diff options
Diffstat (limited to 'numpy/random/_examples')
-rw-r--r-- | numpy/random/_examples/cython/extending.pyx | 78 | ||||
-rw-r--r-- | numpy/random/_examples/cython/extending_distributions.pyx | 63 | ||||
-rw-r--r-- | numpy/random/_examples/cython/setup.py | 32 | ||||
-rw-r--r-- | numpy/random/_examples/numba/extending.py | 84 | ||||
-rw-r--r-- | numpy/random/_examples/numba/extending_distributions.py | 61 |
5 files changed, 318 insertions, 0 deletions
diff --git a/numpy/random/_examples/cython/extending.pyx b/numpy/random/_examples/cython/extending.pyx new file mode 100644 index 000000000..2a866648d --- /dev/null +++ b/numpy/random/_examples/cython/extending.pyx @@ -0,0 +1,78 @@ +#!/usr/bin/env python +#cython: language_level=3 + +from libc.stdint cimport uint32_t +from cpython.pycapsule cimport PyCapsule_IsValid, PyCapsule_GetPointer + +import numpy as np +cimport numpy as np +cimport cython + +from numpy.random._bit_generator cimport bitgen_t +from numpy.random import PCG64 + +np.import_array() + + +@cython.boundscheck(False) +@cython.wraparound(False) +def uniform_mean(Py_ssize_t n): + cdef Py_ssize_t i + cdef bitgen_t *rng + cdef const char *capsule_name = "BitGenerator" + cdef double[::1] random_values + cdef np.ndarray randoms + + x = PCG64() + capsule = x.capsule + if not PyCapsule_IsValid(capsule, capsule_name): + raise ValueError("Invalid pointer to anon_func_state") + rng = <bitgen_t *> PyCapsule_GetPointer(capsule, capsule_name) + random_values = np.empty(n) + # Best practice is to acquire the lock whenever generating random values. + # This prevents other threads from modifying the state. Acquiring the lock + # is only necessary if if the GIL is also released, as in this example. + with x.lock, nogil: + for i in range(n): + random_values[i] = rng.next_double(rng.state) + randoms = np.asarray(random_values) + return randoms.mean() + + +# This function is declated nogil so it can be used without the GIL below +cdef uint32_t bounded_uint(uint32_t lb, uint32_t ub, bitgen_t *rng) nogil: + cdef uint32_t mask, delta, val + mask = delta = ub - lb + mask |= mask >> 1 + mask |= mask >> 2 + mask |= mask >> 4 + mask |= mask >> 8 + mask |= mask >> 16 + + val = rng.next_uint32(rng.state) & mask + while val > delta: + val = rng.next_uint32(rng.state) & mask + + return lb + val + + +@cython.boundscheck(False) +@cython.wraparound(False) +def bounded_uints(uint32_t lb, uint32_t ub, Py_ssize_t n): + cdef Py_ssize_t i + cdef bitgen_t *rng + cdef uint32_t[::1] out + cdef const char *capsule_name = "BitGenerator" + + x = PCG64() + out = np.empty(n, dtype=np.uint32) + capsule = x.capsule + + if not PyCapsule_IsValid(capsule, capsule_name): + raise ValueError("Invalid pointer to anon_func_state") + rng = <bitgen_t *>PyCapsule_GetPointer(capsule, capsule_name) + + with x.lock, nogil: + for i in range(n): + out[i] = bounded_uint(lb, ub, rng) + return np.asarray(out) diff --git a/numpy/random/_examples/cython/extending_distributions.pyx b/numpy/random/_examples/cython/extending_distributions.pyx new file mode 100644 index 000000000..d17da45c1 --- /dev/null +++ b/numpy/random/_examples/cython/extending_distributions.pyx @@ -0,0 +1,63 @@ +#!