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- <ngaus>[1 1 2 3 4 2]</ngaus>
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- <uhrlim>1.4</uhrlim>
- <gcutstr>2</gcutstr>
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- <restype>optimal</restype>
- <resval>[1 0.3]</resval>
- <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>
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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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- <verb>2</verb>
- <ignoreErrors>1</ignoreErrors>
- <expertgui>1</expertgui>
- <subfolders>1</subfolders>
- <experimental>0</experimental>
- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.nii</td>
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- <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>
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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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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</td>
- <td>0</td>
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- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/ibsr.nii</td>
- <td>0</td>
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- <item>csf</item>
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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>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_3435141/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>
- <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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- <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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- <CT>1</CT>
- <CB>3</CB>
- <BG>5</BG>
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- <TH>9</TH>
- <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>
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- </darteltpms>
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- </shootingtpms>
- <templates>
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- </templates>
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- <SurfaceEulerNumber>36</SurfaceEulerNumber>
- <SurfaceDefectArea>1.60111464183762</SurfaceDefectArea>
- <SurfaceDefectNumber>14</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0701850801706314</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0881304442882538</SurfacePositionRMSE>
- <res_vx_vol>[1 1 1]</res_vx_vol>
- <res_vx_voli>[1 1 1]</res_vx_voli>
- <res_RMS>1</res_RMS>
- <res_BB>204.286865234375</res_BB>
- <tissue_mn>[0 108.916000366211 250.039001464844 355.346984863281]</tissue_mn>
- <tissue_mnr>[0 0.306506037712097 0.703647434711456 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[9.60729170156749 41.311380348805 32.7469329264369 20.4228447407209]</tissue_std>
- <tissue_stdr>[0.0270363669842482 0.116256453096867 0.0921548083424568 0.0574729666113853]</tissue_stdr>
- <contrast>105.307983398438</contrast>
- <contrastr>0.296352535486221</contrastr>
- <res_ECR>0.292933225631714</res_ECR>
- <NCR>0.155448123812675</NCR>
- <ICR>0.359804719686508</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2 2 2]</res_vx_vol>
- <res_RMS>2</res_RMS>
- <res_ECR>2.39251637458801</res_ECR>
- <res_BB>10.5</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>3.63804531097412</contrastr>
- <NCR>2.5625627040863</NCR>
- <ICR>1.35219430923462</ICR>
- <SurfaceEulerNumber>2.73469387755102</SurfaceEulerNumber>
- <SurfaceDefectArea>1.4002786604594</SurfaceDefectArea>
- <SurfaceDefectNumber>1.7</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.40370154380798</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.76260888576508</SurfacePositionRMSE>
- <SIQR>2.38956151428729</SIQR>
- <IQR>2.38807443898012</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>20231031-015500</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>36</SurfaceEulerNumber>
- <SurfaceDefectArea>1.60111464183762</SurfaceDefectArea>
- <SurfaceDefectNumber>14</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0701850801706314</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0881304442882538</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>36</EC_abs>
- <defect_size>1.60111464183762</defect_size>
- <vol_abs_CGW>[288.558843137255 784.112807843137 603.696705882353 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.537545098039216</vol_abs_WMH>
- <vol_rel_WMH>0.000320660489586674</vol_rel_WMH>
- <surf_TSA>2222.7395857005</surf_TSA>
- <vol_TIV>1676.36835686275</vol_TIV>
