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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
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- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_2040</bids_folder>
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- <species>human</species>
- <APP>1070</APP>
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- <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>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/brainmask.nii</item>
- </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>
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- <reduce_mesh>1</reduce_mesh>
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- <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>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii</td>
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- <item>csf</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
- <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/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>
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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>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
- <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/ibsr.nii</td>
- <td>0</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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- <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>
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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/anatomy3.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/julichbrain.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <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>
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- <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>
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- <item>gm</item>
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- <td>[false]</td>
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- <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>
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- <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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- <td>/var/lib/condor/execute/dir_2199173/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>Desikan</td>
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- <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>
- </tr>
- <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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- <tr>
- <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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- <CT>1</CT>
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- <TH>9</TH>
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- <VT>15</VT>
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- <HI>23</HI>
- <PH>25</PH>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>28</SurfaceEulerNumber>
- <SurfaceDefectArea>1.14777270593025</SurfaceDefectArea>
- <SurfaceDefectNumber>17</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0689948797225952</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0723783299326897</SurfacePositionRMSE>
- <res_vx_vol>[1 1 1]</res_vx_vol>
- <res_vx_voli>[1 1 1]</res_vx_voli>
- <res_RMS>1</res_RMS>
- <res_BB>192.474853515625</res_BB>
- <tissue_mn>[4.44600009918213 136.723007202148 299.747009277344 435.109008789062]</tissue_mn>
- <tissue_mnr>[0.0102181294932961 0.314227014780045 0.688900947570801 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[9.78915952076443 50.4641338605937 41.1475453977267 28.3344445262507]</tissue_std>
- <tissue_stdr>[0.0227304399013519 0.117177776992321 0.0955446511507034 0.0657926127314568]</tissue_stdr>
- <contrast>136.759429931641</contrast>
- <contrastr>0.314310729503632</contrastr>
- <res_ECR>0.354300141334534</res_ECR>
- <NCR>0.155602321028709</NCR>
- <ICR>0.355505555868149</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2 2 2]</res_vx_vol>
- <res_RMS>2</res_RMS>
- <res_ECR>2.70561289787292</res_ECR>
- <res_BB>10.5</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>3.36867237091064</contrastr>
- <NCR>2.56477642059326</NCR>
- <ICR>1.34153163433075</ICR>
- <SurfaceEulerNumber>2.3265306122449</SurfaceEulerNumber>
- <SurfaceDefectArea>1.28694317648256</SurfaceDefectArea>
- <SurfaceDefectNumber>1.85</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.3798975944519</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.44756650924683</SurfacePositionRMSE>
- <SIQR>2.52773226091124</SIQR>
- <IQR>2.38988843795938</IQR>
- </qualityratings>
- <ratings_help>
- <qualitymeasures>
- <res_vx_vol>voxel dimensions</res_vx_vol>
- <res_RMS>RMS error of voxel size</res_RMS>
- <res_ECR>normalized gradient slope of the white matter boundary</res_ECR>
- <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>2040</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>20231031-002047</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>28</SurfaceEulerNumber>
- <SurfaceDefectArea>1.14777270593025</SurfaceDefectArea>
