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- <uhrlim>1.4</uhrlim>
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- <species>human</species>
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- <darteltpm>
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- <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>
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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>
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- <pbtres>0.5</pbtres>
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- <add_parahipp>0.1</add_parahipp>
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- <verb>2</verb>
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- <experimental>0</experimental>
- <print>2</print>
- <fontsize>10</fontsize>
- <send_info>1</send_info>
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- <tr>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/lpba40.nii</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/cobra.nii</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/hammers.nii</td>
- <td>0</td>
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- <item>csf</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/thalamus.nii</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/suit.nii</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>
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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/aal3.nii</td>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/mori.nii</td>
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- <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/anatomy3.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/julichbrain.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
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- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Schaefer2018_100Parcels_17Networks_order.nii</td>
- <td>1</td>
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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>
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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>
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- <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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- <VT>15</VT>
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- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
- <LE>27</LE>
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- </shootingtpms>
- <templates>
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- <SurfaceEulerNumber>16</SurfaceEulerNumber>
- <SurfaceDefectArea>0.625368583356299</SurfaceDefectArea>
- <SurfaceDefectNumber>9</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.062393382191658</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0639852210879326</SurfacePositionRMSE>
- <res_vx_vol>[1.0000000189656 1.00000002496844 0.999999977675592]</res_vx_vol>
- <res_vx_voli>[1.00000002083128 1.0000000277716 0.999999978120067]</res_vx_voli>
- <res_RMS>1.00000000720321</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[6.54150009155273 126.449996948242 311.273010253906 420.446990966797]</tissue_mn>
- <tissue_mnr>[0.0155584421008825 0.300751328468323 0.740338325500488 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[8.78162080789471 58.8834074757851 37.7614391674137 21.3387939405288]</tissue_std>
- <tissue_stdr>[0.0212164875119925 0.142262935638428 0.091232031583786 0.0515547506511211]</tissue_stdr>
- <contrast>110.899406433105</contrast>
- <contrastr>0.26376548409462</contrastr>
- <res_ECR>0.229835569858551</res_ECR>
- <NCR>0.139368087053299</NCR>
- <ICR>0.53505003452301</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[2.00000003793121 2.00000004993688 1.99999995535118]</res_vx_vol>
- <res_RMS>2.00000001440642</res_RMS>
- <res_ECR>2.07058954238892</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>4.12685108184814</contrastr>
- <NCR>2.33172678947449</NCR>
- <ICR>1.78683042526245</ICR>
- <SurfaceEulerNumber>1.71428571428571</SurfaceEulerNumber>
- <SurfaceDefectArea>1.15634214583907</SurfaceDefectArea>
- <SurfaceDefectNumber>1.45</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.24786758422852</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.27970445156097</SurfacePositionRMSE>
- <SIQR>2.16864845306962</SIQR>
