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1 | 1 | # -*- coding: utf-8 -*- |
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2 | 2 | """ |
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3 | 3 | ===================== |
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4 | 4 | Cython related magics |
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5 | 5 | ===================== |
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6 | 6 | |
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7 | 7 | Magic command interface for interactive work with Cython |
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8 | 8 | |
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9 | 9 | .. note:: |
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10 | 10 | |
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11 | 11 | The ``Cython`` package needs to be installed separately. It |
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12 | 12 | can be obtained using ``easy_install`` or ``pip``. |
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13 | 13 | |
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14 | 14 | Usage |
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15 | 15 | ===== |
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16 | 16 | |
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17 | 17 | To enable the magics below, execute ``%load_ext cythonmagic``. |
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18 | 18 | |
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19 | 19 | ``%%cython`` |
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20 | 20 | |
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21 | 21 | {CYTHON_DOC} |
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22 | 22 | |
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23 | 23 | ``%%cython_inline`` |
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24 | 24 | |
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25 | 25 | {CYTHON_INLINE_DOC} |
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26 | 26 | |
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27 | 27 | ``%%cython_pyximport`` |
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28 | 28 | |
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29 | 29 | {CYTHON_PYXIMPORT_DOC} |
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30 | 30 | |
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31 | 31 | Author: |
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32 | 32 | * Brian Granger |
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33 | 33 | |
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34 | 34 | Parts of this code were taken from Cython.inline. |
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35 | 35 | """ |
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36 | 36 | #----------------------------------------------------------------------------- |
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37 | 37 | # Copyright (C) 2010-2011, IPython Development Team. |
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38 | 38 | # |
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39 | 39 | # Distributed under the terms of the Modified BSD License. |
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40 | 40 | # |
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41 | 41 | # The full license is in the file COPYING.txt, distributed with this software. |
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42 | 42 | #----------------------------------------------------------------------------- |
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43 | 43 | |
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44 | 44 | from __future__ import print_function |
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45 | 45 | |
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46 | 46 | import imp |
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47 | 47 | import io |
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48 | 48 | import os |
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49 | 49 | import re |
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50 | 50 | import sys |
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51 | 51 | import time |
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52 | 52 | |
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53 | 53 | try: |
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54 | 54 | reload |
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55 | 55 | except NameError: # Python 3 |
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56 | 56 | from imp import reload |
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57 | 57 | |
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58 | 58 | try: |
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59 | 59 | import hashlib |
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60 | 60 | except ImportError: |
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61 | 61 | import md5 as hashlib |
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62 | 62 | |
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63 | 63 | from distutils.core import Distribution, Extension |
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64 | 64 | from distutils.command.build_ext import build_ext |
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65 | 65 | |
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66 | 66 | from IPython.core import display |
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67 | 67 | from IPython.core import magic_arguments |
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68 | 68 | from IPython.core.magic import Magics, magics_class, cell_magic |
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69 | 69 | from IPython.utils import py3compat |
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70 | 70 | from IPython.utils.path import get_ipython_cache_dir |
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71 | 71 | |
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72 | 72 | import Cython |
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73 | 73 | from Cython.Compiler.Errors import CompileError |
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74 | 74 | from Cython.Build.Dependencies import cythonize |
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75 | 75 | |
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76 | 76 | |
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77 | 77 | @magics_class |
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78 | 78 | class CythonMagics(Magics): |
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79 | 79 | |
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80 | 80 | def __init__(self, shell): |
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81 | 81 | super(CythonMagics,self).__init__(shell) |
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82 | 82 | self._reloads = {} |
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83 | 83 | self._code_cache = {} |
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84 | 84 | |
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85 | 85 | def _import_all(self, module): |
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86 | 86 | for k,v in module.__dict__.items(): |
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87 | 87 | if not k.startswith('__'): |
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88 | 88 | self.shell.push({k:v}) |
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89 | 89 | |
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90 | 90 | @cell_magic |
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91 | 91 | def cython_inline(self, line, cell): |
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92 | 92 | """Compile and run a Cython code cell using Cython.inline. |
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93 | 93 | |
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94 | 94 | This magic simply passes the body of the cell to Cython.inline |
