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- <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>
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- <uhrlim>1.4</uhrlim>
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- <restype>optimal</restype>
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- <species>human</species>
- <APP>1070</APP>
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- <shootingsurf>Template_T1</shootingsurf>
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- <darteltpm>
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- </darteltpm>
- <shootingtpm>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
- </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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- <pbtlas>0</pbtlas>
- <thick_measure>1</thick_measure>
- <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>
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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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- <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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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.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/hammers.nii</td>
- <td>0</td>
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- <item>csf</item>
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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>
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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/suit.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/ibsr.nii</td>
- <td>0</td>
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- <item>csf</item>
- <item>gm</item>
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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>
- <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_100Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <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_200Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <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>
- <td>
- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_912714/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
- <td>
- <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>
- </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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- <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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- <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>
- </tr>
- <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>
- <CB>3</CB>
- <BG>5</BG>
- <BV>7</BV>
- <TH>9</TH>
- <ON>11</ON>
- <MB>13</MB>
- <BS>13</BS>
- <VT>15</VT>
- <NV>17</NV>
- <HC>19</HC>
- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
- <LE>27</LE>
- </LAB>
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- <shootingtpm>
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- </shootingtpms>
- <templates>
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- </templates>
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- <AMAPframing>1</AMAPframing>
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- <SurfaceEulerNumber>18</SurfaceEulerNumber>
- <SurfaceDefectArea>0.563928464499215</SurfaceDefectArea>
- <SurfaceDefectNumber>12</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0608715265989304</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.06234110891819</SurfacePositionRMSE>
- <res_vx_vol>[1.00000001662338 1.00000000486092 0.999999990701584]</res_vx_vol>
- <res_vx_voli>[1.00000002412468 1.00000000165496 0.99999999095861]</res_vx_voli>
- <res_RMS>1.00000000406196</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[10.0930004119873 122.990997314453 303.162994384766 409.122009277344]</tissue_mn>
- <tissue_mnr>[0.0246699023991823 0.300621807575226 0.741008758544922 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[7.33453427870691 47.9421531430976 37.0809979649164 19.2494956020139]</tissue_std>
- <tissue_stdr>[0.0183809548616409 0.120147034525871 0.0929280743002892 0.0482408404350281]</tissue_stdr>
- <contrast>108.639122009277</contrast>
- <contrastr>0.26554211974144</contrastr>
- <res_ECR>0.215057969093323</res_ECR>
- <NCR>0.140981659293175</NCR>
- <ICR>0.525379836559296</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000003324676 2.00000000972184 1.99999998140317]</res_vx_vol>
- <res_RMS>2.00000000812392</res_RMS>
- <res_ECR>1.99519371986389</res_ECR>
- <res_BB>1</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>4.10020160675049</contrastr>
- <NCR>2.3548903465271</NCR>
- <ICR>1.76284682750702</ICR>
- <SurfaceEulerNumber>1.81632653061224</SurfaceEulerNumber>
- <SurfaceDefectArea>1.1409821161248</SurfaceDefectArea>
- <SurfaceDefectNumber>1.6</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.21743059158325</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.24682211875916</SurfacePositionRMSE>
- <SIQR>2.16589445866897</SIQR>
