Issue
I have searched for a solution to this problem, but none of them worked. This is what I get in the terminal:
**Using cached scikit-learn-1.1.1.tar.gz (6.8 MB)
Installing build dependencies ... error**
It would hang for a few minutes and print error: subprocess-exited-with-error. Wonder if this is because of pip3 or python's version but I have them up to date. And I am using M1 Mac.
pip3 install scikit-learn
DEPRECATION: Configuring installation scheme with distutils config files is deprecated and will no longer work in the near future. If you are using a Homebrew or Linuxbrew Python, please see discussion at https://github.com/Homebrew/homebrew-core/issues/76621
Collecting scikit-learn
Using cached scikit-learn-1.1.1.tar.gz (6.8 MB)
Installing build dependencies ... error
error: subprocess-exited-with-error
× pip subprocess to install build dependencies did not run successfully.
│ exit code: 1
╰─> [223 lines of output]
Collecting setuptools<60.0
Using cached setuptools-59.8.0-py3-none-any.whl (952 kB)
Collecting wheel
Using cached wheel-0.37.1-py2.py3-none-any.whl (35 kB)
Collecting Cython>=0.28.5
Using cached Cython-0.29.30-py2.py3-none-any.whl (985 kB)
Collecting oldest-supported-numpy
Using cached oldest_supported_numpy-2022.5.28-py3-none-any.whl (3.9 kB)
Collecting scipy>=1.3.2
Using cached scipy-1.8.1.tar.gz (38.2 MB)
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'error'
error: subprocess-exited-with-error
× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [191 lines of output]
setup.py:486: UserWarning: Unrecognized setuptools command ('dist_info --egg-base /private/var/folders/vb/df8t2_dj7lj_hrnc9hbyv69w0000gn/T/pip-modern-metadata-1tg_c6wr'), proceeding with generating Cython sources and expanding templates
warnings.warn("Unrecognized setuptools command ('{}'), proceeding with "
setup.py:602: DeprecationWarning:
`numpy.distutils` is deprecated since NumPy 1.23.0, as a result
of the deprecation of `distutils` itself. It will be removed for
Python >= 3.12. For older Python versions it will remain present.
It is recommended to use `setuptools < 60.0` for those Python versions.
For more details, see:
https://numpy.org/devdocs/reference/distutils_status_migration.html
from numpy.distutils.core import setup
Running from SciPy source directory.
Running scipy/linalg/_generate_pyx.py
Running scipy/special/_generate_pyx.py
Running scipy/stats/_generate_pyx.py
Processing scipy/cluster/_vq.pyx
Processing scipy/cluster/_optimal_leaf_ordering.pyx
Processing scipy/cluster/_hierarchy.pyx
Processing scipy/ndimage/src/_cytest.pyx
Processing scipy/ndimage/src/_ni_label.pyx
Processing scipy/linalg/cython_lapack.pyx
Processing scipy/linalg/_matfuncs_sqrtm_triu.pyx
Processing scipy/linalg/_cythonized_array_utils.pyx
~ and more ~ (maximum txt is 30000 letters)
Processing scipy/stats/_boost/src/binom_ufunc.pyx
Processing scipy/stats/_unuran/unuran_wrapper.pyx
warning: unuran_wrapper.pyx:470:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:470:28: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:470:36: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:515:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:515:28: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:515:36: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:1469:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:1469:28: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:1469:36: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/config/pyprojecttoml.py:102: _ExperimentalProjectMetadata: Support for project metadata in `pyproject.toml` is still experimental and may be removed (or change) in future releases.
warnings.warn(msg, _ExperimentalProjectMetadata)
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:194: UserWarning: `install_requires` overwritten in `pyproject.toml` (dependencies)
warnings.warn(msg)
Cythonizing sources
INFO: lapack_opt_info:
INFO: lapack_armpl_info:
INFO: customize UnixCCompiler
INFO: libraries armpl_lp64_mp not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: lapack_mkl_info:
INFO: libraries mkl_rt not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: openblas_lapack_info:
INFO: libraries openblas not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: openblas_clapack_info:
INFO: libraries openblas,lapack not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: flame_info:
INFO: libraries flame not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: accelerate_info:
INFO: NOT AVAILABLE
INFO:
INFO: atlas_3_10_threads_info:
INFO: Setting PTATLAS=ATLAS
INFO: libraries tatlas,tatlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries tatlas,tatlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
INFO: NOT AVAILABLE
INFO:
INFO: atlas_3_10_info:
INFO: libraries satlas,satlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries satlas,satlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_3_10_info'>
INFO: NOT AVAILABLE
INFO:
INFO: atlas_threads_info:
INFO: Setting PTATLAS=ATLAS
INFO: libraries ptf77blas,ptcblas,atlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries ptf77blas,ptcblas,atlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_threads_info'>
INFO: NOT AVAILABLE
INFO:
INFO: atlas_info:
INFO: libraries f77blas,cblas,atlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries f77blas,cblas,atlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_info'>
INFO: NOT AVAILABLE
INFO:
INFO: lapack_info:
INFO: libraries lapack not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/distutils/system_info.py:1902: UserWarning:
Lapack (http://www.netlib.org/lapack/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [lapack]) or by setting
the LAPACK environment variable.
