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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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- <NCstr>-Inf</NCstr>
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- <restype>optimal</restype>
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- <bids_folder>../derivatives/CAT12.8.1_2040</bids_folder>
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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>
- <vdist>2</vdist>
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- <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>
- <gifti_dat>1</gifti_dat>
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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>
- <td>
- <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>
- <td>
- <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>
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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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- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_359021/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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- <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>
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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>
- <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>
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- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
- <LE>27</LE>
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- <shootingtpm>
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- </shootingtpms>
- <templates>
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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_GS.nii</item>
- </templates>
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- <AMAPframing>1</AMAPframing>
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- <qualitymeasures>
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- <version_segment>1639</version_segment>
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- <SurfaceEulerNumber>32</SurfaceEulerNumber>
- <SurfaceDefectArea>0.993538996267763</SurfaceDefectArea>
- <SurfaceDefectNumber>16.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0654366016387939</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0685963854193687</SurfacePositionRMSE>
- <res_vx_vol>[0.99999999442519 0.999999987479713 1.00000000964077]</res_vx_vol>
- <res_vx_voli>[0.999999993989492 0.999999988025735 1.00000000913757]</res_vx_voli>
- <res_RMS>0.999999997181892</res_RMS>
- <res_BB>0.0146976076066494</res_BB>
- <tissue_mn>[7.73400020599365 130.563995361328 310.722991943359 428.338989257812]</tissue_mn>
- <tissue_mnr>[0.0180557928979397 0.304814636707306 0.725413739681244 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[11.8911015145377 50.1318187900429 39.8869301058158 21.9656210925782]</tissue_std>
- <tissue_stdr>[0.0282714236527681 0.119189791381359 0.0948322787880898 0.0522238723933697]</tissue_stdr>
- <contrast>119.778694152832</contrast>
- <contrastr>0.279635280370712</contrastr>
- <res_ECR>0.256503701210022</res_ECR>
- <NCR>0.143718481063843</NCR>
- <ICR>0.502258002758026</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.99999998885038 1.99999997495943 2.00000001928155]</res_vx_vol>
- <res_RMS>1.99999999436378</res_RMS>
- <res_ECR>2.20665168762207</res_ECR>
- <res_BB>1.00734877586365</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>3.88880395889282</contrastr>
- <NCR>2.39417862892151</NCR>
- <ICR>1.70550096035004</ICR>
- <SurfaceEulerNumber>2.53061224489796</SurfaceEulerNumber>
- <SurfaceDefectArea>1.24838474906694</SurfaceDefectArea>
- <SurfaceDefectNumber>1.825</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.30873203277588</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.3719277381897</SurfacePositionRMSE>
- <SIQR>2.23944108936454</SIQR>
- <IQR>2.25465316238286</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>20231031-022534</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>32</SurfaceEulerNumber>
- <SurfaceDefectArea>0.993538996267763</SurfaceDefectArea>
- <SurfaceDefectNumber>16.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0654366016387939</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0685963854193687</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>32</EC_abs>
- <defect_size>0.993538996267763</defect_size>
- <vol_abs_CGW>[302.579758107328 758.557687406531 622.464343512538 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.5076313680579</vol_abs_WMH>
- <vol_rel_WMH>0.000301515103729758</vol_rel_WMH>
- <surf_TSA>2161.49586292766</surf_TSA>
- <vol_TIV>1683.6017890264</vol_TIV>
