2025-09-08T23:49:11,261 Created temporary directory: /tmp/pip-build-tracker-dqjg3dw0 2025-09-08T23:49:11,261 Initialized build tracking at /tmp/pip-build-tracker-dqjg3dw0 2025-09-08T23:49:11,262 Created build tracker: /tmp/pip-build-tracker-dqjg3dw0 2025-09-08T23:49:11,262 Entered build tracker: /tmp/pip-build-tracker-dqjg3dw0 2025-09-08T23:49:11,262 Created temporary directory: /tmp/pip-wheel-smqjojhn 2025-09-08T23:49:11,265 Created temporary directory: /tmp/pip-ephem-wheel-cache-9dn95t_k 2025-09-08T23:49:11,325 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T23:49:11,327 2 location(s) to search for versions of segmentation-phenix: 2025-09-08T23:49:11,327 * https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,327 * https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,328 Fetching project page and analyzing links: https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,328 Getting page https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,329 Found index url https://pypi.org/simple/ 2025-09-08T23:49:11,398 Fetched page https://pypi.org/simple/segmentation-phenix/ as application/vnd.pypi.simple.v1+json 2025-09-08T23:49:11,400 Found link https://files.pythonhosted.org/packages/30/6c/d50d13cc8a0f6e83dfcf9ee1759ba9932bd77b4e9a9d78ba0f507744ac37/segmentation_phenix-0.1.0.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.0 2025-09-08T23:49:11,400 Found link https://files.pythonhosted.org/packages/04/55/6543f51023a5dcad42a9b10db8073a826ec9fa0cf14cdca970836d65e317/segmentation_phenix-0.1.1.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.1 2025-09-08T23:49:11,400 Found link https://files.pythonhosted.org/packages/74/d8/f0734acbe90d53afdc8d297676992794fe5c0042e84aef81f9e886fe2135/segmentation_phenix-0.1.2.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.2 2025-09-08T23:49:11,400 Found link https://files.pythonhosted.org/packages/5a/a4/8bfee07573bd5378121f60da7a3936010cf0e75feee6c7f3eb7a2dd7b196/segmentation_phenix-0.1.3.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.3 2025-09-08T23:49:11,400 Found link https://files.pythonhosted.org/packages/af/d6/b3e45deb822008b224bfc9d6c25c9794bf2b394b00d9d955e2ac2df55b58/segmentation_phenix-0.1.4.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.4 2025-09-08T23:49:11,401 Found link https://files.pythonhosted.org/packages/94/64/afd02ce8113aa913e7ea13937756b9e66fdf1f9225b743acd83a6c4bac18/segmentation_phenix-0.1.5.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.5 2025-09-08T23:49:11,401 Found link https://files.pythonhosted.org/packages/5c/7d/752c9955ea2135add62b018cf97e5ad8facde379b8b08e14fc2a41c5db98/segmentation_phenix-0.1.6.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.6 2025-09-08T23:49:11,401 Found link https://files.pythonhosted.org/packages/4f/fc/2aaf44d9abeb1b31cef9507fca044750d3bca9621c7c80c4ec29548bf3b6/segmentation_phenix-0.1.7.tar.gz (from https://pypi.org/simple/segmentation-phenix/), version: 0.1.7 2025-09-08T23:49:11,402 Fetching project page and analyzing links: https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,402 Getting page https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,403 Found index url https://www.piwheels.org/simple/ 2025-09-08T23:49:11,502 Fetched page https://www.piwheels.org/simple/segmentation-phenix/ as text/html 2025-09-08T23:49:11,503 Skipping link: not a file: https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,503 Skipping link: not a file: https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:49:11,529 Given no hashes to check 1 links for project 'segmentation-phenix': discarding no candidates 2025-09-08T23:49:11,530 Collecting segmentation-phenix==0.1.2 2025-09-08T23:49:11,531 Created temporary directory: /tmp/pip-unpack-hiz4mw4_ 2025-09-08T23:49:11,671 Downloading segmentation_phenix-0.1.2.tar.gz (17 kB) 2025-09-08T23:49:11,695 Added segmentation-phenix==0.1.2 from https://files.pythonhosted.org/packages/74/d8/f0734acbe90d53afdc8d297676992794fe5c0042e84aef81f9e886fe2135/segmentation_phenix-0.1.2.tar.gz to build tracker '/tmp/pip-build-tracker-dqjg3dw0' 2025-09-08T23:49:11,696 Running setup.py (path:/tmp/pip-wheel-smqjojhn/segmentation-phenix_fd91f0acef5f42849f6fee81302fd94f/setup.py) egg_info for package segmentation-phenix 2025-09-08T23:49:11,696 Created temporary directory: /tmp/pip-pip-egg-info-o8bt5_73 2025-09-08T23:49:11,697 Preparing metadata (setup.py): started 2025-09-08T23:49:11,697 Running command python setup.py egg_info 2025-09-08T23:49:13,004 /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. 