Sorry for the confusion. I used Sage downloaded from the website.
Gcc was installed with MacPorts.
Jing
2023年12月27日 +0100 01:54 Dima Pasechnik <dimp...@gmail.com>，写道：
> it seems you have gcc in /opt/local - what is it?
> Not very usual. Normally speaking gcc on macOS is Apple's clang. How have you
> built (?) Sage?
>
>
>
> > On 26 December 2023 14:52:23 WET, Jing Guo <dev.g...@gmail.com> wrote:
> > > Dear all,
> > >
> > > I have implemented an algorithm related to graph homomorphism counting,
> > > and recently I am thinking about improving its performance, so I think of
> > > writing some of the modules/codes in Cython.
> > >
> > > For instance, I wrote helper functions in `helper_functions.pyx`, which
> > > can be imported sucessfully in Python 3, via `from helper_functions
> > > import *`.
> > >
> > > However, when I run the above command in Sage notebook or Sage, the
> > > output reads
> > >
> > > sage: import helper_functions
> > > ---------------------------------------------------------------------------
> > > ModuleNotFoundError Traceback (most recent call
> > > last)
> > > Cell In [1], line 1
> > > ----> 1 import helper_functions
> > >
> > > ModuleNotFoundError: No module named 'helper_functions'
> > >
> > > When I try to run `load("helper_functions.pyx")`, it will output a long
> > > line of errors (see end of the post).
> > >
> > > I searched online for relevant keywords but couldn't find good solutions
> > > to these problems. I am on macOS 10.13.6
> > >
> > > Thank you for your time!
> > >
> > > Jing
> > >
> > >
> > > sage: load("helper_functions.pyx")
> > > Compiling ./helper_functions.pyx...
> > > ---------------------------------------------------------------------------
> > > DistutilsExecError Traceback (most recent call
> > > last)
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/unixccompiler.py:266,
> > > in UnixCCompiler.link(self, target_desc, objects, output_filename,
> > > output_dir, libraries, library_dirs, runtime_library_dirs,
> > > export_symbols, debug, extra_preargs, extra_postargs, build_temp,
> > > target_lang)
> > > 264 linker = compiler_fixup(linker, ld_args)
> > > --> 266 self.spawn(linker + ld_args)
> > > 267 except DistutilsExecError as msg:
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/ccompiler.py:1041,
> > > in CCompiler.spawn(self, cmd, **kwargs)
> > > 1040 def spawn(self, cmd, **kwargs):
> > > -> 1041 spawn(cmd, dry_run=self.dry_run, **kwargs)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/spawn.py:70,
> > > in spawn(cmd, search_path, verbose, dry_run, env)
> > > 69 cmd = cmd[0]
> > > ---> 70 raise DistutilsExecError(
> > > 71 "command {!r} failed with exit code {}".format(cmd, exitcode)
> > > 72 )
> > >
> > > DistutilsExecError: command '/opt/local/bin/gcc' failed with exit code 1
> > >
> > > During handling of the above exception, another exception occurred:
> > >
> > > LinkError Traceback (most recent call
> > > last)
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/sage/misc/cython.py:454,
> > > in cython(filename, verbose, compile_message, use_cache,
> > > create_local_c_file, annotate, sage_namespace, create_local_so_file)
> > > 453 with redirection(2, errfile, close=False):
> > > --> 454 dist.run_command("build")
> > > 455 finally:
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/dist.py:989,
> > > in Distribution.run_command(self, command)
> > > 986 # Postpone defaults until all explicit configuration is considered
> > > 987 # (setup() args, config files, command line and plugins)
> > > --> 989 super().run_command(command)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/dist.py:988,
> > > in Distribution.run_command(self, command)
> > > 987 cmd_obj.ensure_finalized()
> > > --> 988 cmd_obj.run()
> > > 989 self.have_run[command] = 1
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/command/build.py:131,
> > > in build.run(self)
> > > 130 for cmd_name in self.get_sub_commands():
> > > --> 131 self.run_command(cmd_name)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/cmd.py:318,
> > > in Command.run_command(self, command)
> > > 314 """Run some other command: uses the 'run_command()' method of
> > > 315 Distribution, which creates and finalizes the command object if
> > > 316 necessary and then invokes its 'run()' method.
> > > 317 """
> > > --> 318 self.distribution.run_command(command)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/dist.py:989,
> > > in Distribution.run_command(self, command)
> > > 986 # Postpone defaults until all explicit configuration is considered
> > > 987 # (setup() args, config files, command line and plugins)
> > > --> 989 super().run_command(command)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/dist.py:988,
> > > in Distribution.run_command(self, command)
> > > 987 cmd_obj.ensure_finalized()
> > > --> 988 cmd_obj.run()
> > > 989 self.have_run[command] = 1
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/command/build_ext.py:88,
> > > in build_ext.run(self)
> > > 87 old_inplace, self.inplace = self.inplace, 0
> > > ---> 88 _build_ext.run(self)
> > > 89 self.inplace = old_inplace
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/command/build_ext.py:345,
> > > in build_ext.run(self)
> > > 344 # Now actually compile and link everything.
