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- <Fm>/var/lib/condor/execute/dir_7214/ds/sub-sc017/mri/msub-sc017_T1w.nii</Fm>
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- <fnames>..14/ds/sub-sc017/sub-sc017_T1w</fnames>
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- <parameter>
- <opts>
- <tpm>
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- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
- <warpreg>[0 0.001 0.5 0.05 0.2]</warpreg>
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- <extopts>
- <uhrlim>1.4</uhrlim>
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- <spm_kamap>0</spm_kamap>
- <NCstr>-Inf</NCstr>
- <LASstr>0.5</LASstr>
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- <WMHC>2</WMHC>
- <WMHCstr>0.5</WMHCstr>
- <SLC>0</SLC>
- <mrf>1</mrf>
- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
- <bids_yes>0</bids_yes>
- <nproc>32</nproc>
- <species>human</species>
- <APP>1070</APP>
- <setCOM>1</setCOM>
- <vox>1.5</vox>
- <bb>12</bb>
- <shootingsurf>Template_T1</shootingsurf>
- <pth_templates>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym</pth_templates>
- <darteltpm>
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- </darteltpm>
- <shootingtpm>
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- </shootingtpm>
- <shootingT1>
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- </shootingT1>
- <brainmask>
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- </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>
- <SRP>22</SRP>
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- <scale_cortex>0.7</scale_cortex>
- <add_parahipp>0.1</add_parahipp>
- <colormap>BCGWHw</colormap>
- <report/>
- <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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- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
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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>
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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/hammers.nii</td>
- <td>0</td>
- <td>
- <item>csf</item>
- <item>gm</item>
- <item>wm</item>
- </td>
- <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>
- </td>
- <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>
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- <td>
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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>
- <td>
- <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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- <td>[false]</td>
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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>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- <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>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- <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>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- <tr>
- <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>
- <item>wm</item>
- </td>
- <td>[false]</td>
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- <tr>
- <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>
- <td>[false]</td>
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- <tr>
- <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>
- <td>
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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/Schaefer2018_600Parcels_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>Desikan</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_a2009s.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
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- <td>Destrieux</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_DK40.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
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- <tr>
- <td>HCP</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_HCP_MMP1.freesurfer.annot</td>
- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_100P_17N</td>
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- <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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- <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>
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- </satlas>
- <LAB>
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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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- <new_release>0</new_release>
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- <shootingtpm>
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- <regstr>0.5</regstr>
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- <restypes>
- <optimal>[1 0.3]</optimal>
- </restypes>
- <LASmyostr>0</LASmyostr>
- <pbtmethod>pbt2x</pbtmethod>
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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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- <version_segment>1639</version_segment>
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- <SurfaceEulerNumber>28</SurfaceEulerNumber>
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- <tissue_mnr>[0 0.326762169599533 0.719244062900543 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[41086.7058903546 68317.1290424984 51628.6427976762 30220.9832805351]</tissue_std>
- <tissue_stdr>[0.075203500688076 0.125045001506805 0.0944990515708923 0.0553153082728386]</tissue_stdr>
- <contrast>153388.3125</contrast>
- <contrastr>0.280755996704102</contrastr>
- <NCR>0.124914735555649</NCR>
