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- <F>/var/lib/condor/execute/dir_11102/ds/sub-22/sub-22_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_11102/ds/sub-22/mri/msub-22_T1w.nii</Fm>
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- <fnames>..11102/ds/sub-22/sub-22_T1w</fnames>
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- <parameter>
- <opts>
- <tpm>
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- <ngaus>[1 1 2 3 4 2]</ngaus>
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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>
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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
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- <nproc>32</nproc>
- <species>human</species>
- <APP>1070</APP>
- <setCOM>1</setCOM>
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- <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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- <add_parahipp>0.1</add_parahipp>
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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>
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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>
- <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>
- <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/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>
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- <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>
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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>
- <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>
- <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/julichbrain.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_100Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <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/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>
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- <td>1</td>
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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/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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- <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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- <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>
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- <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>
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- <td>0</td>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
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- </shootingtpms>
- <templates>
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- </templates>
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- <tissue_mnr>[0.0244402568787336 0.222935795783997 0.652578234672546 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[22.9531120813681 16.9676047050294 16.1296937696903 9.13968548922107]</tissue_std>
- <tissue_stdr>[0.164624661207199 0.121695309877396 0.115685634315014 0.0655517876148224]</tissue_stdr>
- <contrast>50.8974380493164</contrast>
- <contrastr>0.35612553358078</contrastr>
- <NCR>0.148831829428673</NCR>
- <ICR>0.326261162757874</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.19999694824219 2 2]</res_vx_vol>
- <res_RMS>2.06881500480146</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[8.62389945983887 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>2.74145030975342</contrastr>
- <NCR>2.46758317947388</NCR>
- <ICR>1.26900088787079</ICR>
- <SurfaceEulerNumber>2.02040816326531</SurfaceEulerNumber>
- <SurfaceDefectArea>1.14834332454722</SurfaceDefectArea>
- <SurfaceDefectNumber>1.85</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.31182014942169</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.32078433036804</SurfacePositionRMSE>
- <IQR>2.32541636799107</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>20220703-110116</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>22</SurfaceEulerNumber>
- <SurfaceDefectArea>0.593373298188879</SurfaceDefectArea>
- <SurfaceDefectNumber>17</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0655910074710846</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0660392194986343</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>22</EC_abs>
- <defect_size>0.593373298188879</defect_size>
- <vol_abs_CGW>[210.024852582535 713.143215851039 485.247913155799 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.381936725092869</vol_abs_WMH>
- <vol_rel_WMH>0.000271181760279275</vol_rel_WMH>
- <surf_TSA>1922.91184322633</surf_TSA>
- <vol_TIV>1408.41598158937</vol_TIV>
- <vol_rel_CGW>[0.149121321632211 0.506344166193194 0.344534512174595 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.61917749407841 0.61942881158418]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.61699461936951 0.763740917148963 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.99763702134001 0.264650654162347 0.280641355433921;2.62207346625551 0.177033798135809 0.427879749079679;3.27066705610838 0.275934014322575 0.2914788954864]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.947361571926598 0.327457861693545 0.546792849631966;4.24636492204173 0.358098676998865 0.453207150368034]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.001687308135</vol_TIV>
- <vol_rel_CGW>[0.528040977589996 6.94368114571109 4.03761695715868 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.02711817602793</vol_rel_WMH>
- <surf_TSA>8.6162041230032</surf_TSA>
- <SQR>5.68752688807245</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.203082132199643 61 12 9795.12451255035 0.565538972907049]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0374592617154121 0.0427761934697628 0.0941062346100807]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[857.231925388052 438.641141728629 356.595132794848 1434.1116267296 2419.90654240708 7616.55178164808]</SPMvols0>
- <SPMvols1>[753.64479300202 411.383766205761 200.334228377967 1721.58092717806 2037.0853926587 7167.62568438245]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[38.138500213623 97.8551025390625 146.095504760742]</T3th>
- <Tth>
- <T3th>[0 0 6.37590599060059 38.138500213623 97.8551025390625 146.095504760742 200.074005126953 578.529235839844]</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>[0.0219758935272694 0.0783610790967941 0.0874186679720879 0 0]</dtc>
- <ll>[0.0850563980475002 0 0.0850563980475002 0;0.197280151074102 0.0114038039226921 0.208683954996794 2431.83837890625;0.197280151074102 0.0114038039226921 0.208683954996794 2431.83837890625]</ll>
- <rmsdtc>[0.0437140241265297 0.106536649167538 0.118487447500229]</rmsdtc>
- <rmsgdt>[0.0304434075951576 0.0464254952967167 0.0572085455060005]</rmsgdt>
- <rmsdt>0.118487447500229</rmsdt>
- <dt>0.0874186679720879</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>[0.0104025257751346 0.0440345890820026 0.0569655150175095 0.0654531866312027 0.0718465819954872 0.0824633240699768]</dtc>
- <ll>[0.0868655038309544 0 0.0868655038309544 0;0.223942582417582 0.01886944253663 0.242812024954212 9658.7958984375;0.206526946716186 0.0197713172725687 0.226298263988755 14229.654296875;0.184676674809325 0.0212570472999855 0.20593372210931 22920.87890625;0.167648571357525 0.0242181904181146 0.191866761775639 42366.1640625;0.167648571357525 0.0242181904181146 0.191866761775639 42366.1640625]</ll>
- <rmsdtc>[0.0124428737908602 0.0473981574177742 0.0744862705469131 0.101908348500729 0.127940997481346 0.135533526539803]</rmsdtc>
- <rmsgdt>[0.00351891247555614 0.0142978131771088 0.0323322154581547 0.0549596026539803 0.0757053419947624 0.0815947949886322]</rmsgdt>
- <rmsdt>0.135533526539803</rmsdt>
- <dt>0.0824633240699768</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_11102/ds/sub-22/sub-22_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 30s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 10s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 4s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 7s</item>
- <item>44s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 7s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 60s</item>
- <item>SPM preprocessing 1 (estimate 2): 46s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 14s</item>
- <item>Update Segmentation 17s</item>
- <item>Update Skull-Stripping 36s</item>
- <item>Update probability maps 8s</item>
- <item>75s</item>
- <item>Global intensity correction: 14s</item>
- <item>SANLM denoising after intensity normalization (medium): 5s</item>
- <item>Fast Optimized Shooting registration 30s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 3s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.00) 11s</item>
- <item>Estimate local tissue thresholds (WM) 17s</item>
- <item>Estimate local tissue thresholds (GM) 24s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 23s</item>
- <item>83s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 12s</item>
- <item>Blood vessel detection 7s</item>
- <item>WMH detection (WMHCstr=0.48 > WMHCstr'=0.00) 20s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 4s</item>
- <item>57s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 28s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.99 0.05]</item>
