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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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- <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>
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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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- <thick_measure>1</thick_measure>
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- <scale_cortex>0.7</scale_cortex>
- <add_parahipp>0.1</add_parahipp>
- <colormap>BCGWHw</colormap>
- <report/>
- <verb>2</verb>
- <ignoreErrors>1</ignoreErrors>
- <expertgui>1</expertgui>
- <subfolders>1</subfolders>
- <experimental>0</experimental>
- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
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- <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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- <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>
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- <item>csf</item>
- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.nii</td>
- <td>1</td>
- <td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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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>
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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_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_2737911/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>
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- <tr>
- <td>HCP</td>
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- <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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- <CB>3</CB>
- <BG>5</BG>
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- <ON>11</ON>
- <MB>13</MB>
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- <VT>15</VT>
- <NV>17</NV>
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- <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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- <qualitymeasures>
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- <SurfaceEulerNumber>14</SurfaceEulerNumber>
- <SurfaceDefectArea>0.36556422374572</SurfaceDefectArea>
- <SurfaceDefectNumber>10.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0604959167540073</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0612400099635124</SurfacePositionRMSE>
- <res_vx_vol>[1.00000000967709 0.999999988986687 1.00000000915568]</res_vx_vol>
- <res_vx_voli>[1.00000001008653 0.999999989402804 1.0000000093159]</res_vx_voli>
- <res_RMS>1.00000000260649</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[7.97599983215332 130.531005859375 323.429992675781 438.653991699219]</tissue_mn>
- <tissue_mnr>[0.0181828960776329 0.297571688890457 0.737323701381683 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[9.6333350704359 61.6732587125486 39.9738947896852 22.5624805580025]</tissue_std>
- <tissue_stdr>[0.022367836907506 0.143200397491455 0.0928162038326263 0.052388284355402]</tissue_stdr>
- <contrast>117.35791015625</contrast>
- <contrastr>0.267540961503983</contrastr>
- <res_ECR>0.235512495040894</res_ECR>
- <NCR>0.156550318002701</NCR>
- <ICR>0.479301542043686</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000001935418 1.99999997797337 2.00000001831135]</res_vx_vol>
- <res_RMS>2.00000000521297</res_RMS>
- <res_ECR>2.09955358505249</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>4.07021903991699</contrastr>
- <NCR>2.57838535308838</NCR>
- <ICR>1.6485652923584</ICR>
- <SurfaceEulerNumber>1.61224489795918</SurfaceEulerNumber>
- <SurfaceDefectArea>1.09139105593643</SurfaceDefectArea>
- <SurfaceDefectNumber>1.525</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.20991837978363</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.22480022907257</SurfacePositionRMSE>
- <SIQR>2.32786767670953</SIQR>
- <IQR>2.4010687540823</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>20231031-044059</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>14</SurfaceEulerNumber>
- <SurfaceDefectArea>0.36556422374572</SurfaceDefectArea>
- <SurfaceDefectNumber>10.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0604959167540073</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0612400099635124</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>14</EC_abs>
- <defect_size>0.36556422374572</defect_size>
- <vol_abs_CGW>[263.83719840158 638.238205619836 521.523298709782 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.70363530031332</vol_abs_WMH>