- <IQR>2.22508676959605</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>20231031-041501</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>18</SurfaceEulerNumber>
- <SurfaceDefectArea>0.563928464499215</SurfaceDefectArea>
- <SurfaceDefectNumber>12</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0608715265989304</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.06234110891819</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>18</EC_abs>
- <defect_size>0.563928464499215</defect_size>
- <vol_abs_CGW>[261.431980846503 611.33234356597 568.189954608547 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.696301972439193</vol_abs_WMH>
- <vol_rel_WMH>0.000483222807674549</vol_rel_WMH>
- <surf_TSA>1886.01221069619</surf_TSA>
- <vol_TIV>1440.95427902102</vol_TIV>
- <vol_rel_CGW>[0.181429754332052 0.424255198423996 0.394315047243951 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.38957905527226 0.61955826867725]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.37390851974487 0.782707649332686 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.78083888382655 0.251629952940727 0.306372986738102;2.41082692047819 0.175874085766908 0.444911862949367;3.0718084419795 0.284547253811289 0.248715150312531]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.805106255643978 0.24777159500222 0.46131164209456;4.14782779340071 0.392196706906425 0.53868835790544]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.03985600981385</vol_TIV>
- <vol_rel_CGW>[1.10829300165324 5.46938215560338 4.93166392320315 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.04832228076745</vol_rel_WMH>
- <surf_TSA>8.61109629171366</surf_TSA>
- <SQR>4.68002000491706</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.3361405561 0.497328971949851]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00199358048848808 0.00156178430188447 0.315331876277924]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[742.401467328466 510.643777174736 465.536297988343 495.433871037796 925.371497842045 8905.7719216161]</SPMvols0>
- <SPMvols1>[630.412320355923 478.471509969562 292.517299013876 454.309591918075 873.297642068459 8805.36155915109]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[159.739395141602 309.550598144531 401.965301513672]</T3th>
- <Tth>
- <T3th>[-7.73108005523682 -2.431640625 4.56718158721924 159.739395141602 309.550598144531 401.965301513672 523.078247070312 1355.28698730469]</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>[0.022195853292942 0.0807291716337204 0.0891611948609352 0 0]</dtc>
- <ll>[0.0857522513399891 0 0.0857522513399891 0;0.19529438362259 0.0113295787522773 0.206623962374867 2416.01000976562;0.19529438362259 0.0113295787522773 0.206623962374867 2416.01000976562]</ll>
- <rmsdtc>[0.0486786812543869 0.103632971644402 0.114775955677032]</rmsdtc>
- <rmsgdt>[0.0348838306963444 0.0479258969426155 0.0588118024170399]</rmsgdt>
- <rmsdt>0.114775955677032</rmsdt>
- <dt>0.0891611948609352</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>[0.00990237295627594 0.0362856835126877 0.0518308877944946 0.0612083412706852 0.0674705132842064 0.075878694653511]</dtc>
- <ll>[0.0848538183672102 0 0.0848538183672102 0;0.219119291819292 0.0145818786248474 0.233701170444139 7464.09912109375;0.195667068910898 0.0178668716835693 0.213533940594467 12859.001953125;0.173399024086687 0.0197947883424822 0.193193812429169 21344.166015625;0.15604881847746 0.0221779361069493 0.178226754584409 38797.0390625;0.15604881847746 0.0221779361069493 0.178226754584409 38797.0390625]</ll>
- <rmsdtc>[0.0116436369717121 0.0420815497636795 0.0629335343837738 0.088519811630249 0.111724562942982 0.118890449404716]</rmsdtc>
- <rmsgdt>[0.00352605036459863 0.013664873316884 0.029177812859416 0.0489413253962994 0.0659003406763077 0.0710005834698677]</rmsgdt>
- <rmsdt>0.118890449404716</rmsdt>
- <dt>0.075878694653511</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025989/ses-5/sub-0025989_ses-5_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 44s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 5s</item>
- <item>Estimate background 5s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 2s</item>
- <item>Final correction 4s</item>
- <item>Final scaling 4s</item>
- <item>30s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 7s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 54s</item>
- <item>SPM preprocessing 1 (estimate 2): 46s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 14s</item>
- <item>Update Segmentation 15s</item>
- <item>Update Skull-Stripping 34s</item>
- <item>Update probability maps 7s</item>
- <item>70s</item>
- <item>Global intensity correction: 14s</item>
- <item>SANLM denoising after intensity normalization (medium): 20s</item>
- <item>Fast Optimized Shooting registration 27s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 3s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.18) 11s</item>
- <item>Estimate local tissue thresholds (WM) 15s</item>
- <item>Estimate local tissue thresholds (GM) 21s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 38s</item>
- <item>94s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 9s</item>
