BUG: pip install fail - Error compiling Cython

[Raoul555]

Describe the issue:

When trying to install numpy on my 22.04.2 LTS (Jammy Jellyfish) Unbutu laptop with pip, I'm getting a systematic compiling Cython error

Reproduce the code example:

$ python -m pip install numpy==1.18.5

Error message:

Collecting numpy==1.18.5
  Downloading numpy-1.18.5.zip (5.4 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 5.4/5.4 MB 22.4 MB/s eta 0:00:00
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Preparing metadata (pyproject.toml) ... error
  error: subprocess-exited-with-error
  
  × Preparing metadata (pyproject.toml) did not run successfully.
  │ exit code: 1
  ╰─> [56 lines of output]
      Running from numpy source directory.
      <string>:461: UserWarning: Unrecognized setuptools command, proceeding with generating Cython sources and expanding templates
      /tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/tools/cythonize.py:75: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead.
        required_version = LooseVersion('0.29.14')
      /tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/tools/cythonize.py:77: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead.
        if LooseVersion(cython_version) < required_version:
      warning: _philox.pyx:19:0: The 'DEF' statement is deprecated and will be removed in a future Cython version. Consider using global variables, constants, and in-place literals instead. See https://github.com/cython/cython/issues/4310
      warning: /tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/numpy/__init__.pxd:17:0: The 'DEF' statement is deprecated and will be removed in a future Cython version. Consider using global variables, constants, and in-place literals instead. See https://github.com/cython/cython/issues/4310
      
      Error compiling Cython file:
      ------------------------------------------------------------
      ...
                  self.rng_state.ctr.v[i] = counter[i]
      
              self._reset_state_variables()
      
              self._bitgen.state = <void *>&self.rng_state
              self._bitgen.next_uint64 = &philox_uint64
                                         ^
      ------------------------------------------------------------
      
      _philox.pyx:195:35: Cannot assign type 'uint64_t (*)(void *) except? -1 nogil' to 'uint64_t (*)(void *) noexcept nogil'
      Processing numpy/random/_bounded_integers.pxd.in
      Processing numpy/random/_philox.pyx
      Traceback (most recent call last):
        File "/tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/tools/cythonize.py", line 238, in <module>
          main()
        File "/tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/tools/cythonize.py", line 234, in main
          find_process_files(root_dir)
        File "/tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/tools/cythonize.py", line 225, in find_process_files
          process(root_dir, fromfile, tofile, function, hash_db)
        File "/tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/tools/cythonize.py", line 191, in process
          processor_function(fromfile, tofile)
        File "/tmp/pip-install-0zxbecx9/numpy_01d616762b55471cb6f945696848574d/tools/cythonize.py", line 80, in process_pyx
          subprocess.check_call(
        File "/usr/lib/python3.9/subprocess.py", line 373, in check_call
          raise CalledProcessError(retcode, cmd)
      subprocess.CalledProcessError: Command '['/home/user/.cache/pypoetry/virtualenvs/mmsx-x4-NAZA1-py3.9/bin/python', '-m', 'cython', '-3', '--fast-fail', '-o', '_philox.c', '_philox.pyx']' returned non-zero exit status 1.
      Cythonizing sources
      Traceback (most recent call last):
        File "/home/user/.cache/pypoetry/virtualenvs/mmsx-x4-NAZA1-py3.9/lib/python3.9/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 353, in <module>
          main()
        File "/home/user/.cache/pypoetry/virtualenvs/mmsx-x4-NAZA1-py3.9/lib/python3.9/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 335, in main
          json_out['return_val'] = hook(**hook_input['kwargs'])
        File "/home/user/.cache/pypoetry/virtualenvs/mmsx-x4-NAZA1-py3.9/lib/python3.9/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 149, in prepare_metadata_for_build_wheel
          return hook(metadata_directory, config_settings)
        File "/tmp/pip-build-env-ta9roshl/overlay/lib/python3.9/site-packages/setuptools/build_meta.py", line 380, in prepare_metadata_for_build_wheel
          self.run_setup()
        File "/tmp/pip-build-env-ta9roshl/overlay/lib/python3.9/site-packages/setuptools/build_meta.py", line 487, in run_setup
          super(_BuildMetaLegacyBackend,
        File "/tmp/pip-build-env-ta9roshl/overlay/lib/python3.9/site-packages/setuptools/build_meta.py", line 338, in run_setup
          exec(code, locals())
        File "<string>", line 488, in <module>
        File "<string>", line 469, in setup_package
        File "<string>", line 275, in generate_cython
      RuntimeError: Running cythonize failed!
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed

× Encountered error while generating package metadata.
╰─> See above for output.

note: This is an issue with the package mentioned above, not pip.
hint: See above for details.

Runtime information:

>>> print(sys.version)
3.9.16 (main, Dec  7 2022, 01:12:08) 
[GCC 11.3.0]

$ python -m pip --version
pip 23.2.1 from /home/user/.cache/pypoetry/virtualenvs/foo-x4-NAZA1-py3.9/lib/python3.9/site-packages/pip (python 3.9)

Context for the issue:

I'm not able to install numpy

[mattip]

Duplicate of #24330. You will have to use a similar solution to make sure you use Cython<3.

As mentioned here you will have to use python -m pip install numpy==1.18.5 --no-build-isolation

[rgommers]

I'll close this as a duplicate. Thanks for the report @Raoul555.

[ari62]

this worked for me (for the version of numpy i was targeting):

pip install Cython==0.29.37
pip install numpy==1.18.5 --no-build-isolation

[MoonRainy21]

this worked for me (for the version of numpy i was targeting):

pip install Cython==0.29.37
pip install numpy==1.18.5 --no-build-isolation

this also worked for me