Here is a “small” part of pip error log.
...
2020-04-12T18:42:29,390 Running from numpy source directory.
2020-04-12T18:42:29,390 setup.py:461: UserWarning: Unrecognized setuptools command, proceeding with generating Cython sources and expanding templates
2020-04-12T18:42:29,391 run_build = parse_setuppy_commands()
2020-04-12T18:42:29,391 /tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/system_info.py:1896: UserWarning:
2020-04-12T18:42:29,392 Optimized (vendor) Blas libraries are not found.
2020-04-12T18:42:29,392 Falls back to netlib Blas library which has worse performance.
2020-04-12T18:42:29,392 A better performance should be easily gained by switching
2020-04-12T18:42:29,393 Blas library.
2020-04-12T18:42:29,393 if self._calc_info(blas):
2020-04-12T18:42:29,393 /tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/system_info.py:1896: UserWarning:
2020-04-12T18:42:29,394 Blas (http://www.netlib.org/blas/) libraries not found.
2020-04-12T18:42:29,394 Directories to search for the libraries can be specified in the
2020-04-12T18:42:29,395 numpy/distutils/site.cfg file (section [blas]) or by setting
2020-04-12T18:42:29,395 the BLAS environment variable.
2020-04-12T18:42:29,395 if self._calc_info(blas):
2020-04-12T18:42:29,396 /tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/system_info.py:1896: UserWarning:
2020-04-12T18:42:29,396 Blas (http://www.netlib.org/blas/) sources not found.
2020-04-12T18:42:29,396 Directories to search for the sources can be specified in the
2020-04-12T18:42:29,397 numpy/distutils/site.cfg file (section [blas_src]) or by setting
2020-04-12T18:42:29,397 the BLAS_SRC environment variable.
2020-04-12T18:42:29,398 if self._calc_info(blas):
2020-04-12T18:42:29,398 /tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/system_info.py:1730: UserWarning:
2020-04-12T18:42:29,398 Lapack (http://www.netlib.org/lapack/) libraries not found.
2020-04-12T18:42:29,399 Directories to search for the libraries can be specified in the
2020-04-12T18:42:29,399 numpy/distutils/site.cfg file (section [lapack]) or by setting
2020-04-12T18:42:29,400 the LAPACK environment variable.
2020-04-12T18:42:29,400 return getattr(self, '_calc_info_{}'.format(name))()
2020-04-12T18:42:29,400 /tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/system_info.py:1730: UserWarning:
2020-04-12T18:42:29,401 Lapack (http://www.netlib.org/lapack/) sources not found.
2020-04-12T18:42:29,401 Directories to search for the sources can be specified in the
2020-04-12T18:42:29,401 numpy/distutils/site.cfg file (section [lapack_src]) or by setting
2020-04-12T18:42:29,402 the LAPACK_SRC environment variable.
2020-04-12T18:42:29,402 return getattr(self, '_calc_info_{}'.format(name))()
2020-04-12T18:42:29,402 /usr/lib/python3.6/distutils/dist.py:261: UserWarning: Unknown distribution option: 'define_macros'
2020-04-12T18:42:29,404 Traceback (most recent call last):
2020-04-12T18:42:29,404 File "/usr/lib/python3.6/site-packages/pip/_vendor/pep517/_in_process.py", line 257, in <module>
2020-04-12T18:42:29,405 main()
2020-04-12T18:42:29,405 File "/usr/lib/python3.6/site-packages/pip/_vendor/pep517/_in_process.py", line 240, in main
2020-04-12T18:42:29,406 json_out['return_val'] = hook(**hook_input['kwargs'])
2020-04-12T18:42:29,406 File "/usr/lib/python3.6/site-packages/pip/_vendor/pep517/_in_process.py", line 110, in prepare_metadat a_for_build_wheel
2020-04-12T18:42:29,407 return hook(metadata_directory, config_settings)
2020-04-12T18:42:29,408 File "/tmp/pip-build-env-82ka3drp/overlay/lib/python3.6/site-packages/setuptools/build_meta.py", line 1 58, in prepare_metadata_for_build_wheel
2020-04-12T18:42:29,408 self.run_setup()
2020-04-12T18:42:29,409 File "/tmp/pip-build-env-82ka3drp/overlay/lib/python3.6/site-packages/setuptools/build_meta.py", line 2 50, in run_setup
2020-04-12T18:42:29,409 self).run_setup(setup_script=setup_script)
2020-04-12T18:42:29,410 File "/tmp/pip-build-env-82ka3drp/overlay/lib/python3.6/site-packages/setuptools/build_meta.py", line 1 43, in run_setup
2020-04-12T18:42:29,410 exec(compile(code, __file__, 'exec'), locals())
2020-04-12T18:42:29,411 File "setup.py", line 488, in <module>
2020-04-12T18:42:29,411 setup_package()
2020-04-12T18:42:29,412 File "setup.py", line 480, in setup_package
2020-04-12T18:42:29,412 setup(**metadata)
2020-04-12T18:42:29,413 File "/tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/core.py", line 171, in setup
2020-04-12T18:42:29,413 return old_setup(**new_attr)
2020-04-12T18:42:29,414 File "/tmp/pip-build-env-82ka3drp/overlay/lib/python3.6/site-packages/setuptools/__init__.py", line 144 , in setup
2020-04-12T18:42:29,414 return distutils.core.setup(**attrs)
2020-04-12T18:42:29,415 File "/core.py", line 148, in setup
2020-04-12T18:42:29,415 File "/dist.py", line 955, in run_commands
2020-04-12T18:42:29,416 File "/dist.py", line 974, in run_command
2020-04-12T18:42:29,416 File "/tmp/pip-build-env-82ka3drp/overlay/lib/python3.6/site-packages/setuptools/command/dist_info.py", line 31, in run
2020-04-12T18:42:29,417 egg_info.run()
2020-04-12T18:42:29,417 File "/tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/command/egg_info.py", line 26, in run
2020-04-12T18:42:29,418 self.run_command("build_src")
2020-04-12T18:42:29,418 File "/cmd.py", line 313, in run_command
2020-04-12T18:42:29,419 File "/dist.py", line 974, in run_command
2020-04-12T18:42:29,419 File "/tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/command/build_src.py", line 146, in run
2020-04-12T18:42:29,420 self.build_sources()
2020-04-12T18:42:29,421 File "/tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/command/build_src.py", line 157, in build_sources
2020-04-12T18:42:29,421 self.build_library_sources(*libname_info)
2020-04-12T18:42:29,422 File "/tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/command/build_src.py", line 290, in build_library _sources
2020-04-12T18:42:29,422 sources = self.generate_sources(sources, (lib_name, build_info))
2020-04-12T18:42:29,423 File "/tmp/pip-install-c0hcmv_o/numpy/numpy/distutils/command/build_src.py", line 380, in generate_sour ces
2020-04-12T18:42:29,423 source = func(extension, build_dir)
2020-04-12T18:42:29,424 File "numpy/core/setup.py", line 661, in get_mathlib_info
2020-04-12T18:42:29,424 raise RuntimeError("Broken toolchain: cannot link a simple C program")
2020-04-12T18:42:29,424 RuntimeError: Broken toolchain: cannot link a simple C program
2020-04-12T18:42:29,579 Cleaning up...