- <vol_rel_CGW>[0.172133315423157 0.46774493483674 0.360121749740103 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.56832714803033 0.666691757049883]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.60153698921204 0.820397457687691 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.88127162628239 0.284033946870965 0.273333370341792;2.59464997550956 0.19477258116903 0.421968590921455;3.27746535640699 0.287036429595489 0.304698038736753]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.794423610985775 0.29536984916962 0.621329340321105;4.21261512510387 0.322319266683809 0.378670659678895]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>2.61886265681013</vol_TIV>
- <vol_rel_CGW>[0.941331095961878 6.2504478239357 4.31756016056219 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03206604895867</vol_rel_WMH>
- <surf_TSA>8.62393612825593</surf_TSA>
- <SQR>5.14379105629614</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.336 0.3727289553641]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00165779003873467 0.00134805729612708 0.353421628475189]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[956.043133333333 536.953823529412 570.645854901961 1910.20050980392 1242.70330588235 7392.60590980392]</SPMvols0>
- <SPMvols1>[794.330074509804 497.946721568627 337.709909803922 754.682231372549 1048.19184705882 8103.25658431373]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[132.779403686523 262.859313964844 344.864013671875]</T3th>
- <Tth>
- <T3th>[-5.71474981307983 -0.651824951171875 2.68452286720276 132.779403686523 262.859313964844 344.864013671875 450.906311035156 954.129150390625]</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>[0.0201772730797529 0.073627881705761 0.0815395712852478 0 0]</dtc>
- <ll>[0.0874268164296969 0 0.0874268164296969 0;0.206476584774535 0.0116308013073393 0.218107386081874 2480.2451171875;0.206476584774535 0.0116308013073393 0.218107386081874 2480.2451171875]</ll>
- <rmsdtc>[0.047423217445612 0.0987782180309296 0.110898643732071]</rmsdtc>
- <rmsgdt>[0.0344314649701118 0.0484537109732628 0.0599831715226173]</rmsgdt>
- <rmsdt>0.110898643732071</rmsdt>
- <dt>0.0815395712852478</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>[0.00831342674791813 0.0350697301328182 0.0450686551630497 0.0541058219969273 0.0608553737401962 0.0678819045424461]</dtc>
- <ll>[0.0867769008411709 0 0.0867769008411709 0;0.223667643467643 0.0166112904456654 0.240278933913309 8502.904296875;0.208822222465375 0.0189116445189187 0.227733866984294 13610.9375;0.186373921654276 0.021585471722928 0.207959393377204 23275.009765625;0.16786892068096 0.0250483455526129 0.192917266233573 43818.3984375;0.16786892068096 0.0250483455526129 0.192917266233573 43818.3984375]</ll>
- <rmsdtc>[0.00992405880242586 0.0364003330469131 0.0585384629666805 0.0826016962528229 0.106496937572956 0.113050043582916]</rmsdtc>
- <rmsgdt>[0.00335175707004964 0.0129800094291568 0.029304314404726 0.0500547662377357 0.0691832676529884 0.0742664411664009]</rmsgdt>
- <rmsdt>0.113050043582916</rmsdt>
- <dt>0.0678819045424461</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025767/ses-1/sub-0025767_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 36s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 5s</item>
- <item>Estimate background 4s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 2s</item>
- <item>Final correction 4s</item>
- <item>Final scaling 4s</item>
- <item>29s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 7s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 55s</item>
- <item>SPM preprocessing 1 (estimate 2): 47s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 13s</item>
- <item>Update Segmentation 16s</item>
- <item>Update Skull-Stripping 32s</item>
- <item>Update probability maps 7s</item>
- <item>67s</item>
- <item>Global intensity correction: 12s</item>
- <item>SANLM denoising after intensity normalization (medium): 22s</item>
- <item>Fast Optimized Shooting registration 25s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 3s</item>
- <item>Prepare partitions 2s</item>
- <item>Prepare segments (LASmod = 1.03) 11s</item>
- <item>Estimate local tissue thresholds (WM) 14s</item>
- <item>Estimate local tissue thresholds (GM) 21s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 36s</item>
- <item>90s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 10s</item>
- <item>Blood vessel detection 8s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.09) 18s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 4s</item>
- <item>52s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.06): 28s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.08,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 3s</item>
- <item>Level 1 cleanup (brain masking) 2s</item>
- <item>Level 2 cleanup (CSF correction) 1s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 2s</item>
- <item>9s</item>
- <item>Optimized Shooting registration with 2.50:-0.25:1.50 mm (regstr=0.50):</item>
- <item>Template: "/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii"</item>
