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- <F>/var/lib/condor/execute/dir_2597/ds/sub-23/sub-23_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_2597/ds/sub-23/mri/msub-23_T1w.nii</Fm>
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- <fnames>.._2597/ds/sub-23/sub-23_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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- <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>
- <WMHCstr>0.5</WMHCstr>
- <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>24</nproc>
- <species>human</species>
- <APP>1070</APP>
- <setCOM>1</setCOM>
- <vox>1.5</vox>
- <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>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_T1_masked.nii</item>
- </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>
- <vdist>2</vdist>
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- <thick_limit>5</thick_limit>
- <close_parahipp>0</close_parahipp>
- <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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- <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>
- </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>
- </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>
- <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/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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- <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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- <satlas>
- <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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- <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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- <tr>
- <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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- <HD>21</HD>
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- <PH>25</PH>
- <LE>27</LE>
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- <new_release>0</new_release>
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- <shooting>
- <shootingtpm>
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- </shootingtpm>
- <regstr>0.5</regstr>
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- <restypes>
- <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>[0.00469051813706756 0.326469510793686 0.741193294525146 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[7.79667374727572 41.0614717053505 28.8167577787562 15.8640072872962]</tissue_std>
- <tissue_stdr>[0.0238744504749775 0.125735685229301 0.0882407426834106 0.0485776960849762]</tissue_stdr>
- <contrast>85.3169250488281</contrast>
- <contrastr>0.26002636551857</contrastr>
- <NCR>0.122452788054943</NCR>
- <ICR>0.266350984573364</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000706674955 2.00000001991643 2.0000000494609]</res_vx_vol>
- <res_RMS>2.00000237871171</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[7.13818264007568 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>4.18293762207031</contrastr>
- <NCR>2.08890008926392</NCR>
- <ICR>1.12041413784027</ICR>
- <SurfaceEulerNumber>2.53061224489796</SurfaceEulerNumber>
- <SurfaceDefectArea>1.20205777443472</SurfaceDefectArea>
- <SurfaceDefectNumber>1.8</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.38391876220703</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.42045521736145</SurfacePositionRMSE>
- <IQR>2.04781806419628</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>20220711-091914</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>32</SurfaceEulerNumber>
- <SurfaceDefectArea>0.808231097738889</SurfaceDefectArea>
- <SurfaceDefectNumber>16</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0691959410905838</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0710227638483047</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>32</EC_abs>
- <defect_size>0.808231097738889</defect_size>
- <vol_abs_CGW>[255.044483289498 814.842607767499 580.085349863 0 0]</vol_abs_CGW>
- <vol_abs_WMH>1.11971380231695</vol_abs_WMH>
- <vol_rel_WMH>0.000678625760374892</vol_rel_WMH>
- <surf_TSA>2283.92645456701</surf_TSA>
- <vol_TIV>1649.97244092</vol_TIV>
