I have a repo which runs python on a docker container. Recently I have a purchased a new mac, and on this new workstation, this container is not building successfully when I try to open it with remote-container plug in from VS code.
FROM python:3.8.3-buster
WORKDIR /work
RUN apt-get update
# Install python requirements
COPY mts mts
COPY setup.py setup.py
RUN pip install -e .
RUN pip install pytest
RUN pip install pytest-html
RUN pip install pytest-profiling
This is how the setup.py file looks like:
from setuptools import setup, find_packages
import os
def package_files(directory):
paths = []
for (path, directories, filenames) in os.walk(directory):
for filename in filenames:
paths.append(os.path.join('..', path, filename))
return paths
requirements = [
"numpy==1.17.4",
"scipy==1.3.3",
"quadprog==0.1.7",
"pydantic==1.2",
"openpyxl==3.0.3"
]
test_requirements = ['pytest'] # [str(tr.req) for tr in parsed_test_requirements]
packages = find_packages(exclude=["tests.*", "tests"])
setup(
name='mts',
version='1.0',
packages=packages,
package_data={'mts': package_files('mts/data/')},
include_package_data=True,
install_requires=requirements,
tests_require=test_requirements,
entry_points="""
[console_scripts]
mts=mts.__main__:main
""",
test_suite='tests',
)
The issue seems to be something related with scipy, cython and lapack
#10 2.478 Downloading scipy-1.3.3.tar.gz (23.8 MB)
#10 5.424 Installing build dependencies: started
#10 72.54 Installing build dependencies: still running...
#10 76.12 Installing build dependencies: finished with status 'done'
#10 76.12 Getting requirements to build wheel: started
#10 76.37 Getting requirements to build wheel: finished with status 'done'
#10 76.37 Preparing wheel metadata: started
#10 76.55 Preparing wheel metadata: finished with status 'error'
#10 76.55 ERROR: Command errored out with exit status 1:
#10 76.55 command: /usr/local/bin/python /usr/local/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py prepare_metadata_for_build_wheel /tmp/tmp0depddtk
#10 76.55 cwd: /tmp/pip-install-77juwsbt/scipy
#10 76.55 Complete output (37 lines):
#10 76.55 setup.py:386: UserWarning: Unrecognized setuptools command ('dist_info --egg-base /tmp/pip-modern-metadata-dh_achih'), proceeding with generating Cython sources and expanding templates
#10 76.55 warnings.warn("Unrecognized setuptools command ('{}'), proceeding with "
#10 76.55 Running from scipy source directory.
#10 76.55 /tmp/pip-build-env-3o62xagc/overlay/lib/python3.8/site-packages/numpy/distutils/system_info.py:1712: UserWarning:
#10 76.55 Lapack (http://www.netlib.org/lapack/) libraries not found.
#10 76.55 Directories to search for the libraries can be specified in the
#10 76.55 numpy/distutils/site.cfg file (section [lapack]) or by setting
#10 76.55 the LAPACK environment variable.
#10 76.55 if getattr(self, '_calc_info_{}'.format(lapack))():
#10 76.55 /tmp/pip-build-env-3o62xagc/overlay/lib/python3.8/site-packages/numpy/distutils/system_info.py:1712: UserWarning:
#10 76.55 Lapack (http://www.netlib.org/lapack/) sources not found.
#10 76.55 Directories to search for the sources can be specified in the
#10 76.55 numpy/distutils/site.cfg file (section [lapack_src]) or by setting
#10 76.55 the LAPACK_SRC environment variable.
#10 76.55 if getattr(self, '_calc_info_{}'.format(lapack))():
#10 76.55 Traceback (most recent call last):
#10 76.55 File "/usr/local/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py", line 280, in <module>
#10 76.55 main()
#10 76.55 File "/usr/local/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py", line 263, in main
#10 76.55 json_out['return_val'] = hook(**hook_input['kwargs'])
#10 76.55 File "/usr/local/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py", line 133, in prepare_metadata_for_build_wheel
#10 76.55 return hook(metadata_directory, config_settings)
#10 76.55 File "/tmp/pip-build-env-3o62xagc/overlay/lib/python3.8/site-packages/setuptools/build_meta.py", line 174, in prepare_metadata_for_build_wheel
#10 76.55 self.run_setup()
#10 76.55 File "/tmp/pip-build-env-3o62xagc/overlay/lib/python3.8/site-packages/setuptools/build_meta.py", line 267, in run_setup
#10 76.55 super(_BuildMetaLegacyBackend,
#10 76.55 File "/tmp/pip-build-env-3o62xagc/overlay/lib/python3.8/site-packages/setuptools/build_meta.py", line 158, in run_setup
#10 76.55 exec(compile(code, __file__, 'exec'), locals())
#10 76.55 File "setup.py", line 505, in <module>
#10 76.55 setup_package()
#10 76.55 File "setup.py", line 501, in setup_package
#10 76.55 setup(**metadata)
#10 76.55 File "/tmp/pip-build-env-3o62xagc/overlay/lib/python3.8/site-packages/numpy/distutils/core.py", line 137, in setup
#10 76.55 config = configuration()
#10 76.55 File "setup.py", line 403, in configuration
#10 76.55 raise NotFoundError(msg)
#10 76.55 numpy.distutils.system_info.NotFoundError: No lapack/blas resources found.
#10 76.55 ----------------------------------------
#10 76.55 ERROR: Command errored out with exit status 1: /usr/local/bin/python /usr/local/lib/python3.8/site-packages/pip/_vendor/pep517/_in_process.py prepare_metadata_for_build_wheel /tmp/tmp0depddtk Check the logs for full command output.
#10 76.56 WARNING: You are using pip version 20.1.1; however, version 21.3.1 is available.
#10 76.56 You should consider upgrading via the '/usr/local/bin/python -m pip install --upgrade pip' command.
------
failed to solve: rpc error: code = Unknown desc = executor failed running [/bin/sh -c pip install -e .]: exit code: 1
[79166 ms] Command failed: docker-compose --project-name mts -f /Users/nithin/Documents/projects/mts/docker-compose.yml -f /Users/nithin/Documents/projects/mts/.devcontainer/docker-compose.yml build
How should I modify the dockerfile so that the build completes?
Reconsider your third-party dependency version-selection.
FROM python:3.8.3-buster
is Python 3.8
scipy 1.3.3 (released 2019!!!) doesn't support Python 3.8
Programming Language
C
Python
Python :: 3
Python :: 3.5
Python :: 3.6
Python :: 3.7
Update your dependencies. At least scipy, but you should check the others too.
Updating scipy should make this problem easily go away: