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- <F>/var/lib/condor/execute/dir_28861/ds/sub-82/sub-82_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_28861/ds/sub-82/mri/msub-82_T1w.nii</Fm>
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- <fnames>..28861/ds/sub-82/sub-82_T1w</fnames>
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- <parameter>
- <opts>
- <tpm>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/tpm/TPM.nii</item>
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- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
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- <biasreg>0.001</biasreg>
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- </opts>
- <extopts>
- <uhrlim>1.4</uhrlim>
- <gcutstr>2</gcutstr>
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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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- <SLC>0</SLC>
- <mrf>1</mrf>
- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
- <bids_yes>0</bids_yes>
- <nproc>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>
- <reduce_mesh>1</reduce_mesh>
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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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- <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>
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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>
- </td>
- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
- <td>0</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
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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>
- </tr>
- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/julichbrain.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_100Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
- <item>wm</item>
- </td>
- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_200Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
- <item>wm</item>
- </td>
- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>Desikan</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_a2009s.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
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- <td>Destrieux</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_DK40.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
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- <tr>
- <td>HCP</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_HCP_MMP1.freesurfer.annot</td>
- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_100P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_100Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_200P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_200Parcels_17Networks_order.annot</td>
- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_400P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_400Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_600P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_600Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
- </tr>
- </satlas>
- <LAB>
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- <PH>25</PH>
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- <new_release>0</new_release>
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- <shooting>
- <shootingtpm>
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- <regstr>0.5</regstr>
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- <optimal>[1 0.3]</optimal>
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- <LASmyostr>0</LASmyostr>
- <pbtmethod>pbt2x</pbtmethod>
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- </shootingtpms>
- <templates>
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- </templates>
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- <tissue_mnr>[0.0193760450929403 0.159146577119827 0.629408895969391 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[6.78129832847725 25.1450681363321 15.7941000952401 9.43429213020621]</tissue_std>
- <tissue_stdr>[0.0482242032885551 0.178815439343452 0.11231741309166 0.0670905783772469]</tissue_stdr>
- <contrast>51.3009834289551</contrast>
- <contrastr>0.357750624418259</contrastr>
- <NCR>0.139210373163223</NCR>
- <ICR>0.312377244234085</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>[8.61485862731934 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>2.71707391738892</contrastr>
- <NCR>2.32946252822876</NCR>
- <ICR>1.23456656932831</ICR>
- <SurfaceEulerNumber>2.63265306122449</SurfaceEulerNumber>
- <SurfaceDefectArea>1.2545572123606</SurfaceDefectArea>
- <SurfaceDefectNumber>1.9</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.39865255355835</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.4362359046936</SurfacePositionRMSE>
- <IQR>2.22529253573518</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>20220703-105813</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>34</SurfaceEulerNumber>
