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- <F>/var/lib/condor/execute/dir_13946/ds/sub-022/sub-022_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_13946/ds/sub-022/mri/msub-022_T1w.nii</Fm>
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- <fnames>..3946/ds/sub-022/sub-022_T1w</fnames>
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- <parameter>
- <opts>
- <tpm>
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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>
- <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>
- <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>
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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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- <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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- <item>gm</item>
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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>
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- <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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- <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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- <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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- <tr>
- <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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- <td>Schaefer2018_400P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_400Parcels_17Networks_order.annot</td>
- <td>1</td>
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- <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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- <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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- </templates>
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- <SurfaceEulerNumber>10</SurfaceEulerNumber>
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- <tissue_mn>[10.2200002670288 356.607330322266 933.925476074219 1343.00610351562]</tissue_mn>
- <tissue_mnr>[0.00760979438200593 0.265529215335846 0.695399284362793 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[11.4887158666075 145.131194105221 127.391500955981 72.2306340163981]</tissue_std>
- <tissue_stdr>[0.0086200749501586 0.108893096446991 0.0955828651785851 0.0541952215135098]</tissue_stdr>
- <contrast>412.217498779297</contrast>
- <contrastr>0.30693644285202</contrastr>
- <NCR>0.101802952587605</NCR>
- <ICR>0.313839077949524</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.60000006793382 1.60156252867486 1.60156246299754]</res_vx_vol>
- <res_RMS>1.60104185595155</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>3.47928667068481</contrastr>
- <NCR>1.79246282577515</NCR>
- <ICR>1.23819220066071</ICR>
- <SurfaceEulerNumber>1.40816326530612</SurfaceEulerNumber>
- <SurfaceDefectArea>1.17109255660638</SurfaceDefectArea>
- <SurfaceDefectNumber>1.525</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.24052762985229</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.29656624794006</SurfacePositionRMSE>
- <IQR>1.71508994966149</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>20220710-035415</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>10</SurfaceEulerNumber>
- <SurfaceDefectArea>0.684370226425508</SurfaceDefectArea>
- <SurfaceDefectNumber>10.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0620263814926147</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0648283138871193</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>10</EC_abs>
- <defect_size>0.684370226425508</defect_size>
- <vol_abs_CGW>[336.273296147529 801.37066975754 620.366319348498 0 0]</vol_abs_CGW>
- <vol_abs_WMH>1.34596244483549</vol_abs_WMH>
- <vol_rel_WMH>0.000765616934170184</vol_rel_WMH>
- <surf_TSA>2234.94605634671</surf_TSA>
- <vol_TIV>1758.01028525357</vol_TIV>
- <vol_rel_CGW>[0.191280619327563 0.45583957982473 0.352879800847706 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.59813519841963 0.624053747005103]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.60053968429565 0.775415295071255 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[2.00860058100899 0.254729719679375 0.302338320570139;2.62518559989115 0.177605238303092 0.416609490505068;3.27701836115225 0.274077342209329 0.281052188924793]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.872957648636457 0.373424028937738 0.564358122497657;4.21007639759446 0.324740811682597 0.435641877502343]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>3.51621598927615</vol_TIV>
