2025-09-08T23:53:50,261 Created temporary directory: /tmp/pip-build-tracker-tyktoscq 2025-09-08T23:53:50,262 Initialized build tracking at /tmp/pip-build-tracker-tyktoscq 2025-09-08T23:53:50,262 Created build tracker: /tmp/pip-build-tracker-tyktoscq 2025-09-08T23:53:50,262 Entered build tracker: /tmp/pip-build-tracker-tyktoscq 2025-09-08T23:53:50,263 Created temporary directory: /tmp/pip-wheel-yjqmymh4 2025-09-08T23:53:50,266 Created temporary directory: /tmp/pip-ephem-wheel-cache-cnu3fo7w 2025-09-08T23:53:50,325 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T23:53:50,328 2 location(s) to search for versions of segmentation-phenix: 2025-09-08T23:53:50,328 * https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,328 * https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,328 Fetching project page and analyzing links: https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,328 Getting page https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,330 Found index url https://pypi.org/simple/ 2025-09-08T23:53:50,398 Fetched page https://pypi.org/simple/segmentation-phenix/ as application/vnd.pypi.simple.v1+json 2025-09-08T23:53:50,399 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 2025-09-08T23:53:50,400 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 2025-09-08T23:53:50,400 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 2025-09-08T23:53:50,400 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 2025-09-08T23:53:50,400 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 2025-09-08T23:53:50,401 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 2025-09-08T23:53:50,401 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 2025-09-08T23:53:50,401 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 2025-09-08T23:53:50,401 Fetching project page and analyzing links: https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,402 Getting page https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,402 Found index url https://www.piwheels.org/simple/ 2025-09-08T23:53:50,497 Fetched page https://www.piwheels.org/simple/segmentation-phenix/ as text/html 2025-09-08T23:53:50,498 Skipping link: not a file: https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,498 Skipping link: not a file: https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:53:50,520 Given no hashes to check 1 links for project 'segmentation-phenix': discarding no candidates 2025-09-08T23:53:50,522 Collecting segmentation-phenix==0.1.5 2025-09-08T23:53:50,523 Created temporary directory: /tmp/pip-unpack-dqe3gwrs 2025-09-08T23:53:50,924 Downloading segmentation_phenix-0.1.5.tar.gz (17 kB) 2025-09-08T23:53:50,950 Added segmentation-phenix==0.1.5 from https://files.pythonhosted.org/packages/94/64/afd02ce8113aa913e7ea13937756b9e66fdf1f9225b743acd83a6c4bac18/segmentation_phenix-0.1.5.tar.gz to build tracker '/tmp/pip-build-tracker-tyktoscq' 2025-09-08T23:53:50,951 Running setup.py (path:/tmp/pip-wheel-yjqmymh4/segmentation-phenix_46f3ae2f6ac84482804ec6ef2c930072/setup.py) egg_info for package segmentation-phenix 2025-09-08T23:53:50,952 Created temporary directory: /tmp/pip-pip-egg-info-44mwovec 2025-09-08T23:53:50,952 Preparing metadata (setup.py): started 2025-09-08T23:53:50,953 Running command python setup.py egg_info 2025-09-08T23:53:51,812 /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. 2025-09-08T23:53:51,813 !! 2025-09-08T23:53:51,813 ******************************************************************************** 2025-09-08T23:53:51,813 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:53:51,813 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:53:51,813 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:53:51,813 or your builds will no longer be supported. 2025-09-08T23:53:51,813 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:53:51,814 ******************************************************************************** 2025-09-08T23:53:51,814 !! 2025-09-08T23:53:51,814 opt = self._enforce_underscore(opt, section) 2025-09-08T23:53:52,275 /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. 2025-09-08T23:53:52,275 !! 2025-09-08T23:53:52,275 ******************************************************************************** 2025-09-08T23:53:52,275 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:53:52,275 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:53:52,275 (Affected: segmentation_phenix). 2025-09-08T23:53:52,276 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:53:52,276 or your builds will no longer be supported. 2025-09-08T23:53:52,276 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:53:52,276 ******************************************************************************** 2025-09-08T23:53:52,276 !! 