Old engine for Continuous Time Bayesian Networks. Superseded by reCTBN. 🐍
https://github.com/madlabunimib/PyCTBN
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516 lines
20 KiB
516 lines
20 KiB
# Added Fortran compiler support to config. Currently useful only for
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# try_compile call. try_run works but is untested for most of Fortran
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# compilers (they must define linker_exe first).
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# Pearu Peterson
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import os
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import signal
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import subprocess
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import sys
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import textwrap
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import warnings
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from distutils.command.config import config as old_config
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from distutils.command.config import LANG_EXT
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from distutils import log
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from distutils.file_util import copy_file
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from distutils.ccompiler import CompileError, LinkError
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import distutils
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from numpy.distutils.exec_command import filepath_from_subprocess_output
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from numpy.distutils.mingw32ccompiler import generate_manifest
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from numpy.distutils.command.autodist import (check_gcc_function_attribute,
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check_gcc_function_attribute_with_intrinsics,
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check_gcc_variable_attribute,
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check_gcc_version_at_least,
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check_inline,
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check_restrict,
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check_compiler_gcc)
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LANG_EXT['f77'] = '.f'
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LANG_EXT['f90'] = '.f90'
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class config(old_config):
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old_config.user_options += [
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('fcompiler=', None, "specify the Fortran compiler type"),
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]
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def initialize_options(self):
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self.fcompiler = None
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old_config.initialize_options(self)
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def _check_compiler (self):
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old_config._check_compiler(self)
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from numpy.distutils.fcompiler import FCompiler, new_fcompiler
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if sys.platform == 'win32' and (self.compiler.compiler_type in
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('msvc', 'intelw', 'intelemw')):
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# XXX: hack to circumvent a python 2.6 bug with msvc9compiler:
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# initialize call query_vcvarsall, which throws an IOError, and
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# causes an error along the way without much information. We try to
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# catch it here, hoping it is early enough, and print an helpful
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# message instead of Error: None.
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if not self.compiler.initialized:
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try:
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self.compiler.initialize()
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except IOError as e:
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msg = textwrap.dedent("""\
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Could not initialize compiler instance: do you have Visual Studio
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installed? If you are trying to build with MinGW, please use "python setup.py
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build -c mingw32" instead. If you have Visual Studio installed, check it is
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correctly installed, and the right version (VS 2008 for python 2.6, 2.7 and 3.2,
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VS 2010 for >= 3.3).
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Original exception was: %s, and the Compiler class was %s
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============================================================================""") \
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% (e, self.compiler.__class__.__name__)
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print(textwrap.dedent("""\
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============================================================================"""))
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raise distutils.errors.DistutilsPlatformError(msg)
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# After MSVC is initialized, add an explicit /MANIFEST to linker
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# flags. See issues gh-4245 and gh-4101 for details. Also
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# relevant are issues 4431 and 16296 on the Python bug tracker.
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from distutils import msvc9compiler
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if msvc9compiler.get_build_version() >= 10:
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for ldflags in [self.compiler.ldflags_shared,
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self.compiler.ldflags_shared_debug]:
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if '/MANIFEST' not in ldflags:
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ldflags.append('/MANIFEST')
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if not isinstance(self.fcompiler, FCompiler):
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self.fcompiler = new_fcompiler(compiler=self.fcompiler,
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dry_run=self.dry_run, force=1,
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c_compiler=self.compiler)
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if self.fcompiler is not None:
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self.fcompiler.customize(self.distribution)
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if self.fcompiler.get_version():
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self.fcompiler.customize_cmd(self)
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self.fcompiler.show_customization()
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def _wrap_method(self, mth, lang, args):
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from distutils.ccompiler import CompileError
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from distutils.errors import DistutilsExecError
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save_compiler = self.compiler
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if lang in ['f77', 'f90']:
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self.compiler = self.fcompiler
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try:
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ret = mth(*((self,)+args))
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except (DistutilsExecError, CompileError) as e:
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str(e)
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self.compiler = save_compiler
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raise CompileError
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self.compiler = save_compiler
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return ret
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def _compile (self, body, headers, include_dirs, lang):
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src, obj = self._wrap_method(old_config._compile, lang,
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(body, headers, include_dirs, lang))
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# _compile in unixcompiler.py sometimes creates .d dependency files.
