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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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- <spm_kamap>0</spm_kamap>
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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_2040</bids_folder>
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- <nproc>1</nproc>
- <species>human</species>
- <APP>1070</APP>
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- <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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- <reduce_mesh>1</reduce_mesh>
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- <thick_limit>5</thick_limit>
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- <verb>2</verb>
- <ignoreErrors>1</ignoreErrors>
- <expertgui>1</expertgui>
- <subfolders>1</subfolders>
- <experimental>0</experimental>
- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii</td>
- <td>0</td>
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- <item>csf</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
- <td>0</td>
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- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii</td>
- <td>0</td>
- <td>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/hammers.nii</td>
- <td>0</td>
- <td>
- <item>csf</item>
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- <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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- <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>[false]</td>
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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>
- <td>
- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_3516551/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <item>csf</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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- <tr>
- <td>Schaefer2018_100P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_100Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_200P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_200Parcels_17Networks_order.annot</td>
- <td>0</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_400P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_400Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
- </tr>
- <tr>
- <td>Schaefer2018_600P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_600Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
- </tr>
- </satlas>
- <LAB>
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- <CT>1</CT>
- <CB>3</CB>
- <BG>5</BG>
- <BV>7</BV>
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- <MB>13</MB>
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- <VT>15</VT>
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- <HD>21</HD>
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- <PH>25</PH>
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- </darteltpms>
- <shootingtpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <version_segment>1639</version_segment>
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- <SurfaceEulerNumber>36</SurfaceEulerNumber>
- <SurfaceDefectArea>1.65472418537357</SurfaceDefectArea>
- <SurfaceDefectNumber>17.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0734692215919495</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0890102908015251</SurfacePositionRMSE>
- <res_vx_vol>[1.00000001437265 0.976562541933051 0.9765625]</res_vx_vol>
- <res_vx_voli>[1.00000001268251 0.976562542453094 0.9765625]</res_vx_voli>
- <res_RMS>0.984437020748117</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[4.85699987411499 131.197006225586 304.444000244141 440.118011474609]</tissue_mn>
- <tissue_mnr>[0.0110356761142612 0.29809507727623 0.69173264503479 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[52.2138056523093 52.8011531275099 42.1729538308681 27.8055807745131]</tissue_std>
- <tissue_stdr>[0.119959756731987 0.121309168636799 0.0968911796808243 0.0638825446367264]</tissue_stdr>
- <contrast>137.187973022461</contrast>
- <contrastr>0.311707228422165</contrastr>
- <res_ECR>0.299178540706635</res_ECR>
- <NCR>0.143564209342003</NCR>
- <ICR>0.305211424827576</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000002874529 1.9531250838661 1.953125]</res_vx_vol>
- <res_RMS>1.96887404149623</res_RMS>
- <res_ECR>2.4243803024292</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>3.40772485733032</contrastr>
- <NCR>2.39196395874023</NCR>
- <ICR>1.21679425239563</ICR>
- <SurfaceEulerNumber>2.73469387755102</SurfaceEulerNumber>
- <SurfaceDefectArea>1.41368104634339</SurfaceDefectArea>
- <SurfaceDefectNumber>1.875</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.46938443183899</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.78020572662354</SurfacePositionRMSE>
- <SIQR>2.31688164865049</SIQR>
- <IQR>2.24649967929425</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>20231031-041116</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>36</SurfaceEulerNumber>
- <SurfaceDefectArea>1.65472418537357</SurfaceDefectArea>