2025-09-08T23:53:52,276 opt = self._enforce_underscore(opt, section) 2025-09-08T23:53:52,352 running egg_info 2025-09-08T23:53:52,429 creating /tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info 2025-09-08T23:53:52,430 writing /tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info/PKG-INFO 2025-09-08T23:53:52,431 writing dependency_links to /tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info/dependency_links.txt 2025-09-08T23:53:52,432 writing requirements to /tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info/requires.txt 2025-09-08T23:53:52,432 writing top-level names to /tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info/top_level.txt 2025-09-08T23:53:52,432 writing manifest file '/tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:53:52,665 reading manifest file '/tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:53:52,666 reading manifest template 'MANIFEST.in' 2025-09-08T23:53:52,667 warning: no files found matching '*' under directory 'data' 2025-09-08T23:53:52,668 adding license file 'LICENSE' 2025-09-08T23:53:52,670 writing manifest file '/tmp/pip-pip-egg-info-44mwovec/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:53:52,807 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T23:53:52,812 Source in /tmp/pip-wheel-yjqmymh4/segmentation-phenix_46f3ae2f6ac84482804ec6ef2c930072 has version 0.1.5, which satisfies requirement segmentation-phenix==0.1.5 from https://files.pythonhosted.org/packages/94/64/afd02ce8113aa913e7ea13937756b9e66fdf1f9225b743acd83a6c4bac18/segmentation_phenix-0.1.5.tar.gz 2025-09-08T23:53:52,812 Removed segmentation-phenix==0.1.5 from https://files.pythonhosted.org/packages/94/64/afd02ce8113aa913e7ea13937756b9e66fdf1f9225b743acd83a6c4bac18/segmentation_phenix-0.1.5.tar.gz from build tracker '/tmp/pip-build-tracker-tyktoscq' 2025-09-08T23:53:52,816 Created temporary directory: /tmp/pip-unpack-al13ml4u 2025-09-08T23:53:52,816 Created temporary directory: /tmp/pip-unpack-d0b0y6qf 2025-09-08T23:53:52,817 Building wheels for collected packages: segmentation-phenix 2025-09-08T23:53:52,818 Created temporary directory: /tmp/pip-wheel-xer8rq7o 2025-09-08T23:53:52,819 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 2025-09-08T23:53:52,820 Building wheel for segmentation-phenix (setup.py): started 2025-09-08T23:53:52,820 Destination directory: /tmp/pip-wheel-xer8rq7o 2025-09-08T23:53:52,821 Running command python setup.py bdist_wheel 2025-09-08T23:53:53,669 /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. 2025-09-08T23:53:53,669 !! 2025-09-08T23:53:53,669 ******************************************************************************** 2025-09-08T23:53:53,670 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:53:53,670 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:53:53,670 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:53:53,670 or your builds will no longer be supported. 2025-09-08T23:53:53,670 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:53:53,670 ******************************************************************************** 2025-09-08T23:53:53,670 !! 2025-09-08T23:53:53,671 opt = self._enforce_underscore(opt, section) 2025-09-08T23:53:54,121 /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. 2025-09-08T23:53:54,121 !! 2025-09-08T23:53:54,121 ******************************************************************************** 2025-09-08T23:53:54,121 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:53:54,121 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:53:54,121 (Affected: segmentation_phenix). 2025-09-08T23:53:54,122 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:53:54,122 or your builds will no longer be supported. 2025-09-08T23:53:54,122 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:53:54,122 ******************************************************************************** 2025-09-08T23:53:54,122 !! 2025-09-08T23:53:54,122 opt = self._enforce_underscore(opt, section) 2025-09-08T23:53:54,123 running bdist_wheel 2025-09-08T23:53:54,431 running build 2025-09-08T23:53:54,431 running build_py 2025-09-08T23:53:54,511 creating build/lib.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:53:54,511 copying segmentation_phenix/__init__.py -> build/lib.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:53:54,513 running build_ext 2025-09-08T23:53:54,949 Compiling segmentation_phenix/segmentation.pyx because it changed. 2025-09-08T23:53:54,950 [1/1] Cythonizing segmentation_phenix/segmentation.pyx 2025-09-08T23:53:58,095 building 'segmentation_phenix.segmentation' extension 2025-09-08T23:53:58,096 creating build/temp.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:53:58,096 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 2025-09-08T23:53:58,402 In file included from segmentation_phenix/segmentation.cpp:1179: 2025-09-08T23:53:58,402 segmentation_phenix/fastmm.cpp:1:10: fatal error: boost/multi_array.hpp: No such file or directory 2025-09-08T23:53:58,402 1 | #include 2025-09-08T23:53:58,402 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T23:53:58,402 compilation terminated. 2025-09-08T23:53:58,406 error: command '/usr/bin/arm-linux-gnueabihf-g++' failed with exit code 1 2025-09-08T23:53:58,933 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T23:53:58,946 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T23:53:58,946 exec(compile('"'"''"'"''"'"' 2025-09-08T23:53:58,946 # This is -- a caller that pip uses to run setup.py 2025-09-08T23:53:58,946 # 2025-09-08T23:53:58,946 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T23:53:58,946 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T23:53:58,946 # - It provides a clear error message when setuptools is not installed. 