- <vol_rel_CGW>[0.179721689582134 0.450556475023226 0.369721835394639 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.46159524982588 0.622082565066413]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.45564532279968 0.698088104017123 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.8551741645109 0.237189488913074 0.319235452227251;2.49030425091758 0.18023681395003 0.409031909761309;3.13629153690185 0.256664281083422 0.271732638011441]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.928810776778412 0.310238819255276 0.496315525037682;4.04332160351183 0.359229821388252 0.503684474962318]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>2.69439562286428</vol_TIV>
- <vol_rel_CGW>[1.07761655140328 5.94174703705507 4.48997549200142 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03015151037298</vol_rel_WMH>
- <surf_TSA>8.62381114257682</surf_TSA>
- <SQR>4.92071648908279</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[8.66976651278409e-08 1 1 11534.334902485 0.425323846989517]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00174442445859313 0.00138551113195717 0.33852419257164]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[932.172552537191 549.649320627335 516.968105230198 1229.90111853058 1080.18405318849 7813.41277793195]</SPMvols0>
- <SPMvols1>[802.54975760556 513.976909178231 318.54270306414 609.833747545852 1007.28061069622 8282.19585613747]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[154.914505004883 320.993011474609 424.780212402344]</T3th>
- <Tth>
- <T3th>[-7.42679977416992 -7.42679643630981 4.22762870788574 154.914505004883 320.993011474609 424.780212402344 559.713073730469 1426.48229980469]</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>[0.0205691456794739 0.0764743462204933 0.0842787399888039 0 0]</dtc>
- <ll>[0.0862968844764468 0 0.0862968844764468 0;0.196221213094613 0.0119133178784209 0.208134530973034 2540.4912109375;0.196221213094613 0.0119133178784209 0.208134530973034 2540.4912109375]</ll>
- <rmsdtc>[0.0480451211333275 0.0991322845220566 0.11057236790657]</rmsdtc>
- <rmsgdt>[0.0350396931171417 0.0465070009231567 0.0572624914348125]</rmsgdt>
- <rmsdt>0.11057236790657</rmsdt>
- <dt>0.0842787399888039</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>[0.00936924945563078 0.0376866608858109 0.0505292005836964 0.0591106750071049 0.065740630030632 0.0743481367826462]</dtc>
- <ll>[0.08708128083418 0 0.08708128083418 0;0.2233471001221 0.0179503052503053 0.241297405372405 9188.3125;0.20489704128179 0.019443563015484 0.224340604297274 13993.765625;0.182773528502085 0.0215734099617258 0.204346938463811 23262.00390625;0.164357086591443 0.0250401773541418 0.189397263945584 43804.109375;0.164357086591443 0.0250401773541418 0.189397263945584 43804.109375]</ll>
- <rmsdtc>[0.0109535362571478 0.0407061837613583 0.0621056593954563 0.0876286774873734 0.135556772351265 0.123913198709488]</rmsdtc>
- <rmsgdt>[0.00349237048067153 0.0134673593565822 0.0309587549418211 0.053849458694458 0.131967753171921 0.0834760814905167]</rmsgdt>
- <rmsdt>0.123913198709488</rmsdt>
- <dt>0.0743481367826462</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0026004/ses-1/sub-0026004_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 51s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 6s</item>
- <item>Estimate background 6s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 4s</item>
- <item>34s</item>
- <item>Correct center-of-mass 4s</item>
- <item>Affine registration 9s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 75s</item>
- <item>SPM preprocessing 1 (estimate 2): 67s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 17s</item>
- <item>Update Segmentation 20s</item>
- <item>Update Skull-Stripping 40s</item>
- <item>Update probability maps 8s</item>
- <item>85s</item>
- <item>Global intensity correction: 17s</item>
- <item>SANLM denoising after intensity normalization (medium): 27s</item>
- <item>Fast Optimized Shooting registration 31s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.00) 14s</item>
- <item>Estimate local tissue thresholds (WM) 18s</item>
- <item>Estimate local tissue thresholds (GM) 27s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 48s</item>
- <item>117s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 8s</item>
- <item>Major structures 4s</item>
- <item>Ventricle detection 15s</item>
- <item>Blood vessel detection 10s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.05) 27s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 4s</item>
- <item>Final corrections 4s</item>
- <item>73s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 37s</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) 4s</item>
- <item>Level 1 cleanup (brain masking) 3s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 3s</item>