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# Clean them up.
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self.temp_files.append(obj + '.d')
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return src, obj
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def _link (self, body,
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headers, include_dirs,
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libraries, library_dirs, lang):
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if self.compiler.compiler_type=='msvc':
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libraries = (libraries or [])[:]
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library_dirs = (library_dirs or [])[:]
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if lang in ['f77', 'f90']:
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lang = 'c' # always use system linker when using MSVC compiler
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if self.fcompiler:
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for d in self.fcompiler.library_dirs or []:
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# correct path when compiling in Cygwin but with
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# normal Win Python
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if d.startswith('/usr/lib'):
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try:
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d = subprocess.check_output(['cygpath',
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'-w', d])
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except (OSError, subprocess.CalledProcessError):
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pass
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else:
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d = filepath_from_subprocess_output(d)
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library_dirs.append(d)
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for libname in self.fcompiler.libraries or []:
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if libname not in libraries:
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libraries.append(libname)
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for libname in libraries:
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if libname.startswith('msvc'): continue
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fileexists = False
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for libdir in library_dirs or []:
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libfile = os.path.join(libdir, '%s.lib' % (libname))
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if os.path.isfile(libfile):
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fileexists = True
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break
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if fileexists: continue
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# make g77-compiled static libs available to MSVC
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fileexists = False
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for libdir in library_dirs:
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libfile = os.path.join(libdir, 'lib%s.a' % (libname))
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if os.path.isfile(libfile):
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# copy libname.a file to name.lib so that MSVC linker
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# can find it
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libfile2 = os.path.join(libdir, '%s.lib' % (libname))
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copy_file(libfile, libfile2)
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self.temp_files.append(libfile2)
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fileexists = True
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break
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if fileexists: continue
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log.warn('could not find library %r in directories %s' \
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% (libname, library_dirs))
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elif self.compiler.compiler_type == 'mingw32':
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generate_manifest(self)
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return self._wrap_method(old_config._link, lang,
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(body, headers, include_dirs,
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libraries, library_dirs, lang))
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def check_header(self, header, include_dirs=None, library_dirs=None, lang='c'):
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self._check_compiler()
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return self.try_compile(
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"/* we need a dummy line to make distutils happy */",
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[header], include_dirs)
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def check_decl(self, symbol,
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headers=None, include_dirs=None):
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self._check_compiler()
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body = textwrap.dedent("""
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int main(void)
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{
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#ifndef %s
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(void) %s;
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#endif
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;
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return 0;
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}""") % (symbol, symbol)
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return self.try_compile(body, headers, include_dirs)
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def check_macro_true(self, symbol,
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headers=None, include_dirs=None):
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self._check_compiler()
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body = textwrap.dedent("""
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int main(void)
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{
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#if %s
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#else
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#error false or undefined macro
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#endif
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;
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return 0;
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}""") % (symbol,)
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return self.try_compile(body, headers, include_dirs)
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def check_type(self, type_name, headers=None, include_dirs=None,
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library_dirs=None):
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"""Check type availability. Return True if the type can be compiled,
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False otherwise"""
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self._check_compiler()
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# First check the type can be compiled
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body = textwrap.dedent(r"""
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int main(void) {
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if ((%(name)s *) 0)
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return 0;
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if (sizeof (%(name)s))
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return 0;
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}
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""") % {'name': type_name}
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st = False
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try:
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try:
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self._compile(body % {'type': type_name},
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headers, include_dirs, 'c')
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st = True
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except distutils.errors.CompileError:
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st = False
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finally:
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self._clean()
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return st
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def check_type_size(self, type_name, headers=None, include_dirs=None, library_dirs=None, expected=None):
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"""Check size of a given type."""