2020-04-12T18:42:29,579 Removing source in /tmp/pip-install-c0hcmv_o/numpy
2020-04-12T18:42:29,723 Removed numpy from https://files.pythonhosted.org/packages/84/1e/ff467ac56bfeaea51d4a2e72d315c1fe440b20192fea 7e460f0f248acac8/numpy-1.18.2.zip#sha256=e7894793e6e8540dbeac77c87b489e331947813511108ae097f1715c018b8f3d from build tracker '/tmp/pi p-req-tracker-6uffhcrv'
2020-04-12T18:42:29,724 Removed build tracker: '/tmp/pip-req-tracker-6uffhcrv'
2020-04-12T18:42:29,725 ERROR: Command errored out with exit status 1: /usr/bin/python3 /usr/lib/python3.6/site-packages/pip/_vendor/ pep517/_in_process.py prepare_metadata_for_build_wheel /tmp/tmpgm6t56qq Check the logs for full command output.
2020-04-12T18:42:29,726 Exception information:
2020-04-12T18:42:29,726 Traceback (most recent call last):
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/cli/base_command.py", line 186, in _main
2020-04-12T18:42:29,726 status = self.run(options, args)
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/commands/install.py", line 331, in run
2020-04-12T18:42:29,726 resolver.resolve(requirement_set)
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/legacy_resolve.py", line 177, in resolve
2020-04-12T18:42:29,726 discovered_reqs.extend(self._resolve_one(requirement_set, req))
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/legacy_resolve.py", line 333, in _resolve_one
2020-04-12T18:42:29,726 abstract_dist = self._get_abstract_dist_for(req_to_install)
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/legacy_resolve.py", line 282, in _get_abstract_dist_fo r
2020-04-12T18:42:29,726 abstract_dist = self.preparer.prepare_linked_requirement(req)
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/operations/prepare.py", line 516, in prepare_linked_re quirement
2020-04-12T18:42:29,726 req, self.req_tracker, self.finder, self.build_isolation,
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/operations/prepare.py", line 95, in _get_prepared_dist ribution
2020-04-12T18:42:29,726 abstract_dist.prepare_distribution_metadata(finder, build_isolation)
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/distributions/sdist.py", line 40, in prepare_distribut ion_metadata
2020-04-12T18:42:29,726 self.req.prepare_metadata()
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/req/req_install.py", line 564, in prepare_metadata
2020-04-12T18:42:29,726 self.metadata_directory = self._generate_metadata()
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/req/req_install.py", line 551, in _generate_metadata
2020-04-12T18:42:29,726 backend=self.pep517_backend,
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/operations/build/metadata.py", line 37, in generate_me tadata
2020-04-12T18:42:29,726 metadata_dir
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_vendor/pep517/wrappers.py", line 170, in prepare_metadata_for_b uild_wheel
2020-04-12T18:42:29,726 '_allow_fallback': _allow_fallback,
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_vendor/pep517/wrappers.py", line 248, in _call_hook
2020-04-12T18:42:29,726 extra_environ=extra_environ
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/utils/subprocess.py", line 275, in runner
2020-04-12T18:42:29,726 spinner=spinner,
2020-04-12T18:42:29,726 File "/usr/lib/python3.6/site-packages/pip/_internal/utils/subprocess.py", line 242, in call_subprocess
2020-04-12T18:42:29,726 raise InstallationError(exc_msg)
2020-04-12T18:42:29,726 pip._internal.exceptions.InstallationError: Command errored out with exit status 1: /usr/bin/python3 /usr/lib /python3.6/site-packages/pip/_vendor/pep517/_in_process.py prepare_metadata_for_build_wheel /tmp/tmpgm6t56qq Check the logs for full command output.
Interesting part is:
2020-04-12T18:42:29,424 File "numpy/core/setup.py", line 661, in get_mathlib_info
2020-04-12T18:42:29,424 raise RuntimeError("Broken toolchain: cannot link a simple C program")
2020-04-12T18:42:29,424 RuntimeError: Broken toolchain: cannot link a simple C program
So as you wrote, numpy needs gcc, which does not work on Turris right know. I suppose that same problem may be with other python packages… Maybe a stupid question of beginner, but is it possbile to uninstall binutils, then install gcc, install packages i need a then install binutils back?