2025-09-08T10:02:33,845 Created temporary directory: /tmp/pip-build-tracker-0k4fpwtc 2025-09-08T10:02:33,845 Initialized build tracking at /tmp/pip-build-tracker-0k4fpwtc 2025-09-08T10:02:33,845 Created build tracker: /tmp/pip-build-tracker-0k4fpwtc 2025-09-08T10:02:33,846 Entered build tracker: /tmp/pip-build-tracker-0k4fpwtc 2025-09-08T10:02:33,846 Created temporary directory: /tmp/pip-wheel-a8gll1bx 2025-09-08T10:02:33,849 Created temporary directory: /tmp/pip-ephem-wheel-cache-q_20qp_m 2025-09-08T10:02:33,906 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T10:02:33,908 2 location(s) to search for versions of coldatoms: 2025-09-08T10:02:33,908 * https://pypi.org/simple/coldatoms/ 2025-09-08T10:02:33,908 * https://www.piwheels.org/simple/coldatoms/ 2025-09-08T10:02:33,909 Fetching project page and analyzing links: https://pypi.org/simple/coldatoms/ 2025-09-08T10:02:33,909 Getting page https://pypi.org/simple/coldatoms/ 2025-09-08T10:02:33,910 Found index url https://pypi.org/simple/ 2025-09-08T10:02:33,979 Fetched page https://pypi.org/simple/coldatoms/ as application/vnd.pypi.simple.v1+json 2025-09-08T10:02:33,982 Found link https://files.pythonhosted.org/packages/6e/ee/c83784c33206d373d7b87ec969cd0b8e32dcbd21ac548f1810cd7abf629c/coldatoms-0.1.0.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.0 2025-09-08T10:02:33,983 Found link https://files.pythonhosted.org/packages/cd/c3/c9c0cc120aa319e2152fdb3d193e1387baed5bce4fbacbb5a2a519b9406c/coldatoms-0.1.1.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.1 2025-09-08T10:02:33,983 Found link https://files.pythonhosted.org/packages/94/55/3c8135820d703a1e32afab1982d0070b579fa871fe4293166486bb36b956/coldatoms-0.1.2.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.2 2025-09-08T10:02:33,983 Found link https://files.pythonhosted.org/packages/c6/c3/557af9dc2695327ed0f8406a952a8d1948431cef8f415b6932e60bfe3c4e/coldatoms-0.1.3.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.3 2025-09-08T10:02:33,983 Found link https://files.pythonhosted.org/packages/8b/7a/1c2e545f787ed5ce93d70a5dd265f5d0899839bd380d585e037ca524aa40/coldatoms-0.1.4.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.4 2025-09-08T10:02:33,984 Found link https://files.pythonhosted.org/packages/b8/9e/f542ddbc690763200bb0a52e5af5af93428bb7faff1b9c707dc73fa87781/coldatoms-0.1.6.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.6 2025-09-08T10:02:33,984 Found link https://files.pythonhosted.org/packages/d1/84/a27e557c377cb19aea611cb4b80ea14fbc1b83c6775e19b3d0f29c4c4ee4/coldatoms-0.1.7.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.7 2025-09-08T10:02:33,984 Found link https://files.pythonhosted.org/packages/f4/23/ec62c3374b3f16d59bc6b0d5b3f51c3f34b46898bc361ca17edc37287a7e/coldatoms-0.1.8.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.8 2025-09-08T10:02:33,984 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/29/71/f8c4bf3b04bcf913f75f9b76f741f1acdcdc563a89b321b0b1dd134edf3a/coldatoms-0.1.9-cp27-cp27m-win32.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,984 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/39/30/ea392cbdfc8b02b17059eaf94c8a00a7aecc62887506a62857547b4e358c/coldatoms-0.1.9-cp27-cp27m-win_amd64.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,984 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/d2/85/95e68870be4b156ca46aa048ad09d1bed503240b2d8fee02ab7ce9a1320b/coldatoms-0.1.9-cp34-cp34m-win32.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,985 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/9e/6f/e11e8448b2150baa9151686daca1abef2107607a885be46fa56e7e10762b/coldatoms-0.1.9-cp34-cp34m-win_amd64.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,985 Found link https://files.pythonhosted.org/packages/5f/56/341583ff7eb1f1514d52d51d8582ee04fce1d8554ce025551650521b35f0/coldatoms-0.1.9.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.9 2025-09-08T10:02:33,985 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/9e/32/a18552f0277c044a2016a9f3b099fc97f656c3d25eec40a26ef56eae702c/coldatoms-0.1.10-cp27-cp27m-win32.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,985 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/1a/d0/90dae1a72fa5a8a005a2fee2eb1c03a8edc3af212aa884df80337d0846d9/coldatoms-0.1.10-cp27-cp27m-win_amd64.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,985 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/00/5f/da4c70bef45c15d7ba771f74993c8384a0c11c29a6c310a8a73c48ea2285/coldatoms-0.1.10-cp34-cp34m-win32.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,985 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/17/40/6f72a8d694ec75e17246e6e42c98ee6fef55563faba31c666ee9a5b01c66/coldatoms-0.1.10-cp34-cp34m-win_amd64.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,985 Found link https://files.pythonhosted.org/packages/e0/45/02d16769676b4bf87bbcbf3225c5ecf02157f8a0e6ac26f9d4600d2017e7/coldatoms-0.1.10.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.10 2025-09-08T10:02:33,986 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/a4/14/4ce514a941f29f89c498e3d0462142dd6441880eea16bb621924232b326c/coldatoms-0.1.11-cp27-cp27m-win32.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,986 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/20/9a/4219cad64e9123f334682a5f97d0771b5746228e320fd8c89f7555105ada/coldatoms-0.1.11-cp27-cp27m-win_amd64.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,986 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/bd/fe/a1c846b554de7d2ad0737fdd5ea206451600087f3868490029fd9b873b97/coldatoms-0.1.11-cp34-cp34m-win32.