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- <fnames>..19088/ds/sub-13/sub-13_T1w</fnames>
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- <parameter>
- <opts>
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- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
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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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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
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- <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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- <scale_cortex>0.7</scale_cortex>
- <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>
- <send_info>1</send_info>
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- <tr>
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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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- <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>
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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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- <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>
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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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- <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>
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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>[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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- <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>[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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- <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>
- <td>1</td>
- <td>0</td>
- </tr>
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- <LAB>
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- <PH>25</PH>
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- <optimal>[1 0.3]</optimal>
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- <templates>
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- </templates>
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- <tissue_mnr>[0.0150080816820264 0.293810814619064 0.670456945896149 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[5.62016192627743 39.1934501887223 34.8852656537012 23.7730527612006]</tissue_std>
- <tissue_stdr>[0.0158903393894434 0.110814817249775 0.0986339375376701 0.0672154799103737]</tissue_stdr>
- <contrast>120.13306427002</contrast>
- <contrastr>0.33456426858902</contrastr>
- <NCR>0.122640371322632</NCR>
- <ICR>0.271841496229172</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2 1.953125 1.953125]</res_vx_vol>
- <res_RMS>1.96887400403124</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>3.06486916542053</contrastr>
- <NCR>2.09159302711487</NCR>
- <ICR>1.13403153419495</ICR>
- <SurfaceEulerNumber>2.73469387755102</SurfaceEulerNumber>
- <SurfaceDefectArea>1.24270652008698</SurfaceDefectArea>
- <SurfaceDefectNumber>1.925</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.43564283847809</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.44388651847839</SurfacePositionRMSE>
- <IQR>2.03666714684209</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>20220712-143753</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>36</SurfaceEulerNumber>
- <SurfaceDefectArea>0.970826080347903</SurfaceDefectArea>
- <SurfaceDefectNumber>18.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0717821419239044</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0721943229436874</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>36</EC_abs>
- <defect_size>0.970826080347903</defect_size>
- <vol_abs_CGW>[239.644577923943 706.40448401956 467.948674220665 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.253045325185738</vol_abs_WMH>
- <vol_rel_WMH>0.000178957376461004</vol_rel_WMH>
- <surf_TSA>1951.65674342431</surf_TSA>
- <vol_TIV>1413.99773616417</vol_TIV>
- <vol_rel_CGW>[0.169480170862254 0.49957964284714 0.330940186290606 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.58630039507642 0.629545289631197]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.60192203521729 0.728133433747749 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.93520317274356 0.245984791019723 0.285429557166014;2.59058579832657 0.181287568896134 0.40727986023072;3.22425510370631 0.257108356293746 0.307290582603266]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.954183797377251 0.32794772478708 0.515283018867924;4.17022461866117 0.357618297019947 0.484716981132075]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.00466676103802</vol_TIV>
