X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?p=CreaPhase.git;a=blobdiff_plain;f=octave_packages%2Fm%2Fplot%2Fprivate%2F__marching_cube__.m;fp=octave_packages%2Fm%2Fplot%2Fprivate%2F__marching_cube__.m;h=1be93ab9fbed4b2b209860543fe8a75c8ae23dee;hp=0000000000000000000000000000000000000000;hb=1c0469ada9531828709108a4882a751d2816994a;hpb=63de9f36673d49121015e3695f2c336ea92bc278 diff --git a/octave_packages/m/plot/private/__marching_cube__.m b/octave_packages/m/plot/private/__marching_cube__.m new file mode 100644 index 0000000..1be93ab --- /dev/null +++ b/octave_packages/m/plot/private/__marching_cube__.m @@ -0,0 +1,530 @@ +## Copyright (C) 2009-2012 Martin Helm +## +## This file is part of Octave. +## +## Octave is free software; you can redistribute it and/or modify it +## under the terms of the GNU General Public License as published by +## the Free Software Foundation; either version 3 of the License, or (at +## your option) any later version. +## +## Octave is distributed in the hope that it will be useful, but +## WITHOUT ANY WARRANTY; without even the implied warranty of +## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU +## General Public License for more details. +## +## You should have received a copy of the GNU General Public License +## along with Octave; see the file COPYING. If not, see +## . + +## -*- texinfo -*- +## @deftypefn {Function File} {[@var{t}, @var{p}] =} __marching_cube__ (@var{x}, @var{y}, @var{z}, @var{val}, @var{iso}) +## @deftypefnx {Function File} {[@var{t}, @var{p}, @var{c}] =} __marching_cube__ (@var{x}, @var{y}, @var{z}, @var{val}, @var{iso}, @var{col}) +## Undocumented internal function. +## @end deftypefn + +## -*- texinfo -*- +## @deftypefn {Function File} {[@var{t}, @var{p}] =} __marching_cube__ (@var{x}, @var{y}, @var{z}, @var{val}, @var{iso}) +## @deftypefnx {Function File} {[@var{t}, @var{p}, @var{c}] =} __marching_cube__ (@var{x}, @var{y}, @var{z}, @var{val}, @var{iso}, @var{col}) +## +## Return the triangulation information @var{t} at points @var{p} for +## the isosurface values resp. the volume data @var{val} and the iso +## level @var{iso}. It is considered that the volume data @var{val} is +## given at the points @var{x}, @var{y} and @var{z} which are of type +## three--dimensional numeric arrays. The orientation of the triangles +## is choosen such that the normals point from the higher values to the +## lower values. +## +## Optionally the color data @var{col} can be passed to this function +## whereas computed vertices color data @var{c} is returned as third +## argument. +## +## The marching cube algorithm is well known and described, for example, at +## Wikipedia. The triangulation lookup table and the edge table used +## here are based on Cory Gene Bloyd's implementation and can be found +## beyond other surface and geometry stuff at Paul Bourke's website +## @uref{http://local.wasp.uwa.edu.au/~pbourke/geometry/polygonise}. +## +## For example: +## +## @example +## @group +## N = 20; +## lin = linspace (0, 2, N); +## [x, y, z] = meshgrid (lin, lin, lin); +## +## c = (x-.5).^2 + (y-.5).^2 + (z-.5).