ython.Compiler.Errors.CompileError: tables/utilsextension.pyx

[guowj163]

I have tried many ways to install the package of tables in macOS. Can anyone help me? Please
PyTables-master % python3 setup.py install
/Users/g/software/PyTables-master/setup.py:18: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html
import pkg_resources
cpuinfo failed, assuming no CPU features: py-cpuinfo currently only works on X86 and some PPC and ARM CPUs.

• Using Python 3.11.5 (main, Aug 24 2023, 15:09:45) [Clang 14.0.3 (clang-1403.0.22.14.1)]
• Found cython 3.0.2
• USE_PKGCONFIG: True
• Found HDF5 headers at /opt/homebrew/Cellar/hdf5/1.14.2/include, library at /opt/homebrew/Cellar/hdf5/1.14.2/lib.
• Found LZO 2 headers at /opt/homebrew/Cellar/lzo/2.10/include, library at /opt/homebrew/Cellar/lzo/2.10/lib.
• Skipping detection of LZO 1 since LZO 2 has already been found.
• Could not find bzip2 headers and library; disabling support for it.
• pkg-config header dirs for blosc: /opt/homebrew/Cellar/c-blosc/1.21.5/include
• pkg-config library dirs for blosc: /opt/homebrew/Cellar/c-blosc/1.21.5/lib
• Found blosc headers at /opt/homebrew/Cellar/c-blosc/1.21.5/include, library at /opt/homebrew/Cellar/c-blosc/1.21.5/lib.
  Compiling tables/utilsextension.pyx because it changed.
  [1/1] Cythonizing tables/utilsextension.pyx

Error compiling Cython file:

...

def _dump_h5_backtrace():
cdef object bt = []

if H5Ewalk(H5E_DEFAULT, H5E_WALK_DOWNWARD, e_walk_cb, <void*>bt) < 0:
                                           ^

---

tables/utilsextension.pyx:367:47: Cannot assign type 'herr_t (unsigned int, const H5E_error_t *, void *) except? -1 nogil' to 'H5E_walk_t'. Exception values are incompatible. Suggest adding 'noexcept' to type 'herr_t (unsigned int, const H5E_error_t *, void *) except? -1 nogil'.
Traceback (most recent call last):
File "/Users/g/software/PyTables-master/setup.py", line 834, in
cython_extfiles = get_cython_extfiles(cython_extnames)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/g/software/PyTables-master/setup.py", line 829, in get_cython_extfiles
cythonize(str(extpfile), language_level="2")
File "/opt/homebrew/lib/python3.11/site-packages/Cython/Build/Dependencies.py", line 1134, in cythonize
cythonize_one(*args)
File "/opt/homebrew/lib/python3.11/site-packages/Cython/Build/Dependencies.py", line 1301, in cythonize_one
raise CompileError(None, pyx_file)
Cython.Compiler.Errors.CompileError: tables/utilsextension.pyx

[david-lin-09]

Have you tried this ?
pip install git+https://github.com/PyTables/PyTables
More info in the closed issue : #1040