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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
- <gcutstr>2</gcutstr>
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- <SLC>0</SLC>
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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_2040</bids_folder>
- <bids_yes>0</bids_yes>
- <nproc>1</nproc>
- <species>human</species>
- <APP>1070</APP>
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- <shootingsurf>Template_T1</shootingsurf>
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- <darteltpm>
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- </darteltpm>
- <shootingtpm>
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- </shootingtpm>
- <shootingT1>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_T1_masked.nii</item>
- </shootingT1>
- <brainmask>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/brainmask.nii</item>
- </brainmask>
- <T1>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/T1.nii</item>
- </T1>
- <cat12atlas>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cat.nii</item>
- </cat12atlas>
- <pbtres>0.5</pbtres>
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- <thick_limit>5</thick_limit>
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- <scale_cortex>0.7</scale_cortex>
- <add_parahipp>0.1</add_parahipp>
- <colormap>BCGWHw</colormap>
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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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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
- <td>0</td>
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- <item>csf</item>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/anatomy3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/julichbrain.nii</td>
- <td>1</td>
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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>[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_2292278/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>Desikan</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_a2009s.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
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- <td>Destrieux</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_DK40.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
- </tr>
- <tr>
- <td>HCP</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_HCP_MMP1.freesurfer.annot</td>
- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_100P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_100Parcels_17Networks_order.annot</td>
- <td>1</td>
- <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>
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- <ON>11</ON>
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- <VT>15</VT>
- <NV>17</NV>
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- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
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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_4_GS.nii</item>
- </templates>
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- <qualitymeasures>
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- <SurfaceEulerNumber>64</SurfaceEulerNumber>
- <SurfaceDefectArea>1.66081470506054</SurfaceDefectArea>
- <SurfaceDefectNumber>28.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0720581635832787</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0801598504185677</SurfacePositionRMSE>
- <res_vx_vol>[0.938000023365021 0.938000023365021 1]</res_vx_vol>
- <res_vx_voli>[0.937999963760376 0.938000023365021 1]</res_vx_voli>
- <res_RMS>0.95911210461648</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[0 9.73400020599365 49.1419982910156 98.5630035400391]</tissue_mn>
- <tissue_mnr>[0 0.0987591668963432 0.498584628105164 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[0.224202342717986 12.3888616231352 12.7005896531474 9.05949094232047]</tissue_std>
- <tissue_stdr>[0.00227471091784537 0.125694841146469 0.12885756790638 0.0919157341122627]</tissue_stdr>
- <contrast>32.8264312744141</contrast>
- <contrastr>0.33305025100708</contrastr>
- <res_ECR>0.308537721633911</res_ECR>
- <NCR>0.202202320098877</NCR>
- <ICR>0.311244755983353</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.87600004673004 1.87600004673004 2]</res_vx_vol>
- <res_RMS>1.91822420923296</res_RMS>
- <res_ECR>2.47213125228882</res_ECR>
- <res_BB>1</res_BB>
- <tissue_mn>[1.89584374427795 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[2.33706675034024 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>3.08757948875427</contrastr>
- <NCR>3.23373985290527</NCR>
- <ICR>1.2317578792572</ICR>
- <SurfaceEulerNumber>4.16326530612245</SurfaceEulerNumber>
- <SurfaceDefectArea>1.41520367626513</SurfaceDefectArea>
- <SurfaceDefectNumber>2.425</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.4411633014679</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.60319697856903</SurfacePositionRMSE>
- <SIQR>2.86282888269023</SIQR>
- <IQR>2.97099728381331</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>20231031-001437</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>64</SurfaceEulerNumber>
- <SurfaceDefectArea>1.66081470506054</SurfaceDefectArea>