- <SurfaceDefectNumber>17.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0734692215919495</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0890102908015251</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>36</EC_abs>
- <defect_size>1.65472418537357</defect_size>
- <vol_abs_CGW>[264.896721848941 659.643591729438 419.029106034331 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.461828968326148</vol_abs_WMH>
- <vol_rel_WMH>0.000343732866783521</vol_rel_WMH>
- <surf_TSA>1870.11271387836</surf_TSA>
- <vol_TIV>1343.56941961271</vol_TIV>
- <vol_rel_CGW>[0.197158939450481 0.4909635349691 0.311877525580419 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.55901908858501 0.668259316717646]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.58884239196777 0.86666598646044 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.8910695904609 0.313979584566889 0.281243931174666;2.60541833299111 0.195918332843574 0.443506518727586;3.31246753990838 0.317457598361279 0.275249550097749]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.74931815757764 0.274395908673725 0.650939813935827;4.29113761854133 0.291635536231246 0.349060186064173]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.07549233209882</vol_TIV>
- <vol_rel_CGW>[1.3907855504756 6.66744854470366 3.45110498528051 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03437328667835</vol_rel_WMH>
- <surf_TSA>8.60806140417998</surf_TSA>
- <SQR>5.45591494564926</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11000.000630433 0.383520628069875]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00138118071481586 0.00127022352535278 0.00795257184654474]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[779.581304458129 375.513823409467 411.57569204516 772.005281604076 633.299418090264 8574.3076127855]</SPMvols0>
- <SPMvols1>[691.306470908166 347.985249781095 266.73358844307 631.974712031797 551.864696152 8511.79802017356]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[151.735595703125 323.027008056641 426.065185546875]</T3th>
- <Tth>
- <T3th>[-6.26629018783569 -6.26628541946411 2.70218753814697 151.735595703125 323.027008056641 426.065185546875 563.22998046875 1083.95007324219]</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>[0.0186265408992767 0.0730645135045052 0.0814613997936249 0 0]</dtc>
- <ll>[0.0867740162471238 0 0.0867740162471238 0;0.202234604779412 0.0118969462785114 0.214131551057923 2537;0.202234604779412 0.0118969462785114 0.214131551057923 2537]</ll>
- <rmsdtc>[0.0444824621081352 0.10103839635849 0.114682056009769]</rmsdtc>
- <rmsgdt>[0.0324704088270664 0.0507358387112617 0.0624863989651203]</rmsgdt>
- <rmsdt>0.114682056009769</rmsdt>
- <dt>0.0814613997936249</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>[0.00872134789824486 0.0369738675653934 0.0485144704580307 0.0587927848100662 0.0667766481637955 0.0755530521273613]</dtc>
- <ll>[0.088713708147468 0 0.088713708147468 0;0.223310454822955 0.0188935038919414 0.242203958714896 9671.1123046875;0.207749375791983 0.0201067080478025 0.227856083839786 14471.0390625;0.18616734112543 0.0217474478262442 0.207914788951675 23449.6640625;0.168049934032754 0.0247794358650027 0.192829369897756 43347.98046875;0.168049934032754 0.0247794358650027 0.192829369897756 43347.98046875]</ll>
- <rmsdtc>[0.0106201265007257 0.0396228581666946 0.0656848922371864 0.0935979709029198 0.12076548486948 0.127810135483742]</rmsdtc>
- <rmsgdt>[0.00362658500671387 0.0144421216100454 0.0320705100893974 0.0542157106101513 0.0737064778804779 0.0794810354709625]</rmsgdt>
- <rmsdt>0.127810135483742</rmsdt>
- <dt>0.0755530521273613</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0027214/ses-3/sub-0027214_ses-3_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 29s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 4s</item>
- <item>Estimate background 4s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 2s</item>
- <item>Final correction 4s</item>
- <item>Final scaling 3s</item>
- <item>27s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 5s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 9s</item>
- <item>Use initial fine affine registration. 41s</item>
- <item>SPM preprocessing 1 (estimate 2): 42s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 12s</item>
- <item>Update Segmentation 13s</item>
- <item>Update Skull-Stripping 28s</item>
- <item>Update probability maps 6s</item>
- <item>59s</item>
- <item>Global intensity correction: 11s</item>
- <item>SANLM denoising after intensity normalization (medium): 17s</item>
- <item>Fast Optimized Shooting registration 23s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 2s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.03) 9s</item>
- <item>Estimate local tissue thresholds (WM) 12s</item>
- <item>Estimate local tissue thresholds (GM) 19s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 31s</item>
- <item>77s</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'=0.10) 13s</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>40s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 23s</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>7s</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 | 0.0887 0.0000 0.0887 | 32.0000</item>
