Sage 10.2.beta3 released
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Volker Braun
Sep 16, 2023, 11:31:53 AM9/16/23
to sage-release
As always, you can get the latest beta version from the "develop" git branch. Alternatively, the self-contained source tarball is at http://www.sagemath.org/download-latest.html
80f6d772a15 (tag: 10.2.beta3, github/develop) Updated SageMath version to 10.2.beta3
f32860b2015 gh-36263: Fix setuptools version bounds in generated `pyproject.toml` files
c95bd1440b4 gh-36260: `MPowerSeries`: Don't go through symbolics to compute exp(0), log(1)
cac16e2fa5d gh-36256: Support more system-site packages
238b1dc6eef gh-36255: numpy-1.25 compatibility
486d3b99e87 gh-36250: various details in sets/disjoint_set
357b34b55f7 gh-36249: E228 and E225 in groups,interfaces,modules,plot
adc3df9e5c0 gh-36248: some care for unused variables in matrix/
413b5d679c5 gh-36247: fix E228 and E225 in categories/
96d249a37d9 gh-36243: ⬆️ Bump actions/checkout from 3 to 4
4bb48bddfa4 gh-36241: ⬆️ Bump myrotvorets/set-commit-status-action from 1.1.7 to 2.0.0
191d1f97ba6 gh-36240: Fix Python package metadata generated by `bootstrap`
905d3c2d486 gh-36238: `sage -t`: Distinguish .pxd from .pyx in doctest basenames
b6b50a80e96 gh-36235: support for ecl 23.9.9
683b05bb5a2 gh-36232: Make `min_spanning_tree` robust to incomparable vertex labels
8d09d156fcf gh-36231: fix typo in documentation
33182d9feaa gh-36225: improve the use of graphs in `sage/combinat/posets/*`
33d6cc5a001 gh-36224: Add cycle_type() and fix to_cycle() to SignedPermutation.
3e6db2405df gh-36221: get rid of xrange again
029450c8712 gh-36219: configure.ac: disable webencodings,tinycss2 with --disable-notebook
3ea961767e8 gh-36218: src/bin/sage-env: set PYDEVD_DISABLE_FILE_VALIDATION=1
f95e442cb4b gh-36213: Fix sync labels issues for step 2 going live
e74579d32b9 gh-36212: singular: added missing #endif
322ad22e8c8 gh-36210: configure.ac: disable mathjax with --disable-doc
6fe3561bbbb gh-36209: build/pkgs/ipython/dependencies: drop jinja2
78efe5546db gh-36206: Remove some obsolete "six" dependencies
1a1df6f6fbe gh-36186: Drop obsolete html5lib package
5b2f125a842 gh-36176: build/pkgs/tox: Update, require tox >= 4.2.7, update dependencies
9dd8a772e53 gh-36168: `sage.groups`: Modularization fixes, `# needs`, doctest cosmetics
4f4fbc29184 gh-36165: Fix reduction of cusps for Gamma(N)
45537351d7e gh-36122: Added hash function to elements of the fundamental group of an extended affine Weyl group
5b9137c7204 gh-35970: src/sage/combinat/affine_permutation.py: Fix docstring markup
bbe57a4d34d gh-35964: Matroids: Don't forget to check rank in `equals`, `is_isomorphism`
23b1a0af6f0 gh-35875: Implementing moment angle complexes
3a3126ffc0e gh-35767: add .basis_matrix() wrapper to quaternion orders
d412568dff7 gh-35485: New comparison mode to lazy series and better undefined check
21a624a7b45 gh-35362: Implement infinite sums and products for lazy series
8c040276465 gh-35038: Implement Milnor fiber and Coxeter complexes
41031292ff1 (tag: 10.2.beta2) Updated SageMath version to 10.2.beta2
f32860b2015 gh-36263: Fix setuptools version bounds in generated `pyproject.toml` files
c95bd1440b4 gh-36260: `MPowerSeries`: Don't go through symbolics to compute exp(0), log(1)
cac16e2fa5d gh-36256: Support more system-site packages
238b1dc6eef gh-36255: numpy-1.25 compatibility
486d3b99e87 gh-36250: various details in sets/disjoint_set
357b34b55f7 gh-36249: E228 and E225 in groups,interfaces,modules,plot
adc3df9e5c0 gh-36248: some care for unused variables in matrix/
413b5d679c5 gh-36247: fix E228 and E225 in categories/
96d249a37d9 gh-36243: ⬆️ Bump actions/checkout from 3 to 4
4bb48bddfa4 gh-36241: ⬆️ Bump myrotvorets/set-commit-status-action from 1.1.7 to 2.0.0
191d1f97ba6 gh-36240: Fix Python package metadata generated by `bootstrap`
905d3c2d486 gh-36238: `sage -t`: Distinguish .pxd from .pyx in doctest basenames
b6b50a80e96 gh-36235: support for ecl 23.9.9
683b05bb5a2 gh-36232: Make `min_spanning_tree` robust to incomparable vertex labels
8d09d156fcf gh-36231: fix typo in documentation
33182d9feaa gh-36225: improve the use of graphs in `sage/combinat/posets/*`
33d6cc5a001 gh-36224: Add cycle_type() and fix to_cycle() to SignedPermutation.
3e6db2405df gh-36221: get rid of xrange again
029450c8712 gh-36219: configure.ac: disable webencodings,tinycss2 with --disable-notebook
3ea961767e8 gh-36218: src/bin/sage-env: set PYDEVD_DISABLE_FILE_VALIDATION=1
f95e442cb4b gh-36213: Fix sync labels issues for step 2 going live
e74579d32b9 gh-36212: singular: added missing #endif
322ad22e8c8 gh-36210: configure.ac: disable mathjax with --disable-doc
6fe3561bbbb gh-36209: build/pkgs/ipython/dependencies: drop jinja2
78efe5546db gh-36206: Remove some obsolete "six" dependencies
1a1df6f6fbe gh-36186: Drop obsolete html5lib package
5b2f125a842 gh-36176: build/pkgs/tox: Update, require tox >= 4.2.7, update dependencies
9dd8a772e53 gh-36168: `sage.groups`: Modularization fixes, `# needs`, doctest cosmetics
4f4fbc29184 gh-36165: Fix reduction of cusps for Gamma(N)
45537351d7e gh-36122: Added hash function to elements of the fundamental group of an extended affine Weyl group
5b9137c7204 gh-35970: src/sage/combinat/affine_permutation.py: Fix docstring markup
bbe57a4d34d gh-35964: Matroids: Don't forget to check rank in `equals`, `is_isomorphism`
23b1a0af6f0 gh-35875: Implementing moment angle complexes
3a3126ffc0e gh-35767: add .basis_matrix() wrapper to quaternion orders
d412568dff7 gh-35485: New comparison mode to lazy series and better undefined check
21a624a7b45 gh-35362: Implement infinite sums and products for lazy series
8c040276465 gh-35038: Implement Milnor fiber and Coxeter complexes
41031292ff1 (tag: 10.2.beta2) Updated SageMath version to 10.2.beta2
Kwankyu Lee
Sep 16, 2023, 5:52:59 PM9/16/23
to sage-release
Incremental build failed
[scipy-1.11.2] [......................................................................]