- <vol_rel_WMH>0.000494265201958518</vol_rel_WMH>
- <surf_TSA>1893.40125891462</surf_TSA>
- <vol_TIV>1423.5987027312</vol_TIV>
- <vol_rel_CGW>[0.185331159613593 0.448327330163596 0.366341510222811 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.46150669828488 0.613463853151253]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.46321845054626 0.730776055665705 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.83424358691398 0.250644070830483 0.277646776707566;2.47766293672043 0.175686478114835 0.4615323128572;3.12769914193505 0.265527775386609 0.260820910435234]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.865469393546727 0.27310142199106 0.514577402571905;4.09767591839975 0.367061695566254 0.485422597428095]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.01325657459784</vol_TIV>
- <vol_rel_CGW>[1.17836134363493 5.9017121078232 4.42926562900163 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.04942652019585</vol_rel_WMH>
- <surf_TSA>8.6123169459799</surf_TSA>
- <SQR>4.88442258541899</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.3360901922 0.378006175132115]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00166582118254155 0.00120353000238538 0.317657887935638]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[783.070453953942 467.88470215905 481.241784629603 1933.81813467478 1267.35112096324 7379.6527983129]</SPMvols0>
- <SPMvols1>[652.808715552055 433.872462643878 296.990794771936 460.067647188258 1073.11564866472 8617.59275038972]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[169.586502075195 330.936309814453 432.421691894531]</T3th>
- <Tth>
- <T3th>[-7.36265993118286 -4.87173461914062 4.67827463150024 169.586502075195 330.936309814453 432.421691894531 563.839294433594 1428.51330566406]</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>[0.0209329277276993 0.0765474215149879 0.0843613147735596 0 0]</dtc>
- <ll>[0.0850538701808849 0 0.0850538701808849 0;0.201523633134895 0.0107078414862039 0.212231474621098 2283.42578125;0.201523633134895 0.0107078414862039 0.212231474621098 2283.42578125]</ll>
- <rmsdtc>[0.0446165837347507 0.0991024598479271 0.11036378890276]</rmsdtc>
- <rmsgdt>[0.0318419337272644 0.0471501760184765 0.0584493614733219]</rmsgdt>
- <rmsdt>0.11036378890276</rmsdt>
- <dt>0.0843613147735596</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>[0.00926630571484566 0.0334559343755245 0.0470378622412682 0.0546797178685665 0.060693982988596 0.0675278827548027]</dtc>
- <ll>[0.0837342257813589 0 0.0837342257813589 0;0.222911385836386 0.0123346268315018 0.235246012667888 6313.787109375;0.201743892001245 0.0162236959671021 0.217967587968347 11676.388671875;0.180318066197583 0.0187979912825799 0.199116057480163 20269.34765625;0.163069985731868 0.021602803829473 0.184672789561341 37790.9296875;0.163069985731868 0.021602803829473 0.184672789561341 37790.9296875]</ll>
- <rmsdtc>[0.0106870178133249 0.0380479134619236 0.0561408847570419 0.079159714281559 0.101203612983227 0.108216129243374]</rmsdtc>
- <rmsgdt>[0.0031878084409982 0.012288236990571 0.0268310569226742 0.0466427616775036 0.0636440068483353 0.0688491240143776]</rmsgdt>
- <rmsdt>0.108216129243374</rmsdt>
- <dt>0.0675278827548027</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0026002/ses-1/sub-0026002_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 50s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 6s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 4s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 5s</item>
- <item>40s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 10s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 68s</item>
- <item>SPM preprocessing 1 (estimate 2): 62s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 17s</item>
- <item>Update Segmentation 20s</item>
- <item>Update Skull-Stripping 42s</item>
- <item>Update probability maps 9s</item>
- <item>87s</item>
- <item>Global intensity correction: 17s</item>
- <item>SANLM denoising after intensity normalization (medium): 24s</item>
- <item>Fast Optimized Shooting registration 37s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.12) 13s</item>
- <item>Estimate local tissue thresholds (WM) 18s</item>
- <item>Estimate local tissue thresholds (GM) 25s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 41s</item>
- <item>107s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 9s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 12s</item>
- <item>Blood vessel detection 9s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.11) 22s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 5s</item>