- <vol_rel_CGW>[1.28521227240595 6.03663038478323 4.18749642327059 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.07656169341702</vol_rel_WMH>
- <surf_TSA>8.62394886350939</surf_TSA>
- <SQR>4.96888274668097</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.167294204235077 1 1 7166.86589355588 0.293168708237037]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00780460331588984 0.00393879227340221 0.193109661340714]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[969.602218901353 553.092084824396 580.359896441277 685.811455598427 1945.2425865331 4616.72220718516]</SPMvols0>
- <SPMvols1>[847.345191679027 525.611589233092 342.478341042494 856.900538265797 1674.44328744043 4359.99027518717]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[441.349304199219 965.057678222656 1323.537109375]</T3th>
- <Tth>
- <T3th>[0 0 20.0626068115234 441.349304199219 965.057678222656 1323.537109375 1764.63098144531 3616.90112304688]</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>[0.0198498349636793 0.0742530673742294 0.0818727910518646 0 0]</dtc>
- <ll>[0.085726832236801 0 0.085726832236801 0;0.202750362840449 0.0107503732999547 0.213500736140403 2292.49560546875;0.202750362840449 0.0107503732999547 0.213500736140403 2292.49560546875]</ll>
- <rmsdtc>[0.0457740314304829 0.0980375483632088 0.108509086072445]</rmsdtc>
- <rmsgdt>[0.0330193787813187 0.0449483394622803 0.0554311089217663]</rmsgdt>
- <rmsdt>0.108509086072445</rmsdt>
- <dt>0.0818727910518646</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>[0.00966878235340118 0.0399754717946053 0.0515366457402706 0.0598530434072018 0.0665811225771904 0.0745796337723732]</dtc>
- <ll>[0.086750866107667 0 0.086750866107667 0;0.223206532356532 0.01673663003663 0.239943162393162 8567.0625;0.20640005133998 0.0180627318201586 0.224462783160139 12999.96484375;0.185527399394587 0.0201188764001569 0.205646275794744 21693.62109375;0.167820527789417 0.0235010458152243 0.191321573604641 41111.625;0.167820527789417 0.0235010458152243 0.191321573604641 41111.625]</ll>
- <rmsdtc>[0.0114816883578897 0.0422137379646301 0.0646060481667519 0.086884468793869 0.109953291714191 0.116426765918732]</rmsdtc>
- <rmsgdt>[0.00324156857095659 0.0126223592087626 0.028419803828001 0.0479260347783566 0.0679770782589912 0.0729592069983482]</rmsgdt>
- <rmsdt>0.116426765918732</rmsdt>
- <dt>0.0745796337723732</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./execute/dir_13946/ds/sub-022/sub-022_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 105s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 9s</item>
- <item>Estimate background 10s</item>
- <item>Initial correction 10s</item>
- <item>Refine background 5s</item>
- <item>Final correction 10s</item>
- <item>Final scaling 13s</item>
- <item>66s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 14s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 128s</item>
- <item>SPM preprocessing 1 (estimate 2): 52s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 25s</item>
- <item>Update Segmentation 34s</item>
- <item>Update Skull-Stripping 67s</item>
- <item>Update probability maps 13s</item>
- <item>138s</item>
- <item>Global intensity correction: 23s</item>
- <item>SANLM denoising after intensity normalization (medium): 21s</item>
- <item>Fast Optimized Shooting registration 37s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 9s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.05) 31s</item>
- <item>Estimate local tissue thresholds (WM) 30s</item>
- <item>Estimate local tissue thresholds (GM) 45s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 39s</item>
- <item>162s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 13s</item>
- <item>Major structures 8s</item>
- <item>Ventricle detection 29s</item>
- <item>Blood vessel detection 24s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.11) 60s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 4s</item>
- <item>Side alignment 9s</item>
- <item>Final corrections 6s</item>
- <item>153s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 62s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.08,0.98 0.04]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 9s</item>
- <item>Level 1 cleanup (brain masking) 5s</item>
- <item>Level 2 cleanup (CSF correction) 3s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 6s</item>