return getattr(self, '_calc_info_{}'.format(name))()
INFO: lapack_src_info:
INFO: NOT AVAILABLE
INFO:
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/distutils/system_info.py:1902: UserWarning:
Lapack (http://www.netlib.org/lapack/) sources not found.
Directories to search for the sources can be specified in the
numpy/distutils/site.cfg file (section [lapack_src]) or by setting
the LAPACK_SRC environment variable.
return getattr(self, '_calc_info_{}'.format(name))()
INFO: NOT AVAILABLE
INFO:
Traceback (most recent call last):
File "/var/folders/vb/df8t2_dj7lj_hrnc9hbyv69w0000gn/T/tmpdfnbfg85_in_process.py", line 363, in <module>
main()
File "/var/folders/vb/df8t2_dj7lj_hrnc9hbyv69w0000gn/T/tmpdfnbfg85_in_process.py", line 345, in main
json_out['return_val'] = hook(**hook_input['kwargs'])
File "/var/folders/vb/df8t2_dj7lj_hrnc9hbyv69w0000gn/T/tmpdfnbfg85_in_process.py", line 164, in prepare_metadata_for_build_wheel
return hook(metadata_directory, config_settings)
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/build_meta.py", line 188, in prepare_metadata_for_build_wheel
self.run_setup()
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/build_meta.py", line 281, in run_setup
super(_BuildMetaLegacyBackend,
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/build_meta.py", line 174, in run_setup
exec(compile(code, __file__, 'exec'), locals())
File "setup.py", line 628, in <module>
setup_package()
File "setup.py", line 624, in setup_package
setup(**metadata)
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/distutils/core.py", line 135, in setup
config = configuration()
File "setup.py", line 526, in configuration
raise NotFoundError(msg)
numpy.distutils.system_info.NotFoundError: No BLAS/LAPACK libraries found. Note: Accelerate is no longer supported.
To build Scipy from sources, BLAS & LAPACK libraries need to be installed.
See site.cfg.example in the Scipy source directory and
https://docs.scipy.org/doc/scipy/reference/building/index.html for details.
[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.
WARNING: There was an error checking the latest version of pip.
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error
× pip subprocess to install build dependencies did not run successfully.
│ exit code: 1
╰─> See above for output.
note: This error originates from a subprocess, and is likely not a problem with pip.
WARNING: There was an error checking the latest version of pip.
~ 47s
❯ pip3 install -U numpy scipy scikit-learn
DEPRECATION: Configuring installation scheme with distutils config files is deprecated and will no longer work in the near future. If you are using a Homebrew or Linuxbrew Python, please see discussion at https://github.com/Homebrew/homebrew-core/issues/76621
Requirement already satisfied: numpy in /opt/homebrew/lib/python3.9/site-packages (1.23.0)
Collecting scipy
Using cached scipy-1.8.1.tar.gz (38.2 MB)
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
╰─> [191 lines of output]
setup.py:486: UserWarning: Unrecognized setuptools command ('dist_info --egg-base /private/var/folders/vb/df8t2_dj7lj_hrnc9hbyv69w0000gn/T/pip-modern-metadata-s_6p498y'), proceeding with generating Cython sources and expanding templates
warnings.warn("Unrecognized setuptools command ('{}'), proceeding with "
setup.py:602: DeprecationWarning:
`numpy.distutils` is deprecated since NumPy 1.23.0, as a result
of the deprecation of `distutils` itself. It will be removed for
Python >= 3.12. For older Python versions it will remain present.
It is recommended to use `setuptools < 60.0` for those Python versions.
For more details, see:
https://numpy.org/devdocs/reference/distutils_status_migration.html
from numpy.distutils.core import setup
Running from SciPy source directory.