- <ICR>0.338523626327515</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.9999999507174 2.00000000269998 2.00000004029734]</res_vx_vol>
- <res_RMS>1.99999999790491</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[1.89584374427795 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>3.87199354171753</contrastr>
- <NCR>2.12424254417419</NCR>
- <ICR>1.29941380023956</ICR>
- <SurfaceEulerNumber>2.3265306122449</SurfaceEulerNumber>
- <SurfaceDefectArea>1.39341779605459</SurfaceDefectArea>
- <SurfaceDefectNumber>1.9</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.44555151462555</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.94841051101685</SurfacePositionRMSE>
- <IQR>2.06861403188153</IQR>
- </qualityratings>
- <ratings_help>
- <qualitymeasures>
- <res_vx_vol>voxel dimensions</res_vx_vol>
- <res_RMS>RMS error of voxel size</res_RMS>
- <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>1980</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>20220711-172908</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>28</SurfaceEulerNumber>
- <SurfaceDefectArea>1.57367118421834</SurfaceDefectArea>
- <SurfaceDefectNumber>18</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0722775757312775</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0974205285310745</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>28</EC_abs>
- <defect_size>1.57367118421834</defect_size>
- <vol_abs_CGW>[337.641816569576 889.855226553446 725.785808753099 0 0]</vol_abs_CGW>
- <vol_abs_WMH>2.44572956019359</vol_abs_WMH>
- <vol_rel_WMH>0.00125211233889883</vol_rel_WMH>
- <surf_TSA>2650.54919319198</surf_TSA>
- <vol_TIV>1953.28285187612</vol_TIV>
- <vol_rel_CGW>[0.172858639620612 0.455569056831039 0.371572303548349 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.43533355128384 0.629153293927913]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.4810745716095 0.765289081462026 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.72907679729584 0.283645467446817 0.232796163159574;2.45162074395236 0.183607866240928 0.465719032155126;3.08696218559549 0.265114056962666 0.3014848046853]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.736855623664187 0.260246661331922 0.640502912345504;4.01050426577938 0.354629808519848 0.359497087654496]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>5.69497329708372</vol_TIV>
- <vol_rel_CGW>[0.954357751806975 6.03177185400572 4.52320947464707 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.12521123388988</vol_rel_WMH>
- <surf_TSA>8.62399999245712</surf_TSA>
- <SQR>4.99169365286822</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.520663166046143 3897 1430 5026.21098420443 0.338364519425912]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0 0 0.407708764076233]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[1070.72894733441 652.855604327038 571.335897418904 604.551028846462 2526.65017686929 5965.98097775571]</SPMvols0>
- <SPMvols1>[926.753483694725 611.460833187379 359.462135540889 903.711768570856 1911.95457485815 5772.47627973759]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[213697.96875 422503.0625 537403.5]</T3th>
- <Tth>
- <T3th>[0 2828.125 7001.86328125 213697.96875 422503.0625 537403.5 699256.25 1148027.625]</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>[0.0201754253357649 0.0717973858118057 0.0787629187107086 0 0]</dtc>
- <ll>[0.0859526366699023 0 0.0859526366699023 0;0.201460583012502 0.0107516818830804 0.212212264895582 2292.77465820312;0.201460583012502 0.0107516818830804 0.212212264895582 2292.77465820312]</ll>
- <rmsdtc>[0.0445149913430214 0.0939829647541046 0.104118943214417]</rmsdtc>
- <rmsgdt>[0.0322144739329815 0.0438917614519596 0.0537899658083916]</rmsgdt>
- <rmsdt>0.104118943214417</rmsdt>
- <dt>0.0787629187107086</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>[0.00898317154496908 0.034786481410265 0.0478534027934074 0.0576632507145405 0.0645852088928223 0.0725286975502968]</dtc>
- <ll>[0.0861068106636457 0 0.0861068106636457 0;0.224925473137973 0.0161968406593407 0.241122313797314 8290.7578125;0.20769429733699 0.0184050942425581 0.226099391579548 13246.3671875;0.186771823922906 0.0209095348999371 0.207681358822843 22546.166015625;0.169258094992835 0.0244088591253452 0.19366695411818 42699.7109375;0.169258094992835 0.0244088591253452 0.19366695411818 42699.7109375]</ll>
- <rmsdtc>[0.0107045406475663 0.0390235744416714 0.0609386749565601 0.0874652788043022 0.112922511994839 0.119494780898094]</rmsdtc>
- <rmsgdt>[0.00335068954154849 0.0131682148203254 0.0287638623267412 0.049644086509943 0.0693436488509178 0.0744918957352638]</rmsgdt>
- <rmsdt>0.119494780898094</rmsdt>
- <dt>0.0725286975502968</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./execute/dir_7214/ds/sub-sc017/sub-sc017_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 29s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 7s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 6s</item>
- <item>39s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 10s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 73s</item>
- <item>SPM preprocessing 1 (estimate 2): 63s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 15s</item>
- <item>Update Segmentation 21s</item>
- <item>Update Skull-Stripping 41s</item>
- <item>Update probability maps 8s</item>
- <item>85s</item>
- <item>Global intensity correction: 15s</item>
- <item>SANLM denoising after intensity normalization (medium): 13s</item>
- <item>Fast Optimized Shooting registration 30s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 5s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.12) 17s</item>
