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- <fnames>..98/ds/sub-sc002/sub-sc002_T1w</fnames>
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- <parameter>
- <opts>
- <tpm>
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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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- <WMHC>2</WMHC>
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- <mrf>1</mrf>
- <restype>optimal</restype>
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- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
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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>
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- <scale_cortex>0.7</scale_cortex>
- <add_parahipp>0.1</add_parahipp>
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- <report/>
- <verb>2</verb>
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- <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>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/thalamus.nii</td>
- <td>0</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
- <td>0</td>
- <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>
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- <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>
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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>
- <td>
- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
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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>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
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- <LASmyostr>0</LASmyostr>
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- </shootingtpms>
- <templates>
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- <SurfaceEulerNumber>8</SurfaceEulerNumber>
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- <tissue_mn>[0 145675.796875 315319.5 457045.5]</tissue_mn>
- <tissue_mnr>[0 0.318733692169189 0.68990832567215 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[47494.6038788017 52447.1042223371 46507.4781267781 27984.9089321852]</tissue_std>
- <tissue_stdr>[0.103916577994823 0.114752478897572 0.101756781339645 0.0612300299108028]</tissue_stdr>
- <contrast>141726</contrast>
- <contrastr>0.31009167432785</contrastr>
- <NCR>0.11021988093853</NCR>
- <ICR>0.277536243200302</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2 2 2]</res_vx_vol>
- <res_RMS>2</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>3.43195819854736</contrastr>
- <NCR>1.91329145431519</NCR>
- <ICR>1.14815533161163</ICR>
- <SurfaceEulerNumber>1.30612244897959</SurfaceEulerNumber>
- <SurfaceDefectArea>1.04653805853375</SurfaceDefectArea>
- <SurfaceDefectNumber>1.375</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.16147148609161</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.15968036651611</SurfacePositionRMSE>
- <IQR>1.95999192688525</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>20220711-173631</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>8</SurfaceEulerNumber>
- <SurfaceDefectArea>0.186152234135002</SurfaceDefectArea>
- <SurfaceDefectNumber>7.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0580735728144646</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0579840168356895</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>8</EC_abs>
- <defect_size>0.186152234135002</defect_size>
- <vol_abs_CGW>[278.567447058824 664.933792156863 550.530505882353 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.956980392156863</vol_abs_WMH>
- <vol_rel_WMH>0.000640535514253123</vol_rel_WMH>
- <surf_TSA>1985.81948835835</surf_TSA>
- <vol_TIV>1494.03174509804</vol_TIV>
- <vol_rel_CGW>[0.186453499380325 0.445060015852092 0.368486484767582 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.51693998485849 0.597374553369025]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.52776718139648 0.697795871267036 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.91398548723108 0.236209302866145 0.284468929153246;2.53253249169567 0.169863880039068 0.432218671110393;3.13905845828817 0.250969788169213 0.283312399736361]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.922438625328317 0.335993952912742 0.513023994024834;4.06393259498605 0.357498264626579 0.486976005975166]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.20777614693065</vol_TIV>
