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- <F>/var/lib/condor/execute/dir_22704/ds/sub-99/sub-99_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_22704/ds/sub-99/mri/msub-99_T1w.nii</Fm>
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- <fnames>..22704/ds/sub-99/sub-99_T1w</fnames>
- </filedata>
- <parameter>
- <opts>
- <tpm>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/tpm/TPM.nii</item>
- </tpm>
- <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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- <fwhm>1</fwhm>
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- </opts>
- <extopts>
- <uhrlim>1.4</uhrlim>
- <gcutstr>2</gcutstr>
- <cleanupstr>0.5</cleanupstr>
- <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>64</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>
- <reduce_mesh>1</reduce_mesh>
- <vdist>2</vdist>
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- <thick_limit>5</thick_limit>
- <close_parahipp>0</close_parahipp>
- <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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- <tr>
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- <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/lpba40.nii</td>
- <td>0</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>
- <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/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>
- <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/ibsr.nii</td>
- <td>0</td>
- <td>
- <item>csf</item>
- <item>gm</item>
- <item>wm</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>
- <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_400Parcels_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_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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- </atlas>
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- <tr>
- <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>
- <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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- <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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- <ON>11</ON>
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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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- <shooting>
- <shootingtpm>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
- </restypes>
- <LASmyostr>0</LASmyostr>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>46</SurfaceEulerNumber>
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- <tissue_mnr>[0.0305764526128769 0.191417247056961 0.658000349998474 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[6.02329827183804 21.9977034841331 17.2246367001257 10.6616160128699]</tissue_std>
- <tissue_stdr>[0.0409439653158188 0.149531573057175 0.117086172103882 0.0724733918905258]</tissue_stdr>
- <contrast>53.5356407165527</contrast>
- <contrastr>0.352786630392075</contrastr>
- <NCR>0.153030216693878</NCR>
- <ICR>0.416719824075699</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.19999853115489 1.99999993578766 2]</res_vx_vol>
- <res_RMS>2.06881554520409</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[8.62400054931641 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[8.624 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>2.79153394699097</contrastr>
- <NCR>2.52785277366638</NCR>
- <ICR>1.49335265159607</ICR>
- <SurfaceEulerNumber>3.24489795918367</SurfaceEulerNumber>
- <SurfaceDefectArea>1.42888529037044</SurfaceDefectArea>
- <SurfaceDefectNumber>2.25</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.48529624938965</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.72269725799561</SurfacePositionRMSE>
- <IQR>2.37179804071437</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>20220703-111344</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>46</SurfaceEulerNumber>
- <SurfaceDefectArea>1.71554116148175</SurfaceDefectArea>
- <SurfaceDefectNumber>25</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0742648169398308</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0861348658800125</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>46</EC_abs>
- <defect_size>1.71554116148175</defect_size>
- <vol_abs_CGW>[252.359939192022 852.715476478293 583.002169368851 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.668579534490024</vol_abs_WMH>
- <vol_rel_WMH>0.000396059719301653</vol_rel_WMH>
- <surf_TSA>2307.33891794922</surf_TSA>
- <vol_TIV>1688.07758503917</vol_TIV>