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,986 Skipping link: No binaries permitted for coldatoms: https://files.pythonhosted.org/packages/b2/d3/8e110f9386336d1d2bc8410c2d8ce6c7162b1cac218b7b8d3dd3ce76a656/coldatoms-0.1.11-cp34-cp34m-win_amd64.whl (from https://pypi.org/simple/coldatoms/) 2025-09-08T10:02:33,986 Found link https://files.pythonhosted.org/packages/2c/29/5709828c594f7dc89beb6c7d564833c9be7418c815f4e19140cfe5444b7b/coldatoms-0.1.11.tar.gz (from https://pypi.org/simple/coldatoms/), version: 0.1.11 2025-09-08T10:02:33,987 Fetching project page and analyzing links: https://www.piwheels.org/simple/coldatoms/ 2025-09-08T10:02:33,987 Getting page https://www.piwheels.org/simple/coldatoms/ 2025-09-08T10:02:33,988 Found index url https://www.piwheels.org/simple/ 2025-09-08T10:02:34,119 Fetched page https://www.piwheels.org/simple/coldatoms/ as text/html 2025-09-08T10:02:34,121 Skipping link: No binaries permitted for coldatoms: https://archive1.piwheels.org/simple/coldatoms/coldatoms-0.1.4-py3-none-any.whl#sha256=08310a9bb88144db465095da11853bb50cf221c7ab80a0c7027c6bbda2410037 (from https://www.piwheels.org/simple/coldatoms/) 2025-09-08T10:02:34,121 Skipping link: No binaries permitted for coldatoms: https://archive1.piwheels.org/simple/coldatoms/coldatoms-0.1.3-py3-none-any.whl#sha256=2ef31f59bfbc45eab173740b7cb991070145daad1b2fa98285a41054c5ba802f (from https://www.piwheels.org/simple/coldatoms/) 2025-09-08T10:02:34,121 Skipping link: No binaries permitted for coldatoms: https://archive1.piwheels.org/simple/coldatoms/coldatoms-0.1.2-py3-none-any.whl#sha256=44a268f6341574e339c6f71425806ac4a51ed78d7aa9d98e66d5b3f9a5751111 (from https://www.piwheels.org/simple/coldatoms/) 2025-09-08T10:02:34,122 Skipping link: not a file: https://www.piwheels.org/simple/coldatoms/ 2025-09-08T10:02:34,122 Skipping link: not a file: https://pypi.org/simple/coldatoms/ 2025-09-08T10:02:34,147 Given no hashes to check 1 links for project 'coldatoms': discarding no candidates 2025-09-08T10:02:34,148 Collecting coldatoms==0.1.8 2025-09-08T10:02:34,149 Created temporary directory: /tmp/pip-unpack-xptrvdai 2025-09-08T10:02:34,287 Downloading coldatoms-0.1.8.tar.gz (93 kB) 2025-09-08T10:02:34,351 Added coldatoms==0.1.8 from https://files.pythonhosted.org/packages/f4/23/ec62c3374b3f16d59bc6b0d5b3f51c3f34b46898bc361ca17edc37287a7e/coldatoms-0.1.8.tar.gz to build tracker '/tmp/pip-build-tracker-0k4fpwtc' 2025-09-08T10:02:34,352 Running setup.py (path:/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py) egg_info for package coldatoms 2025-09-08T10:02:34,352 Created temporary directory: /tmp/pip-pip-egg-info-pmbm9_j7 2025-09-08T10:02:34,353 Preparing metadata (setup.py): started 2025-09-08T10:02:34,353 Running command python setup.py egg_info 2025-09-08T10:02:34,969 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. 2025-09-08T10:02:34,969 !! 2025-09-08T10:02:34,969 ******************************************************************************** 2025-09-08T10:02:34,970 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T10:02:34,970 versions. Please use the underscore name 'description_file' instead. 2025-09-08T10:02:34,970 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T10:02:34,970 or your builds will no longer be supported. 2025-09-08T10:02:34,970 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T10:02:34,970 ******************************************************************************** 2025-09-08T10:02:34,970 !! 2025-09-08T10:02:34,971 opt = self._enforce_underscore(opt, section) 2025-09-08T10:02:34,996 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-08T10:02:34,996 !! 2025-09-08T10:02:34,996 ******************************************************************************** 2025-09-08T10:02:34,996 Requirements should be satisfied by a PEP 517 installer. 2025-09-08T10:02:34,996 If you are using pip, you can try `pip install --use-pep517`. 2025-09-08T10:02:34,996 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-08T10:02:34,996 or your builds will no longer be supported. 2025-09-08T10:02:34,996 ******************************************************************************** 2025-09-08T10:02:34,997 !! 2025-09-08T10:02:34,997 dist.fetch_build_eggs(dist.setup_requires) 2025-09-08T10:02:35,487 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. 2025-09-08T10:02:35,487 !! 2025-09-08T10:02:35,487 ******************************************************************************** 2025-09-08T10:02:35,487 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T10:02:35,488 versions. Please use the underscore name 'description_file' instead. 2025-09-08T10:02:35,488 (Affected: coldatoms). 2025-09-08T10:02:35,488 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T10:02:35,488 or your builds will no longer be supported. 2025-09-08T10:02:35,488 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T10:02:35,488 ******************************************************************************** 2025-09-08T10:02:35,488 !! 2025-09-08T10:02:35,488 opt = self._enforce_underscore(opt, section) 2025-09-08T10:02:35,563 running egg_info 2025-09-08T10:02:35,638 creating /tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info 2025-09-08T10:02:35,638 writing /tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info/PKG-INFO 2025-09-08T10:02:35,639 writing dependency_links to /tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info/dependency_links.txt 2025-09-08T10:02:35,640 writing requirements to /tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info/requires.txt 2025-09-08T10:02:35,640 writing top-level names to /tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info/top_level.txt 2025-09-08T10:02:35,641 writing manifest file '/tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info/SOURCES.txt' 2025-09-08T10:02:35,865 reading manifest file '/tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info/SOURCES.txt' 2025-09-08T10:02:35,866 reading