- <item>11s</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 | 0.0871 0.0000 0.0871 | 32.0000</item>
- <item>2 | 2.50 | 0.0836 0.0014 0.0850 | 29.4886</item>
- <item>3 | 2.50 | 0.0826 0.0021 0.0848 | 26.9772</item>
- <item>4 | 2.50 | 0.0821 0.0024 0.0845 | 24.6107</item>
- <item>5 | 2.50 | 0.0817 0.0026 0.0843 | 22.6548</item>
- <item>6 | 2.50 | 0.0814 0.0027 0.0841 | 20.6989</item>
- <item>7 | 2.50 | 0.0810 0.0028 0.0838 | 18.9688</item>
- <item>8 | 2.50 | 0.0806 0.0030 0.0836 | 17.4455</item>
- <item>9 | 2.50 | 0.0802 0.0030 0.0833 | 15.9223</item>
- <item>10 | 2.50 | 0.0798 0.0032 0.0830 | 14.6627</item>
- <item>11 | 2.50 | 0.0794 0.0033 0.0827 | 13.4764</item>
- <item>12 | 2.50 | 0.0790 0.0033 0.0824 | 12.3015</item>
- <item>13 | 2.50 | 0.0786 0.0035 0.0821 | 11.3776</item>
- <item>14 | 2.50 | 0.0782 0.0035 0.0818 | 10.4537</item>
- <item>15 | 2.25 | 0.0792 0.0036 0.0829 | 9.5920</item>
- <item>16 | 2.25 | 0.0758 0.0054 0.0812 | 8.8725</item>
- <item>17 | 2.25 | 0.0744 0.0060 0.0804 | 8.1530</item>
- <item>29 | 2.00 | 0.0769 0.0027 0.0796 | 3.3283</item>
- <item>30 | 2.00 | 0.0705 0.0054 0.0760 | 3.1221</item>
- <item>31 | 2.00 | 0.0683 0.0065 0.0748 | 2.9160</item>
- <item>43 | 1.75 | 0.0674 0.0037 0.0711 | 1.5785</item>
- <item>44 | 1.75 | 0.0626 0.0063 0.0689 | 1.5194</item>
- <item>45 | 1.75 | 0.0609 0.0072 0.0681 | 1.4626</item>
- <item>57 | 1.50 | 0.0596 0.0053 0.0649 | 1.0900</item>
- <item>58 | 1.50 | 0.0560 0.0076 0.0637 | 1.0730</item>
- <item>59 | 1.50 | 0.0548 0.0083 0.0631 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 170s</item>
- <item>Prepare output 11s</item>
- <item>181s</item>
- <item>Jacobian determinant (RMS): 0.011 0.041 0.062 0.088 0.136 | 0.123913</item>
- <item>Template Matching: 0.087 0.223 0.205 0.183 0.164 | 0.164357</item>
- <item>Write result maps: 33s</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: 17s</item>
- <item>PBT2x thickness: 48s</item>
- <item>114s</item>
- <item>Create initial surface 91s</item>
- <item>Topology correction: 104s</item>
- <item>Surface refinement: 96s</item>
- <item>Reduction of surface collisions with optimization: 80s</item>
- <item>Spherical mapping with areal smoothing 88s</item>
- <item>Spherical registration 304s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 48s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 46s</item>
- <item>116s</item>
- <item>Create initial surface 88s</item>
- <item>Topology correction: 105s</item>
- <item>Surface refinement: 127s</item>
- <item>Reduction of surface collisions with optimization: 84s</item>
- <item>Spherical mapping with areal smoothing 94s</item>
- <item>Spherical registration 321s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4616 0.6221 mm</item>
- <item>Surface intensity / position RMSE: 0.0654 / 0.0686</item>
- <item>Euler number / defect number / defect size: 32.0 / 16.5 / 0.99%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_359021/ds/XHCUMS/sub-0026004/ses-1/surf/lh.thickness.sub-0026004_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_359021/ds/XHCUMS/sub-0026004/ses-1/surf/rh.thickness.sub-0026004_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_359021/ds/XHCUMS/sub-0026004/ses-1/sub-0026004_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 9s</item>
- <item>Surface and thickness estimation takes: 1914s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 8s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 31s</item>
- <item>ROI estimation of 'lpba40' atlas 9s</item>
- <item>ROI estimation of 'hammers' atlas 22s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 8s</item>
- <item>ROI estimation of 'aal3' atlas 13s</item>
- <item>ROI estimation of 'mori' atlas 19s</item>
- <item>ROI estimation of 'anatomy3' atlas 27s</item>
- <item>ROI estimation of 'julichbrain' atlas 36s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 15s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 28s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 62s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 95s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 9s</item>
- <item>Write results 10s</item>
- <item>385s</item>
- <item>Quality check: 13s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_359021/ds/XHCUMS/sub-0026004/ses-1/report/catreport_sub-0026004_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 54 minute(s) and 53 second(s).</item>
- <item>Image Quality Rating (IQR): 82.45% (B-)</item>
- <item>GM volume (GMV): 45.06% (758.56 / 1683.60 ml)</item>
- <item>GM thickness (GMT): 2.46 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_359021/ds/XHCUMS/sub-0026004/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_359021/ds/XHCUMS/sub-0026004/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_359021/ds/XHCUMS/sub-0026004/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|