[scipy-1.11.2] scipy-1.11.2
[scipy-1.11.2] ====================================================
[sagelib-10.2.beta3] Removing file or directory /Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/sagemath-standard.egg-link
[sagelib-10.2.beta3] Removing pth entries from /Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/easy-install.pth:
[sagelib-10.2.beta3] Removing entry: /Users/kwankyu/GitHub/sage-dev/src
[sagelib-10.2.beta3] Successfully uninstalled sagemath-standard-10.2b3
[sagelib-10.2.beta3] Running setup.py develop for sagemath-standard
[sagelib-10.2.beta3] Running command python setup.py develop
[scipy-1.11.2] Setting up build directory for scipy-1.11.2
[scipy-1.11.2] Finished extraction
[scipy-1.11.2] Applying patches from ../patches...
[scipy-1.11.2] Applying ../patches/numpy-include.patch
[scipy-1.11.2] patching file scipy/spatial/setup.py
[scipy-1.11.2] Hunk #1 succeeded at 39 (offset -1 lines).
[scipy-1.11.2] Applying ../patches/tests_no_internet_dependency.patch
[scipy-1.11.2] patching file scipy/datasets/meson.build
[scipy-1.11.2] ****************************************************
[scipy-1.11.2] Host system:
[scipy-1.11.2] Darwin Helios.local 22.6.0 Darwin Kernel Version 22.6.0: Wed Jul 5 22:21:56 PDT 2023; root:xnu-8796.141.3~6/RELEASE_X86_64 x86_64
[scipy-1.11.2] ****************************************************
[scipy-1.11.2] C compiler: gcc
[scipy-1.11.2] C compiler version:
[scipy-1.11.2] Apple clang version 14.0.3 (clang-1403.0.22.14.1)
[scipy-1.11.2] Target: x86_64-apple-darwin22.6.0
[scipy-1.11.2] Thread model: posix
[scipy-1.11.2] InstalledDir: /Library/Developer/CommandLineTools/usr/bin
[scipy-1.11.2] ****************************************************
[scipy-1.11.2] Package 'scipy' is currently not installed
[scipy-1.11.2] No legacy uninstaller found for 'scipy'; nothing to do
[scipy-1.11.2] Installing scipy-1.11.2
[scipy-1.11.2] DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
[scipy-1.11.2] Processing /Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/var/tmp/sage/build/scipy-1.11.2/src
[scipy-1.11.2] Preparing metadata (pyproject.toml): started
[scipy-1.11.2] Running command Preparing metadata (pyproject.toml)
[scipy-1.11.2] Preparing metadata (pyproject.toml): finished with status 'done'
[scipy-1.11.2] ERROR: Exception:
[scipy-1.11.2] Traceback (most recent call last):
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/cli/base_command.py", line 160, in exc_logging_wrapper
[scipy-1.11.2] status = run_func(*args)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/cli/req_command.py", line 247, in wrapper
[scipy-1.11.2] return func(self, options, args)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/commands/wheel.py", line 170, in run
[scipy-1.11.2] requirement_set = resolver.resolve(reqs, check_supported_wheels=True)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/resolver.py", line 73, in resolve
[scipy-1.11.2] collected = self.factory.collect_root_requirements(root_reqs)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 491, in collect_root_requirements
[scipy-1.11.2] req = self._make_requirement_from_install_req(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 453, in _make_requirement_from_install_req
[scipy-1.11.2] cand = self._make_candidate_from_link(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 206, in _make_candidate_from_link
[scipy-1.11.2] self._link_candidate_cache[link] = LinkCandidate(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 297, in __init__
[scipy-1.11.2] super().__init__(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 162, in __init__
[scipy-1.11.2] self.dist = self._prepare()
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 231, in _prepare
[scipy-1.11.2] dist = self._prepare_distribution()
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 308, in _prepare_distribution
[scipy-1.11.2] return preparer.prepare_linked_requirement(self._ireq, parallel_builds=True)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/prepare.py", line 491, in prepare_linked_requirement
[scipy-1.11.2] return self._prepare_linked_requirement(req, parallel_builds)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/prepare.py", line 577, in _prepare_linked_requirement
[scipy-1.11.2] dist = _get_prepared_distribution(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/prepare.py", line 69, in _get_prepared_distribution
[scipy-1.11.2] abstract_dist.prepare_distribution_metadata(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/distributions/sdist.py", line 61, in prepare_distribution_metadata
[scipy-1.11.2] self.req.prepare_metadata()
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/req/req_install.py", line 535, in prepare_metadata
[scipy-1.11.2] self.metadata_directory = generate_metadata(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/build/metadata.py", line 35, in generate_metadata
[scipy-1.11.2] distinfo_dir = backend.prepare_metadata_for_build_wheel(metadata_dir)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/utils/misc.py", line 706, in prepare_metadata_for_build_wheel
[scipy-1.11.2] return super().prepare_metadata_for_build_wheel(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_vendor/pep517/wrappers.py", line 189, in prepare_metadata_for_build_wheel
[scipy-1.11.2] return self._call_hook('prepare_metadata_for_build_wheel', {
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_vendor/pep517/wrappers.py", line 319, in _call_hook
[scipy-1.11.2] raise BackendUnavailable(data.get('traceback', ''))
[scipy-1.11.2] pip._vendor.pep517.wrappers.BackendUnavailable: Traceback (most recent call last):
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 77, in _build_backend
[scipy-1.11.2] obj = import_module(mod_path)
[scipy-1.11.2] File "/usr/local/Cellar/pyt...@3.10/3.10.9/Frameworks/Python.framework/Versions/3.10/lib/python3.10/importlib/__init__.py", line 126, in import_module
[scipy-1.11.2] return _bootstrap._gcd_import(name[level:], package, level)
[scipy-1.11.2] File "<frozen importlib._bootstrap>", line 1050, in _gcd_import
[scipy-1.11.2] File "<frozen importlib._bootstrap>", line 1027, in _find_and_load
[scipy-1.11.2] File "<frozen importlib._bootstrap>", line 1004, in _find_and_load_unlocked
[scipy-1.11.2] ModuleNotFoundError: No module named 'mesonpy'
[scipy-1.11.2]
[scipy-1.11.2] ********************************************************************************
[scipy-1.11.2] Error building a wheel for scipy-1.11.2
[scipy-1.11.2] ********************************************************************************
[scipy-1.11.2]
[scipy-1.11.2] real 0m0.924s
[scipy-1.11.2] user 0m0.663s
[scipy-1.11.2] sys 0m0.184s
[scipy-1.11.2] ************************************************************************
[scipy-1.11.2] Error installing package scipy-1.11.2
[scipy-1.11.2] scipy-1.11.2
[scipy-1.11.2] ====================================================
[sagelib-10.2.beta3] Removing file or directory /Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/sagemath-standard.egg-link
[sagelib-10.2.beta3] Removing pth entries from /Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/easy-install.pth:
[sagelib-10.2.beta3] Removing entry: /Users/kwankyu/GitHub/sage-dev/src
[sagelib-10.2.beta3] Successfully uninstalled sagemath-standard-10.2b3
[sagelib-10.2.beta3] Running setup.py develop for sagemath-standard
[sagelib-10.2.beta3] Running command python setup.py develop
[scipy-1.11.2] Setting up build directory for scipy-1.11.2
[scipy-1.11.2] Finished extraction
[scipy-1.11.2] Applying patches from ../patches...