manifest template 'MANIFEST.in' 2025-09-08T10:02:35,872 warning: no files found matching '*.pxi' under directory 'src' 2025-09-08T10:02:35,876 adding license file 'LICENSE' 2025-09-08T10:02:35,879 writing manifest file '/tmp/pip-pip-egg-info-pmbm9_j7/coldatoms.egg-info/SOURCES.txt' 2025-09-08T10:02:35,991 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T10:02:35,996 Source in /tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038 has version 0.1.8, which satisfies requirement coldatoms==0.1.8 from https://files.pythonhosted.org/packages/f4/23/ec62c3374b3f16d59bc6b0d5b3f51c3f34b46898bc361ca17edc37287a7e/coldatoms-0.1.8.tar.gz 2025-09-08T10:02:35,996 Removed coldatoms==0.1.8 from https://files.pythonhosted.org/packages/f4/23/ec62c3374b3f16d59bc6b0d5b3f51c3f34b46898bc361ca17edc37287a7e/coldatoms-0.1.8.tar.gz from build tracker '/tmp/pip-build-tracker-0k4fpwtc' 2025-09-08T10:02:35,999 Created temporary directory: /tmp/pip-unpack-_d3qkxdc 2025-09-08T10:02:36,000 Created temporary directory: /tmp/pip-unpack-kw84lfct 2025-09-08T10:02:36,000 Building wheels for collected packages: coldatoms 2025-09-08T10:02:36,001 Created temporary directory: /tmp/pip-wheel-o6rzkwnm 2025-09-08T10:02:36,002 DEPRECATION: Building 'coldatoms' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'coldatoms'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-08T10:02:36,003 Building wheel for coldatoms (setup.py): started 2025-09-08T10:02:36,003 Destination directory: /tmp/pip-wheel-o6rzkwnm 2025-09-08T10:02:36,004 Running command python setup.py bdist_wheel 2025-09-08T10:02:37,381 Compiling src/coldatoms_lib/coldatoms_lib.pyx because it changed. 2025-09-08T10:02:37,381 [1/1] Cythonizing src/coldatoms_lib/coldatoms_lib.pyx 2025-09-08T10:02:38,867 Error compiling Cython file: 2025-09-08T10:02:38,867 ------------------------------------------------------------ 2025-09-08T10:02:38,867 ... 2025-09-08T10:02:38,867 import cython 2025-09-08T10:02:38,867 import numpy as np 2025-09-08T10:02:38,867 cimport numpy as np 2025-09-08T10:02:38,867 cimport ccoldatoms_lib 2025-09-08T10:02:38,867 ^ 2025-09-08T10:02:38,868 ------------------------------------------------------------ 2025-09-08T10:02:38,868 src/coldatoms_lib/coldatoms_lib.pyx:4:8: 'ccoldatoms_lib.pxd' not found 2025-09-08T10:02:38,899 Error compiling Cython file: 2025-09-08T10:02:38,899 ------------------------------------------------------------ 2025-09-08T10:02:38,899 ... 2025-09-08T10:02:38,899 bend_kick_update_vector(dt, omegaB, x, v) 2025-09-08T10:02:38,900 cdef class Rng(object): 2025-09-08T10:02:38,900 cdef ccoldatoms_lib.CARandCtx* _generator 2025-09-08T10:02:38,900 ^ 2025-09-08T10:02:38,900 ------------------------------------------------------------ 2025-09-08T10:02:38,900 src/coldatoms_lib/coldatoms_lib.pyx:114:9: 'CARandCtx' is not a type identifier 2025-09-08T10:02:38,962 Error compiling Cython file: 2025-09-08T10:02:38,962 ------------------------------------------------------------ 2025-09-08T10:02:38,962 ... 2025-09-08T10:02:38,962 np.ndarray[double, ndim=2, mode="c"] forces not None): 2025-09-08T10:02:38,962 cdef num_ptcls 2025-09-08T10:02:38,962 num_ptcls = positions.shape[0] 2025-09-08T10:02:38,963 ccoldatoms_lib.ca_coulomb_force( 2025-09-08T10:02:38,963 ^ 2025-09-08T10:02:38,963 ------------------------------------------------------------ 2025-09-08T10:02:38,963 src/coldatoms_lib/coldatoms_lib.pyx:19:18: cimported module has no attribute 'ca_coulomb_force' 2025-09-08T10:02:38,963 Error compiling Cython file: 2025-09-08T10:02:38,963 ------------------------------------------------------------ 2025-09-08T10:02:38,963 ... 2025-09-08T10:02:38,963 np.ndarray[double, ndim=2, mode="c"] forces not None): 2025-09-08T10:02:38,964 cdef num_ptcls 2025-09-08T10:02:38,964 num_ptcls = positions.shape[0] 2025-09-08T10:02:38,964 ccoldatoms_lib.ca_coulomb_force_per_particle_charge( 2025-09-08T10:02:38,964 ^ 2025-09-08T10:02:38,964 ------------------------------------------------------------ 2025-09-08T10:02:38,964 src/coldatoms_lib/coldatoms_lib.pyx:34:18: cimported module has no attribute 'ca_coulomb_force_per_particle_charge' 2025-09-08T10:02:38,966 Error compiling Cython file: 2025-09-08T10:02:38,966 ------------------------------------------------------------ 2025-09-08T10:02:38,966 ... 2025-09-08T10:02:38,966 assert(forces.shape[1] == 3) 2025-09-08T10:02:38,966 cdef num_ptcls 2025-09-08T10:02:38,966 num_ptcls = positions.shape[0] 2025-09-08T10:02:38,967 ccoldatoms_lib.ca_harmonic_trap_forces( 2025-09-08T10:02:38,967 ^ 2025-09-08T10:02:38,967 ------------------------------------------------------------ 2025-09-08T10:02:38,967 src/coldatoms_lib/coldatoms_lib.pyx:53:18: cimported module has no attribute 'ca_harmonic_trap_forces' 2025-09-08T10:02:38,968 Error compiling Cython file: 2025-09-08T10:02:38,968 ------------------------------------------------------------ 2025-09-08T10:02:38,969 ... 2025-09-08T10:02:38,969 assert(forces.shape[1] == 3) 2025-09-08T10:02:38,969 cdef num_ptcls 2025-09-08T10:02:38,969 num_ptcls = positions.shape[0] 2025-09-08T10:02:38,969 ccoldatoms_lib.ca_harmonic_trap_forces_per_particle_charge( 2025-09-08T10:02:38,969 ^ 2025-09-08T10:02:38,969 ------------------------------------------------------------ 2025-09-08T10:02:38,969 src/coldatoms_lib/coldatoms_lib.pyx:72:18: cimported module has no attribute 'ca_harmonic_trap_forces_per_particle_charge' 2025-09-08T10:02:38,970 Error compiling Cython file: 2025-09-08T10:02:38,970 ------------------------------------------------------------ 2025-09-08T10:02:38,970 ... 