- <IQR>2.20799122281544</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>20231031-054729</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>16</SurfaceEulerNumber>
- <SurfaceDefectArea>0.625368583356299</SurfaceDefectArea>
- <SurfaceDefectNumber>9</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.062393382191658</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0639852210879326</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>16</EC_abs>
- <defect_size>0.625368583356299</defect_size>
- <vol_abs_CGW>[258.73655593381 641.567746556343 522.580562984499 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.667435311953483</vol_abs_WMH>
- <vol_rel_WMH>0.000469071903249767</vol_rel_WMH>
- <surf_TSA>1895.5357184105</surf_TSA>
- <vol_TIV>1422.88486547465</vol_TIV>
- <vol_rel_CGW>[0.181839418080745 0.4508922416167 0.367268340302554 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.46140019770132 0.620404352286158]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.4673924446106 0.746713435994306 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[1.81771506846173 0.25224786019123 0.270817521234961;2.47302996990302 0.177247412696452 0.456154013688052;3.12214180442318 0.272693051431014 0.273028465076987]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.845714168144254 0.265073170873905 0.516009732360097;4.11751155548357 0.376083398988731 0.483990267639903]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.01246735422266</vol_TIV>
- <vol_rel_CGW>[1.11565046840419 5.94777732788614 4.44591128416944 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.04690719032498</vol_rel_WMH>
- <surf_TSA>8.61264917825538</surf_TSA>
- <SQR>4.92076201904169</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0 1 0 11534.3362492528 0.383326124720417]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00178173207677901 0.00136717525310814 0.322246611118317]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[780.426271835679 470.032263541038 498.900562351699 2915.99177988467 1316.63860381191 6451.99441163197]</SPMvols0>
- <SPMvols1>[644.825934878706 435.669693995318 303.516984581455 4471.35781752706 1217.31505998122 4461.73381726988]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[166.473007202148 320.314300537109 416.601501464844]</T3th>
- <Tth>
- <T3th>[-7.75779008865356 -3.04891967773438 7.42582750320435 166.473007202148 320.314300537109 416.601501464844 541.665771484375 1233.96826171875]</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>[0.020640205591917 0.0758369639515877 0.0835549756884575 0 0]</dtc>
- <ll>[0.0852205933642988 0 0.0852205933642988 0;0.203138665134022 0.0106300615033611 0.213768726637383 2266.83935546875;0.203138665134022 0.0106300615033611 0.213768726637383 2266.83935546875]</ll>
- <rmsdtc>[0.044012688100338 0.0982958823442459 0.10960977524519]</rmsdtc>
- <rmsgdt>[0.0314386039972305 0.0472760461270809 0.0585329607129097]</rmsgdt>
- <rmsdt>0.10960977524519</rmsdt>
- <dt>0.0835549756884575</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>[0.0088774049654603 0.0318426638841629 0.0448619984090328 0.0526793524622917 0.0587800405919552 0.0653014183044434]</dtc>
- <ll>[0.0830805063574555 0 0.0830805063574555 0;0.222020879120879 0.0117580929487179 0.233778972069597 6018.673828125;0.201482198782291 0.0158051610401105 0.217287359822401 11375.1640625;0.180129845484256 0.0185445874278475 0.198674432912104 19996.109375;0.162839793483648 0.0213950707775961 0.184234864261244 37427.53125;0.162839793483648 0.0213950707775961 0.184234864261244 37427.53125]</ll>
- <rmsdtc>[0.010230541229248 0.0362678878009319 0.0537644624710083 0.0768197700381279 0.0991849005222321 0.106237985193729]</rmsdtc>
- <rmsgdt>[0.00312589365057647 0.0120408488437533 0.0265201497823 0.0463569834828377 0.0635036528110504 0.0688324421644211]</rmsgdt>
- <rmsdt>0.106237985193729</rmsdt>
- <dt>0.0653014183044434</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r2040: 1/1: ./sub-0026002/ses-5/sub-0026002_ses-5_run-1_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 48s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 7s</item>
- <item>Estimate background 6s</item>
- <item>Initial correction 7s</item>
- <item>Refine background 3s</item>
- <item>Final correction 5s</item>
- <item>Final scaling 6s</item>
- <item>40s</item>
- <item>Correct center-of-mass 3s</item>
- <item>Affine registration 12s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 72s</item>