[scipy-1.11.2] Applying ../patches/numpy-include.patch
[scipy-1.11.2] patching file scipy/spatial/setup.py
[scipy-1.11.2] Hunk #1 succeeded at 39 (offset -1 lines).
[scipy-1.11.2] Applying ../patches/tests_no_internet_dependency.patch
[scipy-1.11.2] patching file scipy/datasets/meson.build
[scipy-1.11.2] ****************************************************
[scipy-1.11.2] Host system:
[scipy-1.11.2] Darwin Helios.local 22.6.0 Darwin Kernel Version 22.6.0: Wed Jul 5 22:21:56 PDT 2023; root:xnu-8796.141.3~6/RELEASE_X86_64 x86_64
[scipy-1.11.2] ****************************************************
[scipy-1.11.2] C compiler: gcc
[scipy-1.11.2] C compiler version:
[scipy-1.11.2] Apple clang version 14.0.3 (clang-1403.0.22.14.1)
[scipy-1.11.2] Target: x86_64-apple-darwin22.6.0
[scipy-1.11.2] Thread model: posix
[scipy-1.11.2] InstalledDir: /Library/Developer/CommandLineTools/usr/bin
[scipy-1.11.2] ****************************************************
[scipy-1.11.2] Package 'scipy' is currently not installed
[scipy-1.11.2] No legacy uninstaller found for 'scipy'; nothing to do
[scipy-1.11.2] Installing scipy-1.11.2
[scipy-1.11.2] DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
[scipy-1.11.2] Processing /Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/var/tmp/sage/build/scipy-1.11.2/src
[scipy-1.11.2] Preparing metadata (pyproject.toml): started
[scipy-1.11.2] Running command Preparing metadata (pyproject.toml)
[scipy-1.11.2] Preparing metadata (pyproject.toml): finished with status 'done'
[scipy-1.11.2] ERROR: Exception:
[scipy-1.11.2] Traceback (most recent call last):
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/cli/base_command.py", line 160, in exc_logging_wrapper
[scipy-1.11.2] status = run_func(*args)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/cli/req_command.py", line 247, in wrapper
[scipy-1.11.2] return func(self, options, args)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/commands/wheel.py", line 170, in run
[scipy-1.11.2] requirement_set = resolver.resolve(reqs, check_supported_wheels=True)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/resolver.py", line 73, in resolve
[scipy-1.11.2] collected = self.factory.collect_root_requirements(root_reqs)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 491, in collect_root_requirements
[scipy-1.11.2] req = self._make_requirement_from_install_req(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 453, in _make_requirement_from_install_req
[scipy-1.11.2] cand = self._make_candidate_from_link(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/factory.py", line 206, in _make_candidate_from_link
[scipy-1.11.2] self._link_candidate_cache[link] = LinkCandidate(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 297, in __init__
[scipy-1.11.2] super().__init__(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 162, in __init__
[scipy-1.11.2] self.dist = self._prepare()
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 231, in _prepare
[scipy-1.11.2] dist = self._prepare_distribution()
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 308, in _prepare_distribution
[scipy-1.11.2] return preparer.prepare_linked_requirement(self._ireq, parallel_builds=True)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/prepare.py", line 491, in prepare_linked_requirement
[scipy-1.11.2] return self._prepare_linked_requirement(req, parallel_builds)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/prepare.py", line 577, in _prepare_linked_requirement
[scipy-1.11.2] dist = _get_prepared_distribution(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/prepare.py", line 69, in _get_prepared_distribution
[scipy-1.11.2] abstract_dist.prepare_distribution_metadata(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/distributions/sdist.py", line 61, in prepare_distribution_metadata
[scipy-1.11.2] self.req.prepare_metadata()
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/req/req_install.py", line 535, in prepare_metadata
[scipy-1.11.2] self.metadata_directory = generate_metadata(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/operations/build/metadata.py", line 35, in generate_metadata
[scipy-1.11.2] distinfo_dir = backend.prepare_metadata_for_build_wheel(metadata_dir)
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_internal/utils/misc.py", line 706, in prepare_metadata_for_build_wheel
[scipy-1.11.2] return super().prepare_metadata_for_build_wheel(
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_vendor/pep517/wrappers.py", line 189, in prepare_metadata_for_build_wheel
[scipy-1.11.2] return self._call_hook('prepare_metadata_for_build_wheel', {
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_vendor/pep517/wrappers.py", line 319, in _call_hook
[scipy-1.11.2] raise BackendUnavailable(data.get('traceback', ''))
[scipy-1.11.2] pip._vendor.pep517.wrappers.BackendUnavailable: Traceback (most recent call last):
[scipy-1.11.2] File "/Users/kwankyu/GitHub/sage-dev/local/var/lib/sage/venv-python3.10/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 77, in _build_backend
[scipy-1.11.2] obj = import_module(mod_path)
[scipy-1.11.2] File "/usr/local/Cellar/pyt...@3.10/3.10.9/Frameworks/Python.framework/Versions/3.10/lib/python3.10/importlib/__init__.py", line 126, in import_module
[scipy-1.11.2] return _bootstrap._gcd_import(name[level:], package, level)
[scipy-1.11.2] File "<frozen importlib._bootstrap>", line 1050, in _gcd_import
[scipy-1.11.2] File "<frozen importlib._bootstrap>", line 1027, in _find_and_load
[scipy-1.11.2] File "<frozen importlib._bootstrap>", line 1004, in _find_and_load_unlocked
[scipy-1.11.2] ModuleNotFoundError: No module named 'mesonpy'
[scipy-1.11.2]
[scipy-1.11.2] ********************************************************************************
[scipy-1.11.2] Error building a wheel for scipy-1.11.2
[scipy-1.11.2] ********************************************************************************
[scipy-1.11.2]
[scipy-1.11.2] real 0m0.924s
[scipy-1.11.2] user 0m0.663s
[scipy-1.11.2] sys 0m0.184s
[scipy-1.11.2] ************************************************************************
[scipy-1.11.2] Error installing package scipy-1.11.2
Kwankyu Lee
Sep 16, 2023, 5:59:58 PM9/16/23
to sage-release
Succeeded after sage -pip install meson-python.