- <item>64s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</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) 4s</item>
- <item>Level 1 cleanup (brain masking) 3s</item>
- <item>Level 2 cleanup (CSF correction) 2s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 2s</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 | 0.0837 0.0000 0.0837 | 32.0000</item>
- <item>2 | 2.50 | 0.0816 0.0011 0.0826 | 29.4886</item>
- <item>3 | 2.50 | 0.0809 0.0016 0.0825 | 26.9772</item>
- <item>4 | 2.50 | 0.0806 0.0018 0.0824 | 24.6107</item>
- <item>5 | 2.50 | 0.0803 0.0020 0.0823 | 22.6548</item>
- <item>6 | 2.50 | 0.0801 0.0020 0.0821 | 20.6989</item>
- <item>7 | 2.50 | 0.0798 0.0021 0.0820 | 18.9688</item>
- <item>8 | 2.50 | 0.0796 0.0022 0.0818 | 17.4455</item>
- <item>9 | 2.50 | 0.0793 0.0023 0.0816 | 15.9223</item>
- <item>10 | 2.50 | 0.0790 0.0024 0.0814 | 14.6627</item>
- <item>11 | 2.50 | 0.0788 0.0025 0.0812 | 13.4764</item>
- <item>12 | 2.50 | 0.0785 0.0025 0.0810 | 12.3015</item>
- <item>13 | 2.50 | 0.0782 0.0026 0.0808 | 11.3776</item>
- <item>14 | 2.50 | 0.0779 0.0027 0.0806 | 10.4537</item>
- <item>15 | 2.25 | 0.0770 0.0028 0.0798 | 9.5920</item>
- <item>16 | 2.25 | 0.0743 0.0041 0.0784 | 8.8725</item>
- <item>29 | 2.00 | 0.0758 0.0018 0.0777 | 3.3283</item>
- <item>30 | 2.00 | 0.0694 0.0044 0.0738 | 3.1221</item>
- <item>31 | 2.00 | 0.0672 0.0054 0.0727 | 2.9160</item>
- <item>43 | 1.75 | 0.0660 0.0031 0.0691 | 1.5785</item>
- <item>44 | 1.75 | 0.0616 0.0055 0.0670 | 1.5194</item>
- <item>45 | 1.75 | 0.0601 0.0063 0.0664 | 1.4626</item>
- <item>57 | 1.50 | 0.0585 0.0045 0.0630 | 1.0900</item>
- <item>58 | 1.50 | 0.0554 0.0066 0.0619 | 1.0730</item>
- <item>59 | 1.50 | 0.0544 0.0072 0.0616 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 189s</item>
- <item>Prepare output 10s</item>
- <item>199s</item>
- <item>Jacobian determinant (RMS): 0.011 0.038 0.056 0.079 0.101 | 0.108216</item>
- <item>Template Matching: 0.084 0.223 0.202 0.180 0.163 | 0.163070</item>
- <item>Write result maps: 43s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 57s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 47s</item>
- <item>125s</item>
- <item>Create initial surface 75s</item>
- <item>Topology correction: 86s</item>
- <item>Surface refinement: 68s</item>
- <item>Reduction of surface collisions with optimization: 52s</item>
- <item>Spherical mapping with areal smoothing 75s</item>
- <item>Spherical registration 233s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 34s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 47s</item>
- <item>104s</item>
- <item>Create initial surface 76s</item>
- <item>Topology correction: 86s</item>
- <item>Surface refinement: 76s</item>
- <item>Reduction of surface collisions with optimization: 55s</item>
- <item>Spherical mapping with areal smoothing 77s</item>
- <item>Spherical registration 241s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4614 0.6134 mm</item>
- <item>Surface intensity / position RMSE: 0.0605 / 0.0612</item>
- <item>Euler number / defect number / defect size: 14.0 / 10.5 / 0.37%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-1/surf/lh.thickness.sub-0026002_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-1/surf/rh.thickness.sub-0026002_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-1/sub-0026002_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 8s</item>
- <item>Surface and thickness estimation takes: 1524s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 14s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 51s</item>
- <item>ROI estimation of 'lpba40' atlas 15s</item>
- <item>ROI estimation of 'hammers' atlas 36s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 13s</item>
- <item>ROI estimation of 'aal3' atlas 21s</item>
- <item>ROI estimation of 'mori' atlas 31s</item>
- <item>ROI estimation of 'anatomy3' atlas 45s</item>
- <item>ROI estimation of 'julichbrain' atlas 60s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 22s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 29s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 96s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 143s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 10s</item>
- <item>Write results 11s</item>
- <item>588s</item>
- <item>Quality check: 12s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-1/report/catreport_sub-0026002_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 51 minute(s) and 39 second(s).</item>
- <item>Image Quality Rating (IQR): 80.99% (B-)</item>
- <item>GM volume (GMV): 44.83% (638.24 / 1423.60 ml)</item>
- <item>GM thickness (GMT): 2.46 0.61 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|