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self._check_compiler()
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# First check the type can be compiled
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body = textwrap.dedent(r"""
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typedef %(type)s npy_check_sizeof_type;
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int main (void)
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{
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static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) >= 0)];
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test_array [0] = 0
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;
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return 0;
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}
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""")
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self._compile(body % {'type': type_name},
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headers, include_dirs, 'c')
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self._clean()
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if expected:
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body = textwrap.dedent(r"""
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typedef %(type)s npy_check_sizeof_type;
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int main (void)
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{
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static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) == %(size)s)];
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test_array [0] = 0
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;
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return 0;
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}
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""")
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for size in expected:
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try:
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self._compile(body % {'type': type_name, 'size': size},
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headers, include_dirs, 'c')
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self._clean()
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return size
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except CompileError:
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pass
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# this fails to *compile* if size > sizeof(type)
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body = textwrap.dedent(r"""
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typedef %(type)s npy_check_sizeof_type;
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int main (void)
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{
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static int test_array [1 - 2 * !(((long) (sizeof (npy_check_sizeof_type))) <= %(size)s)];
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test_array [0] = 0
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;
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return 0;
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}
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""")
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# The principle is simple: we first find low and high bounds of size
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# for the type, where low/high are looked up on a log scale. Then, we
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# do a binary search to find the exact size between low and high
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low = 0
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mid = 0
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while True:
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try:
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self._compile(body % {'type': type_name, 'size': mid},
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headers, include_dirs, 'c')
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self._clean()
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break
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except CompileError:
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#log.info("failure to test for bound %d" % mid)
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low = mid + 1
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mid = 2 * mid + 1
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high = mid
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# Binary search:
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while low != high:
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mid = (high - low) // 2 + low
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try:
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self._compile(body % {'type': type_name, 'size': mid},
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headers, include_dirs, 'c')
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self._clean()
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high = mid
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except CompileError:
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low = mid + 1
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return low
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def check_func(self, func,
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headers=None, include_dirs=None,
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libraries=None, library_dirs=None,
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decl=False, call=False, call_args=None):
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# clean up distutils's config a bit: add void to main(), and
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# return a value.
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self._check_compiler()
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body = []
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if decl:
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if type(decl) == str:
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body.append(decl)
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else:
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body.append("int %s (void);" % func)
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# Handle MSVC intrinsics: force MS compiler to make a function call.
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# Useful to test for some functions when built with optimization on, to
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# avoid build error because the intrinsic and our 'fake' test
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# declaration do not match.
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body.append("#ifdef _MSC_VER")
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body.append("#pragma function(%s)" % func)
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body.append("#endif")
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body.append("int main (void) {")
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if call:
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if call_args is None:
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call_args = ''
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body.append(" %s(%s);" % (func, call_args))
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else:
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body.append(" %s;" % func)
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body.append(" return 0;")
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body.append("}")
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body = '\n'.join(body) + "\n"
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return self.try_link(body, headers, include_dirs,
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libraries, library_dirs)
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def check_funcs_once(self, funcs,
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headers=None, include_dirs=None,
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libraries=None, library_dirs=None,
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decl=False, call=False, call_args=None):
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"""Check a list of functions at once.
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This is useful to speed up things, since all the functions in the funcs
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list will be put in one compilation unit.
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Arguments
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---------
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funcs : seq
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list of functions to test
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include_dirs : seq
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list of header paths
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libraries : seq
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list of libraries to link the code snippet to
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library_dirs : seq
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list of library paths
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decl : dict
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for every (key, value), the declaration in the value will be
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used for function in key. If a function is not in the
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dictionary, no declaration will be used.
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call : dict
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for every item (f, value), if the value is True, a call will be
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done to the function f.
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"""
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self._check_compiler()
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body = []
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if decl:
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for f, v in decl.items():
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if v:
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body.append("int %s (void);" % f)
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# Handle MS intrinsics. See check_func for more info.
