2025-09-08T23:38:36,202 Created temporary directory: /tmp/pip-build-tracker-zbzfi20d 2025-09-08T23:38:36,202 Initialized build tracking at /tmp/pip-build-tracker-zbzfi20d 2025-09-08T23:38:36,202 Created build tracker: /tmp/pip-build-tracker-zbzfi20d 2025-09-08T23:38:36,202 Entered build tracker: /tmp/pip-build-tracker-zbzfi20d 2025-09-08T23:38:36,203 Created temporary directory: /tmp/pip-wheel-q6wj2pzh 2025-09-08T23:38:36,206 Created temporary directory: /tmp/pip-ephem-wheel-cache-i0l6v3ou 2025-09-08T23:38:36,265 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T23:38:36,267 2 location(s) to search for versions of segmentation-phenix: 2025-09-08T23:38:36,267 * https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,267 * https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,267 Fetching project page and analyzing links: https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,268 Getting page https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,269 Found index url https://pypi.org/simple/ 2025-09-08T23:38:36,339 Fetched page https://pypi.org/simple/segmentation-phenix/ as application/vnd.pypi.simple.v1+json 2025-09-08T23:38:36,340 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 2025-09-08T23:38:36,341 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 2025-09-08T23:38:36,341 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 2025-09-08T23:38:36,341 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 2025-09-08T23:38:36,341 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 2025-09-08T23:38:36,342 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 2025-09-08T23:38:36,342 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 2025-09-08T23:38:36,342 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 2025-09-08T23:38:36,342 Fetching project page and analyzing links: https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,342 Getting page https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,343 Found index url https://www.piwheels.org/simple/ 2025-09-08T23:38:36,449 Fetched page https://www.piwheels.org/simple/segmentation-phenix/ as text/html 2025-09-08T23:38:36,450 Skipping link: not a file: https://www.piwheels.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,450 Skipping link: not a file: https://pypi.org/simple/segmentation-phenix/ 2025-09-08T23:38:36,474 Given no hashes to check 1 links for project 'segmentation-phenix': discarding no candidates 2025-09-08T23:38:36,475 Collecting segmentation-phenix==0.1.1 2025-09-08T23:38:36,477 Created temporary directory: /tmp/pip-unpack-qiz3zm22 2025-09-08T23:38:36,615 Downloading segmentation_phenix-0.1.1.tar.gz (17 kB) 2025-09-08T23:38:36,644 Added segmentation-phenix==0.1.1 from https://files.pythonhosted.org/packages/04/55/6543f51023a5dcad42a9b10db8073a826ec9fa0cf14cdca970836d65e317/segmentation_phenix-0.1.1.tar.gz to build tracker '/tmp/pip-build-tracker-zbzfi20d' 2025-09-08T23:38:36,645 Running setup.py (path:/tmp/pip-wheel-q6wj2pzh/segmentation-phenix_e5d7d7d3e2bd43d9941a2ee47d3288b5/setup.py) egg_info for package segmentation-phenix 2025-09-08T23:38:36,645 Created temporary directory: /tmp/pip-pip-egg-info-qbbsv4h1 2025-09-08T23:38:36,645 Preparing metadata (setup.py): started 2025-09-08T23:38:36,646 Running command python setup.py egg_info 2025-09-08T23:38:37,475 /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. 2025-09-08T23:38:37,475 !! 2025-09-08T23:38:37,475 ******************************************************************************** 2025-09-08T23:38:37,475 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:38:37,475 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:38:37,476 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:38:37,476 or your builds will no longer be supported. 2025-09-08T23:38:37,476 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:38:37,476 ******************************************************************************** 2025-09-08T23:38:37,476 !! 2025-09-08T23:38:37,476 opt = self._enforce_underscore(opt, section) 2025-09-08T23:38:37,918 /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. 2025-09-08T23:38:37,918 !! 2025-09-08T23:38:37,919 ******************************************************************************** 2025-09-08T23:38:37,919 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:38:37,919 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:38:37,919 (Affected: segmentation_phenix). 2025-09-08T23:38:37,919 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:38:37,919 or your builds will no longer be supported. 2025-09-08T23:38:37,919 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:38:37,919 ******************************************************************************** 2025-09-08T23:38:37,920 !! 