- <item>2 | 2.50 | 0.0854 0.0014 0.0868 | 29.4886</item>
- <item>3 | 2.50 | 0.0844 0.0021 0.0865 | 26.9772</item>
- <item>4 | 2.50 | 0.0840 0.0024 0.0863 | 24.6107</item>
- <item>5 | 2.50 | 0.0836 0.0025 0.0861 | 22.6548</item>
- <item>6 | 2.50 | 0.0833 0.0026 0.0859 | 20.6989</item>
- <item>7 | 2.50 | 0.0829 0.0028 0.0857 | 18.9688</item>
- <item>8 | 2.50 | 0.0826 0.0029 0.0854 | 17.4455</item>
- <item>9 | 2.50 | 0.0822 0.0030 0.0852 | 15.9223</item>
- <item>10 | 2.50 | 0.0818 0.0031 0.0849 | 14.6627</item>
- <item>11 | 2.50 | 0.0815 0.0032 0.0846 | 13.4764</item>
- <item>12 | 2.50 | 0.0811 0.0032 0.0843 | 12.3015</item>
- <item>13 | 2.50 | 0.0807 0.0034 0.0841 | 11.3776</item>
- <item>14 | 2.50 | 0.0804 0.0034 0.0838 | 10.4537</item>
- <item>15 | 2.25 | 0.0810 0.0035 0.0845 | 9.5920</item>
- <item>16 | 2.25 | 0.0774 0.0053 0.0827 | 8.8725</item>
- <item>17 | 2.25 | 0.0760 0.0059 0.0820 | 8.1530</item>
- <item>18 | 2.25 | 0.0751 0.0062 0.0813 | 7.5234</item>
- <item>19 | 2.25 | 0.0744 0.0063 0.0807 | 6.9630</item>
- <item>29 | 2.00 | 0.0768 0.0032 0.0800 | 3.3283</item>
- <item>30 | 2.00 | 0.0711 0.0058 0.0769 | 3.1221</item>
- <item>31 | 2.00 | 0.0692 0.0067 0.0760 | 2.9160</item>
- <item>43 | 1.75 | 0.0685 0.0038 0.0723 | 1.5785</item>
- <item>44 | 1.75 | 0.0636 0.0064 0.0700 | 1.5194</item>
- <item>45 | 1.75 | 0.0621 0.0072 0.0693 | 1.4626</item>
- <item>57 | 1.50 | 0.0606 0.0053 0.0659 | 1.0900</item>
- <item>58 | 1.50 | 0.0571 0.0076 0.0647 | 1.0730</item>
- <item>59 | 1.50 | 0.0560 0.0083 0.0643 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 114s</item>
- <item>Prepare output 7s</item>
- <item>120s</item>
- <item>Jacobian determinant (RMS): 0.011 0.040 0.066 0.094 0.121 | 0.127810</item>
- <item>Template Matching: 0.089 0.223 0.208 0.186 0.168 | 0.168050</item>
- <item>Write result maps: 23s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 18s</item>
- <item>CSF distance: 9s</item>
- <item>PBT2x thickness: 27s</item>
- <item>58s</item>
- <item>Create initial surface 49s</item>
- <item>Topology correction: 62s</item>
- <item>Surface refinement: 49s</item>
- <item>Reduction of surface collisions with optimization: 43s</item>
- <item>Spherical mapping with areal smoothing 55s</item>
- <item>Spherical registration 191s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 18s</item>
- <item>CSF distance: 9s</item>
- <item>PBT2x thickness: 27s</item>
- <item>58s</item>
- <item>Create initial surface 47s</item>
- <item>Topology correction: 61s</item>
- <item>Surface refinement: 50s</item>
- <item>Reduction of surface collisions with optimization: 42s</item>
- <item>Spherical mapping with areal smoothing 60s</item>
- <item>Spherical registration 194s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5591 0.6661 mm</item>
- <item>Surface intensity / position RMSE: 0.0735 / 0.0890</item>
- <item>Euler number / defect number / defect size: 36.0 / 17.5 / 1.65%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3516551/ds/SWU_1/sub-0027214/ses-3/surf/lh.thickness.sub-0027214_ses-3_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3516551/ds/SWU_1/sub-0027214/ses-3/surf/rh.thickness.sub-0027214_ses-3_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_3516551/ds/SWU_1/sub-0027214/ses-3/sub-0027214_ses-3_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 6s</item>
- <item>Surface and thickness estimation takes: 1085s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 6s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 24s</item>
- <item>ROI estimation of 'lpba40' atlas 7s</item>
- <item>ROI estimation of 'hammers' atlas 17s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 6s</item>
- <item>ROI estimation of 'aal3' atlas 9s</item>
- <item>ROI estimation of 'mori' atlas 14s</item>
- <item>ROI estimation of 'anatomy3' atlas 20s</item>
- <item>ROI estimation of 'julichbrain' atlas 27s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 11s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 19s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 42s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 64s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 6s</item>
- <item>Write results 6s</item>
- <item>273s</item>
- <item>Quality check: 8s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_3516551/ds/SWU_1/sub-0027214/ses-3/report/catreport_sub-0027214_ses-3_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 33 minute(s) and 32 second(s).</item>
- <item>Image Quality Rating (IQR): 82.54% (B-)</item>
- <item>GM volume (GMV): 49.10% (659.64 / 1343.57 ml)</item>
- <item>GM thickness (GMT): 2.56 0.67 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_3516551/ds/SWU_1/sub-0027214/ses-3/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_3516551/ds/SWU_1/sub-0027214/ses-3/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_3516551/ds/SWU_1/sub-0027214/ses-3/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|