Hello, I'm trying to script the FEM head model process in EEG source analysis. Before that, I have generated BEM surfaces and FEM mesh. When computing the head model, an error occurred in the command window. I used all the default settings in the FEM head model computing. The followings are the command lines and the error:
Script
% Process: Compute head model
sFiles = bst_process('CallProcess', 'process_headmodel', sFiles, [], ...
'Comment', '', ...
'sourcespace', 2, ... % MRI volume
'volumegrid', struct(...
'Method', 'isotropic', ...
'nLayers', 17, ...
'Reduction', 3, ...
'nVerticesInit', 4000, ...
'Resolution', 0.005, ...
'FileName', []), ...
'meg', 3, ... % Overlapping spheres
'eeg', 4, ... % DUNEuro FEM
'ecog', 2, ... % OpenMEEG BEM
'seeg', 2, ... % OpenMEEG BEM
'openmeeg', struct(...
'BemSelect', [1, 1, 1], ...
'BemCond', [1, 0.0125, 1], ...
'BemNames', {{'Scalp', 'Skull', 'Brain'}}, ...
'BemFiles', {{}}, ...
'isAdjoint', 0, ...
'isAdaptative', 1, ...
'isSplit', 0, ...
'SplitLength', 4000), ...
'duneuro', struct(...
'FemCond', [], ...
'FemSelect', [], ...
'UseTensor', 0, ...
'Isotropic', 1, ...
'SrcShrink', 0, ...
'SrcForceInGM', 0, ...
'FemType', 'fitted', ...
'SolverType', 'cg', ...
'GeometryAdapted', 0, ...
'Tolerance', 1e-08, ...
'ElecType', 'normal', ...
'MegIntorderadd', 0, ...
'MegType', 'physical', ...
'SolvSolverType', 'cg', ...
'SolvPrecond', 'amg', ...
'SolvSmootherType', 'ssor', ...
'SolvIntorderadd', 0, ...
'DgSmootherType', 'ssor', ...
'DgScheme', 'sipg', ...
'DgPenalty', 20, ...
'DgEdgeNormType', 'houston', ...
'DgWeights', 1, ...
'DgReduction', 1, ...
'SolPostProcess', 1, ...
'SolSubstractMean', 0, ...
'SolSolverReduction', 1e-10, ...
'SrcModel', 'venant', ...
'SrcIntorderadd', 0, ...
'SrcIntorderadd_lb', 2, ...
'SrcNbMoments', 3, ...
'SrcRefLen', 20, ...
'SrcWeightExp', 1, ...
'SrcRelaxFactor', 6, ...
'SrcMixedMoments', 1, ...
'SrcRestrict', 1, ...
'SrcInit', 'closest_vertex', ...
'BstSaveTransfer', 0, ...
'BstEegTransferFile', 'eeg_transfer.dat', ...
'BstMegTransferFile', 'meg_transfer.dat', ...
'BstEegLfFile', 'eeg_lf.dat', ...
'BstMegLfFile', 'meg_lf.dat', ...
'UseIntegrationPoint', 1, ...
'EnableCacheMemory', 0, ...
'MegPerBlockOfSensor', 0), ...
'channelfile', '');
Matlab Command Window
DUNEURO> System call: "C:\Users\Greatson_Wu\.brainstorm\plugins\duneuro\bst_duneuro\bin\bst_duneuro_meeg_win64.exe" "C:\Users\Greatson_Wu\.brainstorm\tmp\duneuro_240223_010844\duneuro_minifile.mini"
Reading 3d Gmsh grid...
version 2.2 Gmsh file detected
file contains 54932 nodes
file contains 290432 elements
number of real vertices = 54932
number of boundary elements = 0
number of elements = 290432
volume_conductor.time_reading_gmsh = 16.3149
tensors = 0
time = 0
volume_conductor.time_reading_tensors = 0
Dune reported error: Dune::Exception [read:/home/juan/bst-duneuro/src/duneuro/duneuro/io/volume_conductor_reader.hh:176]: physical entitiy of element 0 is 2 but only 0 tensors have been read
status =
-1
The error seemed related to physical entitiy of element 0 and tensors. The error still existed even after I computed the FEM tensors. However, when I did the head model computing in the GUI, It worked successfully (also using the default settings).
I am wondering, what exactly caused this error? What can I do in the script to solve the problem?