/usr/bin/env python +#cython: language_level=3 +""" +This file shows how the to use a BitGenerator to create a distribution. +""" +import numpy as np +cimport numpy as np +cimport cython +from cpython.pycapsule cimport PyCapsule_IsValid, PyCapsule_GetPointer +from numpy.random._bit_generator cimport bitgen_t +from numpy.random import PCG64 + + +@cython.boundscheck(False) +@cython.wraparound(False) +def uniforms(Py_ssize_t n): + """ Create an array of `n` uniformly distributed doubles. + A 'real' distribution would want to process the values into + some non-uniform distribution + """ + cdef Py_ssize_t i + cdef bitgen_t *rng + cdef const char *capsule_name = "BitGenerator" + cdef double[::1] random_values + + x = PCG64() + capsule = x.capsule + # Optional check that the capsule if from a BitGenerator + if not PyCapsule_IsValid(capsule, capsule_name): + raise ValueError("Invalid pointer to anon_func_state") + # Cast the pointer + rng = <bitgen_t *> PyCapsule_GetPointer(capsule, capsule_name) + random_values = np.empty(n, dtype='float64') + with x.lock, nogil: + for i in range(n): + # Call the function + random_values[i] = rng.next_double(rng.state) + randoms = np.asarray(random_values) + + return randoms + +# cython example 2 + +@cython.boundscheck(False) +@cython.wraparound(False) +def uint16_uniforms(Py_ssize_t n): + cdef Py_ssize_t i + cdef bitgen_t *rng + cdef const char *capsule_name = "BitGenerator" + cdef double[::1] random_values + + x = PCG64() + capsule = x.capsule + if not PyCapsule_IsValid(capsule, capsule_name): + raise ValueError("Invalid pointer to anon_func_state") + rng = <bitgen_t *> PyCapsule_GetPointer(capsule, capsule_name) + random_values = np.empty(n, dtype='uint32') + # Best practice is to release GIL and acquire the lock + with x.lock, nogil: + for i in range(n): + random_values[i] = rng.next_uint32(rng.state) + randoms = np.asarray(random_values) + return randoms diff --git a/numpy/random/_examples/cython/setup.py b/numpy/random/_examples/cython/setup.py new file mode 100644 index 000000000..315527a2d --- /dev/null +++ b/numpy/random/_examples/cython/setup.py @@ -0,0 +1,32 @@ +#!/usr/bin/env python3 +""" +Build the demos + +Usage: python setup.py build_ext -i +""" + +import numpy as np +from distutils.core import setup +from Cython.Build import cythonize +from setuptools.extension import Extension +from os.path import join, abspath, dirname + +curpath = abspath(dirname(__file__)) + +extending = Extension("extending", + sources=[join(curpath, 'extending.pyx')], + include_dirs=[ + np.get_include(), + join(curpath, '..', '..') + ], + ) +distributions = Extension("extending_distributions", + sources=[join(curpath, 'extending_distributions.pyx'), + ], + include_dirs=[np.get_include()]) + +extensions = [extending, distributions] + +setup( + ext_modules=cythonize(extensions) +) diff --git a/numpy/random/_examples/numba/extending.py b/numpy/random/_examples/numba/extending.py new file mode 100644 index 000000000..0d240596b --- /dev/null +++ b/numpy/random/_examples/numba/extending.py @@ -0,0 +1,84 @@ +import numpy as np +import numba as nb + +from numpy.random import PCG64 +from timeit import timeit + +bit_gen = PCG64() +next_d = bit_gen.cffi.next_double +state_addr = bit_gen.cffi.state_address + +def normals(n, state): + out = np.empty(n) + for i in range((n + 1) // 2): + x1 = 2.0 * next_d(state) - 1.0 + x2 = 2.0 * next_d(state) - 1.0 + r2 = x1 * x1 + x2 * x2 + while r2 >= 1.0 or r2 == 0.0: + x1 = 2.0 * next_d(state) - 1.0 + x2 = 2.0 * next_d(state) - 1.0 + r2 = x1 * x1 + x2 * x2 + f = np.sqrt(-2.0 * np.log(r2) / r2) + out[2 * i] = f * x1 + if 2 * i + 1 < n: + out[2 * i + 1] = f * x2 + return out + +# Compile using Numba +normalsj = nb.jit(normals, nopython=True) +# Must use state address not state with numba +n = 10000 + +def numbacall(): + return normalsj(n, state_addr) + +rg = np.random.Generator(PCG64()) + +def numpycall(): + return rg.normal(size=n) + +# Check that the functions work +r1 = numbacall() +r2 = numpycall() +assert r1.shape == (n,) +assert r1.shape == r2.shape + +t1 = timeit(numbacall, number=1000) +print('{:.2f} secs for {} PCG64 (Numba/PCG64) gaussian randoms'.format(t1, n)) +t2 = timeit(numpycall, number=1000) +print('{:.2f} secs for {} PCG64 (NumPy/PCG64) gaussian randoms'.format(t2, n)) + +# example 2 + +next_u32 = bit_gen.ctypes.next_uint32 +ctypes_state = bit_gen.ctypes.state + +@nb.jit(nopython=True) +def bounded_uint(lb, ub, state): + mask = delta = ub - lb + mask |= mask >> 1 + mask |= mask >> 2 + mask |= mask >> 4 + mask |= mask >> 8 + mask |= mask >> 16 + + val = next_u32(state) & mask + while val > delta: + val = next_u32(state) & mask + + return lb + val + + +print(bounded_uint(323, 2394691, ctypes_state.value)) + + +@nb.jit(nopython=True) +def bounded_uints(lb, ub, n, state): + out = np.empty(n, dtype=np.uint32) + for i in range(n): + out[i] = bounded_uint(lb, ub, state) + + +bounded_uints(323, 2394691, 10000000, ctypes_state.value) + + diff --git a/numpy/random/_examples/numba/extending_distributions.py b/numpy/random/_examples/numba/extending_distributions.py new file mode 100644 index 000000000..9233ccced --- /dev/null +++ b/numpy/random/_examples/numba/extending_distributions.py @@ -0,0 +1,61 @@ +r""" +On *nix, execute in randomgen/src/distributions + +export PYTHON_INCLUDE=#path to Python's include folder, usually \ + ${PYTHON_HOME}/include/python${PYTHON_VERSION}m +export NUMPY_INCLUDE=#path to numpy's include folder, usually \ + ${PYTHON_HOME}/lib/python${PYTHON_VERSION}/site-packages/numpy/core/include +gcc -shared -o libdistributions.so -fPIC distributions.c \ + -I${NUMPY_INCLUDE} -I${PYTHON_INCLUDE} +mv libdistributions.so ../../examples/numba/ + +On Windows + +rem PYTHON_HOME is setup dependent, this is an example +set PYTHON_HOME=c:\Anaconda +cl.exe /LD .\distributions.c -DDLL_EXPORT \ + -I%PYTHON_HOME%\lib\site-packages\numpy\core\include \ + -I%PYTHON_HOME%\include %PYTHON_HOME%\libs\python36.lib +move distributions.dll ../../examples/numba/ +""" +import os + +import numba as nb +import numpy as np +from cffi import FFI + +from numpy.random import PCG64 + +ffi = FFI() +if os.path.exists('./distributions.dll'): + lib = ffi.dlopen('./distributions.dll') +elif os.path.exists('./libdistributions.so'): + lib = ffi.dlopen('./libdistributions.so') +else: + raise RuntimeError('Required DLL/so file was not found.') + +ffi.cdef(""" +double random_gauss_zig(void *bitgen_state); +""") +x = PCG64() +xffi = x.cffi +bit_generator = xffi.bit_generator + +random_gauss_zig = lib.random_gauss_zig + + +def normals(n, bit_generator): + out = np.empty(n) + for i in range(n): + out[i] = random_gauss_zig(bit_generator) + return out + + +normalsj = nb.jit(normals, nopython=True) + +# Numba requires a memory address for void * +# Can also get address from x.ctypes.bit_generator.value +bit_generator_address = int(ffi.cast('uintptr_t', bit_generator)) + +norm = normalsj(1000, bit_generator_address) +print(norm[:12]) |