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@@ -1,231 +1,244 b'' | |||||
1 | # -*- coding: utf-8 -*- |
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1 | # -*- coding: utf-8 -*- | |
2 | """ |
|
2 | """ | |
3 | Cython related magics. |
|
3 | Cython related magics. | |
4 |
|
4 | |||
5 | Author: |
|
5 | Author: | |
6 | * Brian Granger |
|
6 | * Brian Granger | |
7 |
|
7 | |||
8 | Parts of this code were taken from Cython.inline. |
|
8 | Parts of this code were taken from Cython.inline. | |
9 | """ |
|
9 | """ | |
10 | #----------------------------------------------------------------------------- |
|
10 | #----------------------------------------------------------------------------- | |
11 | # Copyright (C) 2010-2011, IPython Development Team. |
|
11 | # Copyright (C) 2010-2011, IPython Development Team. | |
12 | # |
|
12 | # | |
13 | # Distributed under the terms of the Modified BSD License. |
|
13 | # Distributed under the terms of the Modified BSD License. | |
14 | # |
|
14 | # | |
15 | # The full license is in the file COPYING.txt, distributed with this software. |
|
15 | # The full license is in the file COPYING.txt, distributed with this software. | |
16 | #----------------------------------------------------------------------------- |
|
16 | #----------------------------------------------------------------------------- | |
17 |
|
17 | |||
18 | from __future__ import print_function |
|
18 | from __future__ import print_function | |
19 |
|
19 | |||
20 | import io |
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|||
21 | import os, sys |
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|||
22 | import imp |
|
20 | import imp | |
|
21 | import io | |||
|
22 | import os | |||
|
23 | import sys | |||
23 |
|
24 | |||
24 | try: |
|
25 | try: | |
25 | import hashlib |
|
26 | import hashlib | |
26 | except ImportError: |
|
27 | except ImportError: | |
27 | import md5 as hashlib |
|
28 | import md5 as hashlib | |
28 |
|
29 | |||
29 | from distutils.core import Distribution, Extension |
|
30 | from distutils.core import Distribution, Extension | |
30 | from distutils.command.build_ext import build_ext |
|
31 | from distutils.command.build_ext import build_ext | |
31 |
|
32 | |||
32 | from IPython.core import display |
|
33 | from IPython.core import display | |
33 | from IPython.core import magic_arguments |
|
34 | from IPython.core import magic_arguments | |
34 | from IPython.core.magic import Magics, magics_class, cell_magic |
|
35 | from IPython.core.magic import Magics, magics_class, cell_magic | |
35 | from IPython.testing.skipdoctest import skip_doctest |
|
36 | from IPython.testing.skipdoctest import skip_doctest | |
36 | from IPython.utils import py3compat |
|
37 | from IPython.utils import py3compat | |
37 |
|
38 | |||
38 | import Cython |
|
39 | import Cython | |
39 | from Cython.Compiler.Errors import CompileError |
|
40 | from Cython.Compiler.Errors import CompileError | |
40 | from Cython.Build.Dependencies import cythonize |
|
41 | from Cython.Build.Dependencies import cythonize | |
41 |
|
42 | |||
42 |
|
43 | |||
43 | @magics_class |
|
44 | @magics_class | |
44 | class CythonMagics(Magics): |
|
45 | class CythonMagics(Magics): | |
45 |
|
46 | |||
46 | def __init__(self, shell): |
|
47 | def __init__(self, shell): | |
47 | super(CythonMagics,self).__init__(shell) |
|
48 | super(CythonMagics,self).__init__(shell) | |
48 | self._reloads = {} |
|
49 | self._reloads = {} | |
49 | self._code_cache = {} |
|
50 | self._code_cache = {} | |
50 |
|
51 | |||
51 | def _import_all(self, module): |
|
52 | def _import_all(self, module): | |
52 | for k,v in module.__dict__.items(): |
|
53 | for k,v in module.__dict__.items(): | |
53 | if not k.startswith('__'): |
|
54 | if not k.startswith('__'): | |
