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- </SPMpreprocessing>
- <filedata>
- <path>/var/lib/condor/execute/dir_10487/ds/sub-season119</path>
- <file>sub-season119_ses-3_acq-MPrageHiRes_T1w</file>
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- <F>/var/lib/condor/execute/dir_10487/ds/sub-season119/sub-season119_ses-3_acq-MPrageHiRes_T1w.nii</F>
- <Fm>/var/lib/condor/execute/dir_10487/ds/sub-season119/mri/msub-season119_ses-3_acq-MPrageHiRes_T1w.nii</Fm>
- <Fp0>/var/lib/condor/execute/dir_10487/ds/sub-season119/mri/p0sub-season119_ses-3_acq-MPrageHiRes_T1w.nii</Fp0>
- <fnames>..s/sub-season119/..son119_ses-3_acq-MPrageHiRes_T1w</fnames>
- </filedata>
- <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>
- <warpreg>[0 0.001 0.5 0.05 0.2]</warpreg>
- <tol>0.0001</tol>
- <accstr>0.5</accstr>
- <biasstr>0.5</biasstr>
- <biasreg>0.001</biasreg>
- <biasfwhm>60</biasfwhm>
- <samp>3</samp>
- <redspmres>0</redspmres>
- <fwhm>1</fwhm>
- <biasacc>0</biasacc>
- </opts>
- <extopts>
- <uhrlim>1.4</uhrlim>
- <gcutstr>2</gcutstr>
- <cleanupstr>0.5</cleanupstr>
- <spm_kamap>0</spm_kamap>
- <NCstr>-Inf</NCstr>
- <LASstr>0.5</LASstr>
- <BVCstr>0.5</BVCstr>
- <regstr>0.5</regstr>
- <WMHC>2</WMHC>
- <WMHCstr>0.5</WMHCstr>
- <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>28</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>
- <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>
- <SRP>22</SRP>
- <reduce_mesh>1</reduce_mesh>
- <vdist>2</vdist>
- <pbtlas>0</pbtlas>
- <thick_measure>1</thick_measure>
- <thick_limit>5</thick_limit>
- <close_parahipp>0</close_parahipp>
- <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>
- <gifti_dat>1</gifti_dat>
- <atlas>
- <tr>
- <td>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/neuromorphometrics.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/lpba40.nii</td>
- <td>0</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/cobra.nii</td>
- <td>0</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/hammers.nii</td>
- <td>0</td>
- <td>
- <item>csf</item>
- <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/thalamus.nii</td>
- <td>0</td>
- <td>
- <item>gm</item>
- </td>
- <td>[false]</td>
- </tr>
- <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>
- <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/ibsr.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/aal3.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
- </td>
- <td>[false]</td>
- </tr>
- <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>
- </tr>
- <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>
- </tr>
- <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>
- <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_600Parcels_17Networks_order.nii</td>
- <td>1</td>
- <td>
- <item>gm</item>
- <item>wm</item>
- </td>
- <td>[false]</td>
- </tr>
- </atlas>
- <satlas>
- <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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- <tr>
- <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>
- </tr>
- <tr>
- <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>
- </tr>
- <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>
- </tr>
- <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>
- <NB>0</NB>
- <CT>1</CT>
- <CB>3</CB>
- <BG>5</BG>
- <BV>7</BV>
- <TH>9</TH>
- <ON>11</ON>
- <MB>13</MB>
- <BS>13</BS>
- <VT>15</VT>
- <NV>17</NV>
- <HC>19</HC>
- <HD>21</HD>
- <HI>23</HI>
- <PH>25</PH>
- <LE>27</LE>
- </LAB>
- <new_release>0</new_release>
- <lazy>0</lazy>
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- <shooting>
- <shootingtpm>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
- </shootingtpm>
- <regstr>0.5</regstr>
