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- <tpm>
- <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>
- <gcutstr>2</gcutstr>
- <cleanupstr>0.5</cleanupstr>
- <spm_kamap>0</spm_kamap>
- <NCstr>-Inf</NCstr>
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- <regstr>0.5</regstr>
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- <SLC>0</SLC>
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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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- <nproc>1</nproc>
- <species>human</species>
- <APP>1070</APP>
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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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- <reduce_mesh>1</reduce_mesh>
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- <thick_limit>5</thick_limit>
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- <scale_cortex>0.7</scale_cortex>
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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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- <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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- <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>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/aal3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/anatomy3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>[false]</td>
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- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/julichbrain.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_100Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_200Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>[false]</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_400Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_600Parcels_17Networks_order.nii</td>
- <td>1</td>
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- <item>gm</item>
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- <td>/var/lib/condor/execute/dir_543394/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>Desikan</td>
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- <td>0</td>
- <td>1</td>
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- <td>Destrieux</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_DK40.freesurfer.annot</td>
- <td>0</td>
- <td>1</td>
- </tr>
- <tr>
- <td>HCP</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.aparc_HCP_MMP1.freesurfer.annot</td>
- <td>0</td>
- <td>0</td>
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- <td>Schaefer2018_100P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_100Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_200P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_200Parcels_17Networks_order.annot</td>
- <td>0</td>
- <td>0</td>
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- <tr>
- <td>Schaefer2018_400P_17N</td>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/atlases_surfaces/lh.Schaefer2018_400Parcels_17Networks_order.annot</td>
- <td>1</td>
- <td>0</td>
- </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>
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- <MB>13</MB>
- <BS>13</BS>
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- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
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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_1_GS.nii</item>
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- </templates>
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- <AMAPframing>1</AMAPframing>
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- <qualitymeasures>
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- <SurfaceEulerNumber>10</SurfaceEulerNumber>
- <SurfaceDefectArea>0.382841517997175</SurfaceDefectArea>
- <SurfaceDefectNumber>7.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0680626928806305</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0670368447899818</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>188.684326171875</res_BB>
- <tissue_mn>[19.7959995269775 95.609001159668 237.574005126953 385.109985351562]</tissue_mn>
- <tissue_mnr>[0.051403496414423 0.248264148831367 0.616899132728577 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[11.5989332974307 38.6962884223052 42.0715448515341 27.9013865568499]</tissue_std>
- <tissue_stdr>[0.0317505858838558 0.105926103889942 0.115165434777737 0.0763764530420303]</tissue_stdr>
- <contrast>135.774826049805</contrast>
- <contrastr>0.352561175823212</contrastr>
- <res_ECR>0.398837089538574</res_ECR>
- <NCR>0.171037718653679</NCR>
- <ICR>0.311272263526917</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2 2 2]</res_vx_vol>
- <res_RMS>2</res_RMS>
- <res_ECR>2.93284225463867</res_ECR>
- <res_BB>10.5</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>2.79491567611694</contrastr>
- <NCR>2.78635835647583</NCR>
- <ICR>1.23182606697083</ICR>
- <SurfaceEulerNumber>1.40816326530612</SurfaceEulerNumber>
- <SurfaceDefectArea>1.09571037949929</SurfaceDefectArea>
- <SurfaceDefectNumber>1.375</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.36125385761261</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.34073686599731</SurfacePositionRMSE>
- <SIQR>2.73393728626653</SIQR>