- <SurfaceDefectNumber>28.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0720581635832787</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0801598504185677</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>64</EC_abs>
- <defect_size>1.66081470506054</defect_size>
- <vol_abs_CGW>[197.55895451863 773.880270519369 551.262506983636 0 0]</vol_abs_CGW>
- <vol_abs_WMH>1.09054074526698</vol_abs_WMH>
- <vol_rel_WMH>0.000716188024439368</vol_rel_WMH>
- <surf_TSA>2079.09665485397</surf_TSA>
- <vol_TIV>1522.70173202163</vol_TIV>
- <vol_rel_CGW>[0.129742385106726 0.508228403662428 0.362029211230846 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.60308327798814 0.617417371575902]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.60707926750183 0.722951665804656 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.9998301402424 0.243556840154833 0.296839353750824;2.62358762865127 0.178778372225905 0.413095356178051;3.27266018526125 0.256666284152216 0.290065290071125]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.929092143816081 0.390997300607131 0.572013017201302;4.12840939754252 0.309712523978383 0.427986982798698]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.35039489267741</vol_TIV>
- <vol_rel_CGW>[0.5 6.9775216175005 4.35181773043905 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.07161880244394</vol_rel_WMH>
- <surf_TSA>8.62325277045501</surf_TSA>
- <SQR>5.72214508723121</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 12685.5210364575 0.4798548583789]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00124469725415111 0.00119417044334114 0.0366596654057503]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[937.061570850198 486.767686127783 335.477587705537 530.392241851018 1241.78417745418 9722.86964381395]</SPMvols0>
- <SPMvols1>[821.525678763729 462.782224669311 173.012566640092 446.924696414275 1041.69391523266 9739.86186373061]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[10.356499671936 54.4151992797852 98.8477020263672]</T3th>
- <Tth>
- <T3th>[-1.18213999271393 -1.18213939666748 0.217771634459496 10.356499671936 54.4151992797852 98.8477020263672 143.093307495117 294.751342773438]</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>[0.0216940175741911 0.0718877837061882 0.0785728171467781 0 0]</dtc>
- <ll>[0.0811024788333302 0 0.0811024788333302 0;0.191392200190623 0.00917416717968926 0.200566367370312 1956.37280273438;0.191392200190623 0.00917416717968926 0.200566367370312 1956.37280273438]</ll>
- <rmsdtc>[0.0448005348443985 0.0920513272285461 0.101291231811047]</rmsdtc>
- <rmsgdt>[0.031605951488018 0.0408908501267433 0.0504574924707413]</rmsgdt>
- <rmsdt>0.101291231811047</rmsdt>
- <dt>0.0785728171467781</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>[0.0100574064999819 0.0356585457921028 0.048788882791996 0.0558061525225639 0.0614409372210503 0.068655401468277]</dtc>
- <ll>[0.0815441670198335 0 0.0815441670198335 0;0.212057951770452 0.0126480979090354 0.224706049679487 6474.2451171875;0.191800352953681 0.0151738321196534 0.206974185073335 10920.7890625;0.17269338116913 0.0171531122973841 0.189846493466514 18495.720703125;0.156452074709907 0.0198915506190003 0.176343625328907 34797.34375;0.156452074709907 0.0198915506190003 0.176343625328907 34797.34375]</ll>
- <rmsdtc>[0.0115375891327858 0.0403572209179401 0.0584257654845715 0.0807851701974869 0.102839060127735 0.109655849635601]</rmsdtc>
- <rmsgdt>[0.00318516790866852 0.0120914755389094 0.0266393031924963 0.0463705770671368 0.0642078667879105 0.0695357248187065]</rmsgdt>
- <rmsdt>0.109655849635601</rmsdt>
- <dt>0.068655401468277</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0027370/ses-1/sub-0027370_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 51s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 9s</item>
- <item>Estimate background 7s</item>
- <item>Initial correction 10s</item>
- <item>Refine background 5s</item>
- <item>Final correction 8s</item>
- <item>Final scaling 8s</item>
- <item>56s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 12s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 103s</item>
- <item>SPM preprocessing 1 (estimate 2): 107s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 24s</item>
- <item>Update Segmentation 24s</item>
- <item>Update Skull-Stripping 55s</item>
- <item>Update probability maps 12s</item>
- <item>115s</item>
- <item>Global intensity correction: 22s</item>
- <item>SANLM denoising after intensity normalization (medium): 31s</item>
- <item>Fast Optimized Shooting registration 46s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 5s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.00) 17s</item>
- <item>Estimate local tissue thresholds (WM) 24s</item>
- <item>Estimate local tissue thresholds (GM) 33s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 50s</item>
- <item>139s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 12s</item>
- <item>Major structures 5s</item>
- <item>Ventricle detection 19s</item>
- <item>Blood vessel detection 12s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 34s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 5s</item>
- <item>Final corrections 6s</item>