2025-09-08T10:02:38,970 np.ndarray[double, ndim=2, mode="c"] v not None): 2025-09-08T10:02:38,970 cdef num_ptcls 2025-09-08T10:02:38,970 num_ptcls = x.shape[0] 2025-09-08T10:02:38,970 ccoldatoms_lib.ca_bend_kick_update_scalar( 2025-09-08T10:02:38,971 ^ 2025-09-08T10:02:38,971 ------------------------------------------------------------ 2025-09-08T10:02:38,971 src/coldatoms_lib/coldatoms_lib.pyx:86:18: cimported module has no attribute 'ca_bend_kick_update_scalar' 2025-09-08T10:02:38,971 Error compiling Cython file: 2025-09-08T10:02:38,971 ------------------------------------------------------------ 2025-09-08T10:02:38,971 ... 2025-09-08T10:02:38,971 np.ndarray[double, ndim=2, mode="c"] v not None): 2025-09-08T10:02:38,972 cdef num_ptcls 2025-09-08T10:02:38,972 num_ptcls = x.shape[0] 2025-09-08T10:02:38,972 ccoldatoms_lib.ca_bend_kick_update_vector( 2025-09-08T10:02:38,972 ^ 2025-09-08T10:02:38,972 ------------------------------------------------------------ 2025-09-08T10:02:38,972 src/coldatoms_lib/coldatoms_lib.pyx:101:18: cimported module has no attribute 'ca_bend_kick_update_vector' 2025-09-08T10:02:38,973 Error compiling Cython file: 2025-09-08T10:02:38,973 ------------------------------------------------------------ 2025-09-08T10:02:38,973 ... 2025-09-08T10:02:38,973 def context(self): 2025-09-08T10:02:38,973 return self._generator 2025-09-08T10:02:38,974 def __cinit__(self, seed=None): 2025-09-08T10:02:38,974 self._generator = ccoldatoms_lib.ca_rand_create() 2025-09-08T10:02:38,974 ^ 2025-09-08T10:02:38,974 ------------------------------------------------------------ 2025-09-08T10:02:38,974 src/coldatoms_lib/coldatoms_lib.pyx:120:40: cimported module has no attribute 'ca_rand_create' 2025-09-08T10:02:38,974 Error compiling Cython file: 2025-09-08T10:02:38,974 ------------------------------------------------------------ 2025-09-08T10:02:38,975 ... 2025-09-08T10:02:38,975 return self._generator 2025-09-08T10:02:38,975 def __cinit__(self, seed=None): 2025-09-08T10:02:38,975 self._generator = ccoldatoms_lib.ca_rand_create() 2025-09-08T10:02:38,975 if seed is not None: 2025-09-08T10:02:38,975 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:38,975 ^ 2025-09-08T10:02:38,975 ------------------------------------------------------------ 2025-09-08T10:02:38,975 src/coldatoms_lib/coldatoms_lib.pyx:122:26: cimported module has no attribute 'ca_rand_seed' 2025-09-08T10:02:38,976 Error compiling Cython file: 2025-09-08T10:02:38,976 ------------------------------------------------------------ 2025-09-08T10:02:38,976 ... 2025-09-08T10:02:38,976 self._generator = ccoldatoms_lib.ca_rand_create() 2025-09-08T10:02:38,976 if seed is not None: 2025-09-08T10:02:38,976 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:38,976 def __dealloc__(self): 2025-09-08T10:02:38,976 ccoldatoms_lib.ca_rand_destroy(&self._generator) 2025-09-08T10:02:38,976 ^ 2025-09-08T10:02:38,977 ------------------------------------------------------------ 2025-09-08T10:02:38,977 src/coldatoms_lib/coldatoms_lib.pyx:125:22: cimported module has no attribute 'ca_rand_destroy' 2025-09-08T10:02:38,977 Error compiling Cython file: 2025-09-08T10:02:38,977 ------------------------------------------------------------ 2025-09-08T10:02:38,977 ... 2025-09-08T10:02:38,977 def __dealloc__(self): 2025-09-08T10:02:38,977 ccoldatoms_lib.ca_rand_destroy(&self._generator) 2025-09-08T10:02:38,978 def seed(self, unsigned int seed): 2025-09-08T10:02:38,978 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:38,978 ^ 2025-09-08T10:02:38,978 ------------------------------------------------------------ 2025-09-08T10:02:38,978 src/coldatoms_lib/coldatoms_lib.pyx:128:22: cimported module has no attribute 'ca_rand_seed' 2025-09-08T10:02:38,978 Error compiling Cython file: 2025-09-08T10:02:38,978 ------------------------------------------------------------ 2025-09-08T10:02:38,978 ... 2025-09-08T10:02:38,978 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:38,979 def fill(self, np.ndarray[double, mode="c"] array): 2025-09-08T10:02:38,979 cdef int n = array.size 2025-09-08T10:02:38,979 cdef double *a = array.data 2025-09-08T10:02:38,979 ccoldatoms_lib.ca_rand(self._generator, n, a) 2025-09-08T10:02:38,979 ^ 2025-09-08T10:02:38,979 ------------------------------------------------------------ 2025-09-08T10:02:38,979 src/coldatoms_lib/coldatoms_lib.pyx:133:22: cimported module has no attribute 'ca_rand' 2025-09-08T10:02:38,979 Error compiling Cython file: 2025-09-08T10:02:38,980 ------------------------------------------------------------ 2025-09-08T10:02:38,980 ... 2025-09-08T10:02:38,980 ccoldatoms_lib.ca_rand(self._generator, n, a) 2025-09-08T10:02:38,980 def fill_gaussian(self, double mean, double std, np.ndarray[double, mode="c"] array): 2025-09-08T10:02:38,980 cdef int n = array.size 2025-09-08T10:02:38,980 cdef double *a = array.data 2025-09-08T10:02:38,980 ccoldatoms_lib.ca_rand_gaussian(self._generator, n, mean, std, a) 2025-09-08T10:02:38,980 ^ 2025-09-08T10:02:38,980 ------------------------------------------------------------ 2025-09-08T10:02:38,981 src/coldatoms_lib/coldatoms_lib.pyx:138:22: cimported module has no attribute 'ca_rand_gaussian' 2025-09-08T10:02:38,981 Error compiling Cython file: 2025-09-08T10:02:38,981 ------------------------------------------------------------ 2025-09-08T10:02:38,981 ... 2025-09-08T10:02:38,981 ccoldatoms_lib.ca_rand_gaussian(self._generator, n, mean, std, a) 2025-09-08T10:02:38,981 def fill_poisson(self, double nbar, np.ndarray[int, mode="c"] array): 2025-09-08T10:02:38,981 cdef int n = array.size 2025-09-08T10:02:38,982 cdef int *a = array.data 2025-09-08T10:02:38,982 ccoldatoms_lib.ca_rand_poisson(self._generator, n, nbar, a) 2025-09-08T10:02:38,982 ^ 2025-09-08T10:02:38,982 ------------------------------------------------------------ 2025-09-08T10:02:38,982 src/coldatoms_lib/coldatoms_lib.pyx:143:22: cimported module has no attribute 'ca_rand_poisson' 2025-09-08T10:02:38,982 Error compiling Cython file: 2025-09-08T10:02:38,982 ------------------------------------------------------------ 2025-09-08T10:02:38,982 ... 