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- <F>/var/lib/condor/execute/dir_15599/ds/sub-37/sub-37_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_15599/ds/sub-37/mri/msub-37_T1w.nii</Fm>
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- <fnames>..15599/ds/sub-37/sub-37_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>
- </tpm>
- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
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- <extopts>
- <uhrlim>1.4</uhrlim>
- <gcutstr>2</gcutstr>
- <cleanupstr>0.5</cleanupstr>
- <spm_kamap>0</spm_kamap>
- <NCstr>-Inf</NCstr>
- <LASstr>0.5</LASstr>
- <BVCstr>0.5</BVCstr>
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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>
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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>
- <vdist>2</vdist>
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- <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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- <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>
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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>
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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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- <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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- <VT>15</VT>
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- <HD>21</HD>
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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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- </shootingtpm>
- <regstr>0.5</regstr>
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- <restypes>
- <optimal>[1 0.3]</optimal>
- </restypes>
- <LASmyostr>0</LASmyostr>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>36</SurfaceEulerNumber>
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- <tissue_mn>[25.1100006103516 264.171447753906 699.108154296875 963.098876953125]</tissue_mn>
- <tissue_mnr>[0.0260720904916525 0.274293184280396 0.725894510746002 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[21.0673644363542 128.615951265214 84.7908513018103 44.8551815879732]</tissue_std>
- <tissue_stdr>[0.0224601440131664 0.137118846178055 0.0903964415192604 0.0478205941617489]</tissue_stdr>
- <contrast>271.057739257812</contrast>
- <contrastr>0.281443327665329</contrastr>
- <NCR>0.122146308422089</NCR>
- <ICR>0.118119679391384</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.5999999517394 1.60000006305356 1.5999999873905]</res_vx_vol>
- <res_RMS>1.60000000072782</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[8.62400054931641 8.62400054931641 8.62400054931641 8.62400054931641]</tissue_mn>
- <tissue_std>[8.624 8.624 8.624 8.624]</tissue_std>
- <contrast>0.5</contrast>
- <contrastr>3.86168336868286</contrastr>
- <NCR>2.08450055122375</NCR>
- <ICR>0.752776980400085</ICR>
- <SurfaceEulerNumber>2.73469387755102</SurfaceEulerNumber>
- <SurfaceDefectArea>1.30137689590923</SurfaceDefectArea>
- <SurfaceDefectNumber>1.925</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.52085363864899</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.62736868858337</SurfacePositionRMSE>
- <IQR>1.93887211858824</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>20220709-221725</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>36</SurfaceEulerNumber>
- <SurfaceDefectArea>1.20550758363694</SurfaceDefectArea>
- <SurfaceDefectNumber>18.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0760426819324493</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0813684314489365</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>36</EC_abs>
- <defect_size>1.20550758363694</defect_size>
- <vol_abs_CGW>[160.039024891406 737.272684781923 539.869691984109 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.964124185103231</vol_abs_WMH>
- <vol_rel_WMH>0.000670843766828147</vol_rel_WMH>
- <surf_TSA>1997.92342442386</surf_TSA>
- <vol_TIV>1437.18140165744</vol_TIV>
- <vol_rel_CGW>[0.111356175850063 0.512999043775308 0.375644780374629 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.59942352547617 0.617840243927396]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.62918901443481 0.766688500704507 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[2.00003847231043 0.252531664105943 0.288148816344443;2.63382845823116 0.177216317705975 0.410445668869006;3.26276990703788 0.258422308252775 0.301405514786552]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.860465938395492 0.395518371559062 0.657048722044728;4.10297183768371 0.307137715609732 0.342951277955272]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.03286598463871</vol_TIV>
