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https://files.pythonhosted.org/packages/54/05/f4034c9d9d84de5c2bfd6ba1be912ff0c05f0dec67602340055c192c5361/lorax-0.94.82.tar.gz (from https://pypi.org/simple/lorax/), version: 0.94.82 2023-09-09T22:38:44,730 Found link https://files.pythonhosted.org/packages/89/0c/f6fa76d6b65282d5c4ba2b85ae8e04f439bbd492347ae289a178ee3abd38/lorax-0.94.85.tar.gz (from https://pypi.org/simple/lorax/), version: 0.94.85 2023-09-09T22:38:44,731 Found link https://files.pythonhosted.org/packages/80/b1/9fe626f399b89d7c2a062e36a4b795fe707622020ce265ddc9cd80940a5c/lorax-0.94.86.tar.gz (from https://pypi.org/simple/lorax/), version: 0.94.86 2023-09-09T22:38:44,731 Fetching project page and analyzing links: https://www.piwheels.org/simple/lorax/ 2023-09-09T22:38:44,732 Getting page https://www.piwheels.org/simple/lorax/ 2023-09-09T22:38:44,733 Found index url https://www.piwheels.org/simple/ 2023-09-09T22:38:45,000 Fetched page https://www.piwheels.org/simple/lorax/ as text/html 2023-09-09T22:38:45,005 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.93.20-py3-none-any.whl#sha256=782c49b5ab89e53b404a63c02ed085fd1b92765e5ec16b324800b825aa76bd2a (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,005 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.93.22-py3-none-any.whl#sha256=3de8c8281bee4fa1465223e7ab6ca8f772cce73046b49b9abc04e0b11ff8294a (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,006 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.93.23-py3-none-any.whl#sha256=d3da61e2d1969a811ce9c51c5aff006185d82bad25116f188ff49cf820522dd7 (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,007 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.93.24-py3-none-any.whl#sha256=63a3427bb571384be9deb50ca8abbfc3f9252be6f5963d760ca73fdf0be74c5c (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,007 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.93.25-py3-none-any.whl#sha256=16de7e548a3dd43aae5d3e0314e2f73dc5e0f179d00b6d74f9b0cb89252383ef (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,008 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.93.26-py3-none-any.whl#sha256=b712943b713b1f6f1d11b9fb8ad532e1cc5e8abebb1641b93b412fa0b60ce4bd (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,009 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.1-py3-none-any.whl#sha256=44cd52a7d5cb5a2dd93f04f06f914882bae63710cb055d89e9db31fe0feb127e (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,009 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.2-py3-none-any.whl#sha256=f1b03d00109b9106265be3f3daa97581a90ce361fdba65c444b9344e6b6e3bca (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,010 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.3-py3-none-any.whl#sha256=c72258c3a6c81fb07669b881e8b6cb1a4c186c6e62f05a1ada289e68a1671438 (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,011 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.4-py3-none-any.whl#sha256=7738a83b64316be47321cf7b01cee617106154de2451a5002d82c4b3d646b9d3 (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,011 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.5-py3-none-any.whl#sha256=37112882fc18c26472115c6c03401aeb2e2275e0aa51693ae20a9c648bb803d9 (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,012 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.6-py3-none-any.whl#sha256=748eba7c915596b87670c065e6842a61c657e8481b0734ce0a55261d2b5ae205 (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,012 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.7-py3-none-any.whl#sha256=db752532dcd285c5060be2c3e6e51738078b1985cfa9e6a3aa6573b985319e03 (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,013 Skipping link: No binaries permitted for lorax: https://www.piwheels.org/simple/lorax/lorax-0.94.8-py3-none-any.whl#sha256=ad19f28c987c7e6af45f6f435f034fd1611dc66e584adb26fe3d5f92de2dc35f (from https://www.piwheels.org/simple/lorax/) 2023-09-09T22:38:45,013 Skipping link: not a file: https://www.piwheels.org/simple/lorax/ 2023-09-09T22:38:45,014 Skipping link: not a file: https://pypi.org/simple/lorax/ 2023-09-09T22:38:45,041 Given no hashes to check 1 links for project 'lorax': discarding no candidates 2023-09-09T22:38:45,059 Collecting lorax==0.94.18 2023-09-09T22:38:45,061 Created temporary directory: /tmp/pip-unpack-s5s048lh 2023-09-09T22:38:46,251 Downloading lorax-0.94.18.tar.gz (308 kB) 2023-09-09T22:38:46,624 Added lorax==0.94.18 from https://files.pythonhosted.org/packages/80/1c/61ff0d3763f9290b2769f8ef82d8011903e8ecc8d2aaed5cc05ebc6b070a/lorax-0.94.18.tar.gz to build tracker '/tmp/pip-build-tracker-ffltfaed' 2023-09-09T22:38:46,625 Running setup.py (path:/tmp/pip-wheel-xthvd0ao/lorax_a415caa238f64588a46ac22b015cb155/setup.py) egg_info for package lorax 2023-09-09T22:38:46,626 Created temporary directory: /tmp/pip-pip-egg-info-45lxjmy8 2023-09-09T22:38:46,627 Preparing metadata (setup.py): started 2023-09-09T22:38:46,628 Running command python setup.py egg_info 2023-09-09T22:38:47,672 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T22:38:47,672 !! 