2025-09-08T10:02:38,982 assert(delta.shape[0] == nbar.shape[0]) 2025-09-08T10:02:38,983 cdef num_ptcls 2025-09-08T10:02:38,983 num_ptcls = nbar.shape[0] 2025-09-08T10:02:38,983 ccoldatoms_lib.ca_compute_nbars(num_ptcls, dt, gamma, &s_of_r[0], &delta[0], &nbar[0]) 2025-09-08T10:02:38,983 ^ 2025-09-08T10:02:38,983 ------------------------------------------------------------ 2025-09-08T10:02:38,983 src/coldatoms_lib/coldatoms_lib.pyx:162:18: cimported module has no attribute 'ca_compute_nbars' 2025-09-08T10:02:38,983 Error compiling Cython file: 2025-09-08T10:02:38,984 ------------------------------------------------------------ 2025-09-08T10:02:38,984 ... 2025-09-08T10:02:38,984 assert(f.shape[1] == 3) 2025-09-08T10:02:38,984 assert(hbar_k.size == 3) 2025-09-08T10:02:38,984 cdef num_ptcls 2025-09-08T10:02:38,984 num_ptcls = nbars.shape[0] 2025-09-08T10:02:38,984 ccoldatoms_lib.ca_add_radiation_pressure( 2025-09-08T10:02:38,984 ^ 2025-09-08T10:02:38,984 ------------------------------------------------------------ 2025-09-08T10:02:38,985 src/coldatoms_lib/coldatoms_lib.pyx:175:18: cimported module has no attribute 'ca_add_radiation_pressure' 2025-09-08T10:02:38,985 Error compiling Cython file: 2025-09-08T10:02:38,985 ------------------------------------------------------------ 2025-09-08T10:02:38,985 ... 2025-09-08T10:02:38,985 cdef num_ptcls 2025-09-08T10:02:38,985 num_ptcls = nbars.shape[0] 2025-09-08T10:02:38,985 ccoldatoms_lib.ca_add_radiation_pressure( 2025-09-08T10:02:38,985 num_ptcls, 2025-09-08T10:02:38,985 rng_context, 2025-09-08T10:02:38,985 ^ 2025-09-08T10:02:38,986 ------------------------------------------------------------ 2025-09-08T10:02:38,986 src/coldatoms_lib/coldatoms_lib.pyx:177:9: 'CARandCtx' is not a type identifier 2025-09-08T10:02:39,008 Traceback (most recent call last): 2025-09-08T10:02:39,012 File "", line 2, in 2025-09-08T10:02:39,012 exec(compile(''' 2025-09-08T10:02:39,012 ~~~~^^^^^^^^^^^^ 2025-09-08T10:02:39,012 # This is -- a caller that pip uses to run setup.py 2025-09-08T10:02:39,012 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T10:02:39,012 ...<32 lines>... 2025-09-08T10:02:39,012 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T10:02:39,012 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T10:02:39,013 ''' % ('/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py',), "", "exec")) 2025-09-08T10:02:39,013 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T10:02:39,013 File "", line 35, in 2025-09-08T10:02:39,013 File "/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py", line 106, in 2025-09-08T10:02:39,013 setup_package() 2025-09-08T10:02:39,013 ~~~~~~~~~~~~~^^ 2025-09-08T10:02:39,013 File "/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py", line 101, in setup_package 2025-09-08T10:02:39,013 metadata.update(get_package_info()) 2025-09-08T10:02:39,014 ~~~~~~~~~~~~~~~~^^ 2025-09-08T10:02:39,014 File "/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py", line 54, in get_package_info 2025-09-08T10:02:39,014 coldatoms_lib = cythonize([Extension( 2025-09-08T10:02:39,014 'coldatoms_lib.coldatoms_lib', 2025-09-08T10:02:39,014 ...<8 lines>... 2025-09-08T10:02:39,014 extra_link_args=extra_link_args 2025-09-08T10:02:39,014 )]) 2025-09-08T10:02:39,014 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1154, in cythonize 2025-09-08T10:02:39,015 cythonize_one(*args) 2025-09-08T10:02:39,015 ~~~~~~~~~~~~~^^^^^^^ 2025-09-08T10:02:39,015 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1298, in cythonize_one 2025-09-08T10:02:39,015 raise CompileError(None, pyx_file) 2025-09-08T10:02:39,015 Cython.Compiler.Errors.CompileError: src/coldatoms_lib/coldatoms_lib.pyx 2025-09-08T10:02:39,344 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T10:02:39,356 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T10:02:39,356 exec(compile('"'"''"'"''"'"' 2025-09-08T10:02:39,356 # This is -- a caller that pip uses to run setup.py 2025-09-08T10:02:39,356 # 2025-09-08T10:02:39,356 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T10:02:39,356 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T10:02:39,356 # - It provides a clear error message when setuptools is not installed. 2025-09-08T10:02:39,356 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T10:02:39,356 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T10:02:39,356 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T10:02:39,356 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T10:02:39,356 import os, sys, tokenize, traceback 2025-09-08T10:02:39,356 2025-09-08T10:02:39,356 try: 2025-09-08T10:02:39,356 import setuptools 2025-09-08T10:02:39,356 except ImportError: 2025-09-08T10:02:39,356 print( 2025-09-08T10:02:39,356 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T10:02:39,356 "the build environment with exception:", 2025-09-08T10:02:39,356 file=sys.stderr, 2025-09-08T10:02:39,356 ) 2025-09-08T10:02:39,356 traceback.print_exc() 2025-09-08T10:02:39,356 sys.exit(1) 2025-09-08T10:02:39,356 2025-09-08T10:02:39,356 __file__ = %r 2025-09-08T10:02:39,356 sys.argv[0] = __file__ 2025-09-08T10:02:39,356 2025-09-08T10:02:39,356 if os.path.exists(__file__): 2025-09-08T10:02:39,356 filename = __file__ 2025-09-08T10:02:39,356 with tokenize.open(__file__) as f: 2025-09-08T10:02:39,356 setup_py_code = f.read() 2025-09-08T10:02:39,356 else: 2025-09-08T10:02:39,356 filename = "" 2025-09-08T10:02:39,356 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T10:02:39,356 2025-09-08T10:02:39,356 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T10:02:39,356 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-o6rzkwnm[/] 2025-09-08T10:02:39,356 [bold magenta]cwd[/]: /tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/ 2025-09-08T10:02:39,357 Building wheel for coldatoms (setup.py): finished with status 'error' 2025-09-08T10:02:39,357 ERROR: Failed building wheel for coldatoms 2025-09-08T10:02:39,358 Running setup.py clean for coldatoms 2025-09-08T10:02:39,359 Running command python setup.py clean 2025-09-08T10:02:40,679 Compiling src/coldatoms_lib/coldatoms_lib.pyx because it changed. 