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- <fnames>..43/ds/sub-sc033/sub-sc033_T1w</fnames>
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- <parameter>
- <opts>
- <tpm>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/tpm/TPM.nii</item>
- </tpm>
- <ngaus>[1 1 2 3 4 2]</ngaus>
- <affreg>mni</affreg>
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- <extopts>
- <uhrlim>1.4</uhrlim>
- <gcutstr>2</gcutstr>
- <cleanupstr>0.5</cleanupstr>
- <spm_kamap>0</spm_kamap>
- <NCstr>-Inf</NCstr>
- <LASstr>0.5</LASstr>
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- <WMHC>2</WMHC>
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- <SLC>0</SLC>
- <mrf>1</mrf>
- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <bids_folder>../derivatives/CAT12.8.1_1980</bids_folder>
- <bids_yes>0</bids_yes>
- <nproc>32</nproc>
- <species>human</species>
- <APP>1070</APP>
- <setCOM>1</setCOM>
- <vox>1.5</vox>
- <bb>12</bb>
- <shootingsurf>Template_T1</shootingsurf>
- <pth_templates>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym</pth_templates>
- <darteltpm>
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- </darteltpm>
- <shootingtpm>
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- </shootingtpm>
- <shootingT1>
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- </shootingT1>
- <brainmask>
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- </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>
- <SRP>22</SRP>
- <reduce_mesh>1</reduce_mesh>
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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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- <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/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>
- <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/hammers.nii</td>
- <td>0</td>
- <td>
- <item>csf</item>
- <item>gm</item>
- <item>wm</item>
- </td>
- <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>
- </td>
- <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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- <td>[false]</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>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- <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>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- <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>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- <tr>
- <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>
- <item>wm</item>
- </td>
- <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>
- <item>wm</item>
- </td>
- <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_400Parcels_17Networks_order.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/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <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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- <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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- <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>
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- <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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- <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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- <VT>15</VT>
- <NV>17</NV>
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- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
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- <new_release>0</new_release>
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- <shooting>
- <shootingtpm>
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- <regstr>0.5</regstr>
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- <restypes>
- <optimal>[1 0.3]</optimal>
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- <LASmyostr>0</LASmyostr>
- <pbtmethod>pbt2x</pbtmethod>
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- </darteltpms>
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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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- <version_segment>1639</version_segment>
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- <SurfaceEulerNumber>18</SurfaceEulerNumber>
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- <tissue_mnr>[0 0.110842667520046 0.519950091838837 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[4122.21131239233 31742.450436527 41517.7699497336 31218.7741709427]</tissue_std>
- <tissue_stdr>[0.0125196883454919 0.0964059233665466 0.126094833016396 0.0948154479265213]</tissue_stdr>
- <contrast>111066.5234375</contrast>
- <contrastr>0.337323367595673</contrastr>
- <NCR>0.154352650046349</NCR>
- <ICR>0.285582333803177</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000004994798 1.99999999329174 2.00000000045575]</res_vx_vol>
- <res_RMS>2.00000001456516</res_RMS>
- <res_BB>0.5</res_BB>
- <tissue_mn>[1.89584374427795 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>3.02348279953003</contrastr>
- <NCR>2.54683685302734</NCR>
- <ICR>1.16811096668243</ICR>
- <SurfaceEulerNumber>1.81632653061224</SurfaceEulerNumber>