Emmanuel Charpentier
Sep 17, 2023, 4:36:19 AM9/17/23
to sage-release
FWW, on Debian testing running on core i7 + 16 GB RAM, upgrading 10.2.beta2 to 10.2.beta3 went smoothly (without having to mess with meson) ; ptestlong gives two permanent failures :
---------------------------------------------------------------------- sage -t --long --warn-long 217.3 --random-seed=63212668666681120669364946927671801414 src/sage/combinat/posets/posets.py # 1 doctest failed sage -t --long --warn-long 217.3 --random-seed=63212668666681120669364946927671801414 src/sage/functions/special.py # 2 doctests failed ----------------------------------------------------------------------already reported for a couple of betas.
HTH,
John H Palmieri
Sep 17, 2023, 2:25:02 PM9/17/23
to sage-release
Similar problem for me on OS X. I don't understand something: the dependencies for scipy include meson_python, but that package is not installed before scipy attempts to build, and fails. Running "make meson_python" and then "make scipy" succeeds, as does "make".
Dima Pasechnik
Sep 17, 2023, 4:34:35 PM9/17/23
to sage-release
On Sun, Sep 17, 2023 at 7:25 PM John H Palmieri <jhpalm...@gmail.com> wrote:
>
> Similar problem for me on OS X. I don't understand something: the dependencies for scipy include meson_python, but that package is not installed before scipy attempts to build, and fails. Running "make meson_python" and then "make scipy" succeeds, as does "make".
$ cat build/pkgs/scipy/dependencies
$(BLAS) gfortran numpy pybind11 cython pythran | $(PYTHON_TOOLCHAIN) meson_python $(PYTHON)
looks OK. So this looks like a bug in our build system
$(BLAS) gfortran numpy pybind11 cython pythran | $(PYTHON_TOOLCHAIN) meson_python $(PYTHON)
looks OK. So this looks like a bug in our build system
> --
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Matthias Köppe
Sep 17, 2023, 8:02:05 PM9/17/23
to sage-release
Yes, it's a bug in the build system. Running CONFIG_SHELL="bash -x" ./configure....
+ printf '%s\n' 'configure:49868: result: no; skipping check'
+ printf '%s\n' 'no; skipping check'
+ sage_spkg_install_meson-python=yes
./configure: line 49870: sage_spkg_install_meson-python=yes: command not found
+ test yes = yes
+ :
+ sage_use_system_meson-python=no
./configure: line 49874: sage_use_system_meson-python=no: command not found
+ test xno = xno
+ :
+ sage_use_system_meson_python=yes
+ printf '%s\n' 'configure:49884: will use system package and not install SPKG meson_python'
+ printf '%s\n' 'configure: will use system package and not install SPKG meson_python'
+
+ printf '%s\n' 'no; skipping check'
+ sage_spkg_install_meson-python=yes
./configure: line 49870: sage_spkg_install_meson-python=yes: command not found
+ test yes = yes
+ :
+ sage_use_system_meson-python=no
./configure: line 49874: sage_use_system_meson-python=no: command not found
+ test xno = xno
+ :
+ sage_use_system_meson_python=yes
+ printf '%s\n' 'configure:49884: will use system package and not install SPKG meson_python'
+ printf '%s\n' 'configure: will use system package and not install SPKG meson_python'
+
Matthias Köppe
Sep 17, 2023, 8:08:18 PM9/17/23
to sage-release
I've pushed a fix to https://github.com/sagemath/sage/pull/36276
John Cremona
Sep 18, 2023, 4:04:05 AM9/18/23
to sage-r...@googlegroups.com
What should I do to avoid this message when running "make testlong":
pytest is not installed in the venv, skip checking tests that rely on it
i.e. how should I install pytest. System-wide or what?
John
To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/80b5a133-f2c7-4e2a-bc7d-ff10d00acf5an%40googlegroups.com.
Dima Pasechnik
Sep 18, 2023, 4:49:59 AM9/18/23
to sage-r...@googlegroups.com
run
make pytest
(or ./sage -i pytest)
to install it and have it ready for Sage.
(i.e. install it into Sage's venv)
> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAD0p0K43i18P1SDVn5_FMFxeNbTCjL1XDkNUYEmV5PsD%3DoQYDQ%40mail.gmail.com.
make pytest
(or ./sage -i pytest)
to install it and have it ready for Sage.
(i.e. install it into Sage's venv)
John Cremona
Sep 18, 2023, 4:57:53 AM9/18/23
to sage-r...@googlegroups.com
On Mon, 18 Sept 2023 at 09:50, Dima Pasechnik <dim...@gmail.com> wrote:
run
make pytest
(or ./sage -i pytest)
to install it and have it ready for Sage.
(i.e. install it into Sage's venv)
Thanks Dima
John
To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAAWYfq1VxrUP-VRbQWkBB%3D005VvRK6PWX2VMjGmfL%2B1SyzkJ5Q%40mail.gmail.com.
