceEulerNumber>
- <SurfaceDefectArea>1.0728596493334</SurfaceDefectArea>
- <SurfaceDefectNumber>1.575</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.19014310836792</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.11764764785767</SurfacePositionRMSE>
- <SIQR>2.49664065484186</SIQR>
- <IQR>2.29542292556015</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>20231030-235115</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>12</SurfaceEulerNumber>
- <SurfaceDefectArea>0.291438597333589</SurfaceDefectArea>
- <SurfaceDefectNumber>11.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0595071576535702</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0558823794126511</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>12</EC_abs>
- <defect_size>0.291438597333589</defect_size>
- <vol_abs_CGW>[345.217839215686 666.981517647059 498.902682352941 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.248454901960784</vol_abs_WMH>
- <vol_rel_WMH>0.000164419672208067</vol_rel_WMH>
- <surf_TSA>1907.68857094601</surf_TSA>
- <vol_TIV>1511.10203921569</vol_TIV>
- <vol_rel_CGW>[0.22845435335053 0.44138747770683 0.33015816894264 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.54254736818608 0.623307581379068]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.5216429233551 0.782797738164318 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.97690628195491 0.246269218215194 0.319622638991747;2.57639140952083 0.176772198076698 0.433297972418486;3.2546057810251 0.277723591055846 0.247079388589767]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.894580557162467 0.329155209976586 0.542848398286064;4.27293445515436 0.363168083968689 0.457151601713936]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.2884879440155</vol_TIV>
- <vol_rel_CGW>[1.95284398977244 5.77707395306806 3.77942113761926 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.01644196722081</vol_rel_WMH>
- <surf_TSA>8.61438031242193</surf_TSA>
- <SQR>4.74391889076068</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11141.12 0.357564908532005]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00142970448359847 0.00118525791913271 0.207852959632874]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[800.021905882353 444.716580392157 585.606447058824 450.394164705882 813.554682352941 8547.93076470588]</SPMvols0>
- <SPMvols1>[705.431968627451 421.93337254902 340.639164705882 383.698478431373 714.12731372549 8575.40975294118]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[93.1946029663086 260.447509765625 386.633911132812]</T3th>
- <Tth>
- <T3th>[-4.82682991027832 -4.82682943344116 4.45753145217896 93.1946029663086 260.447509765625 386.633911132812 533.353576660156 891.887451171875]</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>[0.0203675962984562 0.0778474360704422 0.0867541804909706 0 0]</dtc>
- <ll>[0.0879137971106411 0 0.0879137971106411 0;0.203253316707542 0.0122243347717505 0.215477651479293 2606.81494140625;0.203253316707542 0.0122243347717505 0.215477651479293 2606.81494140625]</ll>
- <rmsdtc>[0.0450088977813721 0.105061061680317 0.11779822409153]</rmsdtc>
- <rmsgdt>[0.0320972315967083 0.0491401255130768 0.0608093440532684]</rmsgdt>
- <rmsdt>0.11779822409153</rmsdt>
- <dt>0.0867541804909706</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>[0.00973720569163561 0.0400618314743042 0.0526429228484631 0.0611256286501884 0.067540280520916 0.0762655735015869]</dtc>
- <ll>[0.0883915212457009 0 0.0883915212457009 0;0.224219627594628 0.018921688034188 0.243141315628816 9685.5390625;0.20501414541511 0.0200985369191079 0.225112682334218 14465.158203125;0.182596422215359 0.0215183884782782 0.204114810693638 23202.67578125;0.164472093396816 0.0243784081350362 0.188850501531852 42646.44140625;0.164472093396816 0.0243784081350362 0.188850501531852 42646.44140625]</ll>
- <rmsdtc>[0.0114863552153111 0.042851097881794 0.0672822743654251 0.092334009706974 0.11664143204689 0.123611085116863]</rmsdtc>
- <rmsgdt>[0.00355516979470849 0.0140045080333948 0.0304284207522869 0.0509401336312294 0.0706541538238525 0.0754080191254616]</rmsgdt>
- <rmsdt>0.123611085116863</rmsdt>
- <dt>0.0762655735015869</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025605/ses-1/sub-0025605_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 35s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 4s</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>24s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 5s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 59s</item>
- <item>SPM preprocessing 1 (estimate 2): 43s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 13s</item>
- <item>Update Segmentation 14s</item>
- <item>Update Skull-Stripping 29s</item>
- <item>Update probability maps 7s</item>
- <item>63s</item>
- <item>Global intensity correction: 12s</item>
- <item>SANLM denoising after intensity normalization (medium): 23s</item>
- <item>Fast Optimized Shooting registration 26s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 3s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.05) 11s</item>
- <item>Estimate local tissue thresholds (WM) 13s</item>
- <item>Estimate local tissue thresholds (GM) 20s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 29s</item>
