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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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- <species>human</species>
- <APP>1070</APP>
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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_limit>5</thick_limit>
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- <verb>2</verb>
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- <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>
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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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- <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>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_100Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_200Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_772952/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>0</td>
- <td>1</td>
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- <td>Destrieux</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_DK40.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
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- <tr>
- <td>HCP</td>
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- <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>
- <CB>3</CB>
- <BG>5</BG>
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- <ON>11</ON>
- <MB>13</MB>
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- <NV>17</NV>
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- <HI>23</HI>
- <PH>25</PH>
- <LE>27</LE>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>42</SurfaceEulerNumber>
- <SurfaceDefectArea>1.37556508081845</SurfaceDefectArea>
- <SurfaceDefectNumber>19.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0734374076128006</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0791442096233368</SurfacePositionRMSE>
- <res_vx_vol>[0.99999997247132 0.99999997247132 1]</res_vx_vol>
- <res_vx_voli>[1.00000002647634 0.999999967655151 1]</res_vx_voli>
- <res_RMS>0.999999981647547</res_RMS>
- <res_BB>0.00194629153702408</res_BB>
- <tissue_mn>[5.61399984359741 114.831001281738 256.481994628906 372.903991699219]</tissue_mn>
- <tissue_mnr>[0.0150548126548529 0.307937175035477 0.687796294689178 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[2.81378318020339 41.1324825933639 35.2384642886651 23.1139381210217]</tissue_std>
- <tissue_stdr>[0.00766093097627163 0.111989125609398 0.0959418043494225 0.0629310309886932]</tissue_stdr>
- <contrast>118.201499938965</contrast>
- <contrastr>0.316975682973862</contrastr>
- <res_ECR>0.345395088195801</res_ECR>
- <NCR>0.152714744210243</NCR>
- <ICR>0.356942653656006</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.99999994494264 1.99999994494264 2]</res_vx_vol>
- <res_RMS>1.99999996329509</res_RMS>
- <res_ECR>2.66017889976501</res_ECR>
- <res_BB>1.0009731054306</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>3.32869815826416</contrastr>
- <NCR>2.52332401275635</NCR>
- <ICR>1.34509587287903</ICR>
- <SurfaceEulerNumber>3.04081632653061</SurfaceEulerNumber>
- <SurfaceDefectArea>1.34389127020461</SurfaceDefectArea>
- <SurfaceDefectNumber>1.975</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.46874809265137</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.58288419246674</SurfacePositionRMSE>
- <SIQR>2.48817920597651</SIQR>
- <IQR>2.35614885881577</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>20231031-005659</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>42</SurfaceEulerNumber>
- <SurfaceDefectArea>1.37556508081845</SurfaceDefectArea>
- <SurfaceDefectNumber>19.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0734374076128006</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0791442096233368</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>42</EC_abs>
- <defect_size>1.37556508081845</defect_size>
- <vol_abs_CGW>[248.132837759515 776.618646422794 559.482388873532 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.43817646801679</vol_abs_WMH>
- <vol_rel_WMH>0.000276585721003167</vol_rel_WMH>
- <surf_TSA>2189.65112879124</surf_TSA>
- <vol_TIV>1584.23387305584</vol_TIV>