John H Palmieri
Sep 21, 2023, 7:52:56 PM9/21/23
to sage-release
A new problem, after upgrading to OS X 13.6 and the newest version of the command-line tools: scipy fails to build again, this time with the error:
../../meson.build:82:0: ERROR: Unable to detect linker for compiler `gfortran -Wl,--version -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -Wl,-rpath,/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -Wl,-rpath,/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib`
stdout:
stderr: collect2 version 13.2.0
/usr/bin/ld -syslibroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/ -dynamic -arch arm64 -platform_version macos 13.0.0 0.0 -o a.out -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13 -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/opt/homebrew/opt/primesieve/lib -L/opt/homebrew/opt/bdw-gc/lib -L/opt/homebrew/opt/libpng/lib -L/opt/homebrew/opt/ntl/lib -L/opt/homebrew/opt/bzip2/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/lib -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13/../../.. --version -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -lemutls_w -lgcc -lSystem -lgcc -no_compact_unwind -rpath @loader_path -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc/aarch64-apple-darwin22/13 -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -rpath /opt/homebrew/Cellar/primesieve/11.1/lib -rpath /opt/homebrew/Cellar/bdw-gc/8.2.4/lib -rpath /opt/homebrew/Cellar/libpng/1.6.40/lib -rpath /opt/homebrew/Cellar/ntl/11.5.1/lib -rpath /opt/homebrew/Cellar/bzip2/1.0.8/lib -rpath /opt/homebrew/Cellar/readline/8.2.1/lib -rpath /opt/homebrew/lib -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current
ld: unknown options: --version
collect2: error: ld returned 1 exit status
stderr: collect2 version 13.2.0
/usr/bin/ld -syslibroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/ -dynamic -arch arm64 -platform_version macos 13.0.0 0.0 -o a.out -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13 -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -L/opt/homebrew/opt/primesieve/lib -L/opt/homebrew/opt/bdw-gc/lib -L/opt/homebrew/opt/libpng/lib -L/opt/homebrew/opt/ntl/lib -L/opt/homebrew/opt/bzip2/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/lib -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13/../../.. --version -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -lemutls_w -lgcc -lSystem -lgcc -no_compact_unwind -rpath @loader_path -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc/aarch64-apple-darwin22/13 -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -rpath /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/lib -rpath /opt/homebrew/Cellar/primesieve/11.1/lib -rpath /opt/homebrew/Cellar/bdw-gc/8.2.4/lib -rpath /opt/homebrew/Cellar/libpng/1.6.40/lib -rpath /opt/homebrew/Cellar/ntl/11.5.1/lib -rpath /opt/homebrew/Cellar/bzip2/1.0.8/lib -rpath /opt/homebrew/Cellar/readline/8.2.1/lib -rpath /opt/homebrew/lib -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current
ld: unknown options: --version
collect2: error: ld returned 1 exit status
Suggestions?
John H Palmieri
Sep 21, 2023, 8:08:01 PM9/21/23
to sage-release
By the way, it also says
A full log can be found at /Users/palmieri/Desktop/Sage/TESTING/sage-10.2.beta3/local/var/lib/sage/venv-python3.11/var/tmp/sage/build/scipy-1.11.2/src/.mesonpy-sxi6gtt6/build/meson-logs/meson-log.txt
but there is no such file, indeed no such directory ".mesonpy-....".
Dima Pasechnik
Sep 22, 2023, 2:18:15 AM9/22/23
to sage-release
Where is gfortran coming from here?
Do you build it with Sage, or use an external one?
If the external one, e.g. from Homebrew, you most probably need to update/reinstall.
Ditto in Sage
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John H Palmieri
Sep 23, 2023, 1:25:07 AM9/23/23
to sage-release
It's from homebrew's gcc. I did `brew reinstall gcc` followed by `make distclean && ./configure && make meson_python && make` and it still fails at scipy, same error. I removed the cached download file for homebrew's gcc and tried again, same result. I have not yet tried Sage's gcc.
Dima Pasechnik
Sep 23, 2023, 4:31:34 AM9/23/23
to sage-release
Can you build scipy from source using their instructions?
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John H Palmieri
Sep 23, 2023, 1:06:36 PM9/23/23
to sage-release
I tried the venv approach in the scipy docs, and I ran into the same error.
John H Palmieri
Sep 23, 2023, 1:07:06 PM9/23/23
to sage-release
This is with an Apple Silicon laptop, M2 chip, in case that matters.
Dima Pasechnik
Sep 23, 2023, 2:06:06 PM9/23/23
to sage-release
As far as I can gather from scipy bug tracker,
they can build on M2 just fine
To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/c6071de3-e4aa-4a5f-98ed-6e221ceb10den%40googlegroups.com.
John H Palmieri
Sep 23, 2023, 5:35:52 PM9/23/23
to sage-release
It didn't work for me. At least directly attempting a scipy build left an intact log file. Any clues about what's broken on this machine?
Build started at 2023-09-23T14:31:26.723020
Main binary: /Users/palmieri/Downloads/scipy-1.11.2/venv/bin/python3
Build Options: -Dprefix=/Users/palmieri/Downloads/scipy-1.11.2/build-install
Python system: Darwin
The Meson build system
Version: 1.2.1
Source dir: /Users/palmieri/Downloads/scipy-1.11.2
Build dir: /Users/palmieri/Downloads/scipy-1.11.2/build
Build type: native build
Project name: SciPy
Project version: 1.11.2
-----------
Detecting compiler via: `cc --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: cc -E -dM -
-----
-----------
Detecting linker via: `cc -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `cc -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C compiler: cc
Is cross compiler: False.
Sanity check compiler command line: cc sanitycheckc.c -o sanitycheckc.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckc.exe
C compiler for the host machine: cc (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C linker for the host machine: cc ld64 1015.7
-----------
Detecting linker via: `ar --version` -> 1
stderr:
usage: ar -d [-TLsv] archive file ...
ar -m [-TLsv] archive file ...
ar -m [-abiTLsv] position archive file ...
ar -p [-TLsv] archive [file ...]
ar -q [-cTLsv] archive file ...
ar -r [-cuTLsv] archive file ...
ar -r [-abciuTLsv] position archive file ...
ar -t [-TLsv] archive [file ...]
ar -x [-ouTLsv] archive [file ...]
-----------
-----------
Detecting compiler via: `c++ --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: c++ -E -dM -
-----
-----------
Detecting linker via: `c++ -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `c++ -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C++ compiler: c++
Is cross compiler: False.
Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckcpp.exe
C++ compiler for the host machine: c++ (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C++ linker for the host machine: c++ ld64 1015.7
-----------
Detecting compiler via: `cython -V` -> 0
stdout:
Cython version 3.0.2
-----------
stderr:
Cython version 3.0.2
-----------
Running compile:
Working directory: /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx
Code:
print("hello world")
-----------
Command line: `cython /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx -o /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/output.exe --fast-fail` -> 0
stderr:
/Users/palmieri/Downloads/scipy-1.11.2/venv/lib/python3.11/site-packages/Cython/Compiler/Main.py:384: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
-----------
Cython compiler for the host machine: cython (cython 3.0.2)
-----------
Detecting compiler via: `cc --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: cc -E -dM -
-----
-----------
Detecting linker via: `cc -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `cc -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C compiler: cc
Is cross compiler: False.
Sanity check compiler command line: cc sanitycheckc.c -o sanitycheckc.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckc.exe
C compiler for the build machine: cc (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C linker for the build machine: cc ld64 1015.7
-----------
Detecting linker via: `ar --version` -> 1
stderr:
usage: ar -d [-TLsv] archive file ...
ar -m [-TLsv] archive file ...
ar -m [-abiTLsv] position archive file ...
ar -p [-TLsv] archive [file ...]
ar -q [-cTLsv] archive file ...
ar -r [-cuTLsv] archive file ...
ar -r [-abciuTLsv] position archive file ...
ar -t [-TLsv] archive [file ...]
ar -x [-ouTLsv] archive [file ...]
