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- <parameter>
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- </tpm>
- <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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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
- <bids_yes>0</bids_yes>
- <nproc>8</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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- <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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- <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>
- <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>
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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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- <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>
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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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- <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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- <td>[false]</td>
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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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- <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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- <td>Schaefer2018_200P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_200Parcels_17Networks_order.annot</td>
- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_400P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_400Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_600P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_600Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <LAB>
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- <MB>13</MB>
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- </shootingtpm>
- <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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- <qualitymeasures>
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- <tissue_mn>[16.5590000152588 272.861083984375 1052.48547363281 1679.35510253906]</tissue_mn>
- <tissue_mnr>[0.00986033212393522 0.162479683756828 0.626720011234283 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[11.1664741841128 187.866172386499 190.890656166149 116.730060698003]</tissue_std>
- <tissue_stdr>[0.00671547977253795 0.112982086837292 0.114800997078419 0.0702010616660118]</tissue_stdr>
- <contrast>601.098083496094</contrast>
- <contrastr>0.357933878898621</contrastr>
- <NCR>0.146678954362869</NCR>
- <ICR>0.318181931972504</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>[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>2.71432495117188</contrastr>
- <NCR>2.4366774559021</NCR>
- <ICR>1.24896311759949</ICR>
- <SurfaceEulerNumber>1.71428571428571</SurfaceEulerNumber>
- <SurfaceDefectArea>1.35987465729295</SurfaceDefectArea>
- <SurfaceDefectNumber>1.575</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.46394395828247</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>2.02298927307129</SurfacePositionRMSE>
- <IQR>2.28737547961106</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>20220711-082940</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>16</SurfaceEulerNumber>
- <SurfaceDefectArea>1.43949862917178</SurfaceDefectArea>
- <SurfaceDefectNumber>11.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0731972008943558</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.101149462163448</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>16</EC_abs>
- <defect_size>1.43949862917178</defect_size>
- <vol_abs_CGW>[328.995976470588 808.559380392157 569.390631372549 0 0]</vol_abs_CGW>
- <vol_abs_WMH>2.67261568627451</vol_abs_WMH>
- <vol_rel_WMH>0.00156572949858687</vol_rel_WMH>
- <surf_TSA>2211.79759972349</surf_TSA>
- <vol_TIV>1706.94598823529</vol_TIV>
- <vol_rel_CGW>[0.192739535250741 0.473687735853948 0.33357272889531 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.53871919884683 0.671121046231638]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.56504559516907 0.910482544455564 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.81111671631088 0.355368010859502 0.245960794877407;2.54152688622089 0.197300510490029 0.454186799557778;3.2541549278002 0.306942137841492 0.299852405564815]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.647363547515252 0.244811861752395 0.682347972972973;4.27665693941854 0.331074340879897 0.317652027027027]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>2.94442351581888</vol_TIV>