54 | self.shell.push({k:v}) |
|
55 | self.shell.push({k:v}) | |
55 |
|
56 | |||
56 | @cell_magic |
|
57 | @cell_magic | |
57 | def cython_inline(self, line, cell): |
|
58 | def cython_inline(self, line, cell): | |
58 | """Compile and run a Cython code cell using Cython.inline. |
|
59 | """Compile and run a Cython code cell using Cython.inline. | |
59 |
|
60 | |||
60 | This magic simply passes the body of the cell to Cython.inline |
|
61 | This magic simply passes the body of the cell to Cython.inline | |
61 | and returns the result. If the variables `a` and `b` are defined |
|
62 | and returns the result. If the variables `a` and `b` are defined | |
62 | in the user's namespace, here is a simple example that returns |
|
63 | in the user's namespace, here is a simple example that returns | |
63 | their sum:: |
|
64 | their sum:: | |
64 |
|
65 | |||
65 | %%cython_inline |
|
66 | %%cython_inline | |
66 | return a+b |
|
67 | return a+b | |
67 |
|
68 | |||
68 | For most purposes, we recommend the usage of the `%%cython` magic. |
|
69 | For most purposes, we recommend the usage of the `%%cython` magic. | |
69 | """ |
|
70 | """ | |
70 | locs = self.shell.user_global_ns |
|
71 | locs = self.shell.user_global_ns | |
71 | globs = self.shell.user_ns |
|
72 | globs = self.shell.user_ns | |
72 | return Cython.inline(cell, locals=locs, globals=globs) |
|
73 | return Cython.inline(cell, locals=locs, globals=globs) | |
73 |
|
74 | |||
74 | @cell_magic |
|
75 | @cell_magic | |
75 | def cython_pyximport(self, line, cell): |
|
76 | def cython_pyximport(self, line, cell): | |
76 | """Compile and import a Cython code cell using pyximport. |
|
77 | """Compile and import a Cython code cell using pyximport. | |
77 |
|
78 | |||
78 | The contents of the cell are written to a `.pyx` file in the current |
|
79 | The contents of the cell are written to a `.pyx` file in the current | |
79 | working directory, which is then imported using `pyximport`. This |
|
80 | working directory, which is then imported using `pyximport`. This | |
80 | magic requires a module name to be passed:: |
|
81 | magic requires a module name to be passed:: | |
81 |
|
82 | |||
82 | %%cython_pyximport modulename |
|
83 | %%cython_pyximport modulename | |
83 | def f(x): |
|
84 | def f(x): | |
84 | return 2.0*x |
|
85 | return 2.0*x | |
85 |
|
86 | |||
86 | The compiled module is then imported and all of its symbols are |
|
87 | The compiled module is then imported and all of its symbols are | |
87 | injected into the user's namespace. For most purposes, we recommend |
|
88 | injected into the user's namespace. For most purposes, we recommend | |
88 | the usage of the `%%cython` magic. |
|
89 | the usage of the `%%cython` magic. | |
89 | """ |
|
90 | """ | |
90 | module_name = line.strip() |
|
91 | module_name = line.strip() | |
91 | if not module_name: |
|
92 | if not module_name: | |
92 | raise ValueError('module name must be given') |
|
93 | raise ValueError('module name must be given') | |
93 | fname = module_name + '.pyx' |
|
94 | fname = module_name + '.pyx' | |
94 | with io.open(fname, 'w', encoding='utf-8') as f: |
|
95 | with io.open(fname, 'w', encoding='utf-8') as f: | |
95 | f.write(cell) |
|
96 | f.write(cell) | |
96 | if 'pyximport' not in sys.modules: |
|
97 | if 'pyximport' not in sys.modules: | |
97 | import pyximport |
|
98 | import pyximport | |
98 | pyximport.install(reload_support=True) |
|
99 | pyximport.install(reload_support=True) | |
99 | if module_name in self._reloads: |
|
100 | if module_name in self._reloads: | |
100 | module = self._reloads[module_name] |
|
101 | module = self._reloads[module_name] | |
101 | reload(module) |
|
102 | reload(module) | |
102 | else: |
|
103 | else: | |
103 | __import__(module_name) |
|
104 | __import__(module_name) | |