-----------
-----------
Detecting compiler via: `c++ --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: c++ -E -dM -
-----
-----------
Detecting linker via: `c++ -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `c++ -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C++ compiler: c++
Is cross compiler: False.
Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckcpp.exe
C++ compiler for the build machine: c++ (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C++ linker for the build machine: c++ ld64 1015.7
-----------
Detecting compiler via: `cython -V` -> 0
stdout:
Cython version 3.0.2
-----------
stderr:
Cython version 3.0.2
-----------
Using cached compile:
Cached command line: cython /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx -o /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/output.exe --fast-fail
Code:
print("hello world")
Cached compiler stdout:
Cached compiler stderr:
/Users/palmieri/Downloads/scipy-1.11.2/venv/lib/python3.11/site-packages/Cython/Compiler/Main.py:384: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
Cython compiler for the build machine: cython (cython 3.0.2)
Build machine cpu family: aarch64
Build machine cpu: aarch64
Host machine cpu family: aarch64
Host machine cpu: aarch64
Target machine cpu family: aarch64
Target machine cpu: aarch64
Program python3 found: YES (/Users/palmieri/Downloads/scipy-1.11.2/venv/bin/python3)
Searching for 'python-3.11' via pkgconfig lookup in LIBPC
Pkg-config binary for 1 is not cached.
Pkg-config binary missing from cross or native file, or env var undefined.
Trying a default Pkg-config fallback at pkg-config
Found pkg-config: /opt/homebrew/bin/pkg-config (0.29.2)
Determining dependency 'python-3.11' with pkg-config executable '/opt/homebrew/bin/pkg-config'
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --modversion python-3.11` -> 0
stdout:
3.11
-----------
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --cflags python-3.11` -> 0
stdout:
-I/opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11
-----------
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_ALLOW_SYSTEM_LIBS]: 1
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --libs python-3.11` -> 0
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --libs python-3.11` -> 0
Run-time dependency python found: YES 3.11
Program cython found: YES (/Users/palmieri/Downloads/scipy-1.11.2/venv/bin/cython)
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp3qmviwgf
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp3qmviwgf/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp3qmviwgf/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wunused-but-set-variable -Wno-unused-but-set-variable` -> 0
Compiler for C supports arguments -Wno-unused-but-set-variable: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp9xo39nq0
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp9xo39nq0/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp9xo39nq0/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wunused-function -Wno-unused-function` -> 0
Compiler for C supports arguments -Wno-unused-function: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpu7uekb60
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpu7uekb60/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpu7uekb60/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wconversion -Wno-conversion` -> 0
Compiler for C supports arguments -Wno-conversion: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpo1xh1ad5
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpo1xh1ad5/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpo1xh1ad5/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wmisleading-indentation -Wno-misleading-indentation` -> 0
Compiler for C supports arguments -Wno-misleading-indentation: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp__jom5wq
Code:
int main(void) { return 0; }
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp__jom5wq/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp__jom5wq/output.exe -O0 -Werror=implicit-function-declaration -lm -Wl,-undefined,dynamic_lookup` -> 0
Library m found: YES
-----------
Detecting compiler via: `gfortran --version` -> 0
stdout:
GNU Fortran (Homebrew GCC 13.2.0) 13.2.0
Copyright (C) 2023 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
-----------
Running command: gfortran -E -dM -
-----
-----------
Detecting linker via: `gfortran -Wl,--version` -> 1
stderr:
collect2 version 13.2.0
/usr/bin/ld -syslibroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/ -dynamic -arch arm64 -platform_version macos 13.0.0 0.0 -o a.out -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13 -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc -L/opt/homebrew/opt/primesieve/lib -L/opt/homebrew/opt/bdw-gc/lib -L/opt/homebrew/opt/libpng/lib -L/opt/homebrew/opt/ntl/lib -L/opt/homebrew/opt/bzip2/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/lib -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13/../../.. --version -lemutls_w -lgcc -lSystem -lgcc -no_compact_unwind -rpath @loader_path -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc/aarch64-apple-darwin22/13 -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc -rpath /opt/homebrew/Cellar/primesieve/11.1/lib -rpath /opt/homebrew/Cellar/bdw-gc/8.2.4/lib -rpath /opt/homebrew/Cellar/libpng/1.6.40/lib -rpath /opt/homebrew/Cellar/ntl/11.5.1/lib -rpath /opt/homebrew/Cellar/bzip2/1.0.8/lib -rpath /opt/homebrew/Cellar/readline/8.2.1/lib -rpath /opt/homebrew/lib -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current
Main binary: /Users/palmieri/Downloads/scipy-1.11.2/venv/bin/python3
Build Options: -Dprefix=/Users/palmieri/Downloads/scipy-1.11.2/build-install
Python system: Darwin
The Meson build system
Version: 1.2.1
Source dir: /Users/palmieri/Downloads/scipy-1.11.2
Build dir: /Users/palmieri/Downloads/scipy-1.11.2/build
Build type: native build
Project name: SciPy
Project version: 1.11.2
-----------
Detecting compiler via: `cc --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: cc -E -dM -
-----
-----------
Detecting linker via: `cc -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `cc -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C compiler: cc
Is cross compiler: False.
Sanity check compiler command line: cc sanitycheckc.c -o sanitycheckc.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckc.exe
C compiler for the host machine: cc (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C linker for the host machine: cc ld64 1015.7
-----------
Detecting linker via: `ar --version` -> 1
stderr:
usage: ar -d [-TLsv] archive file ...
ar -m [-TLsv] archive file ...
ar -m [-abiTLsv] position archive file ...
ar -p [-TLsv] archive [file ...]
ar -q [-cTLsv] archive file ...
ar -r [-cuTLsv] archive file ...
ar -r [-abciuTLsv] position archive file ...
ar -t [-TLsv] archive [file ...]
ar -x [-ouTLsv] archive [file ...]
-----------
-----------
Detecting compiler via: `c++ --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: c++ -E -dM -
-----
-----------
Detecting linker via: `c++ -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `c++ -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C++ compiler: c++
Is cross compiler: False.
Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckcpp.exe
C++ compiler for the host machine: c++ (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C++ linker for the host machine: c++ ld64 1015.7
-----------
Detecting compiler via: `cython -V` -> 0
stdout:
Cython version 3.0.2
-----------
stderr:
Cython version 3.0.2
-----------
Running compile:
Working directory: /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx
Code:
print("hello world")
-----------
Command line: `cython /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx -o /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/output.exe --fast-fail` -> 0
stderr:
/Users/palmieri/Downloads/scipy-1.11.2/venv/lib/python3.11/site-packages/Cython/Compiler/Main.py:384: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
-----------
Cython compiler for the host machine: cython (cython 3.0.2)
-----------
Detecting compiler via: `cc --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: cc -E -dM -
-----
-----------
Detecting linker via: `cc -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `cc -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C compiler: cc
Is cross compiler: False.