- <SurfaceDefectNumber>17</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0689948797225952</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0723783299326897</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>28</EC_abs>
- <defect_size>1.14777270593025</defect_size>
- <vol_abs_CGW>[271.925984313726 730.475756862745 503.247568627451 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.297062745098039</vol_abs_WMH>
- <vol_rel_WMH>0.000197298762177711</vol_rel_WMH>
- <surf_TSA>2028.75976231031</surf_TSA>
- <vol_TIV>1505.64930980392</vol_TIV>
- <vol_rel_CGW>[0.180603798336771 0.485156637808225 0.334239563855004 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.55209685850122 0.662695601446727]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.55387401580811 0.79163547952363 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.87496628827114 0.271259567452743 0.29393620539338;2.56284051529095 0.191907979631945 0.417995971499865;3.25689225561983 0.284405919009736 0.288067823106755]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.870255345060259 0.283385440424622 0.519493352497305;4.26212593376536 0.353045642441366 0.480506647502695]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.26134490505613</vol_TIV>
- <vol_rel_CGW>[1.09345902185292 6.56315800661324 3.85272205199361 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.01972987621777</vol_rel_WMH>
- <surf_TSA>8.62234823519426</surf_TSA>
- <SQR>5.37652627963345</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.336 0.308156762961459]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00151136063504964 0.00136087299324572 0.0129288909956813]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[888.870482352941 440.582878431373 518.198823529412 429.422976470588 900.569509803922 8912.80837647059]</SPMvols0>
- <SPMvols1>[746.359631372549 407.266839215686 314.966376470588 358.309262745098 739.539576470588 8967.9411254902]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[164.718795776367 319.403686523438 424.023590087891]</T3th>
- <Tth>
- <T3th>[-6.71926021575928 3.49908447265625 3.70064091682434 164.718795776367 319.403686523438 424.023590087891 553.676025390625 1108.15502929688]</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>[0.0209406781941652 0.0784173607826233 0.0876234397292137 0 0]</dtc>
- <ll>[0.0894804088627639 0 0.0894804088627639 0;0.207447267236973 0.0121080391690368 0.21955530640601 2582.01513671875;0.207447267236973 0.0121080391690368 0.21955530640601 2582.01513671875]</ll>
- <rmsdtc>[0.0472040735185146 0.106588579714298 0.119577877223492]</rmsdtc>
- <rmsgdt>[0.0340073145925999 0.0501514002680779 0.0620724707841873]</rmsgdt>
- <rmsdt>0.119577877223492</rmsdt>
- <dt>0.0876234397292137</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>[0.00921901874244213 0.0400358699262142 0.0482700802385807 0.0569708235561848 0.0644651874899864 0.072547160089016]</dtc>
- <ll>[0.0884850198973281 0 0.0884850198973281 0;0.224014728327228 0.0174526575854701 0.241467385912698 8933.5791015625;0.212091520636032 0.0189344523073987 0.231025972943431 13627.3525390625;0.191724887713861 0.0210758419344794 0.21280072964834 22725.490234375;0.173997150660844 0.0247008331437394 0.198697983804584 43210.4765625;0.173997150660844 0.0247008331437394 0.198697983804584 43210.4765625]</ll>
- <rmsdtc>[0.0108675174415112 0.0397719852626324 0.0631557703018188 0.0874045789241791 0.115734212100506 0.120147600769997]</rmsdtc>
- <rmsgdt>[0.003267363877967 0.0129260318353772 0.0297321770340204 0.0516176298260689 0.079077735543251 0.0779108554124832]</rmsgdt>
- <rmsdt>0.120147600769997</rmsdt>
- <dt>0.072547160089016</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025764/ses-1/sub-0025764_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 31s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 4s</item>
- <item>Estimate background 3s</item>
- <item>Initial correction 4s</item>
- <item>Refine background 2s</item>
- <item>Final correction 3s</item>
- <item>Final scaling 3s</item>
- <item>24s</item>
- <item>Correct center-of-mass 2s</item>
- <item>Affine registration 5s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 49s</item>
- <item>SPM preprocessing 1 (estimate 2): 40s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 12s</item>
- <item>Update Segmentation 13s</item>
- <item>Update Skull-Stripping 27s</item>
- <item>Update probability maps 6s</item>
- <item>58s</item>
- <item>Global intensity correction: 10s</item>
- <item>SANLM denoising after intensity normalization (medium): 19s</item>
- <item>Fast Optimized Shooting registration 22s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 2s</item>
- <item>Prepare partitions 1s</item>
- <item>Prepare segments (LASmod = 1.13) 9s</item>
- <item>Estimate local tissue thresholds (WM) 12s</item>
- <item>Estimate local tissue thresholds (GM) 18s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 31s</item>
- <item>76s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 5s</item>
- <item>Major structures 2s</item>
- <item>Ventricle detection 7s</item>
- <item>Blood vessel detection 6s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.09) 13s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 2s</item>
- <item>Final corrections 3s</item>