2025-09-08T23:38:37,920 opt = self._enforce_underscore(opt, section) 2025-09-08T23:38:37,995 running egg_info 2025-09-08T23:38:38,070 creating /tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info 2025-09-08T23:38:38,070 writing /tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info/PKG-INFO 2025-09-08T23:38:38,071 writing dependency_links to /tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info/dependency_links.txt 2025-09-08T23:38:38,072 writing requirements to /tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info/requires.txt 2025-09-08T23:38:38,072 writing top-level names to /tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info/top_level.txt 2025-09-08T23:38:38,073 writing manifest file '/tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:38:38,299 reading manifest file '/tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:38:38,299 reading manifest template 'MANIFEST.in' 2025-09-08T23:38:38,300 warning: no files found matching '*' under directory 'data' 2025-09-08T23:38:38,302 adding license file 'LICENSE' 2025-09-08T23:38:38,304 writing manifest file '/tmp/pip-pip-egg-info-qbbsv4h1/segmentation_phenix.egg-info/SOURCES.txt' 2025-09-08T23:38:38,441 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T23:38:38,446 Source in /tmp/pip-wheel-q6wj2pzh/segmentation-phenix_e5d7d7d3e2bd43d9941a2ee47d3288b5 has version 0.1.1, which satisfies requirement segmentation-phenix==0.1.1 from https://files.pythonhosted.org/packages/04/55/6543f51023a5dcad42a9b10db8073a826ec9fa0cf14cdca970836d65e317/segmentation_phenix-0.1.1.tar.gz 2025-09-08T23:38:38,446 Removed segmentation-phenix==0.1.1 from https://files.pythonhosted.org/packages/04/55/6543f51023a5dcad42a9b10db8073a826ec9fa0cf14cdca970836d65e317/segmentation_phenix-0.1.1.tar.gz from build tracker '/tmp/pip-build-tracker-zbzfi20d' 2025-09-08T23:38:38,450 Created temporary directory: /tmp/pip-unpack-agel8os5 2025-09-08T23:38:38,450 Created temporary directory: /tmp/pip-unpack-1hjuy6r_ 2025-09-08T23:38:38,450 Building wheels for collected packages: segmentation-phenix 2025-09-08T23:38:38,452 Created temporary directory: /tmp/pip-wheel-o6rij6wt 2025-09-08T23:38:38,452 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 2025-09-08T23:38:38,453 Building wheel for segmentation-phenix (setup.py): started 2025-09-08T23:38:38,454 Destination directory: /tmp/pip-wheel-o6rij6wt 2025-09-08T23:38:38,454 Running command python setup.py bdist_wheel 2025-09-08T23:38:39,295 /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. 2025-09-08T23:38:39,295 !! 2025-09-08T23:38:39,295 ******************************************************************************** 2025-09-08T23:38:39,295 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:38:39,295 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:38:39,295 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:38:39,296 or your builds will no longer be supported. 2025-09-08T23:38:39,296 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:38:39,296 ******************************************************************************** 2025-09-08T23:38:39,296 !! 2025-09-08T23:38:39,296 opt = self._enforce_underscore(opt, section) 2025-09-08T23:38:39,740 /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. 2025-09-08T23:38:39,740 !! 2025-09-08T23:38:39,740 ******************************************************************************** 2025-09-08T23:38:39,740 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:38:39,741 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:38:39,741 (Affected: segmentation_phenix). 2025-09-08T23:38:39,741 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:38:39,741 or your builds will no longer be supported. 2025-09-08T23:38:39,741 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:38:39,741 ******************************************************************************** 2025-09-08T23:38:39,741 !! 2025-09-08T23:38:39,741 opt = self._enforce_underscore(opt, section) 2025-09-08T23:38:39,742 running bdist_wheel 2025-09-08T23:38:40,034 running build 2025-09-08T23:38:40,034 running build_py 2025-09-08T23:38:40,111 creating build/lib.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:38:40,112 copying segmentation_phenix/__init__.py -> build/lib.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:38:40,113 running build_ext 2025-09-08T23:38:40,554 Compiling segmentation_phenix/segmentation.pyx because it changed. 2025-09-08T23:38:40,554 [1/1] Cythonizing segmentation_phenix/segmentation.pyx 2025-09-08T23:38:43,668 building 'segmentation_phenix.segmentation' extension 2025-09-08T23:38:43,669 creating build/temp.linux-armv7l-cpython-313/segmentation_phenix 2025-09-08T23:38:43,670 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 2025-09-08T23:38:43,973 In file included from segmentation_phenix/segmentation.cpp:1179: 2025-09-08T23:38:43,973 segmentation_phenix/fastmm.cpp:1:10: fatal error: boost/multi_array.hpp: No such file or directory 2025-09-08T23:38:43,973 1 | #include 2025-09-08T23:38:43,974 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T23:38:43,974 compilation terminated. 2025-09-08T23:38:43,977 error: command '/usr/bin/arm-linux-gnueabihf-g++' failed with exit code 1 2025-09-08T23:38:44,502 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T23:38:44,515 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T23:38:44,515 exec(compile('"'"''"'"''"'"' 2025-09-08T23:38:44,515 # This is -- a caller that pip uses to run setup.py 2025-09-08T23:38:44,515 # 2025-09-08T23:38:44,515 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T23:38:44,515 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T23:38:44,515 # - It provides a clear error message when setuptools is not installed. 