^2; +## [t, p] = __marching_cube__ (x, y, z, c, .5); +## +## figure (); +## trimesh (t, p(:,1), p(:,2), p(:,3)); +## @end group +## @end example +## +## Instead of the @command{trimesh} function the @command{patch} +## function can be used to visualize the geometry. For example: +## +## @example +## @group +## figure (); view (-38, 20); +## pa = patch ("Faces", t, "Vertices", p, "FaceVertexCData", p, \ +## "FaceColor", "interp", "EdgeColor", "none"); +## +## ## Revert normals +## set (pa, "VertexNormals", -get (pa, "VertexNormals")); +## +## ## Set lightning (available with the JHandles package) +## # set (pa, "FaceLighting", "gouraud"); +## # light ( "Position", [1 1 5]); +## @end group +## @end example +## +## @end deftypefn + +## Author: Martin Helm + +function [T, p, col] = __marching_cube__ (xx, yy, zz, c, iso, colors) + + persistent edge_table=[]; + persistent tri_table=[]; + + calc_cols = false; + lindex = 4; + + if (isempty (tri_table) || isempty (edge_table)) + [edge_table, tri_table] = init_mc (); + endif + + if ((nargin != 5 && nargin != 6) || (nargout != 2 && nargout != 3)) + print_usage (); + endif + + if (!ismatrix (xx) || !ismatrix (yy) || !ismatrix (zz) || !ismatrix (c) || ... + ndims (xx) != 3 || ndims (yy) != 3 || ndims (zz) != 3 || ndims (c) != 3) + error ("__marching_cube__: XX, YY, ZZ, C must be matrices of dim 3"); + endif + + if (!size_equal (xx, yy, zz, c)) + error ("__marching_cube__: XX, YY, ZZ, C must be of equal size"); + endif + + if (any (size (xx) < [2 2 2])) + error ("__marching_cube__: grid size must be at least 2x2x2"); + endif + + if (!isscalar (iso)) + error ("__marching_cube__: ISO must be scalar value"); + endif + + if (nargin == 6) + if ( !ismatrix (colors) || ndims (colors) != 3 || size (colors) != size (c) ) + error ( "COLORS must be a matrix of dim 3 and of same size as C" ); + endif + calc_cols = true; + lindex = 5; + endif + + n = size (c) - 1; + + ## phase I: assign information to each voxel which edges are intersected by + ## the isosurface + cc = zeros (n(1), n(2), n(3), "uint16"); + cedge = zeros (size (cc), "uint16"); + + vertex_idx = {1:n(1), 1:n(2), 1:n(3); ... + 2:n(1)+1, 1:n(2), 1:n(3); ... + 2:n(1)+1, 2:n(2)+1, 1:n(3); ... + 1:n(1), 2:n(2)+1, 1:n(3); ... + 1:n(1), 1:n(2), 2:n(3)+1; ... + 2:n(1)+1, 1:n(2), 2:n(3)+1; ... + 2:n(1)+1, 2:n(2)+1, 2:n(3)+1; ... + 1:n(1), 2:n(2)+1, 2:n(3)+1 }; + + ## calculate which vertices have values higher than iso + for ii=1:8 + idx = c(vertex_idx{ii, :}) > iso; + cc(idx) = bitset (cc(idx), ii); + endfor + + cedge = edge_table(cc+1); # assign the info about intersected edges + id = find (cedge); # select only voxels which are intersected + if (isempty (id)) + T = p = col = []; + return + endif + + ## phase II: calculate the list of intersection points + xyz_off = [1, 1, 1; 2, 1, 1; 2, 2, 1; 1, 2, 1; 1, 1, 2; 2, 1, 2; 2, 2, 2; 1, 2, 2]; + edges = [1 2; 2 3; 3 4; 4 1; 5 6; 6 7; 7 8; 8 5; 1 5; 2 6; 3 7; 4 8]; + offset = sub2ind (size (c), xyz_off(:, 1), xyz_off(:, 2), xyz_off(:, 3)) -1; + pp = zeros (length (id), lindex, 12); + ccedge = [vec(cedge(id)), id]; + ix_offset=0; + for jj=1:12 + id__ = bitget (ccedge(:, 1), jj); + id_ = ccedge(id__, 2); + [ix iy iz] = ind2sub (size (cc), id_); + id_c = sub2ind (size (c), ix, iy, iz); + id1 = id_c + offset(edges(jj, 1)); + id2 = id_c + offset(edges(jj, 2)); + if (calc_cols) + pp(id__, 1:5, jj) = [vertex_interp(iso, xx(id1), yy(id1), zz(id1), ... + xx(id2), yy(id2), zz(id2), c(id1), c(id2), colors(id1), colors(id2)), ... + (1:size (id_, 1))' + ix_offset ]; + else + pp(id__, 1:4, jj) = [vertex_interp(iso, xx(id1), yy(id1), zz(id1), ... + xx(id2), yy(id2), zz(id2), c(id1), c(id2)), ... + (1:size (id_, 1))' + ix_offset ]; + endif + ix_offset += size (id_, 1); + endfor + + ## phase III: calculate the triangulation from the point list + T = []; + tri = tri_table(cc(id)+1, :); + for jj=1:3:15 + id_ = find (tri(:, jj)>0); + p = [id_, lindex*ones(size (id_, 1), 1),tri(id_, jj:jj+2)]; + if (!isempty (p)) + p1 = sub2ind (size (pp), p(:,1), p(:,2), p(:,3)); + p2 = sub2ind (size (pp), p(:,1), p(:,2), p(:,4)); + p3 = sub2ind (size (pp), p(:,1), p(:,2), p(:,5)); + T = [T; pp(p1), pp(p2), pp(p3)]; + endif + endfor + + p = []; + col = []; + for jj = 1:12 + idp = pp(:, lindex, jj) > 0; + if (any (idp)) + p(pp(idp, lindex, jj), 1:3) = pp(idp, 1:3, jj); + if (calc_cols) + col(pp(idp, lindex, jj),1) = pp(idp, 4, jj); + endif + endif + endfor +endfunction + +function p = vertex_interp(isolevel,p1x, p1y, p1z,... + p2x, p2y, p2z,valp1,valp2, col1, col2) + + if (nargin == 9) + p = zeros (length (p1x), 3); + elseif (nargin == 11) + p = zeros (length (p1x), 4); + else + error ("__marching_cube__: wrong number of arguments"); + endif + mu = zeros (length (p1x), 1); + id = abs (valp1-valp2) < (10*eps) .* (abs (valp1) .+ abs (valp2)); + if (any (id)) + p(id, 1:3) = [ p1x(id), p1y(id), p1z(id) ]; + if (nargin == 11) + p(id, 4) = col1(id); + endif + endif + nid = !id; + if (any (nid)) + mu(nid) = (isolevel - valp1(nid)) ./ (valp2(nid) - valp1(nid)); + p(nid, 1:3) = [p1x(nid) + mu(nid) .* (p2x(nid) - p1x(nid)), ... + p1y(nid) + mu(nid) .* (p2y(nid) - p1y(nid)), ... + p1z(nid) + mu(nid) .* (p2z(nid) - p1z(nid))]; + if (nargin == 11) + p(nid, 4) = col1(nid) + mu(nid) .* (col2(nid) - col1(nid)); + endif + endif +endfunction + +function [edge_table, tri_table] = init_mc() + edge_table = [ + 0x0 , 0x109, 0x203, 0x30a, 0x406, 0x50f, 0x605, 0x70c, ... + 0x80c, 0x905, 0xa0f, 0xb06, 0xc0a, 0xd03, 0xe09, 0xf00, ... + 0x190, 0x99 , 0x393, 0x29a, 0x596, 0x49f, 0x795, 0x69c, ... + 0x99c, 0x895, 0xb9f, 0xa96, 0xd9a, 0xc93, 0xf99, 0xe90, ... + 0x230, 0x339, 0x33 , 0x13a, 0x636, 0x73f, 0x435, 0x53c, ... + 0xa3c, 0xb35, 0x83f, 0x936, 0xe3a, 0xf33, 0xc39, 0xd30, ... + 0x3a0, 0x2a9, 0x1a3, 0xaa , 0x7a6, 0x6af, 0x5a5, 0x4ac, ... + 0xbac, 0xaa5, 0x9af, 0x8a6, 0xfaa, 0xea3, 0xda9, 0xca0, ... + 0x460, 0x569, 0x663, 0x76a, 0x66 , 0x16f, 0x265, 0x36c, ... + 0xc6c, 0xd65, 0xe6f, 0xf66, 0x86a, 0x963, 0xa69, 0xb60, ... + 0x5f0, 0x4f9, 0x7f3, 0x6fa, 0x1f6, 0xff , 0x3f5, 0x2fc, ... + 0xdfc, 0xcf5, 0xfff, 0xef6, 0x9fa, 0x8f3, 0xbf9, 0xaf0, ... + 0x650, 0x759, 0x453, 0x55a, 0x256, 0x35f, 0x55 , 0x15c, ... + 0xe5c, 0xf55, 0xc5f, 0xd56, 0xa5a, 0xb53, 0x859, 0x950, ... + 0x7c0, 0x6c9, 0x5c3, 0x4ca, 0x3c6, 0x2cf, 0x1c5, 0xcc , ... + 0xfcc, 0xec5, 0xdcf, 0xcc6, 0xbca, 0xac3, 0x9c9, 0x8c0, ... + 