2025-09-08T23:49:13,004 !! 2025-09-08T23:49:13,004 ******************************************************************************** 2025-09-08T23:49:13,004 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:49:13,004 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:49:13,005 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:49:13,005 or your builds will no longer be supported. 2025-09-08T23:49:13,005 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:49:13,005 ******************************************************************************** 2025-09-08T23:49:13,005 !! 2025-09-08T23:49:13,005 opt = self._enforce_underscore(opt, section) 2025-09-08T23:49:13,457 /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. 2025-09-08T23:49:13,457 !! 2025-09-08T23:49:13,457 ******************************************************************************** 2025-09-08T23:49:13,458 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:49:13,458 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:49:13,458 (Affected: segmentation_phenix). 2025-09-08T23:49:13,458 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:49:13,458 or your builds will no longer be supported. 2025-09-08T23:49:13,458 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:49:13,458 ******************************************************************************** 2025-09-08T23:49:13,458 !! 2025-09-08T23:49:13,458 opt = self._enforce_underscore(opt, section) 2025-09-08T23:49:13,531 running egg_info 2025-09-08T23:49:13,603 creating /tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info 2025-09-08T23:49:13,603 writing /tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info/PKG-INFO 2025-09-08T23:49:13,605 writing dependency_links to /tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info/dependency_links.txt 2025-09-08T23:49:13,605 writing requirements to /tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info/requires.txt 2025-09-08T23:49:13,606 writing top-level names to /tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info/top_level.txt 2025-09-08T23:49:13,606 writing manifest file '/tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:49:13,826 reading manifest file '/tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:49:13,827 reading manifest template 'MANIFEST.in' 2025-09-08T23:49:13,828 warning: no files found matching '*' under directory 'data' 2025-09-08T23:49:13,829 adding license file 'LICENSE' 2025-09-08T23:49:13,831 writing manifest file '/tmp/pip-pip-egg-info-o8bt5_73/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:49:13,969 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T23:49:13,973 Source in /tmp/pip-wheel-smqjojhn/segmentation-phenix_fd91f0acef5f42849f6fee81302fd94f has version 0.1.2, which satisfies requirement segmentation-phenix==0.1.2 from https://files.pythonhosted.org/packages/74/d8/f0734acbe90d53afdc8d297676992794fe5c0042e84aef81f9e886fe2135/segmentation_phenix-0.1.2.tar.gz 2025-09-08T23:49:13,974 Removed segmentation-phenix==0.1.2 from https://files.pythonhosted.org/packages/74/d8/f0734acbe90d53afdc8d297676992794fe5c0042e84aef81f9e886fe2135/segmentation_phenix-0.1.2.tar.gz from build tracker '/tmp/pip-build-tracker-dqjg3dw0' 2025-09-08T23:49:13,977 Created temporary directory: /tmp/pip-unpack-sk9y6rv3 2025-09-08T23:49:13,977 Created temporary directory: /tmp/pip-unpack-_2b1trdx 2025-09-08T23:49:13,977 Building wheels for collected packages: segmentation-phenix 2025-09-08T23:49:13,979 Created temporary directory: /tmp/pip-wheel-fc6f3kwx 2025-09-08T23:49:13,979 DEPRECATION: Building 'segmentation-phenix' 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 'segmentation-phenix'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-08T23:49:13,980 Building wheel for segmentation-phenix (setup.py): started 2025-09-08T23:49:13,981 Destination directory: /tmp/pip-wheel-fc6f3kwx 2025-09-08T23:49:13,981 Running command python setup.py bdist_wheel 2025-09-08T23:49:14,818 /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. 