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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
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- <SLC>0</SLC>
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- <bids_folder>../derivatives/CAT12.8.1_2040</bids_folder>
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- <species>human</species>
- <APP>1070</APP>
- <setCOM>1</setCOM>
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- <shootingsurf>Template_T1</shootingsurf>
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- <darteltpm>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_1_Dartel.nii</item>
- </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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- <thick_limit>5</thick_limit>
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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>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii</td>
- <td>0</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>
- <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/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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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
- <td>0</td>
- <td>
- <item>csf</item>
- <item>gm</item>
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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>
- <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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- <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>[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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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_2926811/ds/code/Tian_Subcortex_S2_7T.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <item>csf</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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- <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>
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- <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>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <AMAPframing>1</AMAPframing>
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- <qualitymeasures>
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- <SurfaceEulerNumber>16</SurfaceEulerNumber>
- <SurfaceDefectArea>0.61810532488051</SurfaceDefectArea>
- <SurfaceDefectNumber>16</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0685386806726456</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.071753054857254</SurfacePositionRMSE>
- <res_vx_vol>[0.999999975417431 0.999999994267439 0.999999976167169]</res_vx_vol>
- <res_vx_voli>[1.00000003523312 0.999999993822669 0.999999975132775]</res_vx_voli>
- <res_RMS>0.99999998195068</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[4.64300012588501 111.900001525879 266.867004394531 383.674011230469]</tissue_mn>
- <tissue_mnr>[0.0121014192700386 0.291653841733932 0.695556640625 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[5.41012705603254 46.0805086717616 36.2829335103891 23.9039893322703]</tissue_std>
- <tissue_stdr>[0.0142735736444592 0.121574506163597 0.0957254990935326 0.0630660504102707]</tissue_stdr>
- <contrast>118.237854003906</contrast>
- <contrastr>0.308172702789307</contrastr>
- <res_ECR>0.329028606414795</res_ECR>
- <NCR>0.163927018642426</NCR>
- <ICR>0.31784400343895</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.99999995083486 1.99999998853488 1.99999995233434]</res_vx_vol>
- <res_RMS>1.99999996390136</res_RMS>
- <res_ECR>2.57667636871338</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>3.46074271202087</contrastr>
- <NCR>2.68428111076355</NCR>
- <ICR>1.24812507629395</ICR>
- <SurfaceEulerNumber>1.71428571428571</SurfaceEulerNumber>
- <SurfaceDefectArea>1.15452633122013</SurfaceDefectArea>
- <SurfaceDefectNumber>1.8</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.37077355384827</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.43506109714508</SurfacePositionRMSE>
- <SIQR>2.52099876801676</SIQR>
- <IQR>2.48957287352748</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>20231031-011026</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>16</SurfaceEulerNumber>
- <SurfaceDefectArea>0.61810532488051</SurfaceDefectArea>
- <SurfaceDefectNumber>16</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0685386806726456</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.071753054857254</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>16</EC_abs>
- <defect_size>0.61810532488051</defect_size>
- <vol_abs_CGW>[283.133440401609 702.621822550821 503.337366814144 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.660043140019536</vol_abs_WMH>