Running scipy/linalg/_generate_pyx.py
Running scipy/special/_generate_pyx.py
Running scipy/stats/_generate_pyx.py
Processing scipy/cluster/_vq.pyx
Processing scipy/cluster/_optimal_leaf_ordering.pyx
Processing scipy/cluster/_hierarchy.pyx
Processing scipy/ndimage/src/_cytest.pyx
Processing scipy/ndimage/src/_ni_label.pyx
~ and more ~
Processing scipy/stats/_sobol.pyx
Processing scipy/stats/_boost/src/beta_ufunc.pyx
Processing scipy/stats/_boost/src/nbinom_ufunc.pyx
Processing scipy/stats/_boost/src/hypergeom_ufunc.pyx
Processing scipy/stats/_boost/src/binom_ufunc.pyx
Processing scipy/stats/_unuran/unuran_wrapper.pyx
warning: unuran_wrapper.pyx:470:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:470:28: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:470:36: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:515:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:515:28: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:515:36: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:1469:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:1469:28: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: unuran_wrapper.pyx:1469:36: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/config/pyprojecttoml.py:102: _ExperimentalProjectMetadata: Support for project metadata in `pyproject.toml` is still experimental and may be removed (or change) in future releases.
warnings.warn(msg, _ExperimentalProjectMetadata)
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:194: UserWarning: `install_requires` overwritten in `pyproject.toml` (dependencies)
warnings.warn(msg)
Cythonizing sources
INFO: lapack_opt_info:
INFO: lapack_armpl_info:
INFO: customize UnixCCompiler
INFO: libraries armpl_lp64_mp not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: lapack_mkl_info:
INFO: libraries mkl_rt not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: openblas_lapack_info:
INFO: libraries openblas not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: openblas_clapack_info:
INFO: libraries openblas,lapack not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: flame_info:
INFO: libraries flame not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
INFO: accelerate_info:
INFO: NOT AVAILABLE
INFO:
INFO: atlas_3_10_threads_info:
INFO: Setting PTATLAS=ATLAS
INFO: libraries tatlas,tatlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries tatlas,tatlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
INFO: NOT AVAILABLE
INFO:
INFO: atlas_3_10_info:
INFO: libraries satlas,satlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries satlas,satlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_3_10_info'>
INFO: NOT AVAILABLE
INFO:
INFO: atlas_threads_info:
INFO: Setting PTATLAS=ATLAS
INFO: libraries ptf77blas,ptcblas,atlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries ptf77blas,ptcblas,atlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_threads_info'>
INFO: NOT AVAILABLE
INFO:
INFO: atlas_info:
INFO: libraries f77blas,cblas,atlas not found in /opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib
INFO: libraries f77blas,cblas,atlas not found in /usr/lib
INFO: <class 'numpy.distutils.system_info.atlas_info'>
INFO: NOT AVAILABLE
INFO:
INFO: lapack_info:
INFO: libraries lapack not found in ['/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib', '/usr/lib']
INFO: NOT AVAILABLE
INFO:
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/distutils/system_info.py:1902: UserWarning:
Lapack (http://www.netlib.org/lapack/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [lapack]) or by setting
the LAPACK environment variable.
return getattr(self, '_calc_info_{}'.format(name))()
INFO: lapack_src_info:
INFO: NOT AVAILABLE
INFO:
/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/distutils/system_info.py:1902: UserWarning:
Lapack (http://www.netlib.org/lapack/) sources not found.
Directories to search for the sources can be specified in the
numpy/distutils/site.cfg file (section [lapack_src]) or by setting
the LAPACK_SRC environment variable.
return getattr(self, '_calc_info_{}'.format(name))()
INFO: NOT AVAILABLE
INFO:
Traceback (most recent call last):
File "/opt/homebrew/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 363, in <module>
main()
File "/opt/homebrew/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 345, in main
json_out['return_val'] = hook(**hook_input['kwargs'])
File "/opt/homebrew/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 164, in prepare_metadata_for_build_wheel
return hook(metadata_directory, config_settings)
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/build_meta.py", line 188, in prepare_metadata_for_build_wheel
self.run_setup()
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/build_meta.py", line 281, in run_setup
super(_BuildMetaLegacyBackend,
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/setuptools/build_meta.py", line 174, in run_setup
exec(compile(code, __file__, 'exec'), locals())
File "setup.py", line 628, in <module>
setup_package()
File "setup.py", line 624, in setup_package
setup(**metadata)
File "/opt/homebrew/Cellar/[email protected]/3.9.13_1/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/numpy/distutils/core.py", line 135, in setup
config = configuration()
File "setup.py", line 526, in configuration
raise NotFoundError(msg)
numpy.distutils.system_info.NotFoundError: No BLAS/LAPACK libraries found. Note: Accelerate is no longer supported.
To build Scipy from sources, BLAS & LAPACK libraries need to be installed.
See site.cfg.example in the Scipy source directory and
https://docs.scipy.org/doc/scipy/reference/building/index.html for details.
[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.
WARNING: There was an error checking the latest version of pip.Jupiter notebook does import numpy, pandas and matplotlib. Please help me out.
Thank you.
Solution
i found something similar here https://github.com/scipy/scipy/issues/13409 as mentioned in the comments
Answered By - FabianClemenz
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