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95 | 95 | and returns the result. If the variables `a` and `b` are defined |
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96 | 96 | in the user's namespace, here is a simple example that returns |
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97 | 97 | their sum:: |
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98 | 98 | |
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99 | 99 | %%cython_inline |
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100 | 100 | return a+b |
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101 | 101 | |
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102 | 102 | For most purposes, we recommend the usage of the `%%cython` magic. |
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103 | 103 | """ |
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104 | 104 | locs = self.shell.user_global_ns |
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105 | 105 | globs = self.shell.user_ns |
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106 | 106 | return Cython.inline(cell, locals=locs, globals=globs) |
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107 | 107 | |
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108 | 108 | @cell_magic |
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109 | 109 | def cython_pyximport(self, line, cell): |
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110 | 110 | """Compile and import a Cython code cell using pyximport. |
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111 | 111 | |
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112 | 112 | The contents of the cell are written to a `.pyx` file in the current |
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113 | 113 | working directory, which is then imported using `pyximport`. This |
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114 | 114 | magic requires a module name to be passed:: |
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115 | 115 | |
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116 | 116 | %%cython_pyximport modulename |
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117 | 117 | def f(x): |
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118 | 118 | return 2.0*x |
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119 | 119 | |
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120 | 120 | The compiled module is then imported and all of its symbols are |
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121 | 121 | injected into the user's namespace. For most purposes, we recommend |
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122 | 122 | the usage of the `%%cython` magic. |
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123 | 123 | """ |
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124 | 124 | module_name = line.strip() |
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125 | 125 | if not module_name: |
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126 | 126 | raise ValueError('module name must be given') |
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127 | 127 | fname = module_name + '.pyx' |
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128 | 128 | with io.open(fname, 'w', encoding='utf-8') as f: |
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129 | 129 | f.write(cell) |
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130 | 130 | if 'pyximport' not in sys.modules: |
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131 | 131 | import pyximport |
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132 | 132 | pyximport.install(reload_support=True) |
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133 | 133 | if module_name in self._reloads: |
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134 | 134 | module = self._reloads[module_name] |
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135 | 135 | reload(module) |
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136 | 136 | else: |
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137 | 137 | __import__(module_name) |
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138 | 138 | module = sys.modules[module_name] |
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139 | 139 | self._reloads[module_name] = module |
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140 | 140 | self._import_all(module) |
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141 | 141 | |
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142 | 142 | @magic_arguments.magic_arguments() |
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143 | 143 | @magic_arguments.argument( |
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144 | 144 | '-c', '--compile-args', action='append', default=[], |
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145 | 145 | help="Extra flags to pass to compiler via the `extra_compile_args` " |
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146 | 146 | "Extension flag (can be specified multiple times)." |
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147 | 147 | ) |
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148 | 148 | @magic_arguments.argument( |
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149 | 149 | '--link-args', action='append', default=[], |
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150 | 150 | help="Extra flags to pass to linker via the `extra_link_args` " |
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151 | 151 | "Extension flag (can be specified multiple times)." |
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152 | 152 | ) |
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153 | 153 | @magic_arguments.argument( |
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154 | 154 | '-l', '--lib', action='append', default=[], |
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155 | 155 | help="Add a library to link the extension against (can be specified " |
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156 | 156 | "multiple times)." |
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157 | 157 | ) |
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158 | 158 | @magic_arguments.argument( |
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159 | 159 | '-n', '--name', |
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160 | 160 | help="Specify a name for the Cython module." |
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161 | 161 | ) |
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162 | 162 | @magic_arguments.argument( |
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163 | 163 | '-L', dest='library_dirs', metavar='dir', action='append', default=[], |
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164 | 164 | help="Add a path to the list of libary directories (can be specified " |
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165 | 165 | "multiple times)." |
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166 | 166 | ) |
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167 | 167 | @magic_arguments.argument( |
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168 | 168 | '-I', '--include', action='append', default=[], |
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169 | 169 | help="Add a path to the list of include directories (can be specified " |
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170 | 170 | "multiple times)." |
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171 | 171 | ) |
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172 | 172 | @magic_arguments.argument( |
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173 | 173 | '-+', '--cplus', action='store_true', default=False, |
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174 | 174 | help="Output a C++ rather than C file." |
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175 | 175 | ) |