- <vol_rel_CGW>[0.154574995899501 0.493852253261367 0.351572750839132 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.58679054746358 0.643662536695187]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.59275937080383 0.724699789973759 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.92849217663136 0.248927485051453 0.287768251770595;2.60643159967884 0.189047731249665 0.427770381809468;3.29399019254395 0.267623331366902 0.284461366419937]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.918778628217857 0.317816450869722 0.547575836142079;4.17747871827943 0.331630984004281 0.452424163857921]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>2.35239862315285</vol_TIV>
- <vol_rel_CGW>[0.625987713712302 6.71932926115962 4.16402210558785 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.06786257603749</vol_rel_WMH>
- <surf_TSA>8.6239794862357</surf_TSA>
- <SQR>5.50963531364359</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.315835333489752 203 6 6904.9866373433 0.291324709459772]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0049234377220273 0.00321559002622962 0.401774913072586]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[995.406817251627 500.770117615966 399.299531744391 607.121022875499 2522.51833709359 5669.3195857972]</SPMvols0>
- <SPMvols1>[867.650635555814 464.405572075232 258.496840715589 468.607340020537 1571.35117193536 6462.22794661206]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[124.769302368164 250.285507202148 319.624694824219]</T3th>
- <Tth>
- <T3th>[0 0.639923095703125 4.79448938369751 124.769302368164 250.285507202148 319.624694824219 417.052398681641 743.874694824219]</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>[0.020151199772954 0.0751443952322006 0.0830302983522415 0 0]</dtc>
- <ll>[0.084692226499975 0 0.084692226499975 0;0.198052615821719 0.0111776331321103 0.20923024895383 2383.60791015625;0.198052615821719 0.0111776331321103 0.20923024895383 2383.60791015625]</ll>
- <rmsdtc>[0.0438344515860081 0.0989357680082321 0.110491663217545]</rmsdtc>
- <rmsgdt>[0.0314784720540047 0.0473769977688789 0.0584765300154686]</rmsgdt>
- <rmsdt>0.110491663217545</rmsdt>
- <dt>0.0830302983522415</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>[0.00902295485138893 0.0340498089790344 0.0488469637930393 0.0578112080693245 0.0645777583122253 0.071908600628376]</dtc>
- <ll>[0.0846355015625368 0 0.0846355015625368 0;0.223876953601954 0.0138257173382173 0.237702670940171 7077.0390625;0.202492715836335 0.0173501529518057 0.21984286878814 12487.11328125;0.181146837254422 0.019821431448883 0.200968268703305 21372.89453125;0.163671190148586 0.0230136892932701 0.186684879441856 40259.06640625;0.163671190148586 0.0230136892932701 0.186684879441856 40259.06640625]</ll>
- <rmsdtc>[0.0104248533025384 0.0385758504271507 0.0580043457448483 0.0824638530611992 0.10569017380476 0.112612865865231]</rmsdtc>
- <rmsgdt>[0.00325712119229138 0.0129180764779449 0.0284610036760569 0.0492941774427891 0.0680402368307114 0.0739129036664963]</rmsgdt>
- <rmsdt>0.112612865865231</rmsdt>
- <dt>0.071908600628376</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_2597/ds/sub-23/sub-23_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 74s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 8s</item>
- <item>Estimate background 10s</item>
- <item>Initial correction 8s</item>
- <item>Refine background 4s</item>
- <item>Final correction 8s</item>
- <item>Final scaling 8s</item>
- <item>54s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 15s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 100s</item>
- <item>SPM preprocessing 1 (estimate 2): 127s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 23s</item>
- <item>Update Segmentation 28s</item>
- <item>Update Skull-Stripping 54s</item>
- <item>Update probability maps 13s</item>
- <item>118s</item>
- <item>Global intensity correction: 21s</item>
- <item>SANLM denoising after intensity normalization (medium): 32s</item>
- <item>Fast Optimized Shooting registration 49s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 7s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.15) 22s</item>
- <item>Estimate local tissue thresholds (WM) 22s</item>
- <item>Estimate local tissue thresholds (GM) 31s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 46s</item>
- <item>136s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 13s</item>
- <item>Major structures 6s</item>
- <item>Ventricle detection 21s</item>
- <item>Blood vessel detection 14s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.05) 40s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 3s</item>
- <item>Side alignment 6s</item>
- <item>Final corrections 6s</item>
- <item>108s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 57s</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) 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>17s</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 | 0.0846 0.0000 0.0846 | 32.0000</item>