- <vol_rel_CGW>[0.5 7.06320121722896 4.59635022224548 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.06708437668281</vol_rel_WMH>
- <surf_TSA>8.62136159449567</surf_TSA>
- <SQR>5.79893997949673</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.083518078926282 33 11638 9369.75924478657 0.331952993212857]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0315063968300819 0.0321640819311142 0.219102799892426]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[863.686745541294 495.449333503058 256.098440456512 1567.46718463292 2427.54178193916 5238.44491698795]</SPMvols0>
- <SPMvols1>[767.578896780248 468.759608689146 153.375808182765 1688.67179958935 2217.92274326177 4927.42336083795]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[321.701904296875 699.755493164062 947.382385253906]</T3th>
- <Tth>
- <T3th>[0 0 28.2701187133789 321.701904296875 699.755493164062 947.382385253906 1260.22265625 2207.07861328125]</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>[0.0234872493892908 0.0792064443230629 0.086541935801506 0 0]</dtc>
- <ll>[0.081784111349618 0 0.081784111349618 0;0.18340322579227 0.010032927431837 0.193436153224107 2139.50170898438;0.18340322579227 0.010032927431837 0.193436153224107 2139.50170898438]</ll>
- <rmsdtc>[0.0484721623361111 0.0988690406084061 0.10781579464674]</rmsdtc>
- <rmsgdt>[0.0343521274626255 0.0405433401465416 0.0494912452995777]</rmsgdt>
- <rmsdt>0.10781579464674</rmsdt>
- <dt>0.086541935801506</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>[0.0113673275336623 0.0420701876282692 0.0576528832316399 0.0647949501872063 0.0703854188323021 0.0795463174581528]</dtc>
- <ll>[0.0822691636013598 0 0.0822691636013598 0;0.207685515873016 0.015710399496337 0.223395915369353 8041.7607421875;0.185184642433362 0.0172084458783513 0.202393088311714 12385.125;0.166714022528638 0.0183713827830547 0.185085405311693 19809.34765625;0.150613237436927 0.0209795488496318 0.171592786286559 36700.63671875;0.150613237436927 0.0209795488496318 0.171592786286559 36700.63671875]</ll>
- <rmsdtc>[0.0130245871841908 0.04692767187953 0.0683214068412781 0.0938247218728065 0.118233703076839 0.125175639986992]</rmsdtc>
- <rmsgdt>[0.00352756003849208 0.0133118666708469 0.0287949219346046 0.0505102835595608 0.0703786313533783 0.0757072865962982]</rmsgdt>
- <rmsdt>0.125175639986992</rmsdt>
- <dt>0.0795463174581528</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./condor/execute/dir_15599/ds/sub-37/sub-37_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 237s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 17s</item>
- <item>Estimate background 15s</item>
- <item>Initial correction 15s</item>
- <item>Refine background 8s</item>
- <item>Final correction 14s</item>
- <item>Final scaling 18s</item>
- <item>103s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 20s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 206s</item>
- <item>SPM preprocessing 1 (estimate 2): 148s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 43s</item>
- <item>Update Segmentation 48s</item>
- <item>Update Skull-Stripping 100s</item>
- <item>Update probability maps 20s</item>
- <item>212s</item>
- <item>Global intensity correction: 40s</item>
- <item>SANLM denoising after intensity normalization (medium): 60s</item>
- <item>Fast Optimized Shooting registration 66s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 12s</item>
- <item>Prepare partitions 6s</item>
- <item>Prepare segments (LASmod = 1.00) 37s</item>
- <item>Estimate local tissue thresholds (WM) 43s</item>
- <item>Estimate local tissue thresholds (GM) 56s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 91s</item>
- <item>253s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 22s</item>
- <item>Major structures 10s</item>
- <item>Ventricle detection 36s</item>
- <item>Blood vessel detection 24s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 81s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 5s</item>
- <item>Side alignment 11s</item>
- <item>Final corrections 10s</item>
- <item>199s</item>
- <item>Blood vessel correction (BVCstr=0.50): 4s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 90s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.07,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 11s</item>
- <item>Level 1 cleanup (brain masking) 6s</item>
- <item>Level 2 cleanup (CSF correction) 4s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 7s</item>