- <SurfaceDefectArea>1.23438720094891</SurfaceDefectArea>
- <SurfaceDefectNumber>1.775</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.38887166976929</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.37345385551453</SurfacePositionRMSE>
- <IQR>2.37522679473888</IQR>
- </qualityratings>
- <ratings_help>
- <qualitymeasures>
- <res_vx_vol>voxel dimensions</res_vx_vol>
- <res_RMS>RMS error of voxel size</res_RMS>
- <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>1980</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>20220711-184532</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>18</SurfaceEulerNumber>
- <SurfaceDefectArea>0.937548803795627</SurfaceDefectArea>
- <SurfaceDefectNumber>15.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0694435834884644</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0686726942658424</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>18</EC_abs>
- <defect_size>0.937548803795627</defect_size>
- <vol_abs_CGW>[205.080247606956 759.890040091132 460.20076689277 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.561972561267738</vol_abs_WMH>
- <vol_rel_WMH>0.000394319376230294</vol_rel_WMH>
- <surf_TSA>1986.02414413974</surf_TSA>
- <vol_TIV>1425.17105459086</vol_TIV>
- <vol_rel_CGW>[0.143898689877498 0.533192164998947 0.322909145123556 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.70300692538398 0.643046314373923]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.70350790023804 0.805484505661758 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[2.0788004671556 0.265835192867191 0.296937648555857;2.72363447170047 0.18575828033727 0.41764903603755;3.40115580514522 0.284910858653628 0.285413315406593]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.947168540528879 0.365942134277359 0.566041293485434;4.37775026920591 0.332929372909493 0.433958706514566]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.01508015703558</vol_TIV>
- <vol_rel_CGW>[0.5 7.42586503230867 3.64923033627075 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03943193762303</vol_rel_WMH>
- <surf_TSA>8.62085025685729</surf_TSA>
- <SQR>6.07519369026438</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.709201783459596 2474 795 3684.99508050879 0.49043546529477]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0 0 0.204794749617577]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[903.340274590163 408.498259883567 319.33955205801 623.116892012137 1707.38917838883 9339.97465846569]</SPMvols0>
- <SPMvols1>[817.654217820684 384.791565249235 177.936470544773 846.338073347806 1358.05699430459 9087.25184119291]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[45371.16015625 193581.53125 335790.875]</T3th>
- <Tth>
- <T3th>[0 0 1096.703125 45371.16015625 193581.53125 335790.875 481000.75 714154.0625]</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>[0.020701976493001 0.0714291408658028 0.0789643079042435 0 0]</dtc>
- <ll>[0.0803044667574061 0 0.0803044667574061 0;0.190335185587907 0.00959899874866939 0.199934184336576 2046.96728515625;0.190335185587907 0.00959899874866939 0.199934184336576 2046.96728515625]</ll>
- <rmsdtc>[0.0438670888543129 0.0962721034884453 0.107347443699837]</rmsdtc>
- <rmsgdt>[0.0310346819460392 0.0460345074534416 0.05645552277565]</rmsgdt>
- <rmsdt>0.107347443699837</rmsdt>
- <dt>0.0789643079042435</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>[0.00992708466947079 0.0357244461774826 0.0498673282563686 0.0586083047091961 0.0655693411827087 0.0738477781414986]</dtc>
- <ll>[0.0812980114444161 0 0.0812980114444161 0;0.215318086080586 0.0121590621184371 0.227477148199023 6223.919921875;0.196140739281824 0.0153564694649561 0.21149720874678 11052.2353515625;0.176250896109701 0.0177036767218754 0.193954572831577 19089.37890625;0.159627695210744 0.0207620152993707 0.180389710510114 36320.09375;0.159627695210744 0.0207620152993707 0.180389710510114 36320.09375]</ll>
- <rmsdtc>[0.0114507023245096 0.0412513464689255 0.0618059895932674 0.0874534249305725 0.111586131155491 0.11849258095026]</rmsdtc>
- <rmsgdt>[0.00322762341238558 0.0129529992118478 0.0287194848060608 0.0491204038262367 0.0677889883518219 0.0734498426318169]</rmsgdt>
- <rmsdt>0.11849258095026</rmsdt>
- <dt>0.0738477781414986</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./execute/dir_23543/ds/sub-sc033/sub-sc033_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 24s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 6s</item>
- <item>Initial correction 6s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 5s</item>
- <item>39s</item>
- <item>Correct center-of-mass 5s</item>
- <item>Affine registration 9s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 88s</item>
- <item>SPM preprocessing 1 (estimate 2): 49s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 17s</item>
- <item>Update Segmentation 18s</item>
- <item>Update Skull-Stripping 40s</item>
- <item>Update probability maps 9s</item>
- <item>83s</item>
- <item>Global intensity correction: 16s</item>
- <item>SANLM denoising after intensity normalization (medium): 8s</item>
- <item>Fast Optimized Shooting registration 32s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.05) 14s</item>