- <item>39s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 23s</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) 3s</item>
- <item>Level 1 cleanup (brain masking) 2s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 2s</item>
- <item>7s</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 | 0.0885 0.0000 0.0885 | 32.0000</item>
- <item>2 | 2.50 | 0.0854 0.0013 0.0867 | 29.4886</item>
- <item>3 | 2.50 | 0.0845 0.0020 0.0865 | 26.9772</item>
- <item>4 | 2.50 | 0.0840 0.0022 0.0863 | 24.6107</item>
- <item>5 | 2.50 | 0.0837 0.0024 0.0861 | 22.6548</item>
- <item>6 | 2.50 | 0.0834 0.0025 0.0858 | 20.6989</item>
- <item>7 | 2.50 | 0.0831 0.0026 0.0856 | 18.9688</item>
- <item>8 | 2.50 | 0.0827 0.0027 0.0854 | 17.4455</item>
- <item>9 | 2.50 | 0.0824 0.0028 0.0851 | 15.9223</item>
- <item>10 | 2.50 | 0.0820 0.0029 0.0849 | 14.6627</item>
- <item>11 | 2.50 | 0.0817 0.0029 0.0846 | 13.4764</item>
- <item>12 | 2.50 | 0.0813 0.0030 0.0843 | 12.3015</item>
- <item>13 | 2.50 | 0.0810 0.0031 0.0841 | 11.3776</item>
- <item>14 | 2.50 | 0.0806 0.0032 0.0838 | 10.4537</item>
- <item>15 | 2.25 | 0.0813 0.0033 0.0845 | 9.5920</item>
- <item>16 | 2.25 | 0.0780 0.0049 0.0829 | 8.8725</item>
- <item>17 | 2.25 | 0.0767 0.0055 0.0821 | 8.1530</item>
- <item>18 | 2.25 | 0.0759 0.0057 0.0816 | 7.5234</item>
- <item>19 | 2.25 | 0.0752 0.0058 0.0810 | 6.9630</item>
- <item>20 | 2.25 | 0.0747 0.0058 0.0805 | 6.4027</item>
- <item>29 | 2.00 | 0.0772 0.0032 0.0804 | 3.3283</item>
- <item>30 | 2.00 | 0.0724 0.0055 0.0778 | 3.1221</item>
- <item>31 | 2.00 | 0.0707 0.0063 0.0770 | 2.9160</item>
- <item>43 | 1.75 | 0.0702 0.0036 0.0738 | 1.5785</item>
- <item>44 | 1.75 | 0.0655 0.0062 0.0716 | 1.5194</item>
- <item>45 | 1.75 | 0.0639 0.0070 0.0709 | 1.4626</item>
- <item>57 | 1.50 | 0.0628 0.0051 0.0679 | 1.0900</item>
- <item>58 | 1.50 | 0.0592 0.0075 0.0667 | 1.0730</item>
- <item>59 | 1.50 | 0.0580 0.0082 0.0662 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 110s</item>
- <item>Prepare output 7s</item>
- <item>117s</item>
- <item>Jacobian determinant (RMS): 0.011 0.040 0.063 0.087 0.116 | 0.120148</item>
- <item>Template Matching: 0.088 0.224 0.212 0.192 0.174 | 0.173997</item>
- <item>Write result maps: 22s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 24s</item>
- <item>CSF distance: 11s</item>
- <item>PBT2x thickness: 31s</item>
- <item>70s</item>
- <item>Create initial surface 53s</item>
- <item>Topology correction: 66s</item>
- <item>Surface refinement: 50s</item>
- <item>Reduction of surface collisions with optimization: 49s</item>
- <item>Spherical mapping with areal smoothing 59s</item>
- <item>Spherical registration 185s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 19s</item>
- <item>CSF distance: 11s</item>
- <item>PBT2x thickness: 30s</item>
- <item>64s</item>
- <item>Create initial surface 52s</item>
- <item>Topology correction: 66s</item>
- <item>Surface refinement: 56s</item>
- <item>Reduction of surface collisions with optimization: 48s</item>
- <item>Spherical mapping with areal smoothing 57s</item>
- <item>Spherical registration 182s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5521 0.6626 mm</item>
- <item>Surface intensity / position RMSE: 0.0690 / 0.0724</item>
- <item>Euler number / defect number / defect size: 28.0 / 17.0 / 1.15%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2199173/ds/SWU_4/sub-0025764/ses-1/surf/lh.thickness.sub-0025764_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2199173/ds/SWU_4/sub-0025764/ses-1/surf/rh.thickness.sub-0025764_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2199173/ds/SWU_4/sub-0025764/ses-1/sub-0025764_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 6s</item>
- <item>Surface and thickness estimation takes: 1124s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 6s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 22s</item>
- <item>ROI estimation of 'lpba40' atlas 6s</item>
- <item>ROI estimation of 'hammers' atlas 15s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 5s</item>
- <item>ROI estimation of 'aal3' atlas 8s</item>
- <item>ROI estimation of 'mori' atlas 12s</item>
- <item>ROI estimation of 'anatomy3' atlas 17s</item>
- <item>ROI estimation of 'julichbrain' atlas 23s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 9s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 16s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 36s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 54s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 5s</item>
- <item>Write results 5s</item>
- <item>238s</item>
- <item>Quality check: 7s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_2199173/ds/SWU_4/sub-0025764/ses-1/report/catreport_sub-0025764_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 32 minute(s) and 57 second(s).</item>
- <item>Image Quality Rating (IQR): 81.10% (B-)</item>
- <item>GM volume (GMV): 48.52% (730.48 / 1505.65 ml)</item>
- <item>GM thickness (GMT): 2.55 0.66 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2199173/ds/SWU_4/sub-0025764/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2199173/ds/SWU_4/sub-0025764/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2199173/ds/SWU_4/sub-0025764/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|