2025-09-08T23:53:58,946 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T23:53:58,946 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T23:53:58,946 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T23:53:58,946 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T23:53:58,946 import os, sys, tokenize, traceback 2025-09-08T23:53:58,946 2025-09-08T23:53:58,946 try: 2025-09-08T23:53:58,946 import setuptools 2025-09-08T23:53:58,946 except ImportError: 2025-09-08T23:53:58,946 print( 2025-09-08T23:53:58,946 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T23:53:58,946 "the build environment with exception:", 2025-09-08T23:53:58,946 file=sys.stderr, 2025-09-08T23:53:58,946 ) 2025-09-08T23:53:58,946 traceback.print_exc() 2025-09-08T23:53:58,946 sys.exit(1) 2025-09-08T23:53:58,946 2025-09-08T23:53:58,946 __file__ = %r 2025-09-08T23:53:58,946 sys.argv[0] = __file__ 2025-09-08T23:53:58,946 2025-09-08T23:53:58,946 if os.path.exists(__file__): 2025-09-08T23:53:58,946 filename = __file__ 2025-09-08T23:53:58,946 with tokenize.open(__file__) as f: 2025-09-08T23:53:58,946 setup_py_code = f.read() 2025-09-08T23:53:58,946 else: 2025-09-08T23:53:58,946 filename = "" 2025-09-08T23:53:58,946 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T23:53:58,946 2025-09-08T23:53:58,946 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T23:53:58,946 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-yjqmymh4/segmentation-phenix_46f3ae2f6ac84482804ec6ef2c930072/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-xer8rq7o[/] 2025-09-08T23:53:58,946 [bold magenta]cwd[/]: /tmp/pip-wheel-yjqmymh4/segmentation-phenix_46f3ae2f6ac84482804ec6ef2c930072/ 2025-09-08T23:53:58,947 Building wheel for segmentation-phenix (setup.py): finished with status 'error' 2025-09-08T23:53:58,948 ERROR: Failed building wheel for segmentation-phenix 2025-09-08T23:53:58,949 Running setup.py clean for segmentation-phenix 2025-09-08T23:53:58,949 Running command python setup.py clean 2025-09-08T23:53:59,809 /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. 2025-09-08T23:53:59,810 !! 2025-09-08T23:53:59,810 ******************************************************************************** 2025-09-08T23:53:59,810 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:53:59,810 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:53:59,810 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:53:59,810 or your builds will no longer be supported. 2025-09-08T23:53:59,811 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:53:59,811 ******************************************************************************** 2025-09-08T23:53:59,811 !! 2025-09-08T23:53:59,811 opt = self._enforce_underscore(opt, section) 2025-09-08T23:54:00,256 /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. 2025-09-08T23:54:00,256 !! 2025-09-08T23:54:00,256 ******************************************************************************** 2025-09-08T23:54:00,256 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:54:00,256 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:54:00,256 (Affected: segmentation_phenix). 2025-09-08T23:54:00,257 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:54:00,257 or your builds will no longer be supported. 2025-09-08T23:54:00,257 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:54:00,257 ******************************************************************************** 2025-09-08T23:54:00,257 !! 2025-09-08T23:54:00,257 opt = self._enforce_underscore(opt, section) 2025-09-08T23:54:00,333 running clean 2025-09-08T23:54:00,482 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T23:54:00,482 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T23:54:00,482 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T23:54:00,482 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T23:54:00,482 removing 'build' 2025-09-08T23:54:00,619 Failed to build segmentation-phenix 2025-09-08T23:54:00,620 ERROR: Failed to build one or more wheels 2025-09-08T23:54:00,620 Exception information: 2025-09-08T23:54:00,620 Traceback (most recent call last): 2025-09-08T23:54:00,620 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T23:54:00,620 status = _inner_run() 2025-09-08T23:54:00,620 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T23:54:00,620 return self.run(options, args) 2025-09-08T23:54:00,620 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T23:54:00,620 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T23:54:00,620 return func(self, options, args) 2025-09-08T23:54:00,620 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T23:54:00,620 raise CommandError("Failed to build one or more wheels") 2025-09-08T23:54:00,620 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T23:54:00,625 Removed build tracker: '/tmp/pip-build-tracker-tyktoscq'