- <vol_rel_CGW>[1.1985183078363 5.84303189389534 4.46778887872813 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.06405355142531</vol_rel_WMH>
- <surf_TSA>8.62084070081021</surf_TSA>
- <SQR>4.84469675455632</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.629127502441406 3700 1424 3888.88 0.390693131189442]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0 0 0.325180023908615]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[812.880176470588 487.58362745098 388.500266666667 470.981160784314 1825.84466666667 7088.01803137255]</SPMvols0>
- <SPMvols1>[728.558368627451 459.964054901961 250.091047058824 370.48197254902 1197.51225490196 7479.17640392157]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[148050.6875 340393.5 451296]</T3th>
- <Tth>
- <T3th>[0 0 3938.8291015625 148050.6875 340393.5 451296 602918.625 833331.6875]</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>[0.021180734038353 0.0769629403948784 0.0854054316878319 0 0]</dtc>
- <ll>[0.0829839565220619 0 0.0829839565220619 0;0.193024634170074 0.0110846069537434 0.204109241123818 2363.77026367188;0.193024634170074 0.0110846069537434 0.204109241123818 2363.77026367188]</ll>
- <rmsdtc>[0.0456189550459385 0.102427072823048 0.114786736667156]</rmsdtc>
- <rmsgdt>[0.0324442125856876 0.0476990789175034 0.0586240403354168]</rmsgdt>
- <rmsdt>0.114786736667156</rmsdt>
- <dt>0.0854054316878319</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>[0.010248651728034 0.0372013598680496 0.0539117269217968 0.0630585104227066 0.0690649971365929 0.0786282420158386]</dtc>
- <ll>[0.0844087163948188 0 0.0844087163948188 0;0.223696245421245 0.0137458295177045 0.23744207493895 7036.146484375;0.199152729668256 0.017996882455239 0.217149612123495 12952.572265625;0.17701622654117 0.0201843131301749 0.197200539671345 21764.1796875;0.159632196875073 0.0227990630678885 0.182431259942962 39883.609375;0.159632196875073 0.0227990630678885 0.182431259942962 39883.609375]</ll>
- <rmsdtc>[0.0119829084724188 0.0436128601431847 0.0672896131873131 0.0960766598582268 0.121102683246136 0.127489849925041]</rmsdtc>
- <rmsgdt>[0.00348685798235238 0.0140516348183155 0.0301962178200483 0.0507405698299408 0.0708037912845612 0.0736003741621971]</rmsgdt>
- <rmsdt>0.127489849925041</rmsdt>
- <dt>0.0786282420158386</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./execute/dir_9598/ds/sub-sc002/sub-sc002_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 34s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 8s</item>
- <item>Estimate background 9s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 4s</item>
- <item>Final correction 7s</item>
- <item>Final scaling 7s</item>
- <item>50s</item>
- <item>Correct center-of-mass 6s</item>
- <item>Affine registration 13s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 103s</item>
- <item>SPM preprocessing 1 (estimate 2): 87s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 23s</item>
- <item>Update Segmentation 26s</item>
- <item>Update Skull-Stripping 55s</item>
- <item>Update probability maps 11s</item>
- <item>114s</item>
- <item>Global intensity correction: 21s</item>
- <item>SANLM denoising after intensity normalization (medium): 21s</item>
- <item>Fast Optimized Shooting registration 49s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 6s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.18) 21s</item>
- <item>Estimate local tissue thresholds (WM) 23s</item>
- <item>Estimate local tissue thresholds (GM) 28s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 24s</item>
- <item>109s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 11s</item>
- <item>Major structures 5s</item>
- <item>Ventricle detection 17s</item>
- <item>Blood vessel detection 12s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.04) 34s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 5s</item>
- <item>Final corrections 6s</item>
- <item>93s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 55s</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) 6s</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>16s</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 | 0.0844 0.0000 0.0844 | 32.0000</item>
- <item>2 | 2.50 | 0.0819 0.0012 0.0831 | 29.4886</item>
- <item>3 | 2.50 | 0.0812 0.0017 0.0830 | 26.9772</item>
- <item>4 | 2.50 | 0.0809 0.0020 0.0828 | 24.6107</item>