- <IQR>2.57694138121381</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>20231030-235715</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>10</SurfaceEulerNumber>
- <SurfaceDefectArea>0.382841517997175</SurfaceDefectArea>
- <SurfaceDefectNumber>7.5</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.0680626928806305</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0670368447899818</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>10</EC_abs>
- <defect_size>0.382841517997175</defect_size>
- <vol_abs_CGW>[262.22188627451 738.632588235294 527.815203921569 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.581254901960784</vol_abs_WMH>
- <vol_rel_WMH>0.000380235776349821</vol_rel_WMH>
- <surf_TSA>1967.2669534716</surf_TSA>
- <vol_TIV>1528.66967843137</vol_TIV>
- <vol_rel_CGW>[0.171536002822785 0.483186523980271 0.345277473196944 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.63205885307755 0.641859212894531]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.6294002532959 0.789879147725989 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.99137818620993 0.267820331830532 0.290444516250968;2.64549085015115 0.186471409214561 0.427048975436072;3.32474283655704 0.290631198584918 0.28250650831296]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.920980046154507 0.333033671242761 0.531192151055165;4.3117823949571 0.331295149598905 0.468807848944835]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.38441400218392</vol_TIV>
- <vol_rel_CGW>[0.930603498972433 6.52777521516292 4.05096036632442 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.03802357763498</vol_rel_WMH>
- <surf_TSA>8.61985244711511</surf_TSA>
- <SQR>5.35272702043836</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 9830.4 0.326661748261391]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.0588915571570396 0.00490424688905478 0.414756715297699]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[890.32128627451 471.38462745098 490.72151372549 1415.4288627451 1982.58863137255 5210.60829803922]</SPMvols0>
- <SPMvols1>[772.749031372549 445.224525490196 266.352984313725 915.153298039216 1849.38736862745 5582.04230588235]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[111.571403503418 256.336212158203 377.64990234375]</T3th>
- <Tth>
- <T3th>[-5.66294002532959 -5.66293573379517 19.8795757293701 111.571403503418 256.336212158203 377.64990234375 510.689147949219 997.224792480469]</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>[0.020629771053791 0.0724677294492722 0.0799815356731415 0 0]</dtc>
- <ll>[0.0821697575514581 0 0.0821697575514581 0;0.197471316407422 0.00984475020171643 0.207316066609139 2099.37329101562;0.197471316407422 0.00984475020171643 0.207316066609139 2099.37329101562]</ll>
- <rmsdtc>[0.0429654866456985 0.0961904078722 0.10741800814867]</rmsdtc>
- <rmsgdt>[0.030296316370368 0.0438484624028206 0.0549379922449589]</rmsgdt>
- <rmsdt>0.10741800814867</rmsdt>
- <dt>0.0799815356731415</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>[0.00949439965188503 0.0343044213950634 0.0481631495058537 0.0565210245549679 0.0629314854741096 0.0709545239806175]</dtc>
- <ll>[0.0827465118550857 0 0.0827465118550857 0;0.222239789377289 0.0119803228021978 0.234220112179487 6132.427734375;0.202362303428316 0.0156895304779898 0.218051833906306 11291.943359375;0.182046410251773 0.0183799178512008 0.200426328102974 19818.55078125;0.164976404847964 0.0216100207833982 0.186586425631362 37803.5546875;0.164976404847964 0.0216100207833982 0.186586425631362 37803.5546875]</ll>
- <rmsdtc>[0.0110489595681429 0.0399567857384682 0.0592848137021065 0.0852895602583885 0.110695630311966 0.118711329996586]</rmsdtc>
- <rmsgdt>[0.00299055641517043 0.0119795827195048 0.0275451093912125 0.0499268807470798 0.0706462189555168 0.0772133767604828]</rmsgdt>
- <rmsdt>0.118711329996586</rmsdt>
- <dt>0.0709545239806175</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0025393/ses-1/sub-0025393_ses-1_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 57s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 4s</item>
- <item>Estimate background 5s</item>
- <item>Initial correction 5s</item>
- <item>Refine background 2s</item>
- <item>Final correction 4s</item>
- <item>Final scaling 5s</item>
- <item>28s</item>
- <item>Correct center-of-mass 6s</item>
- <item>Affine registration 7s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 55s</item>
- <item>SPM preprocessing 1 (estimate 2): 38s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 12s</item>
- <item>Update Segmentation 15s</item>
- <item>Update Skull-Stripping 31s</item>
- <item>Update probability maps 7s</item>
- <item>64s</item>
- <item>Global intensity correction: 11s</item>
- <item>SANLM denoising after intensity normalization (medium): 24s</item>
- <item>Fast Optimized Shooting registration 24s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 3s</item>
- <item>Prepare partitions 1s</item>
- <item>Prepare segments (LASmod = 1.12) 11s</item>
- <item>Estimate local tissue thresholds (WM) 12s</item>
- <item>Estimate local tissue thresholds (GM) 18s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 27s</item>
- <item>76s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 6s</item>
- <item>Major structures 3s</item>
- <item>Ventricle detection 8s</item>