- <item>27s</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 | 0.0823 0.0000 0.0823 | 32.0000</item>
- <item>2 | 2.50 | 0.0789 0.0014 0.0803 | 29.4886</item>
- <item>3 | 2.50 | 0.0779 0.0021 0.0800 | 26.9772</item>
- <item>4 | 2.50 | 0.0774 0.0024 0.0798 | 24.6107</item>
- <item>5 | 2.50 | 0.0770 0.0026 0.0796 | 22.6548</item>
- <item>6 | 2.50 | 0.0767 0.0027 0.0794 | 20.6989</item>
- <item>7 | 2.50 | 0.0763 0.0028 0.0792 | 18.9688</item>
- <item>8 | 2.50 | 0.0760 0.0029 0.0789 | 17.4455</item>
- <item>9 | 2.50 | 0.0756 0.0030 0.0787 | 15.9223</item>
- <item>10 | 2.50 | 0.0752 0.0032 0.0784 | 14.6627</item>
- <item>11 | 2.50 | 0.0749 0.0032 0.0781 | 13.4764</item>
- <item>12 | 2.50 | 0.0745 0.0033 0.0778 | 12.3015</item>
- <item>13 | 2.50 | 0.0741 0.0034 0.0775 | 11.3776</item>
- <item>14 | 2.50 | 0.0737 0.0035 0.0772 | 10.4537</item>
- <item>15 | 2.25 | 0.0726 0.0036 0.0762 | 9.5920</item>
- <item>16 | 2.25 | 0.0692 0.0052 0.0745 | 8.8725</item>
- <item>29 | 2.00 | 0.0698 0.0024 0.0722 | 3.3283</item>
- <item>30 | 2.00 | 0.0638 0.0048 0.0686 | 3.1221</item>
- <item>31 | 2.00 | 0.0617 0.0057 0.0675 | 2.9160</item>
- <item>43 | 1.75 | 0.0608 0.0033 0.0642 | 1.5785</item>
- <item>44 | 1.75 | 0.0569 0.0054 0.0623 | 1.5194</item>
- <item>45 | 1.75 | 0.0556 0.0061 0.0617 | 1.4626</item>
- <item>57 | 1.50 | 0.0541 0.0045 0.0586 | 1.0900</item>
- <item>58 | 1.50 | 0.0512 0.0064 0.0576 | 1.0730</item>
- <item>59 | 1.50 | 0.0502 0.0070 0.0572 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 264s</item>
- <item>Prepare output 20s</item>
- <item>285s</item>
- <item>Jacobian determinant (RMS): 0.013 0.047 0.068 0.094 0.118 | 0.125176</item>
- <item>Template Matching: 0.082 0.208 0.185 0.167 0.151 | 0.150613</item>
- <item>Write result maps: 60s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 43s</item>
- <item>CSF distance: 22s</item>
- <item>PBT2x thickness: 66s</item>
- <item>140s</item>
- <item>Create initial surface 105s</item>
- <item>Topology correction: 136s</item>
- <item>Surface refinement: 125s</item>
- <item>Reduction of surface collisions with optimization: 104s</item>
- <item>Spherical mapping with areal smoothing 115s</item>
- <item>Spherical registration 290s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 41s</item>
- <item>CSF distance: 22s</item>
- <item>PBT2x thickness: 65s</item>
- <item>136s</item>
- <item>Create initial surface 105s</item>
- <item>Topology correction: 141s</item>
- <item>Surface refinement: 163s</item>
- <item>Reduction of surface collisions with optimization: 112s</item>
- <item>Spherical mapping with areal smoothing 122s</item>
- <item>Spherical registration 301s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5994 0.6179 mm</item>
- <item>Surface intensity / position RMSE: 0.0760 / 0.0814</item>
- <item>Euler number / defect number / defect size: 36.0 / 18.5 / 1.21%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_15599/ds/sub-37/surf/lh.thickness.sub-37_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_15599/ds/sub-37/surf/rh.thickness.sub-37_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_15599/ds/sub-37/sub-37_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 2259s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 29s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 109s</item>
- <item>ROI estimation of 'lpba40' atlas 31s</item>
- <item>ROI estimation of 'hammers' atlas 74s</item>
- <item>ROI estimation of 'thalamus' atlas 6s</item>
- <item>ROI estimation of 'ibsr' atlas 26s</item>
- <item>ROI estimation of 'aal3' atlas 43s</item>
- <item>ROI estimation of 'mori' atlas 64s</item>
- <item>ROI estimation of 'anatomy3' atlas 93s</item>
- <item>ROI estimation of 'julichbrain' atlas 123s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 44s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 62s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 199s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 292s</item>
- <item>Write results 294s</item>
- <item>1196s</item>
- <item>Quality check: 12s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_15599/ds/sub-37/report/catreport_sub-37_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 95 minute(s) and 15 second(s).</item>
- <item>Image Quality Rating (IQR): 85.61% (B)</item>
- <item>GM volume (GMV): 51.30% (737.27 / 1437.18 ml)</item>
- <item>GM thickness (GMT): 2.60 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_15599/ds/sub-37/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_15599/ds/sub-37/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_15599/ds/sub-37/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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