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- </regmethod>
- <restypes>
- <optimal>[1 0.3]</optimal>
- </restypes>
- <LASmyostr>0</LASmyostr>
- <pbtmethod>pbt2x</pbtmethod>
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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_Dartel.nii</item>
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- </darteltpms>
- <shootingtpms>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_0_GS.nii</item>
- <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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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_GS.nii</item>
- </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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- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_3_GS.nii</item>
- <item>/code/SPM/MCR_Linux/spm12_mcr/home/gaser/gaser/spm/spm12/toolbox/cat12/templates_MNI152NLin2009cAsym/Template_4_GS.nii</item>
- </templates>
- <inv_weighting>0</inv_weighting>
- <AMAPframing>1</AMAPframing>
- </extopts>
- </parameter>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>26</SurfaceEulerNumber>
- <SurfaceDefectArea>0.471030189268629</SurfaceDefectArea>
- <SurfaceDefectNumber>17</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.068073995411396</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0658894404768944</SurfacePositionRMSE>
- <res_vx_vol>[0.880000312132629 0.874999968686616 0.874999968286882]</res_vx_vol>
- <res_vx_voli>[0.880000311569909 0.874999974208728 0.874999970741604]</res_vx_voli>
- <res_RMS>0.876669918699383</res_RMS>
- <res_BB>0</res_BB>
- <tissue_mn>[12.6929998397827 283.829681396484 741.914794921875 1056.31958007812]</tissue_mn>
- <tissue_mnr>[0.0120162507519126 0.268696814775467 0.702358305454254 1]</tissue_mnr>
- <tissue_weighting>T1</tissue_weighting>
- <tissue_std>[5.73386992483465 127.64572239822 97.8332421455761 55.3453979419661]</tissue_std>
- <tissue_stdr>[0.00549417827278376 0.122309781610966 0.0937435403466225 0.0530318059027195]</tissue_stdr>
- <contrast>318.228668212891</contrast>
- <contrastr>0.301261752843857</contrastr>
- <NCR>0.106415092945099</NCR>
- <ICR>0.244899153709412</ICR>
- </qualitymeasures>
- <qualityratings>
- <res_vx_vol>[1.76000062426526 1.74999993737323 1.74999993657376]</res_vx_vol>
- <res_RMS>1.75333983739877</res_RMS>
- <res_BB>0.5</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>3.56440687179565</contrastr>
- <NCR>1.85867202281952</NCR>
- <ICR>1.06721019744873</ICR>
- <SurfaceEulerNumber>2.22448979591837</SurfaceEulerNumber>
- <SurfaceDefectArea>1.11775754731716</SurfaceDefectArea>
- <SurfaceDefectNumber>1.85</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>1.3614798784256</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>1.31778883934021</SurfacePositionRMSE>
- <IQR>1.81133735395743</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>20220712-172710</date>
- </software>
- <subjectmeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <qualitymeasures>
- <software>
- <version_segment>1639</version_segment>
- </software>
- <SurfaceEulerNumber>26</SurfaceEulerNumber>
- <SurfaceDefectArea>0.471030189268629</SurfaceDefectArea>
- <SurfaceDefectNumber>17</SurfaceDefectNumber>
- <SurfaceIntensityRMSE>0.068073995411396</SurfaceIntensityRMSE>
- <SurfacePositionRMSE>0.0658894404768944</SurfacePositionRMSE>
- </qualitymeasures>
- <EC_abs>26</EC_abs>
- <defect_size>0.471030189268629</defect_size>
- <vol_abs_CGW>[215.395583549087 705.341906899265 490.802533025928 0 0]</vol_abs_CGW>
- <vol_abs_WMH>0.770252361508255</vol_abs_WMH>
- <vol_rel_WMH>0.00054568226808929</vol_rel_WMH>
- <surf_TSA>1943.46223357111</surf_TSA>
- <vol_TIV>1411.54002347428</vol_TIV>
