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# gridmaker

## (Toolbox/gridmaker.m in BrainStorm 2.0 (Alpha))

### Function Synopsis

    [gridlocs] = gridmaker(vertices,faces,grid_fname,Verbose)

### Help Text

    GRIDMAKER - 3D regular gridding of surface envelope
     function [gridlocs] = gridmaker(vertices,faces,grid_fname,Verbose)
     function [gridlocs] = bem_gridmaker(vertices,faces,bem_grid_mfname, OPTIONS)
     3D regular gridding of the inside of surface envelope
     INPUTS
     vertices a cell containing the Nx3 set of tessellation vertices of the enveleppe
     faces    a cell containing the Mx3 array defining the triangles of the tessellated envelope from the set of vertices
     grid_fname character array where to store the grid locations
       Verbose  = 1 turns on Verbose mode

       OUTPUTS
       gridlocs is a Rx3 array of grid point locations

### Cross-Reference Information

This function calls

    bst_message_window                 C:\BrainStorm_2001\Toolbox\bst_message_window.m
    inpolyhd                           C:\BrainStorm_2001\PublicToolbox\OtherTools\inpolyhd.m

This function is called by

    bst_headmodeler                    C:\BrainStorm_2001\Toolbox\bst_headmodeler.m

### Listing of function C:\BrainStorm_2001\Toolbox\gridmaker.m

    function [gridlocs] = gridmaker(vertices,faces,grid_fname,Verbose)
    %GRIDMAKER - 3D regular gridding of surface envelope
    % function [gridlocs] = gridmaker(vertices,faces,grid_fname,Verbose)
    % function [gridlocs] = bem_gridmaker(vertices,faces,bem_grid_mfname, OPTIONS)
    % 3D regular gridding of the inside of surface envelope
    % INPUTS
    % vertices a cell containing the Nx3 set of tessellation vertices of the enveleppe
    % faces    a cell containing the Mx3 array defining the triangles of the tessellated envelope from the set of vertices
    % grid_fname character array where to store the grid locations
    %   Verbose  = 1 turns on Verbose mode
    %
    %   OUTPUTS
    %   gridlocs is a Rx3 array of grid point locations

    %<autobegin> ---------------------- 08-Jun-2004 15:11:20 -----------------------
    % --------- Automatically Generated Comments Block Using AUTO_COMMENTS ---------
    %
    % CATEGORY: Forward Modeling
    %
    % Alphabetical list of external functions (non-Matlab):
    %   publictoolbox\othertools\inpolyhd.m
    %   toolbox\bst_message_window.m
    %
    % At Check-in: $Author: Mosher $  $Revision: 14 $  $Date: 6/08/04 1:38p $
    %
    % This software is part of BrainStorm Toolbox Version 2.0 (Alpha) 28-May-2004
    %
    % Principal Investigators and Developers:
    % ** Richard M. Leahy, PhD, Signal & Image Processing Institute,
    %    University of Southern California, Los Angeles, CA
    % ** John C. Mosher, PhD, Biophysics Group,
    %    Los Alamos National Laboratory, Los Alamos, NM
    % ** Sylvain Baillet, PhD, Cognitive Neuroscience & Brain Imaging Laboratory,
    %    CNRS, Hopital de la Salpetriere, Paris, France
    %
    % See BrainStorm website at http://neuroimage.usc.edu for further information.
    %
    % Copyright (c) 2004 BrainStorm by the University of Southern California
    % This software distributed  under the terms of the GNU General Public License
    % as published by the Free Software Foundation. Further details on the GPL
    % license can be found at http://www.gnu.org/copyleft/gpl.html .
    %
    % FOR RESEARCH PURPOSES ONLY. THE SOFTWARE IS PROVIDED "AS IS," AND THE
    % UNIVERSITY OF SOUTHERN CALIFORNIA AND ITS COLLABORATORS DO NOT MAKE ANY
    % WARRANTY, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO WARRANTIES OF
    % MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE, NOR DO THEY ASSUME ANY
    % LIABILITY OR RESPONSIBILITY FOR THE USE OF THIS SOFTWARE.
    %<autoend> ------------------------ 08-Jun-2004 15:11:20 -----------------------

    % /---Script Authors-------------------------------------\
    % |  *** Sylvain Baillet, Ph.D.                          |
    % |  Cognitive Neuroscience & Brain Imaging Laboratory   |
    % |  CNRS UPR640 - LENA                                  |
    % |  Hopital de la Salpetriere, Paris, France            |
    % |  sylvain.baillet@chups.jussieu.fr                    |
    % |                                                      |
    % \------------------------------------------------------/

    SPACING = 5/1000; % in meters
    NGridMax = 20000; % About twice the maximum number of grid points to achieve
    NGridMin = 10000; % About twice the minimum number of grid points

    SubjectFV.faces = faces{1};
    SubjectFV.vertices = vertices{1};

    if size(SubjectFV.faces,1)>500
        NFV = reducepatch(SubjectFV,500); % number of faces
    else
        NFV = SubjectFV;
    end

    center = mean(NFV.vertices);
    NFV.vertices = .9 * (NFV.vertices - repmat(center,size(NFV.vertices,1),1)); %.9 - don't put grid points too close to inner enveloppe
    NFV.vertices = NFV.vertices + repmat(center,size(NFV.vertices,1),1);

    GridBox = NFV.vertices'; % about half that for the vertices

    mx = max(GridBox,[],2);
    mn = min(GridBox,[],2);

    if Verbose
        bst_message_window(...
            'Gridding the inner BEM envelope. . .'...
            )
    end

    L = zeros(3,NGridMax+1);

    while size(L,2) > NGridMax | size(L,2) < NGridMin % Maximum number of grid points

        if size(L,2) > NGridMax
            SPACING = SPACING * 1.3;
        elseif size(L,2) < NGridMin
            SPACING = SPACING / 1.2;
        end

        vx = [mn(1):SPACING:mx(1)];
        vy = [mn(2):SPACING:mx(2)];
        vz = [mn(3):SPACING:mx(3)];

        [X,Y,Z] = meshgrid(vx,vy,vz);

        L = [X(:) Y(:) Z(:)]';

    end

    is = inpolyhd(L',NFV.vertices, NFV.faces); % find points within inner BEM envelope

    Rq_bemgrid = L(:,find(is))'; % downselect

    if Verbose

       bst_message_window(...
           'Gridding the inner BEM envelope -> DONE'...
           )

    end

    save(grid_fname,'Rq_bemgrid');

    if nargout == 1
        gridlocs  = Rq_bemgrid;
    end

    % ---------------------------------------------------------------------------------------------

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