- <item>2 | 2.50 | 0.0820 0.0012 0.0832 | 29.4886</item>
- <item>3 | 2.50 | 0.0812 0.0018 0.0830 | 26.9772</item>
- <item>4 | 2.50 | 0.0808 0.0020 0.0828 | 24.6107</item>
- <item>5 | 2.50 | 0.0805 0.0022 0.0826 | 22.6548</item>
- <item>6 | 2.50 | 0.0802 0.0023 0.0824 | 20.6989</item>
- <item>7 | 2.50 | 0.0799 0.0024 0.0822 | 18.9688</item>
- <item>8 | 2.50 | 0.0796 0.0025 0.0820 | 17.4455</item>
- <item>9 | 2.50 | 0.0793 0.0025 0.0818 | 15.9223</item>
- <item>10 | 2.50 | 0.0789 0.0026 0.0816 | 14.6627</item>
- <item>11 | 2.50 | 0.0786 0.0027 0.0813 | 13.4764</item>
- <item>12 | 2.50 | 0.0783 0.0028 0.0811 | 12.3015</item>
- <item>13 | 2.50 | 0.0779 0.0029 0.0808 | 11.3776</item>
- <item>14 | 2.50 | 0.0776 0.0030 0.0806 | 10.4537</item>
- <item>15 | 2.25 | 0.0777 0.0031 0.0808 | 9.5920</item>
- <item>16 | 2.25 | 0.0746 0.0046 0.0792 | 8.8725</item>
- <item>29 | 2.00 | 0.0763 0.0021 0.0784 | 3.3283</item>
- <item>30 | 2.00 | 0.0698 0.0047 0.0745 | 3.1221</item>
- <item>31 | 2.00 | 0.0675 0.0058 0.0733 | 2.9160</item>
- <item>43 | 1.75 | 0.0666 0.0033 0.0699 | 1.5785</item>
- <item>44 | 1.75 | 0.0620 0.0058 0.0677 | 1.5194</item>
- <item>45 | 1.75 | 0.0604 0.0066 0.0670 | 1.4626</item>
- <item>57 | 1.50 | 0.0590 0.0048 0.0638 | 1.0900</item>
- <item>58 | 1.50 | 0.0557 0.0070 0.0626 | 1.0730</item>
- <item>59 | 1.50 | 0.0546 0.0077 0.0622 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 252s</item>
- <item>Prepare output 12s</item>
- <item>265s</item>
- <item>Jacobian determinant (RMS): 0.010 0.039 0.058 0.082 0.106 | 0.112613</item>
- <item>Template Matching: 0.085 0.224 0.202 0.181 0.164 | 0.163671</item>
- <item>Write result maps: 31s</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: 24s</item>
- <item>PBT2x thickness: 74s</item>
- <item>163s</item>
- <item>Create initial surface 129s</item>
- <item>Topology correction: 157s</item>
- <item>Surface refinement: 138s</item>
- <item>Reduction of surface collisions with optimization: 134s</item>
- <item>Spherical mapping with areal smoothing 129s</item>
- <item>Spherical registration 315s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 55s</item>
- <item>CSF distance: 23s</item>
- <item>PBT2x thickness: 73s</item>
- <item>161s</item>
- <item>Create initial surface 129s</item>
- <item>Topology correction: 155s</item>
- <item>Surface refinement: 182s</item>
- <item>Reduction of surface collisions with optimization: 136s</item>
- <item>Spherical mapping with areal smoothing 136s</item>
- <item>Spherical registration 311s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5868 0.6436 mm</item>
- <item>Surface intensity / position RMSE: 0.0692 / 0.0710</item>
- <item>Euler number / defect number / defect size: 32.0 / 16.0 / 0.81%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2597/ds/sub-23/surf/lh.thickness.sub-23_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2597/ds/sub-23/surf/rh.thickness.sub-23_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2597/ds/sub-23/sub-23_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 2507s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 14s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 51s</item>
- <item>ROI estimation of 'lpba40' atlas 15s</item>
- <item>ROI estimation of 'hammers' atlas 36s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 13s</item>
- <item>ROI estimation of 'aal3' atlas 21s</item>
- <item>ROI estimation of 'mori' atlas 32s</item>
- <item>ROI estimation of 'anatomy3' atlas 45s</item>
- <item>ROI estimation of 'julichbrain' atlas 60s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 22s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 29s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 98s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 144s</item>
- <item>Write results 146s</item>
- <item>585s</item>
- <item>Quality check: 8s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_2597/ds/sub-23/report/catreport_sub-23_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 74 minute(s) and 14 second(s).</item>
- <item>Image Quality Rating (IQR): 84.52% (B)</item>
- <item>GM volume (GMV): 49.39% (814.84 / 1649.97 ml)</item>
- <item>GM thickness (GMT): 2.59 0.64 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2597/ds/sub-23/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2597/ds/sub-23/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2597/ds/sub-23/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|