- <vol_rel_CGW>[0.152596157365007 0.499696710804685 0.347707131830308 0 0]</vol_rel_CGW>
- <dist_thickness>
- <item>[2.63428644680012 0.605930118135362]</item>
- </dist_thickness>
- <dist_thickness_kmeans>[2.62789368629456 0.76773790669191 1]</dist_thickness_kmeans>
- <dist_thickness_kmeans_inner3>[2.07898610326925 0.249406017240555 0.308928334292417;2.66198905867033 0.172189775211573 0.417549340129129;3.30749078593938 0.269686704676129 0.273522325578454]</dist_thickness_kmeans_inner3>
- <dist_thickness_kmeans_outer2>[0.91978964246146 0.418428495533692 0.581732220098582;4.22456260000415 0.321813688886777 0.418267779901418]</dist_thickness_kmeans_outer2>
- </subjectmeasures>
- <subjectratings>
- <vol_TIV>1.00317216616329</vol_TIV>
- <vol_rel_CGW>[0.590448228538204 6.82429437508414 4.09459647683743 0.5 0.5]</vol_rel_CGW>
- <vol_rel_WMH>1.05456822680893</vol_rel_WMH>
- <surf_TSA>8.61816048691611</surf_TSA>
- <SQR>5.59230402962016</SQR>
- </subjectratings>
- <ppe>
- <affreg>
- <skullstrippedpara>[0.0295042991638184 1 11439 9598.87786452427 0.383849892671087]</skullstrippedpara>
- <skullstripped>[false]</skullstripped>
- <highBGpara>[0.00923822447657585 0.0046076150611043 0.24382272362709]</highBGpara>
- <highBG>[false]</highBG>
- </affreg>
- <SPMvols0>[808.711452112201 444.419128168797 344.310341027756 520.687520908097 1766.81021931057 6414.46152055797]</SPMvols0>
- <SPMvols1>[725.807143087962 420.814097168914 213.380164202509 439.329484436985 1513.44450549107 6578.12986674312]</SPMvols1>
- <tths>
- <gintnorm>
- <T3th>[330.914306640625 772.985778808594 1029.61669921875]</T3th>
- <Tth>
- <T3th>[0 0 33.5727157592773 330.914306640625 772.985778808594 1029.61669921875 1378.96789550781 2869.97021484375]</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>[0.0213026516139507 0.0699607580900192 0.0763243362307549 0 0]</dtc>
- <ll>[0.0807750712589723 0 0.0807750712589723 0;0.190558022525416 0.00894153017957671 0.199499552704993 1906.76342773438;0.190558022525416 0.00894153017957671 0.199499552704993 1906.76342773438]</ll>
- <rmsdtc>[0.0464037954807281 0.0897884741425514 0.0989421829581261]</rmsdtc>
- <rmsgdt>[0.0331837385892868 0.0402473472058773 0.049701813608408]</rmsgdt>
- <rmsdt>0.0989421829581261</rmsdt>
- <dt>0.0763243362307549</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>[0.0098236994817853 0.0346967540681362 0.0472676157951355 0.0547923184931278 0.0596574395895004 0.0659661814570427]</dtc>
- <ll>[0.0802807679046522 0 0.0802807679046522 0;0.207885973748474 0.0120565342643468 0.219942508012821 6171.4384765625;0.18798776020825 0.0144905482809443 0.202478308489194 10429.021484375;0.169292786861757 0.0164665175072941 0.185759304369051 17755.384765625;0.156004319882837 0.0172892302450535 0.17329355012789 30244.966796875;0.156004319882837 0.0172892302450535 0.17329355012789 30244.966796875]</ll>
- <rmsdtc>[0.0112536055967212 0.0392004959285259 0.0565431974828243 0.0781412869691849 0.0988138318061829 0.10305006057024]</rmsdtc>
- <rmsgdt>[0.00315396743826568 0.0117053994908929 0.0253027211874723 0.0441553741693497 0.0611403249204159 0.0649576634168625]</rmsgdt>
- <rmsdt>0.10305006057024</rmsdt>
- <dt>0.0659661814570427</dt>
- </reg>
- </ppe>
- <catlog>
- <item>------------------------------------------------------------------------</item>
- <item>CAT12.8.1 r1980: 1/1: ./sub-season119_ses-3_acq-MPrageHiRes_T1w.n</item>
- <item>------------------------------------------------------------------------</item>
- <item>SANLM denoising (medium): 60s</item>
- <item>APP: Rough bias correction:</item>
- <item>Initialize 9s</item>
- <item>Estimate background 9s</item>
- <item>Initial correction 14s</item>
- <item>Refine background 5s</item>