- <item>24s</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 | 0.0868 0.0000 0.0868 | 32.0000</item>
- <item>2 | 2.50 | 0.0840 0.0012 0.0852 | 29.4886</item>
- <item>3 | 2.50 | 0.0832 0.0019 0.0850 | 26.9772</item>
- <item>4 | 2.50 | 0.0827 0.0021 0.0848 | 24.6107</item>
- <item>5 | 2.50 | 0.0824 0.0023 0.0847 | 22.6548</item>
- <item>6 | 2.50 | 0.0821 0.0024 0.0845 | 20.6989</item>
- <item>7 | 2.50 | 0.0818 0.0025 0.0843 | 18.9688</item>
- <item>8 | 2.50 | 0.0815 0.0026 0.0841 | 17.4455</item>
- <item>9 | 2.50 | 0.0812 0.0027 0.0839 | 15.9223</item>
- <item>10 | 2.50 | 0.0809 0.0028 0.0836 | 14.6627</item>
- <item>11 | 2.50 | 0.0805 0.0029 0.0834 | 13.4764</item>
- <item>12 | 2.50 | 0.0802 0.0029 0.0831 | 12.3015</item>
- <item>13 | 2.50 | 0.0798 0.0031 0.0829 | 11.3776</item>
- <item>14 | 2.50 | 0.0795 0.0031 0.0826 | 10.4537</item>
- <item>15 | 2.25 | 0.0796 0.0032 0.0829 | 9.5920</item>
- <item>16 | 2.25 | 0.0766 0.0047 0.0813 | 8.8725</item>
- <item>17 | 2.25 | 0.0753 0.0053 0.0806 | 8.1530</item>
- <item>18 | 2.25 | 0.0744 0.0056 0.0800 | 7.5234</item>
- <item>29 | 2.00 | 0.0763 0.0027 0.0790 | 3.3283</item>
- <item>30 | 2.00 | 0.0708 0.0051 0.0758 | 3.1221</item>
- <item>31 | 2.00 | 0.0688 0.0060 0.0748 | 2.9160</item>
- <item>43 | 1.75 | 0.0679 0.0034 0.0713 | 1.5785</item>
- <item>44 | 1.75 | 0.0634 0.0059 0.0692 | 1.5194</item>
- <item>45 | 1.75 | 0.0618 0.0067 0.0685 | 1.4626</item>
- <item>57 | 1.50 | 0.0605 0.0049 0.0653 | 1.0900</item>
- <item>58 | 1.50 | 0.0571 0.0071 0.0642 | 1.0730</item>
- <item>59 | 1.50 | 0.0559 0.0078 0.0638 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 161s</item>
- <item>Prepare output 14s</item>
- <item>175s</item>
- <item>Jacobian determinant (RMS): 0.011 0.042 0.065 0.087 0.110 | 0.116427</item>
- <item>Template Matching: 0.087 0.223 0.206 0.186 0.168 | 0.167821</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: 38s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 46s</item>
- <item>106s</item>
- <item>Create initial surface 87s</item>
- <item>Topology correction: 92s</item>
- <item>Surface refinement: 111s</item>
- <item>Reduction of surface collisions with optimization: 74s</item>
- <item>Spherical mapping with areal smoothing 76s</item>
- <item>Spherical registration 242s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 45s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 45s</item>
- <item>112s</item>
- <item>Create initial surface 84s</item>
- <item>Topology correction: 92s</item>
- <item>Surface refinement: 93s</item>
- <item>Reduction of surface collisions with optimization: 78s</item>
- <item>Spherical mapping with areal smoothing 91s</item>
- <item>Spherical registration 261s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5980 0.6240 mm</item>
- <item>Surface intensity / position RMSE: 0.0620 / 0.0648</item>
- <item>Euler number / defect number / defect size: 10.0 / 10.5 / 0.68%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_13946/ds/sub-022/surf/lh.thickness.sub-022_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_13946/ds/sub-022/surf/rh.thickness.sub-022_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_13946/ds/sub-022/sub-022_T1w.nii</item>
- <item>Surface ROI estimation: 8s</item>
- <item>Surface and thickness estimation takes: 1701s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 10s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 38s</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 10s</item>
- <item>ROI estimation of 'aal3' atlas 16s</item>
- <item>ROI estimation of 'mori' atlas 23s</item>
- <item>ROI estimation of 'anatomy3' atlas 33s</item>
- <item>ROI estimation of 'julichbrain' atlas 42s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 17s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 30s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 69s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 98s</item>
- <item>Write results 99s</item>
- <item>428s</item>
- <item>Quality check: 8s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_13946/ds/sub-022/report/catreport_sub-022_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 57 minute(s) and 30 second(s).</item>
- <item>Image Quality Rating (IQR): 87.85% (B+)</item>
- <item>GM volume (GMV): 45.58% (801.37 / 1758.01 ml)</item>
- <item>GM thickness (GMT): 2.60 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_13946/ds/sub-022/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_13946/ds/sub-022/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_13946/ds/sub-022/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|