- <vol_rel_CGW>[0.156626393349922 0.490217170350466 0.353156436299612 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.53907110202936 0.661526389375628]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.54425716400146 0.765596926389241 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.81039570504224 0.270466699178955 0.261272002938434;2.51417057385433 0.195417118142151 0.424581131862233;3.21186466383248 0.278228237312065 0.314146865199333]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.856975308262953 0.264490800268704 0.504163834126445;4.18767248209256 0.347986923320452 0.495836165873555]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.76726047116732</vol_TIV>
- <vol_rel_CGW>[0.662830340336248 6.65404400773107 4.19246473239245 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.02765857210032</vol_rel_WMH>
- <surf_TSA>8.6238845141569</surf_TSA>
- <SQR>5.45815896682204</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.3353649499 0.346894167367876]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0105071431025863 0.00125108868815005 0.371924936771393]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[919.709186759536 511.373208763705 528.118345920338 763.290360226502 2040.83453312137 7424.70228976136]</SPMvols0>
- <SPMvols1>[767.689497455587 476.482479556697 295.843111989331 765.962658250035 1919.22342010956 7310.28272964852]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[138.422103881836 272.601806640625 361.892791748047]</T3th>
- <Tth>
- <T3th>[-5.53322982788086 10.6102600097656 7.37398386001587 138.422103881836 272.601806640625 361.892791748047 473.628143310547 1054.68737792969]</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>[0.0194971449673176 0.0664429068565369 0.0727324858307838 0 0]</dtc>
- <ll>[0.0846187290834303 0 0.0846187290834303 0;0.206126401976806 0.00950363475163014 0.215630036728437 2026.63110351562;0.206126401976806 0.00950363475163014 0.215630036728437 2026.63110351562]</ll>
- <rmsdtc>[0.0439721047878265 0.0875983461737633 0.0978134274482727]</rmsdtc>
- <rmsgdt>[0.031617034226656 0.0423911362886429 0.052437137812376]</rmsgdt>
- <rmsdt>0.0978134274482727</rmsdt>
- <dt>0.0727324858307838</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>[0.0080595975741744 0.0280543379485607 0.0393057130277157 0.0477925948798656 0.0543800741434097 0.0601008720695972]</dtc>
- <ll>[0.0836433447523938 0 0.0836433447523938 0;0.223912988400488 0.0119268515338828 0.235839839934371 6105.05712890625;0.204179479951703 0.0154847651408654 0.219664245092568 11144.5712890625;0.183574883007256 0.0182345427452442 0.2018094257525 19661.796875;0.166642074241162 0.0212596680386977 0.18790174227986 37190.6640625;0.166642074241162 0.0212596680386977 0.18790174227986 37190.6640625]</ll>
- <rmsdtc>[0.00960513763129711 0.0331932865083218 0.0497284904122353 0.0732885375618935 0.0972156897187233 0.103593610227108]</rmsdtc>
- <rmsgdt>[0.00311810150742531 0.0116287134587765 0.0255188718438148 0.0451807491481304 0.0637030899524689 0.0688198953866959]</rmsgdt>
- <rmsdt>0.103593610227108</rmsdt>
- <dt>0.0601008720695972</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025755/ses-1/sub-0025755_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 62s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 5s</item>
- <item>Estimate background 4s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 2s</item>
- <item>Final correction 4s</item>
- <item>Final scaling 5s</item>
- <item>30s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 7s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 51s</item>
- <item>SPM preprocessing 1 (estimate 2): 46s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 13s</item>
- <item>Update Segmentation 15s</item>
- <item>Update Skull-Stripping 32s</item>
- <item>Update probability maps 7s</item>
- <item>68s</item>
- <item>Global intensity correction: 12s</item>
- <item>SANLM denoising after intensity normalization (medium): 21s</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 = 1.01) 11s</item>
- <item>Estimate local tissue thresholds (WM) 14s</item>
- <item>Estimate local tissue thresholds (GM) 20s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 35s</item>
- <item>88s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 9s</item>
- <item>Blood vessel detection 7s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.04) 17s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 4s</item>
- <item>50s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 27s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 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>9s</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 | 0.0836 0.0000 0.0836 | 32.0000</item>
- <item>2 | 2.50 | 0.0814 0.0011 0.0825 | 29.4886</item>
- <item>3 | 2.50 | 0.0808 0.0016 0.0824 | 26.9772</item>
- <item>4 | 2.50 | 0.0805 0.0018 0.0823 | 24.6107</item>