- <item>Blood vessel detection 7s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.10) 19s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 4s</item>
- <item>52s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 27s</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>9s</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 | 0.0849 0.0000 0.0849 | 32.0000</item>
- <item>2 | 2.50 | 0.0818 0.0013 0.0831 | 29.4886</item>
- <item>3 | 2.50 | 0.0809 0.0020 0.0829 | 26.9772</item>
- <item>4 | 2.50 | 0.0805 0.0023 0.0827 | 24.6107</item>
- <item>5 | 2.50 | 0.0801 0.0024 0.0825 | 22.6548</item>
- <item>6 | 2.50 | 0.0798 0.0025 0.0823 | 20.6989</item>
- <item>7 | 2.50 | 0.0795 0.0026 0.0821 | 18.9688</item>
- <item>8 | 2.50 | 0.0792 0.0027 0.0819 | 17.4455</item>
- <item>9 | 2.50 | 0.0788 0.0028 0.0816 | 15.9223</item>
- <item>10 | 2.50 | 0.0785 0.0029 0.0814 | 14.6627</item>
- <item>11 | 2.50 | 0.0782 0.0030 0.0811 | 13.4764</item>
- <item>12 | 2.50 | 0.0778 0.0030 0.0808 | 12.3015</item>
- <item>13 | 2.50 | 0.0774 0.0031 0.0806 | 11.3776</item>
- <item>14 | 2.50 | 0.0771 0.0032 0.0803 | 10.4537</item>
- <item>15 | 2.25 | 0.0763 0.0033 0.0796 | 9.5920</item>
- <item>16 | 2.25 | 0.0730 0.0049 0.0779 | 8.8725</item>
- <item>29 | 2.00 | 0.0742 0.0022 0.0764 | 3.3283</item>
- <item>30 | 2.00 | 0.0675 0.0049 0.0724 | 3.1221</item>
- <item>31 | 2.00 | 0.0652 0.0060 0.0712 | 2.9160</item>
- <item>43 | 1.75 | 0.0638 0.0035 0.0672 | 1.5785</item>
- <item>44 | 1.75 | 0.0593 0.0058 0.0651 | 1.5194</item>
- <item>45 | 1.75 | 0.0578 0.0066 0.0644 | 1.4626</item>
- <item>57 | 1.50 | 0.0560 0.0048 0.0608 | 1.0900</item>
- <item>58 | 1.50 | 0.0530 0.0068 0.0598 | 1.0730</item>
- <item>59 | 1.50 | 0.0520 0.0074 0.0594 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 134s</item>
- <item>Prepare output 8s</item>
- <item>142s</item>
- <item>Jacobian determinant (RMS): 0.012 0.042 0.063 0.089 0.112 | 0.118890</item>
- <item>Template Matching: 0.085 0.219 0.196 0.173 0.156 | 0.156049</item>
- <item>Write result maps: 28s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 34s</item>
- <item>CSF distance: 12s</item>
- <item>PBT2x thickness: 35s</item>
- <item>86s</item>
- <item>Create initial surface 70s</item>
- <item>Topology correction: 76s</item>
- <item>Surface refinement: 83s</item>
- <item>Reduction of surface collisions with optimization: 54s</item>
- <item>Spherical mapping with areal smoothing 63s</item>
- <item>Spherical registration 251s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 29s</item>
- <item>CSF distance: 12s</item>
- <item>PBT2x thickness: 35s</item>
- <item>81s</item>
- <item>Create initial surface 69s</item>
- <item>Topology correction: 76s</item>
- <item>Surface refinement: 62s</item>
- <item>Reduction of surface collisions with optimization: 54s</item>
- <item>Spherical mapping with areal smoothing 63s</item>
- <item>Spherical registration 262s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.3896 0.6195 mm</item>
- <item>Surface intensity / position RMSE: 0.0609 / 0.0623</item>
- <item>Euler number / defect number / defect size: 18.0 / 12.0 / 0.56%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_912714/ds/XHCUMS/sub-0025989/ses-5/surf/lh.thickness.sub-0025989_ses-5_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_912714/ds/XHCUMS/sub-0025989/ses-5/surf/rh.thickness.sub-0025989_ses-5_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_912714/ds/XHCUMS/sub-0025989/ses-5/sub-0025989_ses-5_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 7s</item>
- <item>Surface and thickness estimation takes: 1424s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 7s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 25s</item>
- <item>ROI estimation of 'lpba40' atlas 7s</item>
- <item>ROI estimation of 'hammers' atlas 18s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 6s</item>
- <item>ROI estimation of 'aal3' atlas 10s</item>
- <item>ROI estimation of 'mori' atlas 15s</item>
- <item>ROI estimation of 'anatomy3' atlas 22s</item>
- <item>ROI estimation of 'julichbrain' atlas 29s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 12s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 21s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 47s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 69s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 6s</item>
- <item>Write results 7s</item>
- <item>298s</item>
- <item>Quality check: 9s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_912714/ds/XHCUMS/sub-0025989/ses-5/report/catreport_sub-0025989_ses-5_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 41 minute(s) and 24 second(s).</item>
- <item>Image Quality Rating (IQR): 82.75% (B-)</item>
- <item>GM volume (GMV): 42.43% (611.33 / 1440.95 ml)</item>
- <item>GM thickness (GMT): 2.39 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_912714/ds/XHCUMS/sub-0025989/ses-5/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_912714/ds/XHCUMS/sub-0025989/ses-5/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_912714/ds/XHCUMS/sub-0025989/ses-5/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|