Sanity check compiler command line: cc sanitycheckc.c -o sanitycheckc.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckc.exe
C compiler for the build machine: cc (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C linker for the build machine: cc ld64 1015.7
-----------
Detecting linker via: `ar --version` -> 1
stderr:
usage: ar -d [-TLsv] archive file ...
ar -m [-TLsv] archive file ...
ar -m [-abiTLsv] position archive file ...
ar -p [-TLsv] archive [file ...]
ar -q [-cTLsv] archive file ...
ar -r [-cuTLsv] archive file ...
ar -r [-abciuTLsv] position archive file ...
ar -t [-TLsv] archive [file ...]
ar -x [-ouTLsv] archive [file ...]
-----------
-----------
Detecting compiler via: `c++ --version` -> 0
stdout:
Apple clang version 15.0.0 (clang-1500.0.40.1)
Target: arm64-apple-darwin22.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
-----------
Running command: c++ -E -dM -
-----
-----------
Detecting linker via: `c++ -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `c++ -Wl,-v` -> 1
stderr:
@(#)PROGRAM:ld PROJECT:dyld-1015.7
BUILD 18:48:48 Aug 22 2023
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s arm64_32 i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 15.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 15.0.0 (tapi-1500.0.12.3)
Library search paths:
/opt/homebrew/opt/primesieve/lib
/opt/homebrew/opt/bdw-gc/lib
/opt/homebrew/opt/libpng/lib
/opt/homebrew/opt/ntl/lib
/opt/homebrew/opt/bzip2/lib
/opt/homebrew/opt/readline/lib
/opt/homebrew/lib
/usr/local/lib
Framework search paths:
ld: Undefined symbols:
_main, referenced from:
<initial-undefines>
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
Sanity testing C++ compiler: c++
Is cross compiler: False.
Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/sanitycheckcpp.exe
C++ compiler for the build machine: c++ (clang 15.0.0 "Apple clang version 15.0.0 (clang-1500.0.40.1)")
C++ linker for the build machine: c++ ld64 1015.7
-----------
Detecting compiler via: `cython -V` -> 0
stdout:
Cython version 3.0.2
-----------
stderr:
Cython version 3.0.2
-----------
Using cached compile:
Cached command line: cython /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx -o /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/output.exe --fast-fail
Code:
print("hello world")
Cached compiler stdout:
Cached compiler stderr:
/Users/palmieri/Downloads/scipy-1.11.2/venv/lib/python3.11/site-packages/Cython/Compiler/Main.py:384: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /var/folders/_y/kzsymttn15l00trk8fbjfj880000gn/T/tmp7o4nw2zx/testfile.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
Cython compiler for the build machine: cython (cython 3.0.2)
Build machine cpu family: aarch64
Build machine cpu: aarch64
Host machine cpu family: aarch64
Host machine cpu: aarch64
Target machine cpu family: aarch64
Target machine cpu: aarch64
Program python3 found: YES (/Users/palmieri/Downloads/scipy-1.11.2/venv/bin/python3)
Searching for 'python-3.11' via pkgconfig lookup in LIBPC
Pkg-config binary for 1 is not cached.
Pkg-config binary missing from cross or native file, or env var undefined.
Trying a default Pkg-config fallback at pkg-config
Found pkg-config: /opt/homebrew/bin/pkg-config (0.29.2)
Determining dependency 'python-3.11' with pkg-config executable '/opt/homebrew/bin/pkg-config'
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --modversion python-3.11` -> 0
stdout:
3.11
-----------
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --cflags python-3.11` -> 0
stdout:
-I/opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11
-----------
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_ALLOW_SYSTEM_LIBS]: 1
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --libs python-3.11` -> 0
env[PKG_CONFIG_LIBDIR]: /opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/lib/pkgconfig
env[PKG_CONFIG_PATH]: /opt/homebrew/opt/sqlite/lib/pkgconfig:/opt/homebrew/opt/readline/lib/pkgconfig:/opt/homebrew/opt/openssl/lib/pkgconfig:/opt/homebrew/opt/openblas/lib/pkgconfig:/opt/homebrew/lib/pkgconfig
-----------
Called: `/opt/homebrew/bin/pkg-config --libs python-3.11` -> 0
Run-time dependency python found: YES 3.11
Program cython found: YES (/Users/palmieri/Downloads/scipy-1.11.2/venv/bin/cython)
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp3qmviwgf
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp3qmviwgf/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp3qmviwgf/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wunused-but-set-variable -Wno-unused-but-set-variable` -> 0
Compiler for C supports arguments -Wno-unused-but-set-variable: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp9xo39nq0
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp9xo39nq0/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp9xo39nq0/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wunused-function -Wno-unused-function` -> 0
Compiler for C supports arguments -Wno-unused-function: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpu7uekb60
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpu7uekb60/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpu7uekb60/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wconversion -Wno-conversion` -> 0
Compiler for C supports arguments -Wno-conversion: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpo1xh1ad5
Code:
extern int i;
int i;
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpo1xh1ad5/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmpo1xh1ad5/output.obj -c -O0 -Werror=implicit-function-declaration -Werror=unknown-warning-option -Werror=unused-command-line-argument -Werror=ignored-optimization-argument -Wmisleading-indentation -Wno-misleading-indentation` -> 0
Compiler for C supports arguments -Wno-misleading-indentation: YES
Running compile:
Working directory: /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp__jom5wq
Code:
int main(void) { return 0; }
-----------
Command line: `cc /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp__jom5wq/testfile.c -o /Users/palmieri/Downloads/scipy-1.11.2/build/meson-private/tmp__jom5wq/output.exe -O0 -Werror=implicit-function-declaration -lm -Wl,-undefined,dynamic_lookup` -> 0
Library m found: YES
-----------
Detecting compiler via: `gfortran --version` -> 0
stdout:
GNU Fortran (Homebrew GCC 13.2.0) 13.2.0
Copyright (C) 2023 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
-----------
Running command: gfortran -E -dM -
-----
-----------
Detecting linker via: `gfortran -Wl,--version` -> 1
stderr:
collect2 version 13.2.0