- <vol_rel_CGW>[0.893681229566337 6.82219186147881 3.79346598941462 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.0178957376461</vol_rel_WMH>
- <surf_TSA>8.61880460442324</surf_TSA>
- <SQR>5.58530065967135</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.240159270051238 12 2 7313.46702575684 0.414165436247593]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0131944194436073 0.00850029103457928 0.371079385280609]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[838.565979751886 414.069175720215 401.652893365598 643.322062024883 1441.22386633181 6521.44172892851]</SPMvols0>
- <SPMvols1>[743.456451565611 386.636427337048 239.250901166131 675.026500926298 1306.56795875699 6274.65100007899]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[119.926002502441 258.670806884766 351.015197753906]</T3th>
- <Tth>
- <T3th>[0 0 8.47887992858887 119.926002502441 258.670806884766 351.015197753906 466.559814453125 1158.19348144531]</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>[0.019030787050724 0.0682469606399536 0.0747789964079857 0 0]</dtc>
- <ll>[0.0831100567668474 0 0.0831100567668474 0;0.194136089494392 0.00993060951187115 0.204066699006263 2117.6826171875;0.194136089494392 0.00993060951187115 0.204066699006263 2117.6826171875]</ll>
- <rmsdtc>[0.0425649620592594 0.0904956758022308 0.100438989698887]</rmsdtc>
- <rmsgdt>[0.0309409182518721 0.0428618229925632 0.0527624785900116]</rmsgdt>
- <rmsdt>0.100438989698887</rmsdt>
- <dt>0.0747789964079857</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>[0.00845250766724348 0.0310087017714977 0.0438985750079155 0.0522218011319637 0.0582273192703724 0.0648739114403725]</dtc>
- <ll>[0.0850081166111561 0 0.0850081166111561 0;0.220851007326007 0.0139470943986569 0.234798101724664 7139.1689453125;0.198894748871771 0.016624998523715 0.215519747395486 11965.2109375;0.179572791002641 0.0182471479106153 0.197819938913257 19675.388671875;0.166331905996103 0.0190589704808006 0.185390876476903 33340.8671875;0.166331905996103 0.0190589704808006 0.185390876476903 33340.8671875]</ll>
- <rmsdtc>[0.0100320819765329 0.0367833524942398 0.0563561469316483 0.0809950977563858 0.10465233027935 0.108880810439587]</rmsdtc>
- <rmsgdt>[0.00321103958413005 0.0124983564019203 0.0278106722980738 0.0475640967488289 0.0654821842908859 0.0693892389535904]</rmsgdt>
- <rmsdt>0.108880810439587</rmsdt>
- <dt>0.0648739114403725</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_19088/ds/sub-13/sub-13_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 85s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 8s</item>
- <item>Initial correction 10s</item>
- <item>Refine background 4s</item>
- <item>Final correction 8s</item>
- <item>Final scaling 7s</item>
- <item>54s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 16s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 91s</item>
- <item>SPM preprocessing 1 (estimate 2): 97s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 20s</item>
- <item>Update Segmentation 24s</item>
- <item>Update Skull-Stripping 50s</item>
- <item>Update probability maps 11s</item>
- <item>105s</item>
- <item>Global intensity correction: 20s</item>
- <item>SANLM denoising after intensity normalization (medium): 17s</item>
- <item>Fast Optimized Shooting registration 44s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 6s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.00) 18s</item>
- <item>Estimate local tissue thresholds (WM) 20s</item>
- <item>Estimate local tissue thresholds (GM) 29s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 37s</item>
- <item>117s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 11s</item>
- <item>Major structures 5s</item>
- <item>Ventricle detection 20s</item>
- <item>Blood vessel detection 11s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.01) 30s</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>90s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 48s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 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) 4s</item>
- <item>15s</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 | 0.0850 0.0000 0.0850 | 32.0000</item>