2025-09-08T10:02:40,679 [1/1] Cythonizing src/coldatoms_lib/coldatoms_lib.pyx 2025-09-08T10:02:42,136 Error compiling Cython file: 2025-09-08T10:02:42,136 ------------------------------------------------------------ 2025-09-08T10:02:42,136 ... 2025-09-08T10:02:42,136 import cython 2025-09-08T10:02:42,136 import numpy as np 2025-09-08T10:02:42,136 cimport numpy as np 2025-09-08T10:02:42,136 cimport ccoldatoms_lib 2025-09-08T10:02:42,136 ^ 2025-09-08T10:02:42,137 ------------------------------------------------------------ 2025-09-08T10:02:42,137 src/coldatoms_lib/coldatoms_lib.pyx:4:8: 'ccoldatoms_lib.pxd' not found 2025-09-08T10:02:42,167 Error compiling Cython file: 2025-09-08T10:02:42,167 ------------------------------------------------------------ 2025-09-08T10:02:42,167 ... 2025-09-08T10:02:42,167 bend_kick_update_vector(dt, omegaB, x, v) 2025-09-08T10:02:42,168 cdef class Rng(object): 2025-09-08T10:02:42,168 cdef ccoldatoms_lib.CARandCtx* _generator 2025-09-08T10:02:42,168 ^ 2025-09-08T10:02:42,168 ------------------------------------------------------------ 2025-09-08T10:02:42,168 src/coldatoms_lib/coldatoms_lib.pyx:114:9: 'CARandCtx' is not a type identifier 2025-09-08T10:02:42,229 Error compiling Cython file: 2025-09-08T10:02:42,229 ------------------------------------------------------------ 2025-09-08T10:02:42,229 ... 2025-09-08T10:02:42,229 np.ndarray[double, ndim=2, mode="c"] forces not None): 2025-09-08T10:02:42,229 cdef num_ptcls 2025-09-08T10:02:42,230 num_ptcls = positions.shape[0] 2025-09-08T10:02:42,230 ccoldatoms_lib.ca_coulomb_force( 2025-09-08T10:02:42,230 ^ 2025-09-08T10:02:42,230 ------------------------------------------------------------ 2025-09-08T10:02:42,230 src/coldatoms_lib/coldatoms_lib.pyx:19:18: cimported module has no attribute 'ca_coulomb_force' 2025-09-08T10:02:42,230 Error compiling Cython file: 2025-09-08T10:02:42,230 ------------------------------------------------------------ 2025-09-08T10:02:42,230 ... 2025-09-08T10:02:42,231 np.ndarray[double, ndim=2, mode="c"] forces not None): 2025-09-08T10:02:42,231 cdef num_ptcls 2025-09-08T10:02:42,231 num_ptcls = positions.shape[0] 2025-09-08T10:02:42,231 ccoldatoms_lib.ca_coulomb_force_per_particle_charge( 2025-09-08T10:02:42,231 ^ 2025-09-08T10:02:42,231 ------------------------------------------------------------ 2025-09-08T10:02:42,231 src/coldatoms_lib/coldatoms_lib.pyx:34:18: cimported module has no attribute 'ca_coulomb_force_per_particle_charge' 2025-09-08T10:02:42,233 Error compiling Cython file: 2025-09-08T10:02:42,233 ------------------------------------------------------------ 2025-09-08T10:02:42,233 ... 2025-09-08T10:02:42,233 assert(forces.shape[1] == 3) 2025-09-08T10:02:42,233 cdef num_ptcls 2025-09-08T10:02:42,234 num_ptcls = positions.shape[0] 2025-09-08T10:02:42,234 ccoldatoms_lib.ca_harmonic_trap_forces( 2025-09-08T10:02:42,234 ^ 2025-09-08T10:02:42,234 ------------------------------------------------------------ 2025-09-08T10:02:42,234 src/coldatoms_lib/coldatoms_lib.pyx:53:18: cimported module has no attribute 'ca_harmonic_trap_forces' 2025-09-08T10:02:42,236 Error compiling Cython file: 2025-09-08T10:02:42,236 ------------------------------------------------------------ 2025-09-08T10:02:42,236 ... 2025-09-08T10:02:42,236 assert(forces.shape[1] == 3) 2025-09-08T10:02:42,236 cdef num_ptcls 2025-09-08T10:02:42,236 num_ptcls = positions.shape[0] 2025-09-08T10:02:42,236 ccoldatoms_lib.ca_harmonic_trap_forces_per_particle_charge( 2025-09-08T10:02:42,236 ^ 2025-09-08T10:02:42,237 ------------------------------------------------------------ 2025-09-08T10:02:42,237 src/coldatoms_lib/coldatoms_lib.pyx:72:18: cimported module has no attribute 'ca_harmonic_trap_forces_per_particle_charge' 2025-09-08T10:02:42,237 Error compiling Cython file: 2025-09-08T10:02:42,237 ------------------------------------------------------------ 2025-09-08T10:02:42,237 ... 2025-09-08T10:02:42,237 np.ndarray[double, ndim=2, mode="c"] v not None): 2025-09-08T10:02:42,238 cdef num_ptcls 2025-09-08T10:02:42,238 num_ptcls = x.shape[0] 2025-09-08T10:02:42,238 ccoldatoms_lib.ca_bend_kick_update_scalar( 2025-09-08T10:02:42,238 ^ 2025-09-08T10:02:42,238 ------------------------------------------------------------ 2025-09-08T10:02:42,238 src/coldatoms_lib/coldatoms_lib.pyx:86:18: cimported module has no attribute 'ca_bend_kick_update_scalar' 2025-09-08T10:02:42,238 Error compiling Cython file: 2025-09-08T10:02:42,238 ------------------------------------------------------------ 2025-09-08T10:02:42,239 ... 2025-09-08T10:02:42,239 np.ndarray[double, ndim=2, mode="c"] v not None): 2025-09-08T10:02:42,239 cdef num_ptcls 2025-09-08T10:02:42,239 num_ptcls = x.shape[0] 2025-09-08T10:02:42,239 ccoldatoms_lib.ca_bend_kick_update_vector( 2025-09-08T10:02:42,239 ^ 2025-09-08T10:02:42,239 ------------------------------------------------------------ 2025-09-08T10:02:42,239 src/coldatoms_lib/coldatoms_lib.pyx:101:18: cimported module has no attribute 'ca_bend_kick_update_vector' 2025-09-08T10:02:42,240 Error compiling Cython file: 2025-09-08T10:02:42,240 ------------------------------------------------------------ 2025-09-08T10:02:42,240 ... 