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176 | 176 | @magic_arguments.argument( |
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177 | 177 | '-f', '--force', action='store_true', default=False, |
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178 | 178 | help="Force the compilation of a new module, even if the source has been " |
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179 | 179 | "previously compiled." |
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180 | 180 | ) |
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181 | 181 | @magic_arguments.argument( |
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182 | 182 | '-a', '--annotate', action='store_true', default=False, |
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183 | 183 | help="Produce a colorized HTML version of the source." |
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184 | 184 | ) |
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185 | 185 | @cell_magic |
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186 | 186 | def cython(self, line, cell): |
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187 | 187 | """Compile and import everything from a Cython code cell. |
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188 | 188 | |
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189 | 189 | The contents of the cell are written to a `.pyx` file in the |
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190 | 190 | directory `IPYTHONDIR/cython` using a filename with the hash of the |
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191 | 191 | code. This file is then cythonized and compiled. The resulting module |
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192 | 192 | is imported and all of its symbols are injected into the user's |
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193 | 193 | namespace. The usage is similar to that of `%%cython_pyximport` but |
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194 | 194 | you don't have to pass a module name:: |
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195 | 195 | |
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196 | 196 | %%cython |
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197 | 197 | def f(x): |
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198 | 198 | return 2.0*x |
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199 | 199 | |
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200 | 200 | To compile OpenMP codes, pass the required `--compile-args` |
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201 | 201 | and `--link-args`. For example with gcc:: |
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202 | 202 | |
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203 | 203 | %%cython --compile-args=-fopenmp --link-args=-fopenmp |
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204 | 204 | ... |
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205 | 205 | """ |
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206 | 206 | args = magic_arguments.parse_argstring(self.cython, line) |
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207 | 207 | code = cell if cell.endswith('\n') else cell+'\n' |
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208 | 208 | lib_dir = os.path.join(get_ipython_cache_dir(), 'cython') |
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209 | 209 | quiet = True |
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210 | 210 | key = code, sys.version_info, sys.executable, Cython.__version__ |
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211 | 211 | |
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212 | 212 | if not os.path.exists(lib_dir): |
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213 | 213 | os.makedirs(lib_dir) |
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214 | 214 | |
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215 | 215 | if args.force: |
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216 | 216 | # Force a new module name by adding the current time to the |
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217 | 217 | # key which is hashed to determine the module name. |
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218 | 218 | key += time.time(), |
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219 | 219 | |
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220 | 220 | if args.name: |
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221 | module_name = str(args.name) | |
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221 | module_name = py3compat.unicode_to_str(args.name) | |
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222 | 222 | else: |
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223 | 223 | module_name = "_cython_magic_" + hashlib.md5(str(key).encode('utf-8')).hexdigest() |
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224 | 224 | module_path = os.path.join(lib_dir, module_name + self.so_ext) |
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225 | 225 | |
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226 | 226 | have_module = os.path.isfile(module_path) |
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227 | 227 | need_cythonize = not have_module |
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228 | 228 | |
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229 | 229 | if args.annotate: |
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230 | 230 | html_file = os.path.join(lib_dir, module_name + '.html') |
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231 | 231 | if not os.path.isfile(html_file): |
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232 | 232 | need_cythonize = True |
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233 | 233 | |
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234 | 234 | if need_cythonize: |
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235 | 235 | c_include_dirs = args.include |
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236 | 236 | if 'numpy' in code: |
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237 | 237 | import numpy |
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238 | 238 | c_include_dirs.append(numpy.get_include()) |
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239 | 239 | pyx_file = os.path.join(lib_dir, module_name + '.pyx') |
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240 | 240 | pyx_file = py3compat.cast_bytes_py2(pyx_file, encoding=sys.getfilesystemencoding()) |
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241 | 241 | with io.open(pyx_file, 'w', encoding='utf-8') as f: |
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242 | 242 | f.write(code) |
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243 | 243 | extension = Extension( |
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244 | 244 | name = module_name, |
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245 | 245 | sources = [pyx_file], |
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246 | 246 | include_dirs = c_include_dirs, |
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247 | 247 | library_dirs = args.library_dirs, |
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248 | 248 | extra_compile_args = args.compile_args, |
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249 | 249 | extra_link_args = args.link_args, |
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250 | 250 | libraries = args.lib, |
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251 | 251 | language = 'c++' if args.cplus else 'c', |
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252 | 252 | ) |
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253 | 253 | build_extension = self._get_build_extension() |
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254 | 254 | try: |
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255 | 255 | opts = dict( |
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256 | 256 | quiet=quiet, |