104 | module = sys.modules[module_name] |
|
105 | module = sys.modules[module_name] | |
105 | self._reloads[module_name] = module |
|
106 | self._reloads[module_name] = module | |
106 | self._import_all(module) |
|
107 | self._import_all(module) | |
107 |
|
108 | |||
108 | @magic_arguments.magic_arguments() |
|
109 | @magic_arguments.magic_arguments() | |
109 | @magic_arguments.argument( |
|
110 | @magic_arguments.argument( | |
110 | '-c', '--compile-args', action='append', default=[], |
|
111 | '-c', '--compile-args', action='append', default=[], | |
111 | help="Extra flags to pass to compiler via the `extra_compile_args` " |
|
112 | help="Extra flags to pass to compiler via the `extra_compile_args` " | |
112 | "Extension flag (can be specified multiple times)." |
|
113 | "Extension flag (can be specified multiple times)." | |
113 | ) |
|
114 | ) | |
114 | @magic_arguments.argument( |
|
115 | @magic_arguments.argument( | |
115 | '-la', '--link-args', action='append', default=[], |
|
116 | '-la', '--link-args', action='append', default=[], | |
116 | help="Extra flags to pass to linker via the `extra_link_args` " |
|
117 | help="Extra flags to pass to linker via the `extra_link_args` " | |
117 | "Extension flag (can be specified multiple times)." |
|
118 | "Extension flag (can be specified multiple times)." | |
118 | ) |
|
119 | ) | |
119 | @magic_arguments.argument( |
|
120 | @magic_arguments.argument( | |
120 | '-l', '--lib', action='append', default=[], |
|
121 | '-l', '--lib', action='append', default=[], | |
121 | help="Add a library to link the extension against (can be specified " |
|
122 | help="Add a library to link the extension against (can be specified " | |
122 | "multiple times)." |
|
123 | "multiple times)." | |
123 | ) |
|
124 | ) | |
124 | @magic_arguments.argument( |
|
125 | @magic_arguments.argument( | |
125 | '-I', '--include', action='append', default=[], |
|
126 | '-I', '--include', action='append', default=[], | |
126 | help="Add a path to the list of include directories (can be specified " |
|
127 | help="Add a path to the list of include directories (can be specified " | |
127 | "multiple times)." |
|
128 | "multiple times)." | |
128 | ) |
|
129 | ) | |
129 | @magic_arguments.argument( |
|
130 | @magic_arguments.argument( | |
130 | '-f', '--force', action='store_true', default=False, |
|
131 | '-f', '--force', action='store_true', default=False, | |
131 | help="Force the compilation of the pyx module even if it hasn't " |
|
132 | help="Force the compilation of the pyx module even if it hasn't " | |
132 | "changed" |
|
133 | "changed" | |
133 | ) |
|
134 | ) | |
134 | @magic_arguments.argument( |
|
135 | @magic_arguments.argument( | |
135 | '-a', '--annotate', action='store_true', default=False, |
|
136 | '-a', '--annotate', action='store_true', default=False, | |
136 | help="Produce a colorized HTML version of the source. " |
|
137 | help="Produce a colorized HTML version of the source. " | |
137 | "(Implies --force)." |
|
138 | "(Implies --force)." | |
138 | ) |
|
139 | ) | |
139 | @cell_magic |
|
140 | @cell_magic | |
140 | def cython(self, line, cell): |
|
141 | def cython(self, line, cell): | |
141 | """Compile and import everything from a Cython code cell. |
|
142 | """Compile and import everything from a Cython code cell. | |
142 |
|
143 | |||
143 | The contents of the cell are written to a `.pyx` file in the |
|
144 | The contents of the cell are written to a `.pyx` file in the | |
144 | directory `IPYTHONDIR/cython` using a filename with the hash of the |
|
145 | directory `IPYTHONDIR/cython` using a filename with the hash of the | |
145 | code. This file is then cythonized and compiled. The resulting module |
|
146 | code. This file is then cythonized and compiled. The resulting module | |