2025-09-08T10:02:42,241 def context(self): 2025-09-08T10:02:42,241 return self._generator 2025-09-08T10:02:42,241 def __cinit__(self, seed=None): 2025-09-08T10:02:42,241 self._generator = ccoldatoms_lib.ca_rand_create() 2025-09-08T10:02:42,241 ^ 2025-09-08T10:02:42,241 ------------------------------------------------------------ 2025-09-08T10:02:42,241 src/coldatoms_lib/coldatoms_lib.pyx:120:40: cimported module has no attribute 'ca_rand_create' 2025-09-08T10:02:42,242 Error compiling Cython file: 2025-09-08T10:02:42,242 ------------------------------------------------------------ 2025-09-08T10:02:42,242 ... 2025-09-08T10:02:42,242 return self._generator 2025-09-08T10:02:42,242 def __cinit__(self, seed=None): 2025-09-08T10:02:42,242 self._generator = ccoldatoms_lib.ca_rand_create() 2025-09-08T10:02:42,242 if seed is not None: 2025-09-08T10:02:42,242 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:42,242 ^ 2025-09-08T10:02:42,243 ------------------------------------------------------------ 2025-09-08T10:02:42,243 src/coldatoms_lib/coldatoms_lib.pyx:122:26: cimported module has no attribute 'ca_rand_seed' 2025-09-08T10:02:42,243 Error compiling Cython file: 2025-09-08T10:02:42,243 ------------------------------------------------------------ 2025-09-08T10:02:42,243 ... 2025-09-08T10:02:42,243 self._generator = ccoldatoms_lib.ca_rand_create() 2025-09-08T10:02:42,243 if seed is not None: 2025-09-08T10:02:42,243 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:42,244 def __dealloc__(self): 2025-09-08T10:02:42,244 ccoldatoms_lib.ca_rand_destroy(&self._generator) 2025-09-08T10:02:42,244 ^ 2025-09-08T10:02:42,244 ------------------------------------------------------------ 2025-09-08T10:02:42,244 src/coldatoms_lib/coldatoms_lib.pyx:125:22: cimported module has no attribute 'ca_rand_destroy' 2025-09-08T10:02:42,244 Error compiling Cython file: 2025-09-08T10:02:42,244 ------------------------------------------------------------ 2025-09-08T10:02:42,244 ... 2025-09-08T10:02:42,245 def __dealloc__(self): 2025-09-08T10:02:42,245 ccoldatoms_lib.ca_rand_destroy(&self._generator) 2025-09-08T10:02:42,245 def seed(self, unsigned int seed): 2025-09-08T10:02:42,245 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:42,245 ^ 2025-09-08T10:02:42,245 ------------------------------------------------------------ 2025-09-08T10:02:42,245 src/coldatoms_lib/coldatoms_lib.pyx:128:22: cimported module has no attribute 'ca_rand_seed' 2025-09-08T10:02:42,245 Error compiling Cython file: 2025-09-08T10:02:42,246 ------------------------------------------------------------ 2025-09-08T10:02:42,246 ... 2025-09-08T10:02:42,246 ccoldatoms_lib.ca_rand_seed(self._generator, seed) 2025-09-08T10:02:42,246 def fill(self, np.ndarray[double, mode="c"] array): 2025-09-08T10:02:42,246 cdef int n = array.size 2025-09-08T10:02:42,246 cdef double *a = array.data 2025-09-08T10:02:42,246 ccoldatoms_lib.ca_rand(self._generator, n, a) 2025-09-08T10:02:42,246 ^ 2025-09-08T10:02:42,246 ------------------------------------------------------------ 2025-09-08T10:02:42,247 src/coldatoms_lib/coldatoms_lib.pyx:133:22: cimported module has no attribute 'ca_rand' 2025-09-08T10:02:42,247 Error compiling Cython file: 2025-09-08T10:02:42,247 ------------------------------------------------------------ 2025-09-08T10:02:42,247 ... 2025-09-08T10:02:42,247 ccoldatoms_lib.ca_rand(self._generator, n, a) 2025-09-08T10:02:42,247 def fill_gaussian(self, double mean, double std, np.ndarray[double, mode="c"] array): 2025-09-08T10:02:42,247 cdef int n = array.size 2025-09-08T10:02:42,247 cdef double *a = array.data 2025-09-08T10:02:42,247 ccoldatoms_lib.ca_rand_gaussian(self._generator, n, mean, std, a) 2025-09-08T10:02:42,248 ^ 2025-09-08T10:02:42,248 ------------------------------------------------------------ 2025-09-08T10:02:42,248 src/coldatoms_lib/coldatoms_lib.pyx:138:22: cimported module has no attribute 'ca_rand_gaussian' 2025-09-08T10:02:42,248 Error compiling Cython file: 2025-09-08T10:02:42,248 ------------------------------------------------------------ 2025-09-08T10:02:42,248 ... 2025-09-08T10:02:42,248 ccoldatoms_lib.ca_rand_gaussian(self._generator, n, mean, std, a) 2025-09-08T10:02:42,248 def fill_poisson(self, double nbar, np.ndarray[int, mode="c"] array): 2025-09-08T10:02:42,249 cdef int n = array.size 2025-09-08T10:02:42,249 cdef int *a = array.data 2025-09-08T10:02:42,249 ccoldatoms_lib.ca_rand_poisson(self._generator, n, nbar, a) 2025-09-08T10:02:42,249 ^ 2025-09-08T10:02:42,249 ------------------------------------------------------------ 2025-09-08T10:02:42,249 src/coldatoms_lib/coldatoms_lib.pyx:143:22: cimported module has no attribute 'ca_rand_poisson' 2025-09-08T10:02:42,249 Error compiling Cython file: 2025-09-08T10:02:42,249 ------------------------------------------------------------ 2025-09-08T10:02:42,249 ... 2025-09-08T10:02:42,250 assert(delta.shape[0] == nbar.shape[0]) 2025-09-08T10:02:42,250 cdef num_ptcls 2025-09-08T10:02:42,250 num_ptcls = nbar.shape[0] 2025-09-08T10:02:42,250 ccoldatoms_lib.ca_compute_nbars(num_ptcls, dt, gamma, &s_of_r[0], &delta[0], &nbar[0]) 2025-09-08T10:02:42,250 ^ 2025-09-08T10:02:42,250 ------------------------------------------------------------ 2025-09-08T10:02:42,250 src/coldatoms_lib/coldatoms_lib.pyx:162:18: cimported module has no attribute 'ca_compute_nbars' 2025-09-08T10:02:42,251 Error compiling Cython file: 2025-09-08T10:02:42,251 ------------------------------------------------------------ 2025-09-08T10:02:42,251 ... 2025-09-08T10:02:42,251 assert(f.shape[1] == 3) 2025-09-08T10:02:42,251 assert(hbar_k.size == 3) 2025-09-08T10:02:42,251 cdef num_ptcls 2025-09-08T10:02:42,251 num_ptcls = nbars.shape[0] 2025-09-08T10:02:42,251 ccoldatoms_lib.ca_add_radiation_pressure( 2025-09-08T10:02:42,251 ^ 2025-09-08T10:02:42,251 ------------------------------------------------------------ 2025-09-08T10:02:42,252 src/coldatoms_lib/coldatoms_lib.pyx:175:18: cimported module has no attribute 'ca_add_radiation_pressure' 2025-09-08T10:02:42,252 Error compiling Cython file: 2025-09-08T10:02:42,252 ------------------------------------------------------------ 2025-09-08T10:02:42,252 ... 