source: inundation/ga/storm_surge/pyvolution/general_mesh.py @ 643

    
class General_mesh:
    """Collection of triangular elements (purely geometric)

    A triangular element is defined in terms of three vertex ids,
    ordered counter clock-wise, 
    each corresponding to a given coordinate set.
    Vertices from different elements can point to the same
    coordinate set.

    Coordinate sets are implemented as an N x 2 Numeric array containing
    x and y coordinates. 
    

    To instantiate:
       Mesh(coordinates, triangles)

    where

      coordinates is either a list of 2-tuples or an Mx2 Numeric array of
      floats representing all x, y coordinates in the mesh.

      triangles is either a list of 3-tuples or an Nx3 Numeric array of
      integers representing indices of all vertices in the mesh.
      Each vertex is identified by its index i in [0, M-1].


    Example:
        a = [0.0, 0.0]
        b = [0.0, 2.0]
        c = [2.0,0.0]
        e = [2.0, 2.0]
        
        points = [a, b, c, e]
        triangles = [ [1,0,2], [1,2,3] ]   #bac, bce 
        mesh = Mesh(points, triangles)
    
        #creates two triangles: bac and bce
        

        This is a cut down version of mesh from pyvolution\mesh.py
    """

    def __init__(self, coordinates, triangles):
        """
        Build triangles from x,y coordinates (sequence of 2-tuples or
        Mx2 Numeric array of floats) and triangles (sequence of 3-tuples
        or Nx3 Numeric array of non-negative integers).
        """

        from Numeric import array, zeros, Int, Float, maximum, sqrt, sum

        self.triangles = array(triangles).astype(Int)
        self.coordinates = array(coordinates)

        #Input checks
        msg = 'Triangles must an Nx2 Numeric array or a sequence of 2-tuples'
        assert len(self.triangles.shape) == 2, msg

        msg = 'Coordinates must an Mx2 Numeric array or a sequence of 2-tuples'
        assert len(self.coordinates.shape) == 2, msg        

        msg = 'Vertex indices reference non-existing coordinate sets'
        assert max(max(self.triangles)) <= self.coordinates.shape[0], msg


        #Register number of elements (N)
        self.number_of_elements = N = self.triangles.shape[0]
    
        #Allocate space for geometric quantities        
        self.normals = zeros((N, 6), Float)
        self.areas = zeros(N, Float)
        self.edgelengths = zeros((N, 3), Float)

        #Get x,y coordinates for all triangles and store
        self.vertex_coordinates = V = self.compute_vertex_coordinates()
        
        #Initialise each triangle
        for i in range(N):
            #if i % (N/10) == 0: print '(%d/%d)' %(i, N)
            
            x0 = V[i, 0]; y0 = V[i, 1]
            x1 = V[i, 2]; y1 = V[i, 3]
            x2 = V[i, 4]; y2 = V[i, 5]            

            #Area
            self.areas[i] = abs((x1*y0-x0*y1)+(x2*y1-x1*y2)+(x0*y2-x2*y0))/2

            msg = 'Triangle (%f,%f), (%f,%f), (%f, %f)' %(x0,y0,x1,y1,x2,y2)
            msg += ' is degenerate:  area == %f' %self.areas[i]
            assert self.areas[i] > 0.0, msg
        

            #Normals
            #The normal vectors
            # - point outward from each edge
            # - are orthogonal to the edge
            # - have unit length
            # - Are enumerated according to the opposite corner:
            #   (First normal is associated with the edge opposite
            #    the first vertex, etc)
            # - Stored as six floats n0x,n0y,n1x,n1y,n2x,n2y per triangle

            n0 = array([x2 - x1, y2 - y1])
            l0 = sqrt(sum(n0**2))

            n1 = array([x0 - x2, y0 - y2])
            l1 = sqrt(sum(n1**2))

            n2 = array([x1 - x0, y1 - y0])
            l2 = sqrt(sum(n2**2))

            #Normalise
            n0 /= l0
            n1 /= l1
            n2 /= l2

            #Compute and store
            self.normals[i, :] = [n0[1], -n0[0],
                                  n1[1], -n1[0],
                                  n2[1], -n2[0]]
            
            #Edgelengths
            self.edgelengths[i, :] = [l0, l1, l2]

        #Build vertex list
        self.build_vertexlist()        
            
    def __len__(self):
        return self.number_of_elements

    def __repr__(self):
        return 'Mesh: %d triangles, %d elements'\
               %(self.coordinates.shape[0], len(self))

    def get_normals(self):
        """Return all normal vectors.
        Return normal vectors for all triangles as an Nx6 array
        (ordered as x0, y0, x1, y1, x2, y2 for each triangle)        
        """
        return self.normals


    def get_normal(self, i, j):
        """Return normal vector j of the i'th triangle.
        Return value is the numeric array slice [x, y]
        """
        return self.normals[i, 2*j:2*j+2]     
    

            
    def get_vertex_coordinates(self):
        """Return all vertex coordinates.
        Return all vertex coordinates for all triangles as an Nx6 array
        (ordered as x0, y0, x1, y1, x2, y2 for each triangle)        
        """
        return self.vertex_coordinates


    def get_vertex_coordinate(self, i, j):
        """Return coordinates for vertex j of the i'th triangle.
        Return value is the numeric array slice [x, y]
        """
        return self.vertex_coordinates[i, 2*j:2*j+2]     


    def compute_vertex_coordinates(self):
        """Return vertex coordinates for all triangles as an Nx6 array
        (ordered as x0, y0, x1, y1, x2, y2 for each triangle)
        """

        #FIXME: Perhaps they should be ordered as in obj files??
        #See quantity.get_vertex_values
        
        from Numeric import zeros, Float

        N = self.number_of_elements
        vertex_coordinates = zeros((N, 6), Float) 

        for i in range(N):
            for j in range(3):
                k = self.triangles[i,j]  #Index of vertex 0
                v_k = self.coordinates[k]
                vertex_coordinates[i, 2*j+0] = v_k[0]
                vertex_coordinates[i, 2*j+1] = v_k[1]

        return vertex_coordinates
    
    def get_vertices(self,  indexes=None):
        """Get connectivity
        indexes is the set of element ids of interest
        """
        
        from Numeric import take
        
        if (indexes ==  None):
            indexes = range(len(self))
            
        return  take(self.triangles, indexes)
    
    def build_vertexlist(self):
        """Build vertexlist index by vertex ids and for each entry (point id)
        build a list of (triangles, vertex_id) pairs that use the point
        as vertex.

        Preconditions:
          self.coordinates and self.triangles are defined  
        
        Postcondition:
          self.vertexlist is built
        """

        vertexlist = [None]*len(self.coordinates)
        for i in range(self.number_of_elements):

            a = self.triangles[i, 0]
            b = self.triangles[i, 1]
            c = self.triangles[i, 2]            

            #Register the vertices v as lists of
            #(triangle_id, vertex_id) tuples associated with them
            #This is used for smoothing
            for vertex_id, v in enumerate([a,b,c]):
                if vertexlist[v] is None:
                    vertexlist[v] = []

                vertexlist[v].append( (i, vertex_id) )    

        self.vertexlist = vertexlist