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257 | 257 | annotate = args.annotate, |
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258 | 258 | force = True, |
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259 | 259 | ) |
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260 | 260 | build_extension.extensions = cythonize([extension], **opts) |
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261 | 261 | except CompileError: |
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262 | 262 | return |
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263 | 263 | |
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264 | 264 | if not have_module: |
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265 | 265 | build_extension.build_temp = os.path.dirname(pyx_file) |
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266 | 266 | build_extension.build_lib = lib_dir |
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267 | 267 | build_extension.run() |
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268 | 268 | self._code_cache[key] = module_name |
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269 | 269 | |
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270 | 270 | module = imp.load_dynamic(module_name, module_path) |
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271 | 271 | self._import_all(module) |
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272 | 272 | |
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273 | 273 | if args.annotate: |
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274 | 274 | try: |
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275 | 275 | with io.open(html_file, encoding='utf-8') as f: |
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276 | 276 | annotated_html = f.read() |
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277 | 277 | except IOError as e: |
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278 | 278 | # File could not be opened. Most likely the user has a version |
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279 | 279 | # of Cython before 0.15.1 (when `cythonize` learned the |
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280 | 280 | # `force` keyword argument) and has already compiled this |
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281 | 281 | # exact source without annotation. |
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282 | 282 | print('Cython completed successfully but the annotated ' |
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283 | 283 | 'source could not be read.', file=sys.stderr) |
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284 | 284 | print(e, file=sys.stderr) |
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285 | 285 | else: |
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286 | 286 | return display.HTML(self.clean_annotated_html(annotated_html)) |
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287 | 287 | |
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288 | 288 | @property |
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289 | 289 | def so_ext(self): |
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290 | 290 | """The extension suffix for compiled modules.""" |
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291 | 291 | try: |
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292 | 292 | return self._so_ext |
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293 | 293 | except AttributeError: |
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294 | 294 | self._so_ext = self._get_build_extension().get_ext_filename('') |
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295 | 295 | return self._so_ext |
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296 | 296 | |
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297 | 297 | def _clear_distutils_mkpath_cache(self): |
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298 | 298 | """clear distutils mkpath cache |
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299 | 299 | |
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300 | 300 | prevents distutils from skipping re-creation of dirs that have been removed |
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301 | 301 | """ |
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302 | 302 | try: |
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303 | 303 | from distutils.dir_util import _path_created |
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304 | 304 | except ImportError: |
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305 | 305 | pass |
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306 | 306 | else: |
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307 | 307 | _path_created.clear() |
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308 | 308 | |
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309 | 309 | def _get_build_extension(self): |
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310 | 310 | self._clear_distutils_mkpath_cache() |
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311 | 311 | dist = Distribution() |
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312 | 312 | config_files = dist.find_config_files() |
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313 | 313 | try: |
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314 | 314 | config_files.remove('setup.cfg') |
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315 | 315 | except ValueError: |
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316 | 316 | pass |
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317 | 317 | dist.parse_config_files(config_files) |
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318 | 318 | build_extension = build_ext(dist) |
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319 | 319 | build_extension.finalize_options() |
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320 | 320 | return build_extension |
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321 | 321 | |
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322 | 322 | @staticmethod |
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323 | 323 | def clean_annotated_html(html): |
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324 | 324 | """Clean up the annotated HTML source. |
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325 | 325 | |
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326 | 326 | Strips the link to the generated C or C++ file, which we do not |
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327 | 327 | present to the user. |
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328 | 328 | """ |
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329 | 329 | r = re.compile('<p>Raw output: <a href="(.*)">(.*)</a>') |
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330 | 330 | html = '\n'.join(l for l in html.splitlines() if not r.match(l)) |
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331 | 331 | return html |
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332 | 332 | |
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333 | 333 | __doc__ = __doc__.format( |
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334 | 334 | CYTHON_DOC = ' '*8 + CythonMagics.cython.__doc__, |
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335 | 335 | CYTHON_INLINE_DOC = ' '*8 + CythonMagics.cython_inline.__doc__, |
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336 | 336 | CYTHON_PYXIMPORT_DOC = ' '*8 + CythonMagics.cython_pyximport.__doc__, |
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337 | 337 | ) |
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338 | 338 | |
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339 | 339 | def load_ipython_extension(ip): |
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340 | 340 | """Load the extension in IPython.""" |
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341 | 341 | ip.register_magics(CythonMagics) |
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