- <item>5 | 2.50 | 0.0806 0.0021 0.0827 | 22.6548</item>
- <item>6 | 2.50 | 0.0803 0.0022 0.0825 | 20.6989</item>
- <item>7 | 2.50 | 0.0800 0.0023 0.0823 | 18.9688</item>
- <item>8 | 2.50 | 0.0798 0.0024 0.0822 | 17.4455</item>
- <item>9 | 2.50 | 0.0795 0.0025 0.0820 | 15.9223</item>
- <item>10 | 2.50 | 0.0792 0.0026 0.0818 | 14.6627</item>
- <item>11 | 2.50 | 0.0789 0.0027 0.0816 | 13.4764</item>
- <item>12 | 2.50 | 0.0785 0.0028 0.0813 | 12.3015</item>
- <item>13 | 2.50 | 0.0782 0.0029 0.0811 | 11.3776</item>
- <item>14 | 2.50 | 0.0779 0.0030 0.0808 | 10.4537</item>
- <item>15 | 2.25 | 0.0777 0.0030 0.0807 | 9.5920</item>
- <item>16 | 2.25 | 0.0746 0.0046 0.0791 | 8.8725</item>
- <item>29 | 2.00 | 0.0757 0.0021 0.0778 | 3.3283</item>
- <item>30 | 2.00 | 0.0688 0.0048 0.0736 | 3.1221</item>
- <item>31 | 2.00 | 0.0664 0.0060 0.0724 | 2.9160</item>
- <item>43 | 1.75 | 0.0651 0.0035 0.0686 | 1.5785</item>
- <item>44 | 1.75 | 0.0606 0.0059 0.0664 | 1.5194</item>
- <item>45 | 1.75 | 0.0590 0.0067 0.0657 | 1.4626</item>
- <item>57 | 1.50 | 0.0574 0.0049 0.0623 | 1.0900</item>
- <item>58 | 1.50 | 0.0543 0.0070 0.0612 | 1.0730</item>
- <item>59 | 1.50 | 0.0532 0.0076 0.0608 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 259s</item>
- <item>Prepare output 13s</item>
- <item>272s</item>
- <item>Jacobian determinant (RMS): 0.012 0.044 0.067 0.096 0.121 | 0.127490</item>
- <item>Template Matching: 0.084 0.224 0.199 0.177 0.160 | 0.159632</item>
- <item>Write result maps: 46s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 50s</item>
- <item>CSF distance: 21s</item>
- <item>PBT2x thickness: 63s</item>
- <item>143s</item>
- <item>Create initial surface 113s</item>
- <item>Topology correction: 125s</item>
- <item>Surface refinement: 123s</item>
- <item>Reduction of surface collisions with optimization: 104s</item>
- <item>Spherical mapping with areal smoothing 115s</item>
- <item>Spherical registration 287s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 49s</item>
- <item>CSF distance: 21s</item>
- <item>PBT2x thickness: 64s</item>
- <item>143s</item>
- <item>Create initial surface 112s</item>
- <item>Topology correction: 158s</item>
- <item>Surface refinement: 154s</item>
- <item>Reduction of surface collisions with optimization: 102s</item>
- <item>Spherical mapping with areal smoothing 116s</item>
- <item>Spherical registration 314s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5170 0.5973 mm</item>
- <item>Surface intensity / position RMSE: 0.0581 / 0.0580</item>
- <item>Euler number / defect number / defect size: 8.0 / 7.5 / 0.19%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_9598/ds/sub-sc002/surf/lh.thickness.sub-sc002_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_9598/ds/sub-sc002/surf/rh.thickness.sub-sc002_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_9598/ds/sub-sc002/sub-sc002_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 2235s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 14s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 53s</item>
- <item>ROI estimation of 'lpba40' atlas 15s</item>
- <item>ROI estimation of 'hammers' atlas 37s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 13s</item>
- <item>ROI estimation of 'aal3' atlas 22s</item>
- <item>ROI estimation of 'mori' atlas 32s</item>
- <item>ROI estimation of 'anatomy3' atlas 47s</item>
- <item>ROI estimation of 'julichbrain' atlas 62s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 24s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 30s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 100s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 149s</item>
- <item>Write results 151s</item>
- <item>606s</item>
- <item>Quality check: 7s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_9598/ds/sub-sc002/report/catreport_sub-sc002_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 67 minute(s) and 33 second(s).</item>
- <item>Image Quality Rating (IQR): 85.40% (B)</item>
- <item>GM volume (GMV): 44.51% (664.93 / 1494.03 ml)</item>
- <item>GM thickness (GMT): 2.52 0.60 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_9598/ds/sub-sc002/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_9598/ds/sub-sc002/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_9598/ds/sub-sc002/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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