- <vol_rel_CGW>[1.31141406700326 6.35717916404361 3.8407458494129 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.15657294985869</vol_rel_WMH>
- <surf_TSA>8.62392217689658</surf_TSA>
- <SQR>5.21012973758877</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.149883617054332 1 1 9805.528 0.349826604711627]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00719357654452324 0.00508995773270726 0.223774611949921]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[939.975490196078 515.052098039216 648.025482352941 1507.22204705882 2322.74732156863 6451.11411764706]</SPMvols0>
- <SPMvols1>[815.815741176471 486.89782745098 360.481843137255 1319.07009019608 2043.39982745098 6508.844]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[340.223114013672 1141.17529296875 1697.04699707031]</T3th>
- <Tth>
- <T3th>[0 0 20.4832859039307 340.223114013672 1141.17529296875 1697.04699707031 2375.458984375 4234.0302734375]</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>[0.0197589695453644 0.0714902207255363 0.0795683488249779 0 0]</dtc>
- <ll>[0.0872076735967825 0 0.0872076735967825 0;0.210662988339867 0.0115663773443948 0.222229365684262 2466.5068359375;0.210662988339867 0.0115663773443948 0.222229365684262 2466.5068359375]</ll>
- <rmsdtc>[0.0419436916708946 0.098768413066864 0.111798956990242]</rmsdtc>
- <rmsgdt>[0.0298975799232721 0.0483245179057121 0.0603406801819801]</rmsgdt>
- <rmsdt>0.111798956990242</rmsdt>
- <dt>0.0795683488249779</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>[0.00868160557001829 0.0375823713839054 0.0458254367113113 0.0549869872629642 0.0624300874769688 0.0703045353293419]</dtc>
- <ll>[0.0860918265425693 0 0.0860918265425693 0;0.223932982295482 0.0161280982905983 0.240061080586081 8255.5703125;0.211193874251089 0.0186638918805369 0.229857766131626 13432.626953125;0.189251761151175 0.0213598919729901 0.210611653124165 23031.7734375;0.171059439547078 0.0249038992916238 0.195963338838702 43565.7109375;0.171059439547078 0.0249038992916238 0.195963338838702 43565.7109375]</ll>
- <rmsdtc>[0.0104144029319286 0.0380468890070915 0.0613586641848087 0.0852477550506592 0.110958278179169 0.118314974009991]</rmsdtc>
- <rmsgdt>[0.00310114002786577 0.0126768099144101 0.0303803142160177 0.0515619777143002 0.0718011483550072 0.0777089595794678]</rmsgdt>
- <rmsdt>0.118314974009991</rmsdt>
- <dt>0.0703045353293419</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./execute/dir_29720/ds/sub-12/sub-12_ses-01_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 59s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 5s</item>
- <item>Estimate background 4s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 5s</item>
- <item>32s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 8s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 71s</item>
- <item>SPM preprocessing 1 (estimate 2): 42s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 12s</item>
- <item>Update Segmentation 14s</item>
- <item>Update Skull-Stripping 31s</item>
- <item>Update probability maps 6s</item>
- <item>64s</item>
- <item>Global intensity correction: 11s</item>
- <item>SANLM denoising after intensity normalization (medium): 7s</item>
- <item>Fast Optimized Shooting registration 25s</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) 10s</item>
- <item>Estimate local tissue thresholds (WM) 13s</item>
- <item>Estimate local tissue thresholds (GM) 18s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 17s</item>
- <item>66s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 10s</item>
- <item>Blood vessel detection 7s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.13) 22s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 3s</item>
- <item>55s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 21s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.67 0.07,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</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>8s</item>
- <item>Optimized Shooting registration with 2.50:-0.25:1.50 mm (regstr=0.50):</item>
- <item>Template: "/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii"</item>
- <item>1 | 2.50 | 0.0861 0.0000 0.0861 | 32.0000</item>
- <item>2 | 2.50 | 0.0838 0.0011 0.0849 | 29.4886</item>
- <item>3 | 2.50 | 0.0831 0.0016 0.0848 | 26.9772</item>
- <item>4 | 2.50 | 0.0828 0.0018 0.0846 | 24.6107</item>
- <item>5 | 2.50 | 0.0825 0.0020 0.0845 | 22.6548</item>
