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#/*##########################################################################
#
# The PyMca X-Ray Fluorescence Toolkit
#
# Copyright (c) 2004-2015 European Synchrotron Radiation Facility
#
# This file is part of the PyMca X-ray Fluorescence Toolkit developed at
# the ESRF by the Software group.
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE.
#
#############################################################################*/
import cython
import numpy
cimport numpy
import threading
cimport qhull as _qhull
# From numpy_common.pxi to avoid warnings while compiling C code
# See this thread:
# https://mail.python.org/pipermail//cython-devel/2012-March/002137.html
cdef extern from *:
bint FALSE "0"
void import_array()
void import_umath()
if FALSE:
import_array()
import_umath()
# Version string
__version__ = _qhull.qh_version
_errors = {
_qhull.qh_ERRinput: RuntimeError('qhull input inconsistency'),
_qhull.qh_ERRsingular: ArithmeticError('qhull singluar input data'),
_qhull.qh_ERRprec: ArithmeticError('qhull precision error'),
_qhull.qh_ERRmem: MemoryError('qhull insufficient memory'),
_qhull.qh_ERRqhull: RuntimeError('qhull internal error'),
}
cdef unsigned int nbDelaunayFacets():
# Corresponding C code:
# unsigned int get_num_delaunay_facets(void) {
# unsigned int nbFacets = 0;
# facetT * facet;
# FORALLfacets {
# if (!(facet->upperdelaunay)) {
# nbFacets++;
# }
# }
# return nbFacets;
# }
cdef _qhull.facetT * facet
cdef unsigned int nbFacets = 0
# FORALLfacets
facet = _qhull.qh_qh.facet_list
while facet != NULL and facet.next != NULL:
if not facet.upperdelaunay:
nbFacets += 1
facet = facet.next
return nbFacets
@cython.boundscheck(False)
@cython.wraparound(False)
cdef void setDelaunayIndices(unsigned int[:] c_indices):
# Corresponding C code
# void set_delaunay_indices(unsigned int * indices) {
# facetT * facet;
# vertexT * vertex, **vertexp;
# FORALLfacets {
# if (!facet->upperdelaunay) {
# FOREACHvertex_(facet->vertices) {
# *(indices++) = qh_pointid(vertex->point);
# }
# }
# }
# }
cdef _qhull.facetT * facet
cdef _qhull.vertexT * vertex
cdef unsigned int indicesIndex = 0
cdef unsigned int setIndex
# FORALLfacets
facet = _qhull.qh_qh.facet_list
while facet != NULL and facet.next != NULL:
if not facet.upperdelaunay:
# FOREACHvertex_
if facet.vertices != NULL:
for setIndex in range(facet.vertices.maxsize):
vertex = <_qhull.vertexT *>(facet.vertices.e[setIndex].p)
if vertex == NULL:
break
c_indices[indicesIndex] = _qhull.qh_pointid(vertex.point)
indicesIndex += 1
facet = facet.next
# Avoid concurrent use of the qhull library
_qhull_lock = threading.Lock()
@cython.boundscheck(False)
@cython.wraparound(False)
def delaunay(numpy.ndarray[_qhull.realT, ndim=2, mode='c'] points, command):
"""Delaunay triangulation using qhull library.
:param points: numpy.ndarray of points to triangulate.
Array must be of dimension 2.
The second dimension being the dimension of the space.
:param str command: 'qhull d' command to run
:returns: Index of simplex facets corners.
:rtype: numpy.ndarray of uint32 of dimension: nbFacets x (points dim + 1).
"""
cdef int dimension = points.shape[1]
cdef _qhull.coordT[:] c_points = numpy.ravel(points)
cdef char * c_command = command
#_qhull_lock.acquire()
cdef int result = _qhull.qh_new_qhull(dimension,
len(points),
&c_points[0],
False,
&c_command[0],
NULL,
_qhull.stderr)
if result != _qhull.qh_ERRnone:
_qhull.qh_freeqhull(_qhull.qh_ALL) # Free qhull resources
#_qhull_lock.release()
raise _errors[result]
# Get number of facets
cdef unsigned int nbFacets = nbDelaunayFacets()
if nbFacets == 0:
_qhull.qh_freeqhull(_qhull.qh_ALL) # Free qhull resources
#_qhull_lock.release()
return numpy.array((), dtype=numpy.uint32)
# Get facets' indices
indices = numpy.empty((nbFacets, dimension + 1), dtype=numpy.uint32)
cdef unsigned int[:] c_indices = indices.ravel()
setDelaunayIndices(c_indices)
# Free qhull resources
_qhull.qh_freeqhull(_qhull.qh_ALL)
#_qhull_lock.release()
return indices
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