- <vol_rel_WMH>0.000443251901745698</vol_rel_WMH>
- <surf_TSA>1966.45853823856</surf_TSA>
- <vol_TIV>1489.09262976657</vol_TIV>
- <vol_rel_CGW>[0.190138232331452 0.471845611552696 0.338016156115853 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.48222718824024 0.644774456720583]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.4795184135437 0.768607439787192 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.84814699160533 0.258114990151043 0.308953011386145;2.51086183603271 0.186274774593139 0.422188286711053;3.18659678289867 0.276260575634322 0.268858701902802]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.865896364884238 0.276249725601659 0.526554526554527;4.19318210878772 0.368305024133906 0.473445473445473]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.18678471425419</vol_TIV>
- <vol_rel_CGW>[1.26469526457349 6.32409503506996 3.92054878081632 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.04432519017457</vol_rel_WMH>
- <surf_TSA>8.61980342797721</surf_TSA>
- <SQR>5.18559857479174</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.3353754392 0.32651813536478]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00142479687929153 0.00130730646196753 0.015710286796093]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[846.455446682689 447.738903836168 529.419790452804 402.855687961897 832.33734466277 8961.34656694695]</SPMvols0>
- <SPMvols1>[716.911446140086 416.105217429159 324.005330768882 324.000875866903 727.652450106644 9025.69169662823]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[141.868499755859 282.79541015625 371.387603759766]</T3th>
- <Tth>
- <T3th>[-4.76618003845215 -4.76617813110352 3.62377095222473 141.868499755859 282.79541015625 371.387603759766 486.147155761719 939.944946289062]</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>[0.020731259137392 0.0750998631119728 0.0834333896636963 0 0]</dtc>
- <ll>[0.0864763324763499 0 0.0864763324763499 0;0.204396022324946 0.0111814340909704 0.215577456415916 2384.41845703125;0.204396022324946 0.0111814340909704 0.215577456415916 2384.41845703125]</ll>
- <rmsdtc>[0.0485400035977364 0.101362302899361 0.113593943417072]</rmsdtc>
- <rmsgdt>[0.0350856520235538 0.0480141304433346 0.0598254650831223]</rmsgdt>
- <rmsdt>0.113593943417072</rmsdt>
- <dt>0.0834333896636963</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>[0.00905037298798561 0.0341323800384998 0.0458189249038696 0.0542031452059746 0.0608268082141876 0.0683454647660255]</dtc>
- <ll>[0.0853664903775625 0 0.0853664903775625 0;0.22359126984127 0.0149584916819292 0.238549761523199 7656.8779296875;0.206874850634698 0.0171090734470872 0.223983924081785 12313.60546875;0.186322566337622 0.0197836050846864 0.206106171422308 21332.107421875;0.168854052755504 0.0233801506721342 0.192234203427639 40900.13671875;0.168854052755504 0.0233801506721342 0.192234203427639 40900.13671875]</ll>
- <rmsdtc>[0.0107965478673577 0.0386980213224888 0.0590341612696648 0.0838422402739525 0.110099926590919 0.116355001926422]</rmsdtc>
- <rmsgdt>[0.00321668270044029 0.0125001482665539 0.0285862646996975 0.0506950840353966 0.0739509016275406 0.0770917013287544]</rmsgdt>
- <rmsdt>0.116355001926422</rmsdt>
- <dt>0.0683454647660255</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025663/ses-1/sub-0025663_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 33s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 4s</item>
- <item>Estimate background 4s</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 6s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 46s</item>
- <item>SPM preprocessing 1 (estimate 2): 40s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 11s</item>
- <item>Update Segmentation 12s</item>
- <item>Update Skull-Stripping 27s</item>
- <item>Update probability maps 6s</item>
- <item>56s</item>
- <item>Global intensity correction: 11s</item>
- <item>SANLM denoising after intensity normalization (medium): 16s</item>
- <item>Fast Optimized Shooting registration 21s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 2s</item>
- <item>Prepare partitions 1s</item>
- <item>Prepare segments (LASmod = 1.09) 9s</item>
- <item>Estimate local tissue thresholds (WM) 12s</item>
- <item>Estimate local tissue thresholds (GM) 17s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 30s</item>
- <item>74s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 5s</item>
- <item>Major structures 2s</item>
- <item>Ventricle detection 6s</item>
- <item>Blood vessel detection 6s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.10) 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 0.05): 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 | 0.0854 0.0000 0.0854 | 32.0000</item>
- <item>2 | 2.50 | 0.0827 0.0012 0.0839 | 29.4886</item>