- <vol_rel_CGW>[0.149495462429333 0.505139979368015 0.345364558202652 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.60088224811991 0.65737688644997]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.6200122833252 0.818333653538325 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.91601873112769 0.293235244908648 0.264480104203367;2.61840932304834 0.193481217183781 0.446595774211802;3.32037866409221 0.296067828337285 0.288924121584831]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.821589160771226 0.300199401366674 0.616534596846663;4.26261236655443 0.303505578060232 0.383465403153337]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>2.74161969088468</vol_TIV>
- <vol_rel_CGW>[0.534760460296929 6.92205422715544 4.0525243930074 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03960597193017</vol_rel_WMH>
- <surf_TSA>8.62398690047862</surf_TSA>
- <SQR>5.67032381737251</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.198584324453583 48 10 9850.41500703905 0.455832274507701]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0356879569590092 0.0408400148153305 0.171615093946457]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[1031.35024896351 527.263232491768 492.466922209493 943.055833969426 2336.58953585453 7781.48798710348]</SPMvols0>
- <SPMvols1>[885.973638419766 495.61851060338 262.593991282074 701.088204404325 1478.38873417588 8468.51440090641]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[38.5326995849609 103.33519744873 156.162796020508]</T3th>
- <Tth>
- <T3th>[0 0 5.53309202194214 38.5326995849609 103.33519744873 156.162796020508 214.977844238281 610.156616210938]</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>[0.018801137804985 0.064122699201107 0.0703733861446381 0 0]</dtc>
- <ll>[0.0831406109807204 0 0.0831406109807204 0;0.201202081174267 0.00916806160330343 0.21037014277757 1955.07080078125;0.201202081174267 0.00916806160330343 0.21037014277757 1955.07080078125]</ll>
- <rmsdtc>[0.040595754981041 0.087010569870472 0.097302682697773]</rmsdtc>
- <rmsgdt>[0.0291451476514339 0.0419163927435875 0.0520248524844646]</rmsgdt>
- <rmsdt>0.097302682697773</rmsdt>
- <dt>0.0703733861446381</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>[0.00882501527667046 0.0312622636556625 0.0443697683513165 0.0536261163651943 0.0608125850558281 0.0684139281511307]</dtc>
- <ll>[0.0845194630573923 0 0.0845194630573923 0;0.224400198412698 0.0128918688949939 0.237292067307692 6599.025390625;0.204321811189754 0.0159948338059182 0.220316644995672 11511.673828125;0.184686934280033 0.0185763367220887 0.203263271002122 20030.34375;0.168254670441014 0.0217931152617568 0.190047785702771 38123.8515625;0.168254670441014 0.0217931152617568 0.190047785702771 38123.8515625]</ll>
- <rmsdtc>[0.010738336481154 0.0383453965187073 0.0586104653775692 0.0858927071094513 0.112625308334827 0.118787102401257]</rmsdtc>
- <rmsgdt>[0.00312586058862507 0.0123837850987911 0.027926517650485 0.0497091077268124 0.0714853033423424 0.0756848901510239]</rmsgdt>
- <rmsdt>0.118787102401257</rmsdt>
- <dt>0.0684139281511307</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_22704/ds/sub-99/sub-99_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 42s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 14s</item>
- <item>Initial correction 13s</item>
- <item>Refine background 5s</item>
- <item>Final correction 9s</item>
- <item>Final scaling 9s</item>
- <item>64s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 13s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 79s</item>
- <item>SPM preprocessing 1 (estimate 2): 59s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 19s</item>
- <item>Update Segmentation 23s</item>
- <item>Update Skull-Stripping 50s</item>
- <item>Update probability maps 11s</item>
- <item>103s</item>
- <item>Global intensity correction: 19s</item>
- <item>SANLM denoising after intensity normalization (medium): 9s</item>
- <item>Fast Optimized Shooting registration 41s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 5s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.01) 18s</item>
- <item>Estimate local tissue thresholds (WM) 27s</item>
- <item>Estimate local tissue thresholds (GM) 40s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 33s</item>
- <item>129s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 9s</item>
- <item>Major structures 4s</item>
- <item>Ventricle detection 23s</item>
- <item>Blood vessel detection 13s</item>
- <item>WMH detection (WMHCstr=0.48 > WMHCstr'=0.00) 32s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 4s</item>
- <item>Final corrections 5s</item>
- <item>92s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 39s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.99 0.04]</item>