0x8c0, 0x9c9, 0xac3, 0xbca, 0xcc6, 0xdcf, 0xec5, 0xfcc, ... + 0xcc , 0x1c5, 0x2cf, 0x3c6, 0x4ca, 0x5c3, 0x6c9, 0x7c0, ... + 0x950, 0x859, 0xb53, 0xa5a, 0xd56, 0xc5f, 0xf55, 0xe5c, ... + 0x15c, 0x55 , 0x35f, 0x256, 0x55a, 0x453, 0x759, 0x650, ... + 0xaf0, 0xbf9, 0x8f3, 0x9fa, 0xef6, 0xfff, 0xcf5, 0xdfc, ... + 0x2fc, 0x3f5, 0xff , 0x1f6, 0x6fa, 0x7f3, 0x4f9, 0x5f0, ... + 0xb60, 0xa69, 0x963, 0x86a, 0xf66, 0xe6f, 0xd65, 0xc6c, ... + 0x36c, 0x265, 0x16f, 0x66 , 0x76a, 0x663, 0x569, 0x460, ... + 0xca0, 0xda9, 0xea3, 0xfaa, 0x8a6, 0x9af, 0xaa5, 0xbac, ... + 0x4ac, 0x5a5, 0x6af, 0x7a6, 0xaa , 0x1a3, 0x2a9, 0x3a0, ... + 0xd30, 0xc39, 0xf33, 0xe3a, 0x936, 0x83f, 0xb35, 0xa3c, ... + 0x53c, 0x435, 0x73f, 0x636, 0x13a, 0x33 , 0x339, 0x230, ... + 0xe90, 0xf99, 0xc93, 0xd9a, 0xa96, 0xb9f, 0x895, 0x99c, ... + 0x69c, 0x795, 0x49f, 0x596, 0x29a, 0x393, 0x99 , 0x190, ... + 0xf00, 0xe09, 0xd03, 0xc0a, 0xb06, 0xa0f, 0x905, 0x80c, ... + 0x70c, 0x605, 0x50f, 0x406, 0x30a, 0x203, 0x109, 0x0 ]; + + tri_table =[ + -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 0, 8, 3, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 0, 1, 9, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 1, 8, 3, 9, 8, 1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 1, 2, 10, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 0, 8, 3, 1, 2, 10, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 9, 2, 10, 0, 2, 9, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 2, 8, 3, 2, 10, 8, 10, 9, 8, -1, -1, -1, -1, -1, -1, -1; + 3, 11, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 0, 11, 2, 8, 11, 0, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 1, 9, 0, 2, 3, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 1, 11, 2, 1, 9, 11, 9, 8, 11, -1, -1, -1, -1, -1, -1, -1; + 3, 10, 1, 11, 10, 3, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 0, 10, 1, 0, 8, 10, 8, 11, 10, -1, -1, -1, -1, -1, -1, -1; + 3, 9, 0, 3, 11, 9, 11, 10, 9, -1, -1, -1, -1, -1, -1, -1; + 9, 8, 10, 10, 8, 11, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 4, 7, 8, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 4, 3, 0, 7, 3, 4, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 0, 1, 9, 8, 4, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 4, 1, 9, 4, 7, 1, 7, 3, 1, -1, -1, -1, -1, -1, -1, -1; + 1, 2, 10, 8, 4, 7, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 3, 4, 7, 3, 0, 4, 1, 2, 10, -1, -1, -1, -1, -1, -1, -1; + 9, 2, 10, 9, 0, 2, 8, 4, 7, -1, -1, -1, -1, -1, -1, -1; + 2, 10, 9, 2, 9, 7, 2, 7, 3, 7, 9, 4, -1, -1, -1, -1; + 8, 4, 7, 3, 11, 2, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; + 11, 4, 7, 11, 2, 4, 2, 0, 4, -1, -1, -1, -1, -1, -1, -1; + 9, 0, 1, 8, 4, 7, 2, 3, 11, -1, -1, -1, -1, -1, -1, -1; + 4, 7, 11, 9, 4, 11, 9, 11, 2, 9, 2, 1, -1, -1, -1, -1; + 3, 10, 1, 3, 11, 10, 7, 8, 4, -1, -1, -1, -1, -1, -1, -1; + 1, 11, 10, 1, 4, 11, 1, 0, 4, 7, 11, 4, -1, -1, -1, -1; + 4, 7, 8, 9, 0, 11, 9, 11, 10, 11, 0, 3, -1, -1, -1, -1; + 4, 7, 11, 4, 11, 9, 9, 11, 10, -1, -1, -1, -1, -1, -1, -1; + 9, 5, 4, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1, -1; 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