- <item>3 | 2.50 | 0.0819 0.0018 0.0837 | 26.9772</item>
- <item>4 | 2.50 | 0.0815 0.0020 0.0836 | 24.6107</item>
- <item>5 | 2.50 | 0.0812 0.0022 0.0834 | 22.6548</item>
- <item>6 | 2.50 | 0.0809 0.0023 0.0832 | 20.6989</item>
- <item>7 | 2.50 | 0.0806 0.0024 0.0830 | 18.9688</item>
- <item>8 | 2.50 | 0.0803 0.0025 0.0828 | 17.4455</item>
- <item>9 | 2.50 | 0.0800 0.0025 0.0826 | 15.9223</item>
- <item>10 | 2.50 | 0.0797 0.0027 0.0823 | 14.6627</item>
- <item>11 | 2.50 | 0.0794 0.0027 0.0821 | 13.4764</item>
- <item>12 | 2.50 | 0.0791 0.0028 0.0818 | 12.3015</item>
- <item>13 | 2.50 | 0.0787 0.0029 0.0816 | 11.3776</item>
- <item>14 | 2.50 | 0.0784 0.0030 0.0813 | 10.4537</item>
- <item>15 | 2.25 | 0.0786 0.0030 0.0817 | 9.5920</item>
- <item>16 | 2.25 | 0.0757 0.0044 0.0802 | 8.8725</item>
- <item>17 | 2.25 | 0.0745 0.0050 0.0795 | 8.1530</item>
- <item>29 | 2.00 | 0.0767 0.0023 0.0790 | 3.3283</item>
- <item>30 | 2.00 | 0.0709 0.0047 0.0757 | 3.1221</item>
- <item>31 | 2.00 | 0.0690 0.0057 0.0747 | 2.9160</item>
- <item>43 | 1.75 | 0.0682 0.0033 0.0715 | 1.5785</item>
- <item>44 | 1.75 | 0.0637 0.0057 0.0694 | 1.5194</item>
- <item>45 | 1.75 | 0.0621 0.0066 0.0687 | 1.4626</item>
- <item>57 | 1.50 | 0.0609 0.0048 0.0657 | 1.0900</item>
- <item>58 | 1.50 | 0.0575 0.0071 0.0645 | 1.0730</item>
- <item>59 | 1.50 | 0.0563 0.0078 0.0641 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 112s</item>
- <item>Prepare output 7s</item>
- <item>118s</item>
- <item>Jacobian determinant (RMS): 0.011 0.039 0.059 0.084 0.110 | 0.116355</item>
- <item>Template Matching: 0.085 0.224 0.207 0.186 0.169 | 0.168854</item>
- <item>Write result maps: 23s</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: 10s</item>
- <item>PBT2x thickness: 29s</item>
- <item>68s</item>
- <item>Create initial surface 55s</item>
- <item>Topology correction: 65s</item>
- <item>Surface refinement: 54s</item>
- <item>Reduction of surface collisions with optimization: 41s</item>
- <item>Spherical mapping with areal smoothing 57s</item>
- <item>Spherical registration 189s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 22s</item>
- <item>CSF distance: 10s</item>
- <item>PBT2x thickness: 28s</item>
- <item>64s</item>
- <item>Create initial surface 50s</item>
- <item>Topology correction: 66s</item>
- <item>Surface refinement: 51s</item>
- <item>Reduction of surface collisions with optimization: 45s</item>
- <item>Spherical mapping with areal smoothing 56s</item>
- <item>Spherical registration 198s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4818 0.6442 mm</item>
- <item>Surface intensity / position RMSE: 0.0685 / 0.0718</item>
- <item>Euler number / defect number / defect size: 16.0 / 16.0 / 0.62%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2926811/ds/SWU_4/sub-0025663/ses-1/surf/lh.thickness.sub-0025663_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2926811/ds/SWU_4/sub-0025663/ses-1/surf/rh.thickness.sub-0025663_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2926811/ds/SWU_4/sub-0025663/ses-1/sub-0025663_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 6s</item>
- <item>Surface and thickness estimation takes: 1122s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 6s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 23s</item>
- <item>ROI estimation of 'lpba40' atlas 7s</item>
- <item>ROI estimation of 'hammers' atlas 16s</item>
- <item>ROI estimation of 'thalamus' atlas 1s</item>
- <item>ROI estimation of 'ibsr' atlas 6s</item>
- <item>ROI estimation of 'aal3' atlas 8s</item>
- <item>ROI estimation of 'mori' atlas 12s</item>
- <item>ROI estimation of 'anatomy3' atlas 18s</item>
- <item>ROI estimation of 'julichbrain' atlas 25s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 10s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 17s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 41s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 60s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 5s</item>
- <item>Write results 6s</item>
- <item>256s</item>
- <item>Quality check: 8s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_2926811/ds/SWU_4/sub-0025663/ses-1/report/catreport_sub-0025663_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 33 minute(s) and 29 second(s).</item>
- <item>Image Quality Rating (IQR): 80.10% (B-)</item>
- <item>GM volume (GMV): 47.18% (702.62 / 1489.09 ml)</item>
- <item>GM thickness (GMT): 2.48 0.64 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2926811/ds/SWU_4/sub-0025663/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2926811/ds/SWU_4/sub-0025663/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2926811/ds/SWU_4/sub-0025663/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|