2025-09-08T23:49:14,819 !! 2025-09-08T23:49:14,819 ******************************************************************************** 2025-09-08T23:49:14,819 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:49:14,819 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:49:14,819 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:49:14,819 or your builds will no longer be supported. 2025-09-08T23:49:14,819 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:49:14,820 ******************************************************************************** 2025-09-08T23:49:14,820 !! 2025-09-08T23:49:14,820 opt = self._enforce_underscore(opt, section) 2025-09-08T23:49:15,259 /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. 2025-09-08T23:49:15,259 !! 2025-09-08T23:49:15,259 ******************************************************************************** 2025-09-08T23:49:15,259 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:49:15,260 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:49:15,260 (Affected: segmentation_phenix). 2025-09-08T23:49:15,260 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:49:15,260 or your builds will no longer be supported. 2025-09-08T23:49:15,260 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:49:15,260 ******************************************************************************** 2025-09-08T23:49:15,260 !! 2025-09-08T23:49:15,260 opt = self._enforce_underscore(opt, section) 2025-09-08T23:49:15,261 running bdist_wheel 2025-09-08T23:49:15,555 running build 2025-09-08T23:49:15,555 running build_py 2025-09-08T23:49:15,637 creating build/lib.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:49:15,638 copying segmentation_phenix/__init__.py -> build/lib.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:49:15,640 running build_ext 2025-09-08T23:49:16,085 Compiling segmentation_phenix/segmentation.pyx because it changed. 2025-09-08T23:49:16,085 [1/1] Cythonizing segmentation_phenix/segmentation.pyx 2025-09-08T23:49:19,185 building 'segmentation_phenix.segmentation' extension 2025-09-08T23:49:19,186 creating build/temp.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:49:19,187 arm-linux-gnueabihf-g++ -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/local/lib/python3.13/dist-packages/numpy/_core/include -I/usr/include -I/usr/include/python3.13 -c segmentation_phenix/segmentation.cpp -o build/temp.linux-armv7l-cpython-313/segmentation_phenix/segmentation.o -march=native -std=c++11 -DNDEBUG -Ofast -Wcpp 2025-09-08T23:49:19,728 In file included from segmentation_phenix/segmentation.cpp:1179: 2025-09-08T23:49:19,729 segmentation_phenix/fastmm.cpp:1:10: fatal error: boost/multi_array.hpp: No such file or directory 2025-09-08T23:49:19,729 1 | #include 2025-09-08T23:49:19,729 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T23:49:19,729 compilation terminated. 2025-09-08T23:49:19,732 error: command '/usr/bin/arm-linux-gnueabihf-g++' failed with exit code 1 2025-09-08T23:49:20,259 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T23:49:20,270 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T23:49:20,270 exec(compile('"'"''"'"''"'"' 2025-09-08T23:49:20,270 # This is -- a caller that pip uses to run setup.py 2025-09-08T23:49:20,270 # 2025-09-08T23:49:20,270 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T23:49:20,270 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T23:49:20,270 # - It provides a clear error message when setuptools is not installed. 