2023-09-09T22:38:47,673 ******************************************************************************** 2023-09-09T22:38:47,674 Usage of dash-separated 'description-file' will not be supported in future 2023-09-09T22:38:47,675 versions. Please use the underscore name 'description_file' instead. 2023-09-09T22:38:47,676 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T22:38:47,676 or your builds will no longer be supported. 2023-09-09T22:38:47,677 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T22:38:47,678 ******************************************************************************** 2023-09-09T22:38:47,679 !! 2023-09-09T22:38:47,680 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T22:38:47,703 /usr/local/lib/python3.11/dist-packages/setuptools/config/setupcfg.py:293: _DeprecatedConfig: Deprecated config in `setup.cfg` 2023-09-09T22:38:47,703 !! 2023-09-09T22:38:47,705 ******************************************************************************** 2023-09-09T22:38:47,705 The license_file parameter is deprecated, use license_files instead. 2023-09-09T22:38:47,707 By 2023-Oct-30, you need to update your project and remove deprecated calls 2023-09-09T22:38:47,707 or your builds will no longer be supported. 2023-09-09T22:38:47,709 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T22:38:47,709 ******************************************************************************** 2023-09-09T22:38:47,710 !! 2023-09-09T22:38:47,711 parsed = self.parsers.get(option_name, lambda x: x)(value) 2023-09-09T22:38:47,711 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T22:38:47,712 !! 2023-09-09T22:38:47,713 ******************************************************************************** 2023-09-09T22:38:47,713 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T22:38:47,713 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T22:38:47,714 ******************************************************************************** 2023-09-09T22:38:47,715 !! 2023-09-09T22:38:47,715 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T22:38:51,098 running egg_info 2023-09-09T22:38:51,099 creating /tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info 2023-09-09T22:38:51,127 writing /tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/PKG-INFO 2023-09-09T22:38:51,138 writing dependency_links to /tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/dependency_links.txt 2023-09-09T22:38:51,139 writing entry points to /tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/entry_points.txt 2023-09-09T22:38:51,144 writing requirements to /tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/requires.txt 2023-09-09T22:38:51,145 writing top-level names to /tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/top_level.txt 2023-09-09T22:38:51,147 writing manifest file '/tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/SOURCES.txt' 2023-09-09T22:38:51,278 listing git files failed - pretending there aren't any 2023-09-09T22:38:51,284 reading manifest file '/tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/SOURCES.txt' 2023-09-09T22:38:51,285 reading manifest template 'MANIFEST.in' 2023-09-09T22:38:51,302 adding license file 'LICENSE.txt' 2023-09-09T22:38:51,305 writing manifest file '/tmp/pip-pip-egg-info-45lxjmy8/lorax.egg-info/SOURCES.txt' 2023-09-09T22:38:51,438 Preparing metadata (setup.py): finished with status 'done' 2023-09-09T22:38:51,442 Source in /tmp/pip-wheel-xthvd0ao/lorax_a415caa238f64588a46ac22b015cb155 has version 0.94.18, which satisfies requirement lorax==0.94.18 from https://files.pythonhosted.org/packages/80/1c/61ff0d3763f9290b2769f8ef82d8011903e8ecc8d2aaed5cc05ebc6b070a/lorax-0.94.18.tar.gz 2023-09-09T22:38:51,443 Removed lorax==0.94.18 from https://files.pythonhosted.org/packages/80/1c/61ff0d3763f9290b2769f8ef82d8011903e8ecc8d2aaed5cc05ebc6b070a/lorax-0.94.18.tar.gz