- <SurfaceDefectArea>1.01822884944239</SurfaceDefectArea>
- <SurfaceDefectNumber>18</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0699326321482658</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0718117952346802</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>34</EC_abs>
- <defect_size>1.01822884944239</defect_size>
- <vol_abs_CGW>[439.746096666463 748.285626318419 525.677524524255 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.617043065628351</vol_abs_WMH>
- <vol_rel_WMH>0.000360062867446866</vol_rel_WMH>
- <surf_TSA>1979.95026370492</surf_TSA>
- <vol_TIV>1713.70924750914</vol_TIV>
- <vol_rel_CGW>[0.256604845486847 0.436646780897078 0.306748373616075 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.58874588314996 0.620093935382275]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.61160349845886 0.769747906004083 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.95412114999537 0.274210963503722 0.266983887081487;2.60694629342265 0.178689331418269 0.443207726003535;3.24499882233657 0.276801469148183 0.289808386914978]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.893492505885213 0.305591172070427 0.599308822117692;4.20733585509605 0.353369279431775 0.400691177882308]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>3.01843976675402</vol_TIV>
- <vol_rel_CGW>[2.4584203571632 5.69193212818029 3.35898659511628 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03600628674469</vol_rel_WMH>
- <surf_TSA>8.62055482058122</surf_TSA>
- <SQR>4.66386440133748</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.228380488510356 46 15 9484.17584388733 0.576618749004599]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0272339545190334 0.0329149812459946 0.0992286875844002]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[891.367371369904 480.164932363592 618.307119169018 715.932893942081 2209.29718083143 8068.86212990546]</SPMvols0>
- <SPMvols1>[779.672620426552 455.103917323423 470.248502197744 700.993085646446 1469.45092398269 8415.85375837489]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[34.4365997314453 95.1912002563477 147.81689453125]</T3th>
- <Tth>
- <T3th>[0 0 4.84920930862427 34.4365997314453 95.1912002563477 147.81689453125 204.507049560547 569.531188964844]</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>[0.0169624593108892 0.064034104347229 0.070454329252243 0 0]</dtc>
- <ll>[0.084439928315076 0 0.084439928315076 0;0.207271085924604 0.00953924698846824 0.216810332913072 2034.22534179688;0.207271085924604 0.00953924698846824 0.216810332913072 2034.22534179688]</ll>
- <rmsdtc>[0.0387314446270466 0.0883780270814896 0.0992098897695541]</rmsdtc>
- <rmsgdt>[0.028006112203002 0.0432687141001225 0.054332260042429]</rmsgdt>
- <rmsdt>0.0992098897695541</rmsdt>
- <dt>0.070454329252243</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>[0.00849942583590746 0.0337597392499447 0.04639932513237 0.0546078532934189 0.0612129531800747 0.0689544752240181]</dtc>
- <ll>[0.0856535586877226 0 0.0856535586877226 0;0.223496703296703 0.0150141674297924 0.238510870726496 7685.376953125;0.206196997027978 0.0170293242079818 0.22322632123596 12256.208984375;0.18596668732472 0.0193187336862823 0.205285421011002 20830.849609375;0.16923630122108 0.0226912419548827 0.191927543175963 39694.9921875;0.16923630122108 0.0226912419548827 0.191927543175963 39694.9921875]</ll>
- <rmsdtc>[0.0105528468266129 0.0392359867691994 0.061329048126936 0.0864290595054626 0.111585326492786 0.119141846895218]</rmsdtc>
- <rmsgdt>[0.00321235414594412 0.0128110302612185 0.0287100169807673 0.0503914952278137 0.0714385509490967 0.0780084282159805]</rmsgdt>
- <rmsdt>0.119141846895218</rmsdt>
- <dt>0.0689544752240181</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_28861/ds/sub-82/sub-82_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 91s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 10s</item>
- <item>Initial correction 8s</item>
- <item>Refine background 4s</item>
- <item>Final correction 6s</item>
- <item>Final scaling 8s</item>
- <item>48s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 12s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 66s</item>
- <item>SPM preprocessing 1 (estimate 2): 53s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 15s</item>
- <item>Update Segmentation 19s</item>
- <item>Update Skull-Stripping 40s</item>
- <item>Update probability maps 9s</item>
- <item>83s</item>
- <item>Global intensity correction: 16s</item>
- <item>SANLM denoising after intensity normalization (medium): 21s</item>
- <item>Fast Optimized Shooting registration 32s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.00) 14s</item>
- <item>Estimate local tissue thresholds (WM) 20s</item>
- <item>Estimate local tissue thresholds (GM) 27s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 32s</item>
- <item>102s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 7s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 18s</item>
- <item>Blood vessel detection 10s</item>