- <item>Estimate local tissue thresholds (WM) 18s</item>
- <item>Estimate local tissue thresholds (GM) 23s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 13s</item>
- <item>77s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 7s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 13s</item>
- <item>Blood vessel detection 9s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.00) 25s</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>68s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 32s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.07,0.68 0.07,0.98 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 | 0.0813 0.0000 0.0813 | 32.0000</item>
- <item>2 | 2.50 | 0.0791 0.0010 0.0802 | 29.4886</item>
- <item>3 | 2.50 | 0.0785 0.0016 0.0800 | 26.9772</item>
- <item>4 | 2.50 | 0.0782 0.0018 0.0799 | 24.6107</item>
- <item>5 | 2.50 | 0.0779 0.0019 0.0798 | 22.6548</item>
- <item>6 | 2.50 | 0.0777 0.0020 0.0796 | 20.6989</item>
- <item>7 | 2.50 | 0.0774 0.0021 0.0795 | 18.9688</item>
- <item>8 | 2.50 | 0.0772 0.0022 0.0793 | 17.4455</item>
- <item>9 | 2.50 | 0.0769 0.0022 0.0791 | 15.9223</item>
- <item>10 | 2.50 | 0.0766 0.0023 0.0790 | 14.6627</item>
- <item>11 | 2.50 | 0.0764 0.0024 0.0788 | 13.4764</item>
- <item>12 | 2.50 | 0.0761 0.0025 0.0786 | 12.3015</item>
- <item>13 | 2.50 | 0.0758 0.0026 0.0784 | 11.3776</item>
- <item>14 | 2.50 | 0.0755 0.0026 0.0781 | 10.4537</item>
- <item>15 | 2.25 | 0.0744 0.0027 0.0771 | 9.5920</item>
- <item>16 | 2.25 | 0.0718 0.0041 0.0758 | 8.8725</item>
- <item>29 | 2.00 | 0.0731 0.0018 0.0749 | 3.3283</item>
- <item>30 | 2.00 | 0.0674 0.0042 0.0716 | 3.1221</item>
- <item>31 | 2.00 | 0.0654 0.0051 0.0705 | 2.9160</item>
- <item>43 | 1.75 | 0.0644 0.0029 0.0673 | 1.5785</item>
- <item>44 | 1.75 | 0.0602 0.0051 0.0653 | 1.5194</item>
- <item>45 | 1.75 | 0.0588 0.0059 0.0647 | 1.4626</item>
- <item>57 | 1.50 | 0.0573 0.0043 0.0616 | 1.0900</item>
- <item>58 | 1.50 | 0.0542 0.0063 0.0605 | 1.0730</item>
- <item>59 | 1.50 | 0.0532 0.0069 0.0601 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 173s</item>
- <item>Prepare output 10s</item>
- <item>183s</item>
- <item>Jacobian determinant (RMS): 0.011 0.041 0.062 0.087 0.112 | 0.118493</item>
- <item>Template Matching: 0.081 0.215 0.196 0.176 0.160 | 0.159628</item>
- <item>Write result maps: 26s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 28s</item>
- <item>CSF distance: 15s</item>
- <item>PBT2x thickness: 45s</item>
- <item>94s</item>
- <item>Create initial surface 84s</item>
- <item>Topology correction: 91s</item>
- <item>Surface refinement: 81s</item>
- <item>Reduction of surface collisions with optimization: 77s</item>
- <item>Spherical mapping with areal smoothing 84s</item>
- <item>Spherical registration 298s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 32s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 45s</item>
- <item>98s</item>
- <item>Create initial surface 86s</item>
- <item>Topology correction: 97s</item>
- <item>Surface refinement: 89s</item>
- <item>Reduction of surface collisions with optimization: 73s</item>
- <item>Spherical mapping with areal smoothing 82s</item>
- <item>Spherical registration 315s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.7030 0.6430 mm</item>
- <item>Surface intensity / position RMSE: 0.0694 / 0.0687</item>
- <item>Euler number / defect number / defect size: 18.0 / 15.5 / 0.94%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_23543/ds/sub-sc033/surf/lh.thickness.sub-sc033_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_23543/ds/sub-sc033/surf/rh.thickness.sub-sc033_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_23543/ds/sub-sc033/sub-sc033_T1w.nii</item>
- <item>Surface ROI estimation: 9s</item>
- <item>Surface and thickness estimation takes: 1748s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 9s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 34s</item>
- <item>ROI estimation of 'lpba40' atlas 9s</item>
- <item>ROI estimation of 'hammers' atlas 23s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 9s</item>
- <item>ROI estimation of 'aal3' atlas 14s</item>
- <item>ROI estimation of 'mori' atlas 20s</item>
- <item>ROI estimation of 'anatomy3' atlas 28s</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 26s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 57s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 88s</item>
- <item>Write results 89s</item>
- <item>372s</item>
- <item>Quality check: 5s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_23543/ds/sub-sc033/report/catreport_sub-sc033_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 49 minute(s) and 23 second(s).</item>
- <item>Image Quality Rating (IQR): 81.25% (B-)</item>
- <item>GM volume (GMV): 53.32% (759.89 / 1425.17 ml)</item>
- <item>GM thickness (GMT): 2.70 0.64 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_23543/ds/sub-sc033/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_23543/ds/sub-sc033/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_23543/ds/sub-sc033/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
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