- <item>2 | 2.50 | 0.0823 0.0012 0.0835 | 29.4886</item>
- <item>3 | 2.50 | 0.0815 0.0019 0.0833 | 26.9772</item>
- <item>4 | 2.50 | 0.0811 0.0021 0.0832 | 24.6107</item>
- <item>5 | 2.50 | 0.0808 0.0022 0.0830 | 22.6548</item>
- <item>6 | 2.50 | 0.0805 0.0023 0.0828 | 20.6989</item>
- <item>7 | 2.50 | 0.0802 0.0024 0.0826 | 18.9688</item>
- <item>8 | 2.50 | 0.0799 0.0025 0.0824 | 17.4455</item>
- <item>9 | 2.50 | 0.0796 0.0026 0.0822 | 15.9223</item>
- <item>10 | 2.50 | 0.0793 0.0027 0.0820 | 14.6627</item>
- <item>11 | 2.50 | 0.0790 0.0028 0.0817 | 13.4764</item>
- <item>12 | 2.50 | 0.0786 0.0028 0.0815 | 12.3015</item>
- <item>13 | 2.50 | 0.0783 0.0030 0.0812 | 11.3776</item>
- <item>14 | 2.50 | 0.0780 0.0030 0.0810 | 10.4537</item>
- <item>15 | 2.25 | 0.0769 0.0031 0.0800 | 9.5920</item>
- <item>16 | 2.25 | 0.0736 0.0046 0.0783 | 8.8725</item>
- <item>29 | 2.00 | 0.0745 0.0021 0.0766 | 3.3283</item>
- <item>30 | 2.00 | 0.0682 0.0046 0.0729 | 3.1221</item>
- <item>31 | 2.00 | 0.0663 0.0055 0.0718 | 2.9160</item>
- <item>43 | 1.75 | 0.0653 0.0032 0.0684 | 1.5785</item>
- <item>44 | 1.75 | 0.0611 0.0054 0.0665 | 1.5194</item>
- <item>45 | 1.75 | 0.0599 0.0061 0.0659 | 1.4626</item>
- <item>57 | 1.50 | 0.0584 0.0044 0.0628 | 1.0900</item>
- <item>58 | 1.50 | 0.0554 0.0064 0.0618 | 1.0730</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 210s</item>
- <item>Prepare output 12s</item>
- <item>221s</item>
- <item>Jacobian determinant (RMS): 0.010 0.037 0.056 0.081 0.105 | 0.108881</item>
- <item>Template Matching: 0.085 0.221 0.199 0.180 0.166 | 0.166332</item>
- <item>Write result maps: 38s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 41s</item>
- <item>CSF distance: 20s</item>
- <item>PBT2x thickness: 58s</item>
- <item>127s</item>
- <item>Create initial surface 102s</item>
- <item>Topology correction: 119s</item>
- <item>Surface refinement: 94s</item>
- <item>Reduction of surface collisions with optimization: 95s</item>
- <item>Spherical mapping with areal smoothing 106s</item>
- <item>Spherical registration 298s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 52s</item>
- <item>CSF distance: 19s</item>
- <item>PBT2x thickness: 58s</item>
- <item>137s</item>
- <item>Create initial surface 103s</item>
- <item>Topology correction: 116s</item>
- <item>Surface refinement: 95s</item>
- <item>Reduction of surface collisions with optimization: 96s</item>
- <item>Spherical mapping with areal smoothing 106s</item>
- <item>Spherical registration 284s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5863 0.6291 mm</item>
- <item>Surface intensity / position RMSE: 0.0718 / 0.0722</item>
- <item>Euler number / defect number / defect size: 36.0 / 18.5 / 0.97%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_19088/ds/sub-13/surf/lh.thickness.sub-13_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_19088/ds/sub-13/surf/rh.thickness.sub-13_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_19088/ds/sub-13/sub-13_T1w.nii</item>
- <item>Surface ROI estimation: 9s</item>
- <item>Surface and thickness estimation takes: 1992s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 16s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 57s</item>
- <item>ROI estimation of 'lpba40' atlas 17s</item>
- <item>ROI estimation of 'hammers' atlas 41s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 14s</item>
- <item>ROI estimation of 'aal3' atlas 24s</item>
- <item>ROI estimation of 'mori' atlas 36s</item>
- <item>ROI estimation of 'anatomy3' atlas 50s</item>
- <item>ROI estimation of 'julichbrain' atlas 68s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 26s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 38s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 108s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 161s</item>
- <item>Write results 162s</item>
- <item>659s</item>
- <item>Quality check: 6s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_19088/ds/sub-13/report/catreport_sub-13_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 64 minute(s) and 16 second(s).</item>
- <item>Image Quality Rating (IQR): 84.63% (B)</item>
- <item>GM volume (GMV): 49.96% (706.40 / 1414.00 ml)</item>
- <item>GM thickness (GMT): 2.59 0.63 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_19088/ds/sub-13/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_19088/ds/sub-13/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_19088/ds/sub-13/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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