252 lines
6.5 KiB
Python
Executable File
252 lines
6.5 KiB
Python
Executable File
#!/usr/bin/python
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import sys
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import re
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from collections import defaultdict
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import numpy as np
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import scipy.spatial
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from baker import run_baker, get_phis
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from tools import exact_func
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from smcqdelaunay import *
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class face(object):
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def __init__(self, name):
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self.name = name
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self.verts = []
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self.neighbors = []
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def add_vert(self, v):
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self.verts.append(v)
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def add_neighbor(self, n):
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self.neighbors.append(n)
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def __str__(self):
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neighbors = [i.name for i in self.neighbors]
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return '%s: points: %s neighbors: [%s]' %\
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(
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self.name,
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self.verts,
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", ".join(neighbors)
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)
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class simplex(object):
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def __init__(self, points):
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self.R = points
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def contains(self, X):
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phis = get_phis(X, self.R)
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r = True
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if [i for i in phis if i < 0.0]:
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r = False
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return r
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def __str__(self):
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print type(self.R)
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return "simplex: %d: [%s]" % (len(self.R), ", ".join([str(i) for i in self.R]),)
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class grid(object):
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facet_re = re.compile(r'''
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-\s+(?P<facet>f\d+).*?
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vertices:\s(?P<verts>.*?)\n.*?
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neighboring\s facets:\s+(?P<neigh>[\sf\d]*)
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''', re.S|re.X)
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point_re = re.compile(r'''
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-\s+(?P<point>p\d+).*?
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neighbors:\s+(?P<neigh>[\sf\d]*)
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''', re.S|re.X)
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vert_re = re.compile(r'''
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(p\d+)
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''', re.S|re.X)
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def __init__(self, points, q):
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"""
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this thing eats two pre-constructed arrays of stuff:
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points = array of arrays (i will convert to numpy.array)
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[[x0,y0], [x1,y1], ...]
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q = array (1D) of important values
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"""
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self.points = np.array(points)
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self.q = np.array(q)
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self.tree = scipy.spatial.KDTree(self.points)
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self.faces = {}
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self.facets_for_point = defaultdict(list)
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def get_simplex_and_nearest_points(self, X, extra_points = 3, simplex_size = 3):
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"""
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this returns two grid objects: R and S.
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R is a grid object that is the (a) containing simplex around point X
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S is S_j from baker's paper : some points from all point that are not the simplex
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"""
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(dist, indicies) = self.tree.query(X, 3 + extra_points)
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# get the containing simplex
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R = [self.points[i] for i in indicies[:simplex_size] ]
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Rq = [self.q[i] for i in indicies[:simplex_size] ]
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r_mesh = grid(R, Rq)
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# and some extra points
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S = [self.points[i] for i in indicies[simplex_size:] ]
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Sq = [self.q[i] for i in indicies[simplex_size:] ]
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s_mesh = grid(S, Sq)
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return (r_mesh, s_mesh)
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def run_baker(self, X):
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(R, S) = self.get_simplex_and_nearest_points(X)
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return run_baker(X, R, S)
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def get_points_conn(self, X):
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if not self.faces:
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self.construct_connectivity()
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(dist, indicies) = self.tree.query(X, 3)
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print dist, indicies, [(self.points[i][0], self.points[i][1]) for i in indicies]
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print [i.name for i in self.facets_for_point[indicies[0]]]
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print self.facets_for_point[indicies[0]]
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smplx = simplex([self.points[i] for i in indicies])
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if not smplx.contains(X):
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raise AssertionError('simplex should contain point')
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def construct_connectivity(self):
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"""
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a call to this method prepares the internal connectivity structure.
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this is part of the __init__ for a simple_rect_grid, but can be called from any grid object
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"""
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qdelaunay_string = get_qdelaunay_dump_str(self)
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facet_to_facets = []
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for matcher in grid.facet_re.finditer(qdelaunay_string):
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d = matcher.groupdict()
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facet_name = d['facet']
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verticies = d['verts']
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neighboring_facets = d['neigh']
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cur_face = face(facet_name)
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self.faces[facet_name] = cur_face
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for v in grid.vert_re.findall(verticies):
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vertex_index = int(v[1:])
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cur_face.add_vert(vertex_index)
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self.facets_for_point[vertex_index].append(cur_face)
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nghbrs = [(facet_name, i) for i in neighboring_facets.split()]
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facet_to_facets.extend(nghbrs)
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for rel in facet_to_facets:
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if rel[1] in self.faces:
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self.faces[rel[0]].add_neighbor(self.faces[rel[1]])
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# for matcher in grid.point_re.finditer(qdelaunay_string):
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# d = matcher.groupdict()
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# point = d['point']
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# neighboring_facets = d['neigh']
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# self.facets_for_point[int(point[1:])] = [i for i in neighboring_facets.split() if i in self.faces]
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def for_qhull_generator(self):
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"""
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this returns a generator that should be fed into qdelaunay
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"""
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yield '2';
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yield '%d' % len(self.points)
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for p in self.points:
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yield "%f %f" % (p[0], p[1])
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def for_qhull(self):
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"""
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this returns a single string that should be fed into qdelaunay
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"""
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r = '2\n'
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r += '%d\n' % len(self.points)
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for p in self.points:
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r += "%f %f\n" % (p[0], p[1])
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return r
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def __str__(self):
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r = ''
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assert( len(self.points) == len(self.q) )
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for c, i in enumerate(zip(self.points, self.q)):
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r += "%d %r: %0.4f" % (c,i[0], i[1])
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facet_str = ", ".join([f.name for f in self.facets_for_point[c]])
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r += " faces: [%s]" % facet_str
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r += "\n"
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if self.faces:
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for v in self.faces.itervalues():
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r += "%s\n" % v
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return r
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class simple_rect_grid(grid):
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def __init__(self, xres = 5, yres = 5):
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xmin = -1.0
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xmax = 1.0
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xspan = xmax - xmin
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xdel = xspan / float(xres - 1)
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ymin = -1.0
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ymay = 1.0
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yspan = ymay - ymin
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ydel = yspan / float(yres - 1)
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points = []
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q = []
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for x in xrange(xres):
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cur_x = xmin + (x * xdel)
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for y in xrange(yres):
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cur_y = ymin + (y * ydel)
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points.append([cur_x, cur_y])
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q.append(exact_func(cur_x, cur_y))
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grid.__init__(self, points, q)
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self.construct_connectivity()
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class simple_random_grid(simple_rect_grid):
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def __init__(self, num_points = 10):
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points = []
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q = []
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r = np.random
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for i in xrange(num_points):
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cur_x = r.rand()
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cur_y = r.rand()
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points.append([cur_x, cur_y])
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q.append(exact_func(cur_x, cur_y))
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grid.__init__(self, points, q)
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self.points = np.array(self.points)
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self.q = np.array(self.q)
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if __name__ == '__main__':
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try:
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resolution = int(sys.argv[1])
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except:
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resolution = 10
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g = simple_rect_grid(resolution, resolution)
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print g.for_qhull()
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