- <item>WMH detection (WMHCstr=0.48 > WMHCstr'=0.17) 24s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 4s</item>
- <item>72s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 34s</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) 4s</item>
- <item>Level 1 cleanup (brain masking) 3s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>11s</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 | 0.0857 0.0000 0.0857 | 32.0000</item>
- <item>2 | 2.50 | 0.0829 0.0012 0.0842 | 29.4886</item>
- <item>3 | 2.50 | 0.0822 0.0018 0.0840 | 26.9772</item>
- <item>4 | 2.50 | 0.0818 0.0020 0.0838 | 24.6107</item>
- <item>5 | 2.50 | 0.0815 0.0022 0.0837 | 22.6548</item>
- <item>6 | 2.50 | 0.0812 0.0023 0.0835 | 20.6989</item>
- <item>7 | 2.50 | 0.0809 0.0024 0.0833 | 18.9688</item>
- <item>8 | 2.50 | 0.0807 0.0025 0.0831 | 17.4455</item>
- <item>9 | 2.50 | 0.0804 0.0025 0.0829 | 15.9223</item>
- <item>10 | 2.50 | 0.0801 0.0026 0.0827 | 14.6627</item>
- <item>11 | 2.50 | 0.0798 0.0027 0.0825 | 13.4764</item>
- <item>12 | 2.50 | 0.0795 0.0028 0.0822 | 12.3015</item>
- <item>13 | 2.50 | 0.0791 0.0029 0.0820 | 11.3776</item>
- <item>14 | 2.50 | 0.0788 0.0029 0.0817 | 10.4537</item>
- <item>15 | 2.25 | 0.0788 0.0030 0.0818 | 9.5920</item>
- <item>16 | 2.25 | 0.0757 0.0045 0.0802 | 8.8725</item>
- <item>17 | 2.25 | 0.0745 0.0050 0.0795 | 8.1530</item>
- <item>29 | 2.00 | 0.0763 0.0023 0.0786 | 3.3283</item>
- <item>30 | 2.00 | 0.0706 0.0047 0.0754 | 3.1221</item>
- <item>31 | 2.00 | 0.0687 0.0057 0.0744 | 2.9160</item>
- <item>43 | 1.75 | 0.0679 0.0032 0.0711 | 1.5785</item>
- <item>44 | 1.75 | 0.0634 0.0056 0.0691 | 1.5194</item>
- <item>45 | 1.75 | 0.0620 0.0064 0.0684 | 1.4626</item>
- <item>57 | 1.50 | 0.0608 0.0047 0.0655 | 1.0900</item>
- <item>58 | 1.50 | 0.0575 0.0069 0.0643 | 1.0730</item>
- <item>59 | 1.50 | 0.0564 0.0076 0.0640 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 163s</item>
- <item>Prepare output 10s</item>
- <item>173s</item>
- <item>Jacobian determinant (RMS): 0.011 0.039 0.061 0.086 0.112 | 0.119142</item>
- <item>Template Matching: 0.086 0.223 0.206 0.186 0.169 | 0.169236</item>
- <item>Write result maps: 23s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 55s</item>
- <item>CSF distance: 18s</item>
- <item>PBT2x thickness: 49s</item>
- <item>128s</item>
- <item>Create initial surface 86s</item>
- <item>Topology correction: 95s</item>
- <item>Surface refinement: 82s</item>
- <item>Reduction of surface collisions with optimization: 70s</item>
- <item>Spherical mapping with areal smoothing 87s</item>
- <item>Spherical registration 304s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 48s</item>
- <item>CSF distance: 17s</item>
- <item>PBT2x thickness: 47s</item>
- <item>117s</item>
- <item>Create initial surface 83s</item>
- <item>Topology correction: 89s</item>
- <item>Surface refinement: 70s</item>
- <item>Reduction of surface collisions with optimization: 65s</item>
- <item>Spherical mapping with areal smoothing 78s</item>
- <item>Spherical registration 279s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5888 0.6199 mm</item>
- <item>Surface intensity / position RMSE: 0.0699 / 0.0718</item>
- <item>Euler number / defect number / defect size: 34.0 / 18.0 / 1.02%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_28861/ds/sub-82/surf/lh.thickness.sub-82_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_28861/ds/sub-82/surf/rh.thickness.sub-82_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_28861/ds/sub-82/sub-82_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1726s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 7s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 27s</item>
- <item>ROI estimation of 'lpba40' atlas 8s</item>
- <item>ROI estimation of 'hammers' atlas 19s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 7s</item>
- <item>ROI estimation of 'aal3' atlas 11s</item>
- <item>ROI estimation of 'mori' atlas 16s</item>
- <item>ROI estimation of 'anatomy3' atlas 23s</item>
- <item>ROI estimation of 'julichbrain' atlas 31s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 12s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 22s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 49s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 73s</item>
- <item>Write results 73s</item>
- <item>307s</item>
- <item>Quality check: 5s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_28861/ds/sub-82/report/catreport_sub-82_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 49 minute(s) and 21 second(s).</item>
- <item>Image Quality Rating (IQR): 82.75% (B-)</item>
- <item>GM volume (GMV): 43.66% (748.29 / 1713.71 ml)</item>
- <item>GM thickness (GMT): 2.59 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_28861/ds/sub-82/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_28861/ds/sub-82/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_28861/ds/sub-82/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|