- <item>80s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 8s</item>
- <item>Blood vessel detection 7s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.15) 15s</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>45s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 26s</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) 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 | 0.0884 0.0000 0.0884 | 32.0000</item>
- <item>2 | 2.50 | 0.0852 0.0014 0.0866 | 29.4886</item>
- <item>3 | 2.50 | 0.0843 0.0021 0.0864 | 26.9772</item>
- <item>4 | 2.50 | 0.0838 0.0024 0.0862 | 24.6107</item>
- <item>5 | 2.50 | 0.0834 0.0025 0.0860 | 22.6548</item>
- <item>6 | 2.50 | 0.0831 0.0027 0.0858 | 20.6989</item>
- <item>7 | 2.50 | 0.0828 0.0028 0.0855 | 18.9688</item>
- <item>8 | 2.50 | 0.0824 0.0029 0.0853 | 17.4455</item>
- <item>9 | 2.50 | 0.0820 0.0030 0.0850 | 15.9223</item>
- <item>10 | 2.50 | 0.0816 0.0031 0.0848 | 14.6627</item>
- <item>11 | 2.50 | 0.0812 0.0032 0.0845 | 13.4764</item>
- <item>12 | 2.50 | 0.0808 0.0033 0.0841 | 12.3015</item>
- <item>13 | 2.50 | 0.0804 0.0035 0.0839 | 11.3776</item>
- <item>14 | 2.50 | 0.0800 0.0035 0.0835 | 10.4537</item>
- <item>15 | 2.25 | 0.0807 0.0036 0.0843 | 9.5920</item>
- <item>16 | 2.25 | 0.0772 0.0054 0.0825 | 8.8725</item>
- <item>17 | 2.25 | 0.0757 0.0060 0.0817 | 8.1530</item>
- <item>18 | 2.25 | 0.0747 0.0063 0.0810 | 7.5234</item>
- <item>29 | 2.00 | 0.0766 0.0030 0.0796 | 3.3283</item>
- <item>30 | 2.00 | 0.0705 0.0057 0.0762 | 3.1221</item>
- <item>31 | 2.00 | 0.0683 0.0067 0.0750 | 2.9160</item>
- <item>43 | 1.75 | 0.0671 0.0038 0.0710 | 1.5785</item>
- <item>44 | 1.75 | 0.0624 0.0063 0.0688 | 1.5194</item>
- <item>45 | 1.75 | 0.0609 0.0072 0.0680 | 1.4626</item>
- <item>57 | 1.50 | 0.0593 0.0052 0.0646 | 1.0900</item>
- <item>58 | 1.50 | 0.0559 0.0075 0.0634 | 1.0730</item>
- <item>59 | 1.50 | 0.0548 0.0081 0.0630 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 132s</item>
- <item>Prepare output 7s</item>
- <item>139s</item>
- <item>Jacobian determinant (RMS): 0.011 0.043 0.067 0.092 0.117 | 0.123611</item>
- <item>Template Matching: 0.088 0.224 0.205 0.183 0.164 | 0.164472</item>
- <item>Write result maps: 28s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 46s</item>
- <item>CSF distance: 11s</item>
- <item>PBT2x thickness: 33s</item>
- <item>95s</item>
- <item>Create initial surface 59s</item>
- <item>Topology correction: 68s</item>
- <item>Surface refinement: 48s</item>
- <item>Reduction of surface collisions with optimization: 43s</item>
- <item>Spherical mapping with areal smoothing 57s</item>
- <item>Spherical registration 209s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 33s</item>
- <item>CSF distance: 11s</item>
- <item>PBT2x thickness: 32s</item>
- <item>80s</item>
- <item>Create initial surface 59s</item>
- <item>Topology correction: 69s</item>
- <item>Surface refinement: 66s</item>
- <item>Reduction of surface collisions with optimization: 45s</item>
- <item>Spherical mapping with areal smoothing 64s</item>
- <item>Spherical registration 217s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5425 0.6233 mm</item>
- <item>Surface intensity / position RMSE: 0.0595 / 0.0559</item>
- <item>Euler number / defect number / defect size: 12.0 / 11.5 / 0.29%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_541944/ds/JHNU/sub-0025605/ses-1/surf/lh.thickness.sub-0025605_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_541944/ds/JHNU/sub-0025605/ses-1/surf/rh.thickness.sub-0025605_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_541944/ds/JHNU/sub-0025605/ses-1/sub-0025605_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1249s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 7s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 26s</item>
- <item>ROI estimation of 'lpba40' atlas 7s</item>
- <item>ROI estimation of 'hammers' atlas 19s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 7s</item>
- <item>ROI estimation of 'aal3' atlas 11s</item>
- <item>ROI estimation of 'mori' atlas 18s</item>
- <item>ROI estimation of 'anatomy3' atlas 30s</item>
- <item>ROI estimation of 'julichbrain' atlas 40s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 17s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 37s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 79s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 115s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 9s</item>
- <item>Write results 10s</item>
- <item>424s</item>
- <item>Quality check: 10s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_541944/ds/JHNU/sub-0025605/ses-1/report/catreport_sub-0025605_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 39 minute(s) and 31 second(s).</item>
- <item>Image Quality Rating (IQR): 82.05% (B-)</item>
- <item>GM volume (GMV): 44.14% (666.98 / 1511.10 ml)</item>
- <item>GM thickness (GMT): 2.54 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_541944/ds/JHNU/sub-0025605/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_541944/ds/JHNU/sub-0025605/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_541944/ds/JHNU/sub-0025605/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|