- <item>Final cleanup (gcutstr=0.24):</item>
- <item>Level 1 cleanup (ROI estimation) 3s</item>
- <item>Level 1 cleanup (brain masking) 2s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 2s</item>
- <item>9s</item>
- <item>Optimized Shooting registration with 2.50:-0.25:1.50 mm (regstr=0.50):</item>
- <item>Template: "/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii"</item>
- <item>1 | 2.50 | 0.0869 0.0000 0.0869 | 32.0000</item>
- <item>2 | 2.50 | 0.0839 0.0012 0.0852 | 29.4886</item>
- <item>3 | 2.50 | 0.0830 0.0019 0.0850 | 26.9772</item>
- <item>4 | 2.50 | 0.0826 0.0022 0.0848 | 24.6107</item>
- <item>5 | 2.50 | 0.0822 0.0024 0.0846 | 22.6548</item>
- <item>6 | 2.50 | 0.0819 0.0025 0.0844 | 20.6989</item>
- <item>7 | 2.50 | 0.0816 0.0026 0.0842 | 18.9688</item>
- <item>8 | 2.50 | 0.0812 0.0028 0.0840 | 17.4455</item>
- <item>9 | 2.50 | 0.0809 0.0029 0.0837 | 15.9223</item>
- <item>10 | 2.50 | 0.0805 0.0030 0.0835 | 14.6627</item>
- <item>11 | 2.50 | 0.0801 0.0031 0.0832 | 13.4764</item>
- <item>12 | 2.50 | 0.0797 0.0032 0.0829 | 12.3015</item>
- <item>13 | 2.50 | 0.0793 0.0033 0.0827 | 11.3776</item>
- <item>14 | 2.50 | 0.0789 0.0034 0.0823 | 10.4537</item>
- <item>15 | 2.25 | 0.0807 0.0035 0.0842 | 9.5920</item>
- <item>16 | 2.25 | 0.0772 0.0053 0.0825 | 8.8725</item>
- <item>17 | 2.25 | 0.0756 0.0060 0.0816 | 8.1530</item>
- <item>18 | 2.25 | 0.0746 0.0063 0.0809 | 7.5234</item>
- <item>29 | 2.00 | 0.0769 0.0030 0.0800 | 3.3283</item>
- <item>30 | 2.00 | 0.0710 0.0056 0.0766 | 3.1221</item>
- <item>31 | 2.00 | 0.0688 0.0066 0.0754 | 2.9160</item>
- <item>43 | 1.75 | 0.0678 0.0038 0.0716 | 1.5785</item>
- <item>44 | 1.75 | 0.0632 0.0062 0.0694 | 1.5194</item>
- <item>45 | 1.75 | 0.0616 0.0071 0.0686 | 1.4626</item>
- <item>57 | 1.50 | 0.0604 0.0052 0.0656 | 1.0900</item>
- <item>58 | 1.50 | 0.0570 0.0074 0.0644 | 1.0730</item>
- <item>59 | 1.50 | 0.0559 0.0081 0.0640 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 151s</item>
- <item>Prepare output 9s</item>
- <item>160s</item>
- <item>Jacobian determinant (RMS): 0.012 0.047 0.074 0.102 0.128 | 0.135534</item>
- <item>Template Matching: 0.087 0.224 0.207 0.185 0.168 | 0.167649</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: 24s</item>
- <item>CSF distance: 13s</item>
- <item>PBT2x thickness: 40s</item>
- <item>82s</item>
- <item>Create initial surface 74s</item>
- <item>Topology correction: 84s</item>
- <item>Surface refinement: 88s</item>
- <item>Reduction of surface collisions with optimization: 62s</item>
- <item>Spherical mapping with areal smoothing 70s</item>
- <item>Spherical registration 263s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 24s</item>
- <item>CSF distance: 13s</item>
- <item>PBT2x thickness: 39s</item>
- <item>82s</item>
- <item>Create initial surface 74s</item>
- <item>Topology correction: 81s</item>
- <item>Surface refinement: 67s</item>
- <item>Reduction of surface collisions with optimization: 62s</item>
- <item>Spherical mapping with areal smoothing 71s</item>
- <item>Spherical registration 261s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.6192 0.6192 mm</item>
- <item>Surface intensity / position RMSE: 0.0656 / 0.0660</item>
- <item>Euler number / defect number / defect size: 22.0 / 17.0 / 0.59%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_11102/ds/sub-22/surf/lh.thickness.sub-22_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_11102/ds/sub-22/surf/rh.thickness.sub-22_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_11102/ds/sub-22/sub-22_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1501s</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 21s</item>
- <item>ROI estimation of 'julichbrain' atlas 28s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 11s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 20s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 45s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 68s</item>
- <item>Write results 68s</item>
- <item>285s</item>
- <item>Quality check: 4s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_11102/ds/sub-22/report/catreport_sub-22_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 42 minute(s) and 20 second(s).</item>
- <item>Image Quality Rating (IQR): 81.75% (B-)</item>
- <item>GM volume (GMV): 50.63% (713.14 / 1408.42 ml)</item>
- <item>GM thickness (GMT): 2.62 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_11102/ds/sub-22/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_11102/ds/sub-22/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_11102/ds/sub-22/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|