from build tracker '/tmp/pip-build-tracker-ffltfaed' 2023-09-09T22:38:51,448 Created temporary directory: /tmp/pip-unpack-ef32upze 2023-09-09T22:38:51,449 Created temporary directory: /tmp/pip-unpack-xlyuc9zx 2023-09-09T22:38:51,514 Building wheels for collected packages: lorax 2023-09-09T22:38:51,518 Created temporary directory: /tmp/pip-wheel-aptzx2o2 2023-09-09T22:38:51,519 Building wheel for lorax (setup.py): started 2023-09-09T22:38:51,520 Destination directory: /tmp/pip-wheel-aptzx2o2 2023-09-09T22:38:51,521 Running command python setup.py bdist_wheel 2023-09-09T22:38:52,283 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T22:38:52,284 !! 2023-09-09T22:38:52,285 ******************************************************************************** 2023-09-09T22:38:52,285 Usage of dash-separated 'description-file' will not be supported in future 2023-09-09T22:38:52,286 versions. Please use the underscore name 'description_file' instead. 2023-09-09T22:38:52,287 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T22:38:52,288 or your builds will no longer be supported. 2023-09-09T22:38:52,289 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T22:38:52,290 ******************************************************************************** 2023-09-09T22:38:52,291 !! 2023-09-09T22:38:52,291 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T22:38:52,315 /usr/local/lib/python3.11/dist-packages/setuptools/config/setupcfg.py:293: _DeprecatedConfig: Deprecated config in `setup.cfg` 2023-09-09T22:38:52,315 !! 2023-09-09T22:38:52,316 ******************************************************************************** 2023-09-09T22:38:52,317 The license_file parameter is deprecated, use license_files instead. 2023-09-09T22:38:52,318 By 2023-Oct-30, you need to update your project and remove deprecated calls 2023-09-09T22:38:52,318 or your builds will no longer be supported. 2023-09-09T22:38:52,319 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T22:38:52,319 ******************************************************************************** 2023-09-09T22:38:52,320 !! 2023-09-09T22:38:52,321 parsed = self.parsers.get(option_name, lambda x: x)(value) 2023-09-09T22:38:52,322 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T22:38:52,322 !! 2023-09-09T22:38:52,323 ******************************************************************************** 2023-09-09T22:38:52,323 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T22:38:52,324 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T22:38:52,324 ******************************************************************************** 2023-09-09T22:38:52,325 !! 2023-09-09T22:38:52,326 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T22:38:52,988 running bdist_wheel 2023-09-09T22:38:53,043 The [wheel] section is deprecated. Use [bdist_wheel] instead. 2023-09-09T22:38:53,097 running build 2023-09-09T22:38:53,097 running build_py 2023-09-09T22:38:53,098 running build_cbinary 2023-09-09T22:38:53,098 compiling FastTree v2.1.10 binary 2023-09-09T22:39:20,020 FastTree-2.1.10.c: In function ‘CreateGTR’: 2023-09-09T22:39:20,020 FastTree-2.1.10.c:9531:10: warning: ‘CreateTransitionMatrix’ accessing 3200 bytes in a region of size 640 [-Wstringop-overflow=] 2023-09-09T22:39:20,021 9531 | return(CreateTransitionMatrix(matrix,f)); 2023-09-09T22:39:20,022 | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-09T22:39:20,022 FastTree-2.1.10.c:9531:10: note: referencing argument 1 of type ‘double[20][20]’ 2023-09-09T22:39:20,023 FastTree-2.1.10.c:9531:10: note: referencing argument 2 of type ‘double[20]’ 2023-09-09T22:39:20,023 FastTree-2.1.10.c:9534:22: note: in a call to function ‘CreateTransitionMatrix’ 2023-09-09T22:39:20,024 9534 | transition_matrix_t *CreateTransitionMatrix(/*IN*/double matrix[MAXCODES][MAXCODES], 2023-09-09T22:39:20,024 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-09T22:39:20,025 FastTree-2.1.10.c: In function ‘CreateGTR.part.0’: 2023-09-09T22:39:20,025 FastTree-2.1.10.c:9531:10: warning: ‘CreateTransitionMatrix’ accessing 3200 bytes in a region of size 640 [-Wstringop-overflow=] 2023-09-09T22:39:20,026 9531 | return(CreateTransitionMatrix(matrix,f)); 2023-09-09T22:39:20,026 | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-09T22:39:20,027 FastTree-2.1.10.c:9531:10: note: referencing argument 1 of type ‘double[20][20]’ 2023-09-09T22:39:20,028 FastTree-2.1.10.c:9531:10: note: referencing argument 2 of type ‘double[20]’ 2023-09-09T22:39:20,028 FastTree-2.1.10.c:9534:22: note: in a call to function ‘CreateTransitionMatrix’ 2023-09-09T22:39:20,029 9534 | transition_matrix_t *CreateTransitionMatrix(/*IN*/double matrix[MAXCODES][MAXCODES], 2023-09-09T22:39:20,029 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-09T22:39:20,030 FastTree-2.1.10.c:9531:10: warning: ‘CreateTransitionMatrix’ accessing 3200 bytes in a region of size 640 [-Wstringop-overflow=] 2023-09-09T22:39:20,031 9531 | return(CreateTransitionMatrix(matrix,f)); 2023-09-09T22:39:20,031 | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-09T22:39:20,032 FastTree-2.1.10.c:9531:10: note: referencing argument 1 of type ‘double[20][20]’ 2023-09-09T22:39:20,032 FastTree-2.1.10.c:9531:10: note: referencing argument 2 of type ‘double[20]’ 2023-09-09T22:39:20,033 FastTree-2.1.10.c:9534:22: note: in a call to function ‘CreateTransitionMatrix’ 2023-09-09T22:39:20,033 9534 | transition_matrix_t *CreateTransitionMatrix(/*IN*/double matrix[MAXCODES][MAXCODES], 2023-09-09T22:39:20,033 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-09T22:39:20,034 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `IncompleteGamma.part.0': 2023-09-09T22:39:20,034 FastTree-2.1.10.c:(.text+0xe0): undefined reference to `log' 2023-09-09T22:39:20,035 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xf0): undefined reference to `exp' 2023-09-09T22:39:20,035 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `LogCorrect': 2023-09-09T22:39:20,036 FastTree-2.1.10.c:(.text+0x3b4c): undefined reference to `log' 2023-09-09T22:39:20,036 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x3b64): undefined reference to `log' 2023-09-09T22:39:20,037 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `CorrectedPairDistances.part.0.constprop.0': 2023-09-09T22:39:20,038 FastTree-2.1.10.c:(.text+0x4748): undefined reference to `log' 2023-09-09T22:39:20,038 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x4778): undefined reference to `log' 2023-09-09T22:39:20,039 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x47a4): undefined reference to `log' 2023-09-09T22:39:20,040 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x47d4): more undefined references to `log' follow 2023-09-09T22:39:20,041 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `PSameVector': 2023-09-09T22:39:20,042 FastTree-2.1.10.c:(.text+0x847c): undefined reference to `exp' 2023-09-09T22:39:20,043 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x849c): undefined reference to `exp' 2023-09-09T22:39:20,044 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x84bc): undefined reference to `exp' 2023-09-09T22:39:20,044 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x84f4): undefined reference to `exp' 2023-09-09T22:39:20,045 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x8514): undefined reference to `exp' 2023-09-09T22:39:20,046 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x8534): more undefined references to `exp' follow 2023-09-09T22:39:20,047 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `PairLogLk': 2023-09-09T22:39:20,048 FastTree-2.1.10.c:(.text+0x8d78): undefined reference to `log' 2023-09-09T22:39:20,049 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `MLSiteRates': 2023-09-09T22:39:20,050 FastTree-2.1.10.c:(.text+0xa778): undefined reference to `log' 2023-09-09T22:39:20,050 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xa82c): undefined reference to `exp' 2023-09-09T22:39:20,051 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xa848): undefined reference to `exp' 2023-09-09T22:39:20,052 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xa864): undefined reference to `exp' 2023-09-09T22:39:20,052 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xa880): undefined reference to `exp' 2023-09-09T22:39:20,053 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xa89c): undefined reference to `exp' 2023-09-09T22:39:20,054 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0xa8b8): more undefined references to `exp' follow 2023-09-09T22:39:20,055 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `GammaLogLk': 2023-09-09T22:39:20,056 FastTree-2.1.10.c:(.text+0xab0c): undefined reference to `log' 2023-09-09T22:39:20,056 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xab18): undefined reference to `log' 2023-09-09T22:39:20,057 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xac