2025-09-08T10:02:42,252 cdef num_ptcls 2025-09-08T10:02:42,252 num_ptcls = nbars.shape[0] 2025-09-08T10:02:42,252 ccoldatoms_lib.ca_add_radiation_pressure( 2025-09-08T10:02:42,252 num_ptcls, 2025-09-08T10:02:42,253 rng_context, 2025-09-08T10:02:42,253 ^ 2025-09-08T10:02:42,253 ------------------------------------------------------------ 2025-09-08T10:02:42,253 src/coldatoms_lib/coldatoms_lib.pyx:177:9: 'CARandCtx' is not a type identifier 2025-09-08T10:02:42,275 Traceback (most recent call last): 2025-09-08T10:02:42,279 File "", line 2, in 2025-09-08T10:02:42,279 exec(compile(''' 2025-09-08T10:02:42,279 ~~~~^^^^^^^^^^^^ 2025-09-08T10:02:42,279 # This is -- a caller that pip uses to run setup.py 2025-09-08T10:02:42,279 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T10:02:42,279 ...<32 lines>... 2025-09-08T10:02:42,279 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T10:02:42,279 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T10:02:42,280 ''' % ('/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py',), "", "exec")) 2025-09-08T10:02:42,280 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T10:02:42,280 File "", line 35, in 2025-09-08T10:02:42,280 File "/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py", line 106, in 2025-09-08T10:02:42,280 setup_package() 2025-09-08T10:02:42,280 ~~~~~~~~~~~~~^^ 2025-09-08T10:02:42,280 File "/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py", line 101, in setup_package 2025-09-08T10:02:42,280 metadata.update(get_package_info()) 2025-09-08T10:02:42,281 ~~~~~~~~~~~~~~~~^^ 2025-09-08T10:02:42,281 File "/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py", line 54, in get_package_info 2025-09-08T10:02:42,281 coldatoms_lib = cythonize([Extension( 2025-09-08T10:02:42,281 'coldatoms_lib.coldatoms_lib', 2025-09-08T10:02:42,281 ...<8 lines>... 2025-09-08T10:02:42,281 extra_link_args=extra_link_args 2025-09-08T10:02:42,282 )]) 2025-09-08T10:02:42,282 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1154, in cythonize 2025-09-08T10:02:42,282 cythonize_one(*args) 2025-09-08T10:02:42,282 ~~~~~~~~~~~~~^^^^^^^ 2025-09-08T10:02:42,282 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1298, in cythonize_one 2025-09-08T10:02:42,282 raise CompileError(None, pyx_file) 2025-09-08T10:02:42,282 Cython.Compiler.Errors.CompileError: src/coldatoms_lib/coldatoms_lib.pyx 2025-09-08T10:02:42,609 ERROR: python setup.py clean exited with 1 2025-09-08T10:02:42,615 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T10:02:42,615 exec(compile('"'"''"'"''"'"' 2025-09-08T10:02:42,615 # This is -- a caller that pip uses to run setup.py 2025-09-08T10:02:42,615 # 2025-09-08T10:02:42,615 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T10:02:42,615 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T10:02:42,615 # - It provides a clear error message when setuptools is not installed. 2025-09-08T10:02:42,615 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T10:02:42,615 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T10:02:42,615 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T10:02:42,615 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T10:02:42,615 import os, sys, tokenize, traceback 2025-09-08T10:02:42,615 2025-09-08T10:02:42,615 try: 2025-09-08T10:02:42,615 import setuptools 2025-09-08T10:02:42,615 except ImportError: 2025-09-08T10:02:42,615 print( 2025-09-08T10:02:42,615 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T10:02:42,615 "the build environment with exception:", 2025-09-08T10:02:42,615 file=sys.stderr, 2025-09-08T10:02:42,615 ) 2025-09-08T10:02:42,615 traceback.print_exc() 2025-09-08T10:02:42,615 sys.exit(1) 2025-09-08T10:02:42,615 2025-09-08T10:02:42,615 __file__ = %r 2025-09-08T10:02:42,615 sys.argv[0] = __file__ 2025-09-08T10:02:42,615 2025-09-08T10:02:42,615 if os.path.exists(__file__): 2025-09-08T10:02:42,615 filename = __file__ 2025-09-08T10:02:42,615 with tokenize.open(__file__) as f: 2025-09-08T10:02:42,615 setup_py_code = f.read() 2025-09-08T10:02:42,615 else: 2025-09-08T10:02:42,615 filename = "" 2025-09-08T10:02:42,615 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T10:02:42,615 2025-09-08T10:02:42,615 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T10:02:42,615 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038/setup.py'"'"',), "", "exec"))' clean --all[/] 2025-09-08T10:02:42,615 [bold magenta]cwd[/]: /tmp/pip-wheel-a8gll1bx/coldatoms_163c3590d4b74d03ae2dc7795c3fc038 2025-09-08T10:02:42,615 ERROR: Failed cleaning build dir for coldatoms 2025-09-08T10:02:42,616 Failed to build coldatoms 2025-09-08T10:02:42,617 ERROR: Failed to build one or more wheels 2025-09-08T10:02:42,618 Exception information: 2025-09-08T10:02:42,618 Traceback (most recent call last): 2025-09-08T10:02:42,618 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T10:02:42,618 status = _inner_run() 2025-09-08T10:02:42,618 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T10:02:42,618 return self.run(options, args) 2025-09-08T10:02:42,618 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T10:02:42,618 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T10:02:42,618 return func(self, options, args) 2025-09-08T10:02:42,618 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T10:02:42,618 raise CommandError("Failed to build one or more wheels") 2025-09-08T10:02:42,618 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T10:02:42,622 Removed build tracker: '/tmp/pip-build-tracker-0k4fpwtc'