146 | is imported and all of its symbols are injected into the user's |
|
147 | is imported and all of its symbols are injected into the user's | |
147 | namespace. The usage is similar to that of `%%cython_pyximport` but |
|
148 | namespace. The usage is similar to that of `%%cython_pyximport` but | |
148 | you don't have to pass a module name:: |
|
149 | you don't have to pass a module name:: | |
149 |
|
150 | |||
150 | %%cython |
|
151 | %%cython | |
151 | def f(x): |
|
152 | def f(x): | |
152 | return 2.0*x |
|
153 | return 2.0*x | |
153 | """ |
|
154 | """ | |
154 | args = magic_arguments.parse_argstring(self.cython, line) |
|
155 | args = magic_arguments.parse_argstring(self.cython, line) | |
155 | code = cell if cell.endswith('\n') else cell+'\n' |
|
156 | code = cell if cell.endswith('\n') else cell+'\n' | |
156 | lib_dir = os.path.join(self.shell.ipython_dir, 'cython') |
|
157 | lib_dir = os.path.join(self.shell.ipython_dir, 'cython') | |
157 | quiet = True |
|
158 | quiet = True | |
158 | key = code, sys.version_info, sys.executable, Cython.__version__ |
|
159 | key = code, sys.version_info, sys.executable, Cython.__version__ | |
159 | module_name = "_cython_magic_" + hashlib.md5(str(key).encode('utf-8')).hexdigest() |
|
160 | module_name = "_cython_magic_" + hashlib.md5(str(key).encode('utf-8')).hexdigest() | |
160 | so_ext = [ ext for ext,_,mod_type in imp.get_suffixes() if mod_type == imp.C_EXTENSION ][0] |
|
161 | module_path = os.path.join(lib_dir, module_name+self.so_ext) | |
161 | module_path = os.path.join(lib_dir, module_name+so_ext) |
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|||
162 |
|
162 | |||
163 | if args.annotate: |
|
163 | if args.annotate: | |
164 | args.force = True |
|
164 | args.force = True | |
165 |
|
165 | |||
166 | if not os.path.exists(lib_dir): |
|
166 | if not os.path.exists(lib_dir): | |
167 | os.makedirs(lib_dir) |
|
167 | os.makedirs(lib_dir) | |
168 |
|
168 | |||
169 | if args.force or not os.path.isfile(module_path): |
|
169 | if args.force or not os.path.isfile(module_path): | |
170 | c_include_dirs = args.include |
|
170 | c_include_dirs = args.include | |
171 | if 'numpy' in code: |
|
171 | if 'numpy' in code: | |
172 | import numpy |
|
172 | import numpy | |
173 | c_include_dirs.append(numpy.get_include()) |
|
173 | c_include_dirs.append(numpy.get_include()) | |
174 | pyx_file = os.path.join(lib_dir, module_name + '.pyx') |
|
174 | pyx_file = os.path.join(lib_dir, module_name + '.pyx') | |
175 | pyx_file = py3compat.cast_bytes_py2(pyx_file, encoding=sys.getfilesystemencoding()) |
|
175 | pyx_file = py3compat.cast_bytes_py2(pyx_file, encoding=sys.getfilesystemencoding()) | |
176 | with io.open(pyx_file, 'w', encoding='utf-8') as f: |
|
176 | with io.open(pyx_file, 'w', encoding='utf-8') as f: | |
177 | f.write(code) |
|
177 | f.write(code) | |
178 | extension = Extension( |
|
178 | extension = Extension( | |
179 | name = module_name, |
|
179 | name = module_name, | |
180 | sources = [pyx_file], |
|
180 | sources = [pyx_file], | |
181 | include_dirs = c_include_dirs, |
|
181 | include_dirs = c_include_dirs, | |
182 | extra_compile_args = args.compile_args, |
|
182 | extra_compile_args = args.compile_args, | |
183 | extra_link_args = args.link_args, |
|
183 | extra_link_args = args.link_args, | |
184 | libraries = args.lib, |
|
184 | libraries = args.lib, | |
185 | ) |
|
185 | ) | |
186 |
|
|
186 | build_extension = self._get_build_extension() | |
187 | config_files = dist.find_config_files() |
|
|||
188 | try: |
|
|||
189 | config_files.remove('setup.cfg') |
|
|||
190 | except ValueError: |
|
|||
191 | pass |
|
|||
192 | dist.parse_config_files(config_files) |
|
|||
193 | build_extension = build_ext(dist) |
|
|||
