SCIPY Install Error during "poetry install"

[matchstickboy]

Hello,

I'm running into an issue with the installation of SCIPY (so it seems) when running the "poetry install" command. I'm not sure if it's a problem with the package or my environment. Is anyone able to shed some light on the following error output?

Thanks,

Chris

---

• Installing scipy (1.6.1): Failed

CalledProcessError

Command '['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/bin/python', '/home/tester/.local/lib/python3.10/site-packages/virtualenv/seed/wheels/embed/pip-22.2.2-py3-none-any.whl/pip', 'install', '--use-pep517', '--disable-pip-version-check', '--prefix', '/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10', '--no-deps', '/home/tester/.cache/pypoetry/artifacts/bc/74/e2/a22451059efb69c32be2d51a7727b1133375122dd7564e8a8e9df4f1cd/scipy-1.6.1.tar.gz']' returned non-zero exit status 1.

at /usr/lib/python3.10/subprocess.py:524 in run
520│ # We don't call process.wait() as .exit does that for us.
521│ raise
522│ retcode = process.poll()
523│ if check and retcode:
→ 524│ raise CalledProcessError(retcode, process.args,
525│ output=stdout, stderr=stderr)
526│ return CompletedProcess(process.args, retcode, stdout, stderr)
527│
528│

The following error occurred when trying to handle this error:

EnvCommandError

Command ['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/bin/python', '/home/tester/.local/lib/python3.10/site-packages/virtualenv/seed/wheels/embed/pip-22.2.2-py3-none-any.whl/pip', 'install', '--use-pep517', '--disable-pip-version-check', '--prefix', '/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10', '--no-deps', '/home/tester/.cache/pypoetry/artifacts/bc/74/e2/a22451059efb69c32be2d51a7727b1133375122dd7564e8a8e9df4f1cd/scipy-1.6.1.tar.gz'] errored with the following return code 1, and output:
Processing /home/tester/.cache/pypoetry/artifacts/bc/74/e2/a22451059efb69c32be2d51a7727b1133375122dd7564e8a8e9df4f1cd/scipy-1.6.1.tar.gz
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
╰─> [123 lines of output]
    setup.py:461: UserWarning: Unrecognized setuptools command ('dist_info --egg-base /tmp/pip-modern-metadata-21ez7qqo'), proceeding with generating Cython sources and expanding templates
      warnings.warn("Unrecognized setuptools command ('{}'), proceeding with "
    setup.py:563: 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.
    INFO: lapack_opt_info:
    INFO: lapack_armpl_info:
    INFO: customize UnixCCompiler
    INFO:   libraries armpl_lp64_mp not found in ['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
    INFO:   NOT AVAILABLE
    INFO:
    INFO: lapack_mkl_info:
    INFO:   libraries mkl_rt not found in ['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
    INFO:   NOT AVAILABLE
    INFO:
    INFO: openblas_lapack_info:
    INFO:   libraries openblas not found in ['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
    INFO:   NOT AVAILABLE
    INFO:
    INFO: openblas_clapack_info:
    INFO:   libraries openblas,lapack not found in ['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
    INFO:   NOT AVAILABLE
    INFO:
    INFO: flame_info:
    INFO:   libraries flame not found in ['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
    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 /home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib
    INFO:   libraries tatlas,tatlas not found in /usr/local/lib
    INFO:   libraries tatlas,tatlas not found in /usr/lib64
    INFO:   libraries tatlas,tatlas not found in /usr/lib
    INFO:   libraries tatlas,tatlas not found in /usr/lib/x86_64-linux-gnu
    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 /home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib
    INFO:   libraries satlas,satlas not found in /usr/local/lib
    INFO:   libraries satlas,satlas not found in /usr/lib64
    INFO:   libraries satlas,satlas not found in /usr/lib
    INFO:   libraries satlas,satlas not found in /usr/lib/x86_64-linux-gnu
    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 /home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib
    INFO:   libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
    INFO:   libraries ptf77blas,ptcblas,atlas not found in /usr/lib64
    INFO:   libraries ptf77blas,ptcblas,atlas not found in /usr/lib
    INFO:   libraries ptf77blas,ptcblas,atlas not found in /usr/lib/x86_64-linux-gnu
    INFO: <class 'numpy.distutils.system_info.atlas_threads_info'>
    INFO:   NOT AVAILABLE
    INFO:
    INFO: atlas_info:
    INFO:   libraries f77blas,cblas,atlas not found in /home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib
    INFO:   libraries f77blas,cblas,atlas not found in /usr/local/lib
    INFO:   libraries f77blas,cblas,atlas not found in /usr/lib64
    INFO:   libraries f77blas,cblas,atlas not found in /usr/lib
    INFO:   libraries f77blas,cblas,atlas not found in /usr/lib/x86_64-linux-gnu
    INFO: <class 'numpy.distutils.system_info.atlas_info'>
    INFO:   NOT AVAILABLE
    INFO:
    INFO: lapack_info:
    INFO:   libraries lapack not found in ['/home/tester/.cache/pypoetry/virtualenvs/blue-jupyter-NE-QdkDt-py3.10/lib', '/usr/local/lib', '/usr/lib64', '/usr/lib', '/usr/lib/x86_64-linux-gnu']
    INFO:   NOT AVAILABLE
    INFO:
    /tmp/pip-build-env-sravpze3/overlay/lib/python3.10/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:
    /tmp/pip-build-env-sravpze3/overlay/lib/python3.10/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 "/tmp/tmpufw41c6i_in_process.py", line 363, in <module>
        main()
      File "/tmp/tmpufw41c6i_in_process.py", line 345, in main
        json_out['return_val'] = hook(**hook_input['kwargs'])
      File "/tmp/tmpufw41c6i_in_process.py", line 164, in prepare_metadata_for_build_wheel
        return hook(metadata_directory, config_settings)
      File "/tmp/pip-build-env-sravpze3/overlay/lib/python3.10/site-packages/setuptools/build_meta.py", line 161, in prepare_metadata_for_build_wheel
        self.run_setup()
      File "/tmp/pip-build-env-sravpze3/overlay/lib/python3.10/site-packages/setuptools/build_meta.py", line 253, in run_setup
        super(_BuildMetaLegacyBackend,
      File "/tmp/pip-build-env-sravpze3/overlay/lib/python3.10/site-packages/setuptools/build_meta.py", line 145, in run_setup
        exec(compile(code, __file__, 'exec'), locals())
      File "setup.py", line 588, in <module>
        setup_package()
      File "setup.py", line 584, in setup_package
        setup(**metadata)
      File "/tmp/pip-build-env-sravpze3/overlay/lib/python3.10/site-packages/numpy/distutils/core.py", line 135, in setup
        config = configuration()
      File "setup.py", line 499, in configuration
        raise NotFoundError(msg)
    numpy.distutils.system_info.NotFoundError: No BLAS/LAPACK libraries found.
    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.

at ~/.local/lib/python3.10/site-packages/poetry/utils/env.py:1473 in run
1469│ output = subprocess.check_output(
1470│ command, stderr=subprocess.STDOUT, env=env, **kwargs
1471│ )
1472│ except CalledProcessError as e:
→ 1473│ raise EnvCommandError(e, input=input)
1474│
1475│ return decode(output)
1476│
1477│ def execute(self, bin: str, *args: str, **kwargs: Any) -> int:

The following error occurred when trying to handle this error:

PoetryException

Failed to install /home/tester/.cache/pypoetry/artifacts/bc/74/e2/a22451059efb69c32be2d51a7727b1133375122dd7564e8a8e9df4f1cd/scipy-1.6.1.tar.gz

at ~/.local/lib/python3.10/site-packages/poetry/utils/pip.py:51 in pip_install
47│
48│ try:
49│ return environment.run_pip(*args)
50│ except EnvCommandError as e:
→ 51│ raise PoetryException(f"Failed to install {path.as_posix()}") from e