- <item>Final correction 12s</item>
- <item>Final scaling 12s</item>
- <item>70s</item>
- <item>Correct center-of-mass 7s</item>
- <item>Affine registration 20s</item>
- <item>SPM preprocessing 1 (estimate 1 - TPM registration): 104s</item>
- <item>SPM preprocessing 1 (estimate 2): 106s</item>
- <item>SPM preprocessing 2 (write):</item>
- <item>Write Segmentation 24s</item>
- <item>Update Segmentation 27s</item>
- <item>Update Skull-Stripping 57s</item>
- <item>Update probability maps 12s</item>
- <item>119s</item>
- <item>Global intensity correction: 22s</item>
- <item>SANLM denoising after intensity normalization (medium): 18s</item>
- <item>Fast Optimized Shooting registration 46s</item>
- <item>Local adaptive segmentation (LASstr=0.50):</item>
- <item>Prepare maps 6s</item>
- <item>Prepare partitions 4s</item>
- <item>Prepare segments (LASmod = 1.03) 20s</item>
- <item>Estimate local tissue thresholds (WM) 26s</item>
- <item>Estimate local tissue thresholds (GM) 37s</item>
- <item>Intensity transformation 0s</item>
- <item>SANLM denoising after LAS (medium) 36s</item>
- <item>134s</item>
- <item>ROI segmentation (partitioning):</item>
- <item>Atlas -> subject space 12s</item>
- <item>Major structures 5s</item>
- <item>Ventricle detection 19s</item>
- <item>Blood vessel detection 14s</item>
- <item>WMH detection (WMHCstr=0.50 > WMHCstr'=0.02) 41s</item>
- <item>Manual stroke lesion detection 0s</item>
- <item>Closing of deep structures 2s</item>
- <item>Side alignment 5s</item>
- <item>Final corrections 6s</item>
- <item>105s</item>
- <item>Blood vessel correction (BVCstr=0.50): 2s</item>
- <item>Amap using initial SPM12 segmentations (MRF filter strength 0.05): 40s</item>
- <item>AMAP peaks: [CSF,GM,WM] = [0.36 0.06,0.68 0.07,0.98 0.05]</item>
- <item>Final cleanup (gcutstr=0.25):</item>
- <item>Level 1 cleanup (ROI estimation) 6s</item>
- <item>Level 1 cleanup (brain masking) 4s</item>
- <item>Level 2 cleanup (CSF correction) 2s</item>
- <item>Level 3 cleanup (CSF/WM PVE) 4s</item>
- <item>16s</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 | 0.0803 0.0000 0.0803 | 32.0000</item>
- <item>2 | 2.50 | 0.0779 0.0011 0.0790 | 29.4886</item>
- <item>3 | 2.50 | 0.0772 0.0017 0.0789 | 26.9772</item>
- <item>4 | 2.50 | 0.0768 0.0019 0.0787 | 24.6107</item>
- <item>5 | 2.50 | 0.0766 0.0020 0.0786 | 22.6548</item>
- <item>6 | 2.50 | 0.0763 0.0021 0.0784 | 20.6989</item>
- <item>7 | 2.50 | 0.0761 0.0022 0.0783 | 18.9688</item>
- <item>8 | 2.50 | 0.0758 0.0023 0.0781 | 17.4455</item>
- <item>9 | 2.50 | 0.0756 0.0023 0.0779 | 15.9223</item>
- <item>10 | 2.50 | 0.0753 0.0024 0.0777 | 14.6627</item>
- <item>11 | 2.50 | 0.0750 0.0025 0.0775 | 13.4764</item>
- <item>12 | 2.50 | 0.0747 0.0025 0.0773 | 12.3015</item>
- <item>13 | 2.50 | 0.0744 0.0026 0.0771 | 11.3776</item>
- <item>14 | 2.50 | 0.0742 0.0027 0.0768 | 10.4537</item>
- <item>15 | 2.25 | 0.0720 0.0027 0.0747 | 9.5920</item>
- <item>16 | 2.25 | 0.0693 0.0040 0.0733 | 8.8725</item>
- <item>29 | 2.00 | 0.0700 0.0018 0.0718 | 3.3283</item>
- <item>30 | 2.00 | 0.0645 0.0039 0.0685 | 3.1221</item>
- <item>31 | 2.00 | 0.0627 0.0048 0.0675 | 2.9160</item>
- <item>43 | 1.75 | 0.0615 0.0028 0.0643 | 1.5785</item>
- <item>44 | 1.75 | 0.0577 0.0048 0.0625 | 1.5194</item>
- <item>45 | 1.75 | 0.0564 0.0055 0.0619 | 1.4626</item>
- <item>57 | 1.50 | 0.0548 0.0040 0.0587 | 1.0900</item>
- <item>58 | 1.50 | 0.0520 0.0058 0.0578 | 1.0730</item>
- <item>Shooting registration with 2.50:-0.25:1.50 mm takes: 189s</item>
- <item>Prepare output 13s</item>
- <item>202s</item>
- <item>Jacobian determinant (RMS): 0.011 0.039 0.057 0.078 0.099 | 0.103050</item>
- <item>Template Matching: 0.080 0.208 0.188 0.169 0.156 | 0.156004</item>