194 | build_extension.finalize_options() |
|
|||
195 | try: |
|
187 | try: | |
196 | build_extension.extensions = cythonize([extension], quiet=quiet, |
|
188 | build_extension.extensions = cythonize([extension], quiet=quiet, | |
197 | annotate=args.annotate, force=args.force) |
|
189 | annotate=args.annotate, force=args.force) | |
198 | except CompileError: |
|
190 | except CompileError: | |
199 | return |
|
191 | return | |
200 | build_extension.build_temp = os.path.dirname(pyx_file) |
|
192 | build_extension.build_temp = os.path.dirname(pyx_file) | |
201 | build_extension.build_lib = lib_dir |
|
193 | build_extension.build_lib = lib_dir | |
202 | build_extension.run() |
|
194 | build_extension.run() | |
203 | self._code_cache[key] = module_name |
|
195 | self._code_cache[key] = module_name | |
204 |
|
196 | |||
205 | module = imp.load_dynamic(module_name, module_path) |
|
197 | module = imp.load_dynamic(module_name, module_path) | |
206 | self._import_all(module) |
|
198 | self._import_all(module) | |
207 |
|
199 | |||
208 | if args.annotate: |
|
200 | if args.annotate: | |
209 | html_file = os.path.join(lib_dir, module_name + '.html') |
|
201 | html_file = os.path.join(lib_dir, module_name + '.html') | |
210 | try: |
|
202 | try: | |
211 | with io.open(html_file, encoding='utf-8') as f: |
|
203 | with io.open(html_file, encoding='utf-8') as f: | |
212 | annotated_html = f.read() |
|
204 | annotated_html = f.read() | |
213 | except IOError as e: |
|
205 | except IOError as e: | |
214 | # File could not be opened. Most likely the user has a version |
|
206 | # File could not be opened. Most likely the user has a version | |
215 | # of Cython before 0.15.1 (when `cythonize` learned the |
|
207 | # of Cython before 0.15.1 (when `cythonize` learned the | |
216 | # `force` keyword argument) and has already compiled this |
|
208 | # `force` keyword argument) and has already compiled this | |
217 | # exact source without annotation. |
|
209 | # exact source without annotation. | |
218 | print('Cython completed successfully but the annotated ' |
|
210 | print('Cython completed successfully but the annotated ' | |
219 | 'source could not be read.', file=sys.stderr) |
|
211 | 'source could not be read.', file=sys.stderr) | |
220 | print(e, file=sys.stderr) |
|
212 | print(e, file=sys.stderr) | |
221 | else: |
|
213 | else: | |
222 | return display.HTML(annotated_html) |
|
214 | return display.HTML(annotated_html) | |
223 |
|
215 | |||
|
216 | @property | |||
|
217 | def so_ext(self): | |||
|
218 | """The extension suffix for compiled modules.""" | |||
|
219 | try: | |||
|
220 | return self._so_ext | |||
|
221 | except AttributeError: | |||
|
222 | self._so_ext = self._get_build_extension().get_ext_filename('') | |||
|
223 | return self._so_ext | |||
|
224 | ||||
|
225 | def _get_build_extension(self): | |||
|
226 | dist = Distribution() | |||
|
227 | config_files = dist.find_config_files() | |||
|
228 | try: | |||
|
229 | config_files.remove('setup.cfg') | |||
|
230 | except ValueError: | |||
|
231 | pass | |||
|
232 | dist.parse_config_files(config_files) | |||
|
233 | build_extension = build_ext(dist) | |||
|
234 | build_extension.finalize_options() | |||
|
235 | return build_extension | |||
|
236 | ||||
224 | _loaded = False |
|
237 | _loaded = False | |
225 |
|
238 | |||
226 | def load_ipython_extension(ip): |
|
239 | def load_ipython_extension(ip): | |
227 | """Load the extension in IPython.""" |
|
240 | """Load the extension in IPython.""" | |
228 | global _loaded |
|
241 | global _loaded | |
229 | if not _loaded: |
|
242 | if not _loaded: | |
230 | ip.register_magics(CythonMagics) |
|
243 | ip.register_magics(CythonMagics) | |
231 | _loaded = True |
|
244 | _loaded = True |
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