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body.append("#ifdef _MSC_VER")
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for func in funcs:
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body.append("#pragma function(%s)" % func)
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body.append("#endif")
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body.append("int main (void) {")
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if call:
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for f in funcs:
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if f in call and call[f]:
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if not (call_args and f in call_args and call_args[f]):
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args = ''
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else:
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args = call_args[f]
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body.append(" %s(%s);" % (f, args))
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else:
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body.append(" %s;" % f)
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else:
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for f in funcs:
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body.append(" %s;" % f)
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body.append(" return 0;")
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body.append("}")
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body = '\n'.join(body) + "\n"
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return self.try_link(body, headers, include_dirs,
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libraries, library_dirs)
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def check_inline(self):
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"""Return the inline keyword recognized by the compiler, empty string
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otherwise."""
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return check_inline(self)
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def check_restrict(self):
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"""Return the restrict keyword recognized by the compiler, empty string
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otherwise."""
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return check_restrict(self)
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def check_compiler_gcc(self):
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"""Return True if the C compiler is gcc"""
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return check_compiler_gcc(self)
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def check_gcc_function_attribute(self, attribute, name):
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return check_gcc_function_attribute(self, attribute, name)
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def check_gcc_function_attribute_with_intrinsics(self, attribute, name,
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code, include):
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return check_gcc_function_attribute_with_intrinsics(self, attribute,
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name, code, include)
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def check_gcc_variable_attribute(self, attribute):
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return check_gcc_variable_attribute(self, attribute)
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def check_gcc_version_at_least(self, major, minor=0, patchlevel=0):
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"""Return True if the GCC version is greater than or equal to the
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specified version."""
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return check_gcc_version_at_least(self, major, minor, patchlevel)
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def get_output(self, body, headers=None, include_dirs=None,
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libraries=None, library_dirs=None,
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lang="c", use_tee=None):
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"""Try to compile, link to an executable, and run a program
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built from 'body' and 'headers'. Returns the exit status code
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of the program and its output.
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"""
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# 2008-11-16, RemoveMe
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warnings.warn("\n+++++++++++++++++++++++++++++++++++++++++++++++++\n"
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"Usage of get_output is deprecated: please do not \n"
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"use it anymore, and avoid configuration checks \n"
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"involving running executable on the target machine.\n"
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"+++++++++++++++++++++++++++++++++++++++++++++++++\n",
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DeprecationWarning, stacklevel=2)
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self._check_compiler()
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exitcode, output = 255, ''
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try:
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grabber = GrabStdout()
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try:
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src, obj, exe = self._link(body, headers, include_dirs,
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libraries, library_dirs, lang)
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grabber.restore()
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except Exception:
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output = grabber.data
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grabber.restore()
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raise
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exe = os.path.join('.', exe)
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try:
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# specify cwd arg for consistency with
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# historic usage pattern of exec_command()
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# also, note that exe appears to be a string,
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# which exec_command() handled, but we now
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# use a list for check_output() -- this assumes
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# that exe is always a single command
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output = subprocess.check_output([exe], cwd='.')
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except subprocess.CalledProcessError as exc:
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exitstatus = exc.returncode
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output = ''
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except OSError:
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# preserve the EnvironmentError exit status
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|
# used historically in exec_command()
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exitstatus = 127
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output = ''
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else:
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output = filepath_from_subprocess_output(output)
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if hasattr(os, 'WEXITSTATUS'):
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exitcode = os.WEXITSTATUS(exitstatus)
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if os.WIFSIGNALED(exitstatus):
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sig = os.WTERMSIG(exitstatus)
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log.error('subprocess exited with signal %d' % (sig,))
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if sig == signal.SIGINT:
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# control-C
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raise KeyboardInterrupt
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else:
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exitcode = exitstatus
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log.info("success!")
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|
except (CompileError, LinkError):
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log.info("failure.")
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self._clean()
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return exitcode, output
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|
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class GrabStdout:
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def __init__(self):
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self.sys_stdout = sys.stdout
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self.data = ''
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sys.stdout = self
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def write (self, data):
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self.sys_stdout.write(data)
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self.data += data
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def flush (self):
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self.sys_stdout.flush()
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def restore(self):
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sys.stdout = self.sys_stdout
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