- <item>5 | 2.50 | 0.0802 0.0019 0.0821 | 22.6548</item>
- <item>6 | 2.50 | 0.0800 0.0020 0.0820 | 20.6989</item>
- <item>7 | 2.50 | 0.0797 0.0021 0.0818 | 18.9688</item>
- <item>8 | 2.50 | 0.0795 0.0022 0.0817 | 17.4455</item>
- <item>9 | 2.50 | 0.0792 0.0022 0.0815 | 15.9223</item>
- <item>10 | 2.50 | 0.0790 0.0023 0.0813 | 14.6627</item>
- <item>11 | 2.50 | 0.0787 0.0024 0.0811 | 13.4764</item>
- <item>12 | 2.50 | 0.0785 0.0024 0.0809 | 12.3015</item>
- <item>13 | 2.50 | 0.0782 0.0025 0.0807 | 11.3776</item>
- <item>14 | 2.50 | 0.0779 0.0025 0.0805 | 10.4537</item>
- <item>15 | 2.25 | 0.0775 0.0026 0.0801 | 9.5920</item>
- <item>16 | 2.25 | 0.0746 0.0040 0.0786 | 8.8725</item>
- <item>29 | 2.00 | 0.0763 0.0018 0.0781 | 3.3283</item>
- <item>30 | 2.00 | 0.0702 0.0042 0.0743 | 3.1221</item>
- <item>31 | 2.00 | 0.0681 0.0052 0.0732 | 2.9160</item>
- <item>43 | 1.75 | 0.0671 0.0030 0.0701 | 1.5785</item>
- <item>44 | 1.75 | 0.0626 0.0053 0.0679 | 1.5194</item>
- <item>45 | 1.75 | 0.0612 0.0061 0.0673 | 1.4626</item>
- <item>57 | 1.50 | 0.0597 0.0044 0.0641 | 1.0900</item>
- <item>58 | 1.50 | 0.0566 0.0064 0.0630 | 1.0730</item>
- <item>59 | 1.50 | 0.0555 0.0071 0.0626 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 120s</item>
- <item>Prepare output 8s</item>
- <item>127s</item>
- <item>Jacobian determinant (RMS): 0.010 0.033 0.050 0.073 0.097 | 0.103594</item>
- <item>Template Matching: 0.084 0.224 0.204 0.184 0.167 | 0.166642</item>
- <item>Write result maps: 25s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 25s</item>
- <item>CSF distance: 12s</item>
- <item>PBT2x thickness: 36s</item>
- <item>78s</item>
- <item>Create initial surface 67s</item>
- <item>Topology correction: 79s</item>
- <item>Surface refinement: 81s</item>
- <item>Reduction of surface collisions with optimization: 58s</item>
- <item>Spherical mapping with areal smoothing 68s</item>
- <item>Spherical registration 217s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 21s</item>
- <item>CSF distance: 12s</item>
- <item>PBT2x thickness: 35s</item>
- <item>73s</item>
- <item>Create initial surface 63s</item>
- <item>Topology correction: 78s</item>
- <item>Surface refinement: 82s</item>
- <item>Reduction of surface collisions with optimization: 68s</item>
- <item>Spherical mapping with areal smoothing 125s</item>
- <item>Spherical registration 220s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5391 0.6614 mm</item>
- <item>Surface intensity / position RMSE: 0.0734 / 0.0791</item>
- <item>Euler number / defect number / defect size: 42.0 / 19.5 / 1.38%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_772952/ds/SWU_4/sub-0025755/ses-1/surf/lh.thickness.sub-0025755_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_772952/ds/SWU_4/sub-0025755/ses-1/surf/rh.thickness.sub-0025755_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_772952/ds/SWU_4/sub-0025755/ses-1/sub-0025755_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1438s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 9s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 33s</item>
- <item>ROI estimation of 'lpba40' atlas 10s</item>
- <item>ROI estimation of 'hammers' atlas 25s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 9s</item>
- <item>ROI estimation of 'aal3' atlas 15s</item>
- <item>ROI estimation of 'mori' atlas 25s</item>
- <item>ROI estimation of 'anatomy3' atlas 47s</item>
- <item>ROI estimation of 'julichbrain' atlas 57s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 24s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 48s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 103s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 155s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 13s</item>
- <item>Write results 15s</item>
- <item>577s</item>
- <item>Quality check: 12s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_772952/ds/SWU_4/sub-0025755/ses-1/report/catreport_sub-0025755_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 47 minute(s) and 54 second(s).</item>
- <item>Image Quality Rating (IQR): 81.44% (B-)</item>
- <item>GM volume (GMV): 49.02% (776.62 / 1584.23 ml)</item>
- <item>GM thickness (GMT): 2.54 0.66 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_772952/ds/SWU_4/sub-0025755/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_772952/ds/SWU_4/sub-0025755/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_772952/ds/SWU_4/sub-0025755/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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