- <item>Estimate local tissue thresholds (WM) 19s</item>
- <item>Estimate local tissue thresholds (GM) 26s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 20s</item>
- <item>93s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 8s</item>
- <item>Major structures 4s</item>
- <item>Ventricle detection 18s</item>
- <item>Blood vessel detection 12s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.06) 37s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 5s</item>
- <item>Final corrections 4s</item>
- <item>90s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 38s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 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) 3s</item>
- <item>Level 2 cleanup (CSF correction) 2s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>13s</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 | 0.0861 0.0000 0.0861 | 32.0000</item>
- <item>2 | 2.50 | 0.0833 0.0012 0.0846 | 29.4886</item>
- <item>3 | 2.50 | 0.0825 0.0019 0.0844 | 26.9772</item>
- <item>4 | 2.50 | 0.0821 0.0021 0.0842 | 24.6107</item>
- <item>5 | 2.50 | 0.0818 0.0022 0.0841 | 22.6548</item>
- <item>6 | 2.50 | 0.0815 0.0023 0.0839 | 20.6989</item>
- <item>7 | 2.50 | 0.0813 0.0024 0.0837 | 18.9688</item>
- <item>8 | 2.50 | 0.0809 0.0025 0.0835 | 17.4455</item>
- <item>9 | 2.50 | 0.0806 0.0026 0.0832 | 15.9223</item>
- <item>10 | 2.50 | 0.0803 0.0027 0.0830 | 14.6627</item>
- <item>11 | 2.50 | 0.0800 0.0028 0.0828 | 13.4764</item>
- <item>12 | 2.50 | 0.0796 0.0029 0.0825 | 12.3015</item>
- <item>13 | 2.50 | 0.0792 0.0030 0.0822 | 11.3776</item>
- <item>14 | 2.50 | 0.0789 0.0030 0.0819 | 10.4537</item>
- <item>15 | 2.25 | 0.0798 0.0031 0.0830 | 9.5920</item>
- <item>16 | 2.25 | 0.0764 0.0048 0.0811 | 8.8725</item>
- <item>17 | 2.25 | 0.0750 0.0054 0.0804 | 8.1530</item>
- <item>29 | 2.00 | 0.0777 0.0025 0.0802 | 3.3283</item>
- <item>30 | 2.00 | 0.0714 0.0051 0.0765 | 3.1221</item>
- <item>31 | 2.00 | 0.0692 0.0061 0.0754 | 2.9160</item>
- <item>43 | 1.75 | 0.0687 0.0035 0.0722 | 1.5785</item>
- <item>44 | 1.75 | 0.0639 0.0061 0.0699 | 1.5194</item>
- <item>45 | 1.75 | 0.0623 0.0070 0.0692 | 1.4626</item>
- <item>57 | 1.50 | 0.0611 0.0051 0.0662 | 1.0900</item>
- <item>58 | 1.50 | 0.0576 0.0074 0.0650 | 1.0730</item>
- <item>59 | 1.50 | 0.0564 0.0081 0.0646 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 163s</item>
- <item>Prepare output 10s</item>
- <item>173s</item>
- <item>Jacobian determinant (RMS): 0.011 0.039 0.061 0.087 0.113 | 0.119495</item>
- <item>Template Matching: 0.086 0.225 0.208 0.187 0.169 | 0.169258</item>
- <item>Write result maps: 21s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 52s</item>
- <item>CSF distance: 23s</item>
- <item>PBT2x thickness: 57s</item>
- <item>140s</item>
- <item>Create initial surface 114s</item>
- <item>Topology correction: 128s</item>
- <item>Surface refinement: 175s</item>
- <item>Reduction of surface collisions with optimization: 116s</item>
- <item>Spherical mapping with areal smoothing 139s</item>
- <item>Spherical registration 301s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 45s</item>
- <item>CSF distance: 24s</item>
- <item>PBT2x thickness: 58s</item>
- <item>135s</item>
- <item>Create initial surface 114s</item>
- <item>Topology correction: 132s</item>
- <item>Surface refinement: 143s</item>
- <item>Reduction of surface collisions with optimization: 121s</item>
- <item>Spherical mapping with areal smoothing 153s</item>
- <item>Spherical registration 294s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4353 0.6289 mm</item>
- <item>Surface intensity / position RMSE: 0.0723 / 0.0974</item>
- <item>Euler number / defect number / defect size: 28.0 / 18.0 / 1.57%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_7214/ds/sub-sc017/surf/lh.thickness.sub-sc017_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_7214/ds/sub-sc017/surf/rh.thickness.sub-sc017_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_7214/ds/sub-sc017/sub-sc017_T1w.nii</item>
- <item>Surface ROI estimation: 9s</item>
- <item>Surface and thickness estimation takes: 2313s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 7s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 25s</item>
- <item>ROI estimation of 'lpba40' atlas 7s</item>
- <item>ROI estimation of 'hammers' atlas 18s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 6s</item>
- <item>ROI estimation of 'aal3' atlas 10s</item>
- <item>ROI estimation of 'mori' atlas 15s</item>
- <item>ROI estimation of 'anatomy3' atlas 22s</item>
- <item>ROI estimation of 'julichbrain' atlas 29s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 12s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 22s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 48s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 71s</item>
- <item>Write results 72s</item>
- <item>296s</item>
- <item>Quality check: 6s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_7214/ds/sub-sc017/report/catreport_sub-sc017_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 58 minute(s) and 45 second(s).</item>
- <item>Image Quality Rating (IQR): 84.31% (B)</item>
- <item>GM volume (GMV): 45.56% (889.86 / 1953.28 ml)</item>
- <item>GM thickness (GMT): 2.44 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_7214/ds/sub-sc017/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_7214/ds/sub-sc017/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_7214/ds/sub-sc017/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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