- <item>6 | 2.50 | 0.0823 0.0021 0.0843 | 20.6989</item>
- <item>7 | 2.50 | 0.0820 0.0022 0.0842 | 18.9688</item>
- <item>8 | 2.50 | 0.0817 0.0023 0.0840 | 17.4455</item>
- <item>9 | 2.50 | 0.0815 0.0023 0.0838 | 15.9223</item>
- <item>10 | 2.50 | 0.0812 0.0025 0.0836 | 14.6627</item>
- <item>11 | 2.50 | 0.0809 0.0025 0.0834 | 13.4764</item>
- <item>12 | 2.50 | 0.0806 0.0026 0.0832 | 12.3015</item>
- <item>13 | 2.50 | 0.0802 0.0027 0.0830 | 11.3776</item>
- <item>14 | 2.50 | 0.0799 0.0028 0.0827 | 10.4537</item>
- <item>15 | 2.25 | 0.0809 0.0028 0.0837 | 9.5920</item>
- <item>16 | 2.25 | 0.0779 0.0043 0.0822 | 8.8725</item>
- <item>17 | 2.25 | 0.0766 0.0049 0.0815 | 8.1530</item>
- <item>18 | 2.25 | 0.0758 0.0052 0.0810 | 7.5234</item>
- <item>19 | 2.25 | 0.0752 0.0053 0.0805 | 6.9630</item>
- <item>20 | 2.25 | 0.0746 0.0054 0.0800 | 6.4027</item>
- <item>29 | 2.00 | 0.0773 0.0030 0.0803 | 3.3283</item>
- <item>30 | 2.00 | 0.0723 0.0053 0.0775 | 3.1221</item>
- <item>31 | 2.00 | 0.0704 0.0062 0.0766 | 2.9160</item>
- <item>43 | 1.75 | 0.0697 0.0035 0.0732 | 1.5785</item>
- <item>44 | 1.75 | 0.0647 0.0062 0.0709 | 1.5194</item>
- <item>45 | 1.75 | 0.0631 0.0071 0.0702 | 1.4626</item>
- <item>57 | 1.50 | 0.0619 0.0051 0.0670 | 1.0900</item>
- <item>58 | 1.50 | 0.0582 0.0075 0.0658 | 1.0730</item>
- <item>59 | 1.50 | 0.0570 0.0083 0.0653 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 166s</item>
- <item>Prepare output 8s</item>
- <item>174s</item>
- <item>Jacobian determinant (RMS): 0.010 0.038 0.061 0.085 0.111 | 0.118315</item>
- <item>Template Matching: 0.086 0.224 0.211 0.189 0.171 | 0.171059</item>
- <item>Write result maps: 24s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 35s</item>
- <item>CSF distance: 15s</item>
- <item>PBT2x thickness: 42s</item>
- <item>98s</item>
- <item>Create initial surface 72s</item>
- <item>Topology correction: 80s</item>
- <item>Surface refinement: 63s</item>
- <item>Reduction of surface collisions with optimization: 51s</item>
- <item>Spherical mapping with areal smoothing 69s</item>
- <item>Spherical registration 189s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 46s</item>
- <item>CSF distance: 14s</item>
- <item>PBT2x thickness: 41s</item>
- <item>107s</item>
- <item>Create initial surface 64s</item>
- <item>Topology correction: 75s</item>
- <item>Surface refinement: 70s</item>
- <item>Reduction of surface collisions with optimization: 59s</item>
- <item>Spherical mapping with areal smoothing 73s</item>
- <item>Spherical registration 179s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5386 0.6711 mm</item>
- <item>Surface intensity / position RMSE: 0.0732 / 0.1011</item>
- <item>Euler number / defect number / defect size: 16.0 / 11.5 / 1.44%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_29720/ds/sub-12/surf/lh.thickness.sub-12_ses-01_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_29720/ds/sub-12/surf/rh.thickness.sub-12_ses-01_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_29720/ds/sub-12/sub-12_ses-01_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1329s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 10s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 39s</item>
- <item>ROI estimation of 'lpba40' atlas 11s</item>
- <item>ROI estimation of 'hammers' atlas 27s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 9s</item>
- <item>ROI estimation of 'aal3' atlas 15s</item>
- <item>ROI estimation of 'mori' atlas 21s</item>
- <item>ROI estimation of 'anatomy3' atlas 31s</item>
- <item>ROI estimation of 'julichbrain' atlas 40s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 15s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 18s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 68s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 102s</item>
- <item>Write results 102s</item>
- <item>409s</item>
- <item>Quality check: 4s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_29720/ds/sub-12/report/catreport_sub-12_ses-01_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 41 minute(s) and 12 second(s).</item>
- <item>Image Quality Rating (IQR): 82.13% (B-)</item>
- <item>GM volume (GMV): 47.37% (808.56 / 1706.95 ml)</item>
- <item>GM thickness (GMT): 2.54 0.67 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_29720/ds/sub-12/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_29720/ds/sub-12/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_29720/ds/sub-12/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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