- <item>SPM preprocessing 1 (estimate 2): 60s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 17s</item>
- <item>Update Segmentation 19s</item>
- <item>Update Skull-Stripping 41s</item>
- <item>Update probability maps 9s</item>
- <item>86s</item>
- <item>Global intensity correction: 17s</item>
- <item>SANLM denoising after intensity normalization (medium): 23s</item>
- <item>Fast Optimized Shooting registration 38s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 4s</item>
- <item>Prepare partitions 3s</item>
- <item>Prepare segments (LASmod = 1.17) 13s</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) 39s</item>
- <item>103s</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) 23s</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>66s</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) 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 | 0.0831 0.0000 0.0831 | 32.0000</item>
- <item>2 | 2.50 | 0.0810 0.0010 0.0821 | 29.4886</item>
- <item>3 | 2.50 | 0.0804 0.0015 0.0820 | 26.9772</item>
- <item>4 | 2.50 | 0.0801 0.0017 0.0818 | 24.6107</item>
- <item>5 | 2.50 | 0.0799 0.0019 0.0817 | 22.6548</item>
- <item>6 | 2.50 | 0.0796 0.0020 0.0816 | 20.6989</item>
- <item>7 | 2.50 | 0.0794 0.0020 0.0814 | 18.9688</item>
- <item>8 | 2.50 | 0.0792 0.0021 0.0813 | 17.4455</item>
- <item>9 | 2.50 | 0.0789 0.0022 0.0811 | 15.9223</item>
- <item>10 | 2.50 | 0.0787 0.0023 0.0810 | 14.6627</item>
- <item>11 | 2.50 | 0.0784 0.0024 0.0808 | 13.4764</item>
- <item>12 | 2.50 | 0.0782 0.0024 0.0806 | 12.3015</item>
- <item>13 | 2.50 | 0.0779 0.0025 0.0804 | 11.3776</item>
- <item>14 | 2.50 | 0.0776 0.0026 0.0802 | 10.4537</item>
- <item>15 | 2.25 | 0.0766 0.0026 0.0793 | 9.5920</item>
- <item>16 | 2.25 | 0.0740 0.0039 0.0779 | 8.8725</item>
- <item>29 | 2.00 | 0.0756 0.0018 0.0774 | 3.3283</item>
- <item>30 | 2.00 | 0.0693 0.0042 0.0735 | 3.1221</item>
- <item>31 | 2.00 | 0.0672 0.0053 0.0724 | 2.9160</item>
- <item>43 | 1.75 | 0.0660 0.0030 0.0690 | 1.5785</item>
- <item>44 | 1.75 | 0.0615 0.0054 0.0669 | 1.5194</item>
- <item>45 | 1.75 | 0.0600 0.0062 0.0662 | 1.4626</item>
- <item>57 | 1.50 | 0.0584 0.0045 0.0629 | 1.0900</item>
- <item>58 | 1.50 | 0.0553 0.0065 0.0618 | 1.0730</item>
- <item>59 | 1.50 | 0.0543 0.0071 0.0614 | 1.0579</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 188s</item>
- <item>Prepare output 10s</item>
- <item>198s</item>
- <item>Jacobian determinant (RMS): 0.010 0.036 0.054 0.077 0.099 | 0.106238</item>
- <item>Template Matching: 0.083 0.222 0.201 0.180 0.163 | 0.162840</item>
- <item>Write result maps: 44s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 53s</item>
- <item>CSF distance: 15s</item>
- <item>PBT2x thickness: 47s</item>
- <item>121s</item>
- <item>Create initial surface 75s</item>
- <item>Topology correction: 86s</item>
- <item>Surface refinement: 72s</item>
- <item>Reduction of surface collisions with optimization: 55s</item>
- <item>Spherical mapping with areal smoothing 77s</item>
- <item>Spherical registration 243s</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: 74s</item>
- <item>Reduction of surface collisions with optimization: 54s</item>
- <item>Spherical mapping with areal smoothing 77s</item>
- <item>Spherical registration 237s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.4614 0.6203 mm</item>
- <item>Surface intensity / position RMSE: 0.0624 / 0.0640</item>
- <item>Euler number / defect number / defect size: 16.0 / 9.0 / 0.63%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-5/surf/lh.thickness.sub-0026002_ses-5_run-1_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-5/surf/rh.thickness.sub-0026002_ses-5_run-1_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-5/sub-0026002_ses-5_run-1_T1w.nii</item>
- <item>Surface ROI estimation: 8s</item>
- <item>Surface and thickness estimation takes: 1530s</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-5/report/catreport_sub-0026002_ses-5_run-1_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 51 minute(s) and 6 second(s).</item>
- <item>Image Quality Rating (IQR): 82.92% (B-)</item>
- <item>GM volume (GMV): 45.09% (641.57 / 1422.88 ml)</item>
- <item>GM thickness (GMT): 2.46 0.62 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-5/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-5/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_2737911/ds/XHCUMS/sub-0026002/ses-5/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|