> > > --> 345 self.build_extensions()
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/command/build_ext.py:467,
> > > in build_ext.build_extensions(self)
> > > 466 else:
> > > --> 467 self._build_extensions_serial()
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/command/build_ext.py:493,
> > > in build_ext._build_extensions_serial(self)
> > > 492 with self._filter_build_errors(ext):
> > > --> 493 self.build_extension(ext)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/command/build_ext.py:249,
> > > in build_ext.build_extension(self, ext)
> > > 248 self.compiler = self.shlib_compiler
> > > --> 249 _build_ext.build_extension(self, ext)
> > > 250 if ext._needs_stub:
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/Cython/Distutils/build_ext.py:135,
> > > in build_ext.build_extension(self, ext)
> > > 134 ext.sources = new_ext.sources
> > > --> 135 super(build_ext, self).build_extension(ext)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/command/build_ext.py:572,
> > > in build_ext.build_extension(self, ext)
> > > 570 language = ext.language or self.compiler.detect_language(sources)
> > > --> 572 self.compiler.link_shared_object(
> > > 573 objects,
> > > 574 ext_path,
> > > 575 libraries=self.get_libraries(ext),
> > > 576 library_dirs=ext.library_dirs,
> > > 577 runtime_library_dirs=ext.runtime_library_dirs,
> > > 578 extra_postargs=extra_args,
> > > 579 export_symbols=self.get_export_symbols(ext),
> > > 580 debug=self.debug,
> > > 581 build_temp=self.build_temp,
> > > 582 target_lang=language,
> > > 583 )
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/ccompiler.py:752,
> > > in CCompiler.link_shared_object(self, objects, output_filename,
> > > output_dir, libraries, library_dirs, runtime_library_dirs,
> > > export_symbols, debug, extra_preargs, extra_postargs, build_temp,
> > > target_lang)
> > > 737 def link_shared_object(
> > > 738 self,
> > > 739 objects,
> > > (...)
> > > 750 target_lang=None,
> > > 751 ):
> > > --> 752 self.link(
> > > 753 CCompiler.SHARED_OBJECT,
> > > 754 objects,
> > > 755 output_filename,
> > > 756 output_dir,
> > > 757 libraries,
> > > 758 library_dirs,
> > > 759 runtime_library_dirs,
> > > 760 export_symbols,
> > > 761 debug,
> > > 762 extra_preargs,
> > > 763 extra_postargs,
> > > 764 build_temp,
> > > 765 target_lang,
> > > 766 )
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/setuptools/_distutils/unixccompiler.py:268,
> > > in UnixCCompiler.link(self, target_desc, objects, output_filename,
> > > output_dir, libraries, library_dirs, runtime_library_dirs,
> > > export_symbols, debug, extra_preargs, extra_postargs, build_temp,
> > > target_lang)
> > > 267 except DistutilsExecError as msg:
> > > --> 268 raise LinkError(msg)
> > > 269 else:
> > >
> > > LinkError: command '/opt/local/bin/gcc' failed with exit code 1
> > >
> > > During handling of the above exception, another exception occurred:
> > >
> > > RuntimeError Traceback (most recent call
> > > last)
> > > Cell In [2], line 1
> > > ----> 1 load("helper_functions.pyx")
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/sage/misc/persist.pyx:175,
> > > in sage.misc.persist.load (build/cythonized/sage/misc/persist.c:4520)()
> > > 173
> > > 174 if sage.repl.load.is_loadable_filename(filename):
> > > --> 175 sage.repl.load.load(filename, globals())
> > > 176 return
> > > 177
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/sage/repl/load.py:277,
> > > in load(filename, globals, attach)
> > > 275 if attach:
> > > 276 add_attached_file(fpath)
> > > --> 277 exec(load_cython(fpath), globals)
> > > 278 elif ext == '.f' or ext == '.f90':
> > > 279 from sage.misc.inline_fortran import fortran
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/sage/repl/load.py:68,
> > > in load_cython(name)
> > > 55 """
> > > 56 Helper function to load a Cython file.
> > > 57
> > > (...)
> > > 65 module.
> > > 66 """
> > > 67 from sage.misc.cython import cython
> > > ---> 68 mod, dir = cython(name, compile_message=True, use_cache=True)
> > > 69 import sys
> > > 70 sys.path.append(dir)
> > >
> > > File
> > > /private/var/tmp/sage-10.2-current/local/var/lib/sage/venv-python3.11.1/lib/python3.11/site-packages/sage/misc/cython.py:460,
> > > in cython(filename, verbose, compile_message, use_cache,
> > > create_local_c_file, annotate, sage_namespace, create_local_so_file)
> > > 458 except Exception as msg:
> > > 459 msg = str(msg) + "\n" + distutils_messages
> > > --> 460 raise RuntimeError(msg.strip())
> > > 462 if verbose >= 0:
> > > 463 sys.stderr.write(distutils_messages)
> > >
> > > RuntimeError: command '/opt/local/bin/gcc' failed with exit code 1
> > > ld: unknown option: -platform_version
> > > collect2: error: ld returned 1 exit status
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