2025-09-08T23:49:20,270 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T23:49:20,270 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T23:49:20,270 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T23:49:20,270 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T23:49:20,270 import os, sys, tokenize, traceback 2025-09-08T23:49:20,270 2025-09-08T23:49:20,270 try: 2025-09-08T23:49:20,270 import setuptools 2025-09-08T23:49:20,270 except ImportError: 2025-09-08T23:49:20,270 print( 2025-09-08T23:49:20,270 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T23:49:20,270 "the build environment with exception:", 2025-09-08T23:49:20,270 file=sys.stderr, 2025-09-08T23:49:20,270 ) 2025-09-08T23:49:20,270 traceback.print_exc() 2025-09-08T23:49:20,270 sys.exit(1) 2025-09-08T23:49:20,270 2025-09-08T23:49:20,270 __file__ = %r 2025-09-08T23:49:20,270 sys.argv[0] = __file__ 2025-09-08T23:49:20,270 2025-09-08T23:49:20,270 if os.path.exists(__file__): 2025-09-08T23:49:20,270 filename = __file__ 2025-09-08T23:49:20,270 with tokenize.open(__file__) as f: 2025-09-08T23:49:20,270 setup_py_code = f.read() 2025-09-08T23:49:20,270 else: 2025-09-08T23:49:20,270 filename = "" 2025-09-08T23:49:20,270 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T23:49:20,270 2025-09-08T23:49:20,270 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T23:49:20,270 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-smqjojhn/segmentation-phenix_fd91f0acef5f42849f6fee81302fd94f/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-fc6f3kwx[/] 2025-09-08T23:49:20,270 [bold magenta]cwd[/]: /tmp/pip-wheel-smqjojhn/segmentation-phenix_fd91f0acef5f42849f6fee81302fd94f/ 2025-09-08T23:49:20,271 Building wheel for segmentation-phenix (setup.py): finished with status 'error' 2025-09-08T23:49:20,271 ERROR: Failed building wheel for segmentation-phenix 2025-09-08T23:49:20,272 Running setup.py clean for segmentation-phenix 2025-09-08T23:49:20,273 Running command python setup.py clean 2025-09-08T23:49:21,101 /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. 2025-09-08T23:49:21,101 !! 2025-09-08T23:49:21,101 ******************************************************************************** 2025-09-08T23:49:21,101 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:49:21,102 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:49:21,102 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:49:21,102 or your builds will no longer be supported. 2025-09-08T23:49:21,102 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:49:21,102 ******************************************************************************** 2025-09-08T23:49:21,102 !! 2025-09-08T23:49:21,102 opt = self._enforce_underscore(opt, section) 2025-09-08T23:49:21,538 /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. 2025-09-08T23:49:21,539 !! 2025-09-08T23:49:21,539 ******************************************************************************** 2025-09-08T23:49:21,539 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:49:21,539 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:49:21,539 (Affected: segmentation_phenix). 2025-09-08T23:49:21,539 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:49:21,539 or your builds will no longer be supported. 2025-09-08T23:49:21,540 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:49:21,540 ******************************************************************************** 2025-09-08T23:49:21,540 !! 2025-09-08T23:49:21,540 opt = self._enforce_underscore(opt, section) 2025-09-08T23:49:21,614 running clean 2025-09-08T23:49:21,758 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T23:49:21,758 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T23:49:21,759 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T23:49:21,759 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T23:49:21,759 removing 'build' 2025-09-08T23:49:21,896 Failed to build segmentation-phenix 2025-09-08T23:49:21,897 ERROR: Failed to build one or more wheels 2025-09-08T23:49:21,897 Exception information: 2025-09-08T23:49:21,897 Traceback (most recent call last): 2025-09-08T23:49:21,897 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T23:49:21,897 status = _inner_run() 2025-09-08T23:49:21,897 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T23:49:21,897 return self.run(options, args) 2025-09-08T23:49:21,897 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T23:49:21,897 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T23:49:21,897 return func(self, options, args) 2025-09-08T23:49:21,897 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T23:49:21,897 raise CommandError("Failed to build one or more wheels") 2025-09-08T23:49:21,897 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T23:49:21,902 Removed build tracker: '/tmp/pip-build-tracker-dqjg3dw0'