- <item>Write result maps: 38s</item>
- <item>Surface and thickness estimation:</item>
- <item>lh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 44s</item>
- <item>CSF distance: 17s</item>
- <item>PBT2x thickness: 51s</item>
- <item>119s</item>
- <item>Create initial surface 85s</item>
- <item>Topology correction: 94s</item>
- <item>Surface refinement: 79s</item>
- <item>Reduction of surface collisions with optimization: 62s</item>
- <item>Spherical mapping with areal smoothing 90s</item>
- <item>Spherical registration 263s</item>
- <item>rh:</item>
- <item>Thickness estimation (0.50 mm ):</item>
- <item>WM distance: 53s</item>
- <item>CSF distance: 16s</item>
- <item>PBT2x thickness: 49s</item>
- <item>124s</item>
- <item>Create initial surface 80s</item>
- <item>Topology correction: 92s</item>
- <item>Surface refinement: 77s</item>
- <item>Reduction of surface collisions with optimization: 62s</item>
- <item>Spherical mapping with areal smoothing 90s</item>
- <item>Spherical registration 259s</item>
- <item>Final surface processing results:</item>
- <item>Average thickness (FS): 2.6344 0.6058 mm</item>
- <item>Surface intensity / position RMSE: 0.0681 / 0.0659</item>
- <item>Euler number / defect number / defect size: 26.0 / 17.0 / 0.47%</item>
- <item>Display thickness: /var/lib/condor/execute/dir_10487/ds/sub-season119/surf/lh.thickness.sub-season119_ses-3_acq-MPrageHiRes_T1w</item>
- <item>Display thickness: /var/lib/condor/execute/dir_10487/ds/sub-season119/surf/rh.thickness.sub-season119_ses-3_acq-MPrageHiRes_T1w</item>
- <item>Show surfaces in orthview: /var/lib/condor/execute/dir_10487/ds/sub-season119/sub-season119_ses-3_acq-MPrageHiRes_T1w.nii</item>
- <item>Surface ROI estimation: 8s</item>
- <item>Surface and thickness estimation takes: 1682s</item>
- <item>ROI estimation in native space:</item>
- <item>ROI estimation of 'cobra' atlas 18s</item>
- <item>ROI estimation of 'neuromorphometrics' atlas 65s</item>
- <item>ROI estimation of 'lpba40' atlas 19s</item>
- <item>ROI estimation of 'hammers' atlas 46s</item>
- <item>ROI estimation of 'thalamus' atlas 3s</item>
- <item>ROI estimation of 'ibsr' atlas 16s</item>
- <item>ROI estimation of 'aal3' atlas 27s</item>
- <item>ROI estimation of 'mori' atlas 40s</item>
- <item>ROI estimation of 'anatomy3' atlas 58s</item>
- <item>ROI estimation of 'julichbrain' atlas 77s</item>
- <item>ROI estimation of 'Schaefer2018_100Parcels_17Networks_order' atlas 28s</item>
- <item>ROI estimation of 'Schaefer2018_200Parcels_17Networks_order' atlas 38s</item>
- <item>ROI estimation of 'Schaefer2018_400Parcels_17Networks_order' atlas 125s</item>
- <item>ROI estimation of 'Schaefer2018_600Parcels_17Networks_order' atlas 183s</item>
- <item>Write results 184s</item>
- <item>744s</item>
- <item>Quality check: 6s</item>
- <item>Print 'Graphics' figure to:</item>
- <item>/var/lib/condor/execute/dir_10487/ds/sub-season119/report/catreport_sub-season119_ses-3_acq-MPrageHiRes_T1w.pdf</item>
- <item>------------------------------------------------------------------------</item>
- <item>CAT preprocessing takes 61 minute(s) and 47 second(s).</item>
- <item>Image Quality Rating (IQR): 86.89% (B+)</item>
- <item>GM volume (GMV): 49.97% (705.34 / 1411.54 ml)</item>
- <item>GM thickness (GMT): 2.63 0.61 mm</item>
- <item>Segmentations are saved in /var/lib/condor/execute/dir_10487/ds/sub-season119/mri</item>
- <item>Reports are saved in /var/lib/condor/execute/dir_10487/ds/sub-season119/report</item>
- <item>Labels are saved in /var/lib/condor/execute/dir_10487/ds/sub-season119/label</item>
- <item>------------------------------------------------------------------------</item>
- </catlog>
- </S>
|