2025-09-08T23:38:44,515 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T23:38:44,515 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T23:38:44,515 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T23:38:44,515 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T23:38:44,515 import os, sys, tokenize, traceback 2025-09-08T23:38:44,515 2025-09-08T23:38:44,515 try: 2025-09-08T23:38:44,515 import setuptools 2025-09-08T23:38:44,515 except ImportError: 2025-09-08T23:38:44,515 print( 2025-09-08T23:38:44,515 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T23:38:44,515 "the build environment with exception:", 2025-09-08T23:38:44,515 file=sys.stderr, 2025-09-08T23:38:44,515 ) 2025-09-08T23:38:44,515 traceback.print_exc() 2025-09-08T23:38:44,515 sys.exit(1) 2025-09-08T23:38:44,515 2025-09-08T23:38:44,515 __file__ = %r 2025-09-08T23:38:44,515 sys.argv[0] = __file__ 2025-09-08T23:38:44,515 2025-09-08T23:38:44,515 if os.path.exists(__file__): 2025-09-08T23:38:44,515 filename = __file__ 2025-09-08T23:38:44,515 with tokenize.open(__file__) as f: 2025-09-08T23:38:44,515 setup_py_code = f.read() 2025-09-08T23:38:44,515 else: 2025-09-08T23:38:44,515 filename = "" 2025-09-08T23:38:44,515 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T23:38:44,515 2025-09-08T23:38:44,515 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T23:38:44,515 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-q6wj2pzh/segmentation-phenix_e5d7d7d3e2bd43d9941a2ee47d3288b5/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-o6rij6wt[/] 2025-09-08T23:38:44,515 [bold magenta]cwd[/]: /tmp/pip-wheel-q6wj2pzh/segmentation-phenix_e5d7d7d3e2bd43d9941a2ee47d3288b5/ 2025-09-08T23:38:44,515 Building wheel for segmentation-phenix (setup.py): finished with status 'error' 2025-09-08T23:38:44,516 ERROR: Failed building wheel for segmentation-phenix 2025-09-08T23:38:44,517 Running setup.py clean for segmentation-phenix 2025-09-08T23:38:44,518 Running command python setup.py clean 2025-09-08T23:38:45,360 /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. 2025-09-08T23:38:45,360 !! 2025-09-08T23:38:45,360 ******************************************************************************** 2025-09-08T23:38:45,360 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:38:45,360 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:38:45,360 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:38:45,361 or your builds will no longer be supported. 2025-09-08T23:38:45,361 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:38:45,361 ******************************************************************************** 2025-09-08T23:38:45,361 !! 2025-09-08T23:38:45,361 opt = self._enforce_underscore(opt, section) 2025-09-08T23:38:45,802 /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. 2025-09-08T23:38:45,803 !! 2025-09-08T23:38:45,803 ******************************************************************************** 2025-09-08T23:38:45,803 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T23:38:45,803 versions. Please use the underscore name 'description_file' instead. 2025-09-08T23:38:45,803 (Affected: segmentation_phenix). 2025-09-08T23:38:45,803 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T23:38:45,803 or your builds will no longer be supported. 2025-09-08T23:38:45,804 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T23:38:45,804 ******************************************************************************** 2025-09-08T23:38:45,804 !! 2025-09-08T23:38:45,804 opt = self._enforce_underscore(opt, section) 2025-09-08T23:38:45,880 running clean 2025-09-08T23:38:46,028 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T23:38:46,028 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T23:38:46,029 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T23:38:46,029 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T23:38:46,029 removing 'build' 2025-09-08T23:38:46,166 Failed to build segmentation-phenix 2025-09-08T23:38:46,166 ERROR: Failed to build one or more wheels 2025-09-08T23:38:46,167 Exception information: 2025-09-08T23:38:46,167 Traceback (most recent call last): 2025-09-08T23:38:46,167 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T23:38:46,167 status = _inner_run() 2025-09-08T23:38:46,167 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T23:38:46,167 return self.run(options, args) 2025-09-08T23:38:46,167 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T23:38:46,167 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T23:38:46,167 return func(self, options, args) 2025-09-08T23:38:46,167 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T23:38:46,167 raise CommandError("Failed to build one or more wheels") 2025-09-08T23:38:46,167 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T23:38:46,172 Removed build tracker: '/tmp/pip-build-tracker-zbzfi20d'