/usr/bin/ld -syslibroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/ -dynamic -arch arm64 -platform_version macos 13.0.0 0.0 -o a.out -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13 -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc -L/opt/homebrew/opt/primesieve/lib -L/opt/homebrew/opt/bdw-gc/lib -L/opt/homebrew/opt/libpng/lib -L/opt/homebrew/opt/ntl/lib -L/opt/homebrew/opt/bzip2/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/lib -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13/../../.. --version -lemutls_w -lgcc -lSystem -lgcc -no_compact_unwind -rpath @loader_path -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc/aarch64-apple-darwin22/13 -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc -rpath /opt/homebrew/Cellar/primesieve/11.1/lib -rpath /opt/homebrew/Cellar/bdw-gc/8.2.4/lib -rpath /opt/homebrew/Cellar/libpng/1.6.40/lib -rpath /opt/homebrew/Cellar/ntl/11.5.1/lib -rpath /opt/homebrew/Cellar/bzip2/1.0.8/lib -rpath /opt/homebrew/Cellar/readline/8.2.1/lib -rpath /opt/homebrew/lib -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current
ld: unknown options: --version
collect2: error: ld returned 1 exit status
-----------
meson.build:82:0: ERROR: Unable to detect linker for compiler `gfortran -Wl,--version`
meson.build:82:0: ERROR: Unable to detect linker for compiler `gfortran -Wl,--version`
stdout:
stderr: collect2 version 13.2.0
/usr/bin/ld -syslibroot /Library/Developer/CommandLineTools/SDKs/MacOSX13.sdk/ -dynamic -arch arm64 -platform_version macos 13.0.0 0.0 -o a.out -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13 -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc -L/opt/homebrew/opt/primesieve/lib -L/opt/homebrew/opt/bdw-gc/lib -L/opt/homebrew/opt/libpng/lib -L/opt/homebrew/opt/ntl/lib -L/opt/homebrew/opt/bzip2/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/lib -L/opt/homebrew/Cellar/gcc/13.2.0/bin/../lib/gcc/current/gcc/aarch64-apple-darwin22/13/../../.. --version -lemutls_w -lgcc -lSystem -lgcc -no_compact_unwind -rpath @loader_path -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc/aarch64-apple-darwin22/13 -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current/gcc -rpath /opt/homebrew/Cellar/primesieve/11.1/lib -rpath /opt/homebrew/Cellar/bdw-gc/8.2.4/lib -rpath /opt/homebrew/Cellar/libpng/1.6.40/lib -rpath /opt/homebrew/Cellar/ntl/11.5.1/lib -rpath /opt/homebrew/Cellar/bzip2/1.0.8/lib -rpath /opt/homebrew/Cellar/readline/8.2.1/lib -rpath /opt/homebrew/lib -rpath /opt/homebrew/Cellar/gcc/13.2.0/lib/gcc/current
ld: unknown options: --version
collect2: error: ld returned 1 exit status
John H Palmieri
Sep 23, 2023, 6:04:32 PM9/23/23
to sage-release
Same result if I do `pip3 install scipy --no-binary scipy` (another of their suggested ways of building from source). I guess something is broken with my fortran compiler, but I don't know how to troubleshoot it.
Dima Pasechnik
Sep 23, 2023, 6:34:29 PM9/23/23
to sage-release
do they even support gcc/gfortran 13?
To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/6087a322-39a5-45b8-9cb1-f3a7dfc93435n%40googlegroups.com.
John H Palmieri
Sep 23, 2023, 6:59:40 PM9/23/23
to sage-release
If by "they" you mean scipy, then: I have no problems building scipy on another OS X machine: an Intel machine running OS X 13.5.2 (rather than 13.6). "xcode-select --version" reports the same for both machines, but I don't know how informative this is. "gfortran --version" says
GNU Fortran (Homebrew GCC 13.2.0) 13.2.0
Copyright (C) 2023 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
Copyright (C) 2023 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
and this is the one that scipy finds. On the M2 machine, Sage's scipy built back in August with earlier versions of the OS (probably 13.5.2) and command-line tools and gfortran (13.1.0).
John H Palmieri
Sep 23, 2023, 10:07:24 PM9/23/23
to sage-release
Building Sage's own gfortran worked to build scipy (and this is an argument to keep the gfortran package around, by the way).
Alternatively, building all of scipy's dependencies and then using `./sage --python3 -m pip install scipy` also seems to have worked. I then "touch"ed the appropriate file to convince Sage that scipy had built, and the rest of the build succeeded, except for some extra warnings during doctests: "ld: warning: duplicate -rpath [...SAGE_ROOT/local/lib...] ignored"
Dima Pasechnik
Sep 24, 2023, 6:28:22 AM9/24/23
to sage-release
both meson and meson_python may potentially come from the system (homebrew in your case).
Make sure they are up to date, and you don't have these packages installed in Sage.
And run ./configure
Perhaps the whole homebrew must be reinstated after an OS update, too.
To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/c550b6f5-0cc3-44ae-9fd3-f17494684a29n%40googlegroups.com.
John H Palmieri
Sep 24, 2023, 12:53:08 PM9/24/23
to sage-release
I've already tried uninstalling and reinstalling every homebrew package, and it didn't help. I've also been doing "make distclean" and "./configure" in between attempts.
I'm confused about your comment about meson_python: I don't think that Sage ordinarily uses a system package of this (except on gentoo?), so it always builds its own. It is using the homebrew installation of meson. I do not have the homebrew meson-python package.
Dima Pasechnik
Sep 24, 2023, 1:39:15 PM9/24/23
to sage-r...@googlegroups.com
On Sun, Sep 24, 2023 at 5:53 PM John H Palmieri <jhpalm...@gmail.com> wrote:
>
> I've already tried uninstalling and reinstalling every homebrew package, and it didn't help.
I meant removing the whole /opt/homebrew/ and reinstalling homebrew
>
> I've already tried uninstalling and reinstalling every homebrew package, and it didn't help.
from scratch.
> I've also been doing "make distclean" and "./configure" in between attempts.
>
> I'm confused about your comment about meson_python: I don't think that Sage ordinarily uses a system package of this (except on gentoo?), so it always builds its own. It is using the homebrew installation of meson. I do not have the homebrew meson-python package.
(after https://github.com/sagemath/sage/pull/36256 and
https://github.com/sagemath/sage/pull/36276)
Matthias Köppe
Sep 24, 2023, 11:19:31 PM9/24/23
to sage-release
After an upgrade of macOS and Xcode CLT, I also see this problem on my system.
There is an open issue https://github.com/mesonbuild/meson/issues/12282 for this.
kcrisman
Feb 29, 2024, 6:21:11 PMFeb 29
to sage-release
On Saturday, September 23, 2023 at 10:07:24 PM UTC-4 John H Palmieri wrote:
Building Sage's own gfortran worked to build scipy (and this is an argument to keep the gfortran package around, by the way).
I just successfully upgraded Sage only by doing this as well. The homebrew scipy is a newer version, fwiw.
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