- <item>94s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 36s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.67 0.08,0.98 0.04]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 5s</item>
- <item>Level 1 cleanup (brain masking) 4s</item>
- <item>Level 2 cleanup (CSF correction) 2s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>14s</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 | 0.0815 0.0000 0.0815 | 32.0000</item>
- <item>2 | 2.50 | 0.0790 0.0011 0.0802 | 29.4886</item>
- <item>3 | 2.50 | 0.0783 0.0017 0.0800 | 26.9772</item>
- <item>4 | 2.50 | 0.0779 0.0019 0.0799 | 24.6107</item>
- <item>5 | 2.50 | 0.0776 0.0021 0.0797 | 22.6548</item>
- <item>6 | 2.50 | 0.0774 0.0022 0.0795 | 20.6989</item>
- <item>7 | 2.50 | 0.0771 0.0023 0.0794 | 18.9688</item>
- <item>8 | 2.50 | 0.0769 0.0024 0.0792 | 17.4455</item>
- <item>9 | 2.50 | 0.0766 0.0024 0.0790 | 15.9223</item>
- <item>10 | 2.50 | 0.0763 0.0025 0.0788 | 14.6627</item>
- <item>11 | 2.50 | 0.0760 0.0026 0.0786 | 13.4764</item>
- <item>12 | 2.50 | 0.0757 0.0027 0.0784 | 12.3015</item>
- <item>13 | 2.50 | 0.0754 0.0028 0.0781 | 11.3776</item>
- <item>14 | 2.50 | 0.0751 0.0028 0.0779 | 10.4537</item>
- <item>15 | 2.25 | 0.0734 0.0029 0.0763 | 9.5920</item>
- <item>16 | 2.25 | 0.0707 0.0042 0.0749 | 8.8725</item>
- <item>29 | 2.00 | 0.0714 0.0019 0.0733 | 3.3283</item>
- <item>30 | 2.00 | 0.0658 0.0041 0.0699 | 3.1221</item>
- <item>31 | 2.00 | 0.0639 0.0051 0.0690 | 2.9160</item>
- <item>43 | 1.75 | 0.0628 0.0029 0.0657 | 1.5785</item>
- <item>44 | 1.75 | 0.0589 0.0050 0.0639 | 1.5194</item>
- <item>45 | 1.75 | 0.0576 0.0057 0.0633 | 1.4626</item>
- <item>57 | 1.50 | 0.0560 0.0041 0.0601 | 1.0900</item>
- <item>58 | 1.50 | 0.0531 0.0060 0.0591 | 1.0730</item>
- <item>59 | 1.50 | 0.0522 0.0066 0.0588 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 225s</item>
- <item>Prepare output 13s</item>
- <item>238s</item>
- <item>Jacobian determinant (RMS): 0.012 0.040 0.058 0.081 0.103 | 0.109656</item>
- <item>Template Matching: 0.082 0.212 0.192 0.173 0.156 | 0.156452</item>
- <item>Write result maps: 56s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 36s</item>
- <item>CSF distance: 19s</item>
- <item>PBT2x thickness: 55s</item>
- <item>118s</item>
- <item>Create initial surface 98s</item>
- <item>Topology correction: 106s</item>
- <item>Surface refinement: 85s</item>
- <item>Reduction of surface collisions with optimization: 76s</item>
- <item>Spherical mapping with areal smoothing 101s</item>
- <item>Spherical registration 270s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 34s</item>
- <item>CSF distance: 19s</item>
- <item>PBT2x thickness: 55s</item>
- <item>115s</item>
- <item>Create initial surface 97s</item>
- <item>Topology correction: 105s</item>
- <item>Surface refinement: 78s</item>
- <item>Reduction of surface collisions with optimization: 71s</item>
- <item>Spherical mapping with areal smoothing 100s</item>
- <item>Spherical registration 277s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.6032 0.6174 mm</item>
- <item>Surface intensity / position RMSE: 0.0721 / 0.0802</item>
- <item>Euler number / defect number / defect size: 64.0 / 28.5 / 1.66%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2292278/ds/DC_1/sub-0027370/ses-1/surf/lh.thickness.sub-0027370_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2292278/ds/DC_1/sub-0027370/ses-1/surf/rh.thickness.sub-0027370_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2292278/ds/DC_1/sub-0027370/ses-1/sub-0027370_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 11s</item>
- <item>Surface and thickness estimation takes: 1820s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 19s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 72s</item>
- <item>ROI estimation of 'lpba40' atlas 21s</item>
- <item>ROI estimation of 'hammers' atlas 51s</item>
- <item>ROI estimation of 'thalamus' atlas 4s</item>
- <item>ROI estimation of 'ibsr' atlas 18s</item>
- <item>ROI estimation of 'aal3' atlas 30s</item>
- <item>ROI estimation of 'mori' atlas 46s</item>
- <item>ROI estimation of 'anatomy3' atlas 66s</item>
- <item>ROI estimation of 'julichbrain' atlas 85s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 31s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 46s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 136s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 194s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 14s</item>
- <item>Write results 15s</item>
- <item>834s</item>
- <item>Quality check: 16s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_2292278/ds/DC_1/sub-0027370/ses-1/report/catreport_sub-0027370_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 65 minute(s) and 4 second(s).</item>
- <item>Image Quality Rating (IQR): 75.29% (C)</item>
- <item>GM volume (GMV): 50.82% (773.88 / 1522.70 ml)</item>
- <item>GM thickness (GMT): 2.60 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2292278/ds/DC_1/sub-0027370/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2292278/ds/DC_1/sub-0027370/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2292278/ds/DC_1/sub-0027370/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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