- <item>Blood vessel detection 7s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.03) 17s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 1s</item>
- <item>Side alignment 3s</item>
- <item>Final corrections 3s</item>
- <item>49s</item>
- <item>Blood vessel correction (BVCstr=0.50): 1s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 27s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.05,0.68 0.08,0.99 0.04]</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 | 0.0827 0.0000 0.0827 | 32.0000</item>
- <item>2 | 2.50 | 0.0807 0.0010 0.0817 | 29.4886</item>
- <item>3 | 2.50 | 0.0801 0.0015 0.0816 | 26.9772</item>
- <item>4 | 2.50 | 0.0798 0.0017 0.0815 | 24.6107</item>
- <item>5 | 2.50 | 0.0795 0.0018 0.0814 | 22.6548</item>
- <item>6 | 2.50 | 0.0793 0.0019 0.0812 | 20.6989</item>
- <item>7 | 2.50 | 0.0791 0.0020 0.0811 | 18.9688</item>
- <item>8 | 2.50 | 0.0788 0.0021 0.0809 | 17.4455</item>
- <item>9 | 2.50 | 0.0786 0.0022 0.0808 | 15.9223</item>
- <item>10 | 2.50 | 0.0783 0.0023 0.0806 | 14.6627</item>
- <item>11 | 2.50 | 0.0781 0.0024 0.0804 | 13.4764</item>
- <item>12 | 2.50 | 0.0778 0.0024 0.0802 | 12.3015</item>
- <item>13 | 2.50 | 0.0775 0.0026 0.0800 | 11.3776</item>
- <item>14 | 2.50 | 0.0772 0.0026 0.0798 | 10.4537</item>
- <item>15 | 2.25 | 0.0767 0.0027 0.0794 | 9.5920</item>
- <item>16 | 2.25 | 0.0741 0.0040 0.0781 | 8.8725</item>
- <item>29 | 2.00 | 0.0756 0.0018 0.0774 | 3.3283</item>
- <item>30 | 2.00 | 0.0696 0.0042 0.0738 | 3.1221</item>
- <item>31 | 2.00 | 0.0675 0.0052 0.0727 | 2.9160</item>
- <item>43 | 1.75 | 0.0665 0.0030 0.0695 | 1.5785</item>
- <item>44 | 1.75 | 0.0621 0.0053 0.0674 | 1.5194</item>
- <item>45 | 1.75 | 0.0607 0.0061 0.0668 | 1.4626</item>
- <item>57 | 1.50 | 0.0593 0.0044 0.0637 | 1.0900</item>
- <item>58 | 1.50 | 0.0561 0.0065 0.0626 | 1.0730</item>
- <item>59 | 1.50 | 0.0550 0.0072 0.0622 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 127s</item>
- <item>Prepare output 7s</item>
- <item>135s</item>
- <item>Jacobian determinant (RMS): 0.011 0.040 0.059 0.085 0.111 | 0.118711</item>
- <item>Template Matching: 0.083 0.222 0.202 0.182 0.165 | 0.164976</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: 36s</item>
- <item>CSF distance: 12s</item>
- <item>PBT2x thickness: 34s</item>
- <item>87s</item>
- <item>Create initial surface 61s</item>
- <item>Topology correction: 71s</item>
- <item>Surface refinement: 70s</item>
- <item>Reduction of surface collisions with optimization: 50s</item>
- <item>Spherical mapping with areal smoothing 61s</item>
- <item>Spherical registration 233s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 25s</item>
- <item>CSF distance: 13s</item>
- <item>PBT2x thickness: 35s</item>
- <item>79s</item>
- <item>Create initial surface 60s</item>
- <item>Topology correction: 72s</item>
- <item>Surface refinement: 53s</item>
- <item>Reduction of surface collisions with optimization: 54s</item>
- <item>Spherical mapping with areal smoothing 64s</item>
- <item>Spherical registration 214s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.6320 0.6416 mm</item>
- <item>Surface intensity / position RMSE: 0.0681 / 0.0670</item>
- <item>Euler number / defect number / defect size: 10.0 / 7.5 / 0.38%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_543394/ds/LMU_2/sub-0025393/ses-1/surf/lh.thickness.sub-0025393_ses-1_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_543394/ds/LMU_2/sub-0025393/ses-1/surf/rh.thickness.sub-0025393_ses-1_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_543394/ds/LMU_2/sub-0025393/ses-1/sub-0025393_ses-1_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 10s</item>
- <item>Surface and thickness estimation takes: 1310s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 11s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 35s</item>
- <item>ROI estimation of 'lpba40' atlas 11s</item>
- <item>ROI estimation of 'hammers' atlas 26s</item>
- <item>ROI estimation of 'thalamus' atlas 2s</item>
- <item>ROI estimation of 'ibsr' atlas 10s</item>
- <item>ROI estimation of 'aal3' atlas 19s</item>
- <item>ROI estimation of 'mori' atlas 29s</item>
- <item>ROI estimation of 'anatomy3' atlas 49s</item>
- <item>ROI estimation of 'julichbrain' atlas 85s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 37s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 67s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 131s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 177s</item>
- <item>ROI estimation of 'Tian_Subcortex_S2_7T' atlas 15s</item>
- <item>Write results 16s</item>
- <item>704s</item>
- <item>Quality check: 13s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_543394/ds/LMU_2/sub-0025393/ses-1/report/catreport_sub-0025393_ses-1_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 46 minute(s) and 14 second(s).</item>
- <item>Image Quality Rating (IQR): 79.23% (C+)</item>
- <item>GM volume (GMV): 48.32% (738.63 / 1528.67 ml)</item>
- <item>GM thickness (GMT): 2.63 0.64 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_543394/ds/LMU_2/sub-0025393/ses-1/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_543394/ds/LMU_2/sub-0025393/ses-1/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_543394/ds/LMU_2/sub-0025393/ses-1/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|