- <item>Final cleanup (gcutstr=0.24):</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>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 | 0.0845 0.0000 0.0845 | 32.0000</item>
- <item>2 | 2.50 | 0.0820 0.0011 0.0831 | 29.4886</item>
- <item>3 | 2.50 | 0.0813 0.0017 0.0830 | 26.9772</item>
- <item>4 | 2.50 | 0.0809 0.0019 0.0829 | 24.6107</item>
- <item>5 | 2.50 | 0.0806 0.0021 0.0827 | 22.6548</item>
- <item>6 | 2.50 | 0.0804 0.0022 0.0825 | 20.6989</item>
- <item>7 | 2.50 | 0.0801 0.0023 0.0824 | 18.9688</item>
- <item>8 | 2.50 | 0.0799 0.0024 0.0822 | 17.4455</item>
- <item>9 | 2.50 | 0.0796 0.0024 0.0820 | 15.9223</item>
- <item>10 | 2.50 | 0.0793 0.0025 0.0818 | 14.6627</item>
- <item>11 | 2.50 | 0.0790 0.0026 0.0816 | 13.4764</item>
- <item>12 | 2.50 | 0.0787 0.0026 0.0814 | 12.3015</item>
- <item>13 | 2.50 | 0.0784 0.0027 0.0812 | 11.3776</item>
- <item>14 | 2.50 | 0.0782 0.0028 0.0809 | 10.4537</item>
- <item>15 | 2.25 | 0.0779 0.0028 0.0807 | 9.5920</item>
- <item>16 | 2.25 | 0.0748 0.0043 0.0791 | 8.8725</item>
- <item>29 | 2.00 | 0.0763 0.0019 0.0782 | 3.3283</item>
- <item>30 | 2.00 | 0.0701 0.0044 0.0745 | 3.1221</item>
- <item>31 | 2.00 | 0.0681 0.0053 0.0734 | 2.9160</item>
- <item>43 | 1.75 | 0.0674 0.0030 0.0705 | 1.5785</item>
- <item>44 | 1.75 | 0.0630 0.0054 0.0684 | 1.5194</item>
- <item>45 | 1.75 | 0.0616 0.0062 0.0678 | 1.4626</item>
- <item>57 | 1.50 | 0.0604 0.0045 0.0648 | 1.0900</item>
- <item>58 | 1.50 | 0.0571 0.0066 0.0637 | 1.0730</item>
- <item>59 | 1.50 | 0.0561 0.0073 0.0633 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 191s</item>
- <item>Prepare output 13s</item>
- <item>204s</item>
- <item>Jacobian determinant (RMS): 0.011 0.038 0.059 0.086 0.113 | 0.118787</item>
- <item>Template Matching: 0.085 0.224 0.204 0.185 0.168 | 0.168255</item>
- <item>Write result maps: 27s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 45s</item>
- <item>CSF distance: 24s</item>
- <item>PBT2x thickness: 68s</item>
- <item>145s</item>
- <item>Create initial surface 120s</item>
- <item>Topology correction: 133s</item>
- <item>Surface refinement: 150s</item>
- <item>Reduction of surface collisions with optimization: 108s</item>
- <item>Spherical mapping with areal smoothing 122s</item>
- <item>Spherical registration 340s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 41s</item>
- <item>CSF distance: 23s</item>
- <item>PBT2x thickness: 65s</item>
- <item>138s</item>
- <item>Create initial surface 116s</item>
- <item>Topology correction: 125s</item>
- <item>Surface refinement: 109s</item>
- <item>Reduction of surface collisions with optimization: 102s</item>
- <item>Spherical mapping with areal smoothing 116s</item>
- <item>Spherical registration 322s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.6008 0.6570 mm</item>
- <item>Surface intensity / position RMSE: 0.0743 / 0.0861</item>
- <item>Euler number / defect number / defect size: 46.0 / 25.0 / 1.72%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_22704/ds/sub-99/surf/lh.thickness.sub-99_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_22704/ds/sub-99/surf/rh.thickness.sub-99_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_22704/ds/sub-99/sub-99_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 2268s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 8s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 30s</item>
- <item>ROI estimation of 'lpba40' atlas 9s</item>
- <item>ROI estimation of 'hammers' atlas 21s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 7s</item>
- <item>ROI estimation of 'aal3' atlas 12s</item>
- <item>ROI estimation of 'mori' atlas 19s</item>
- <item>ROI estimation of 'anatomy3' atlas 26s</item>
- <item>ROI estimation of 'julichbrain' atlas 35s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 14s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 24s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 56s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 84s</item>
- <item>Write results 85s</item>
- <item>349s</item>
- <item>Quality check: 6s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_22704/ds/sub-99/report/catreport_sub-99_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 61 minute(s) and 7 second(s).</item>
- <item>Image Quality Rating (IQR): 81.28% (B-)</item>
- <item>GM volume (GMV): 50.51% (852.72 / 1688.08 ml)</item>
- <item>GM thickness (GMT): 2.60 0.66 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_22704/ds/sub-99/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_22704/ds/sub-99/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_22704/ds/sub-99/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|