- <item>1 | 2.50 | 0.0868 0.0000 0.0868 | 32.0000</item>
- <item>2 | 2.50 | 0.0841 0.0012 0.0853 | 29.4886</item>
- <item>3 | 2.50 | 0.0833 0.0018 0.0852 | 26.9772</item>
- <item>4 | 2.50 | 0.0829 0.0020 0.0850 | 24.6107</item>
- <item>5 | 2.50 | 0.0826 0.0022 0.0848 | 22.6548</item>
- <item>6 | 2.50 | 0.0824 0.0023 0.0846 | 20.6989</item>
- <item>7 | 2.50 | 0.0821 0.0024 0.0844 | 18.9688</item>
- <item>8 | 2.50 | 0.0818 0.0025 0.0842 | 17.4455</item>
- <item>9 | 2.50 | 0.0815 0.0025 0.0840 | 15.9223</item>
- <item>10 | 2.50 | 0.0811 0.0026 0.0838 | 14.6627</item>
- <item>11 | 2.50 | 0.0808 0.0027 0.0836 | 13.4764</item>
- <item>12 | 2.50 | 0.0805 0.0028 0.0833 | 12.3015</item>
- <item>13 | 2.50 | 0.0802 0.0029 0.0831 | 11.3776</item>
- <item>14 | 2.50 | 0.0799 0.0029 0.0828 | 10.4537</item>
- <item>15 | 2.25 | 0.0805 0.0030 0.0835 | 9.5920</item>
- <item>16 | 2.25 | 0.0773 0.0046 0.0819 | 8.8725</item>
- <item>17 | 2.25 | 0.0760 0.0052 0.0812 | 8.1530</item>
- <item>18 | 2.25 | 0.0752 0.0054 0.0806 | 7.5234</item>
- <item>19 | 2.25 | 0.0746 0.0055 0.0801 | 6.9630</item>
- <item>29 | 2.00 | 0.0772 0.0028 0.0800 | 3.3283</item>
- <item>30 | 2.00 | 0.0716 0.0053 0.0769 | 3.1221</item>
- <item>31 | 2.00 | 0.0696 0.0063 0.0759 | 2.9160</item>
- <item>43 | 1.75 | 0.0689 0.0036 0.0724 | 1.5785</item>
- <item>44 | 1.75 | 0.0638 0.0063 0.0701 | 1.5194</item>
- <item>45 | 1.75 | 0.0621 0.0072 0.0693 | 1.4626</item>
- <item>57 | 1.50 | 0.0608 0.0052 0.0660 | 1.0900</item>
- <item>58 | 1.50 | 0.0572 0.0076 0.0648 | 1.0730</item>
- <item>59 | 1.50 | 0.0560 0.0083 0.0643 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 140s</item>
- <item>Prepare output 8s</item>
- <item>148s</item>
- <item>Jacobian determinant (RMS): 0.010 0.036 0.059 0.083 0.106 | 0.113050</item>
- <item>Template Matching: 0.087 0.224 0.209 0.186 0.168 | 0.167869</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: 27s</item>
- <item>CSF distance: 13s</item>
- <item>PBT2x thickness: 37s</item>
- <item>83s</item>
- <item>Create initial surface 66s</item>
- <item>Topology correction: 84s</item>
- <item>Surface refinement: 89s</item>
- <item>Reduction of surface collisions with optimization: 68s</item>
- <item>Spherical mapping with areal smoothing 114s</item>
- <item>Spherical registration 226s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 25s</item>
- <item>CSF distance: 13s</item>
- <item>PBT2x thickness: 37s</item>
- <item>80s</item>
- <item>Create initial surface 63s</item>
- <item>Topology correction: 81s</item>
- <item>Surface refinement: 75s</item>
- <item>Reduction of surface collisions with optimization: 63s</item>
- <item>Spherical mapping with areal smoothing 76s</item>
- <item>Spherical registration 230s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.5685 0.6655 mm</item>
- <item>Surface intensity / position RMSE: 0.0702 / 0.0881</item>
- <item>Euler number / defect number / defect size: 36.0 / 14.0 / 1.60%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3435141/ds/SWU_4/sub-0025767/ses-1/surf/lh.thickness.sub-0025767_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_3435141/ds/SWU_4/sub-0025767/ses-1/surf/rh.thickness.sub-0025767_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_3435141/ds/SWU_4/sub-0025767/ses-1/sub-0025767_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 8s</item>
- <item>Surface and thickness estimation takes: 1480s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 9s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 39s</item>
- <item>ROI estimation of 'lpba40' atlas 12s</item>
- <item>ROI estimation of 'hammers' atlas 27s</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 22s</item>
- <item>ROI estimation of 'anatomy3' atlas 32s</item>
- <item>ROI estimation of 'julichbrain' atlas 49s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 21s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 44s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 97s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 176s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 17s</item>
- <item>Write results 18s</item>
- <item>570s</item>
- <item>Quality check: 12s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_3435141/ds/SWU_4/sub-0025767/ses-1/report/catreport_sub-0025767_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 49 minute(s) and 5 second(s).</item>
- <item>Image Quality Rating (IQR): 81.12% (B-)</item>
- <item>GM volume (GMV): 46.77% (784.11 / 1676.37 ml)</item>
- <item>GM thickness (GMT): 2.57 0.67 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_3435141/ds/SWU_4/sub-0025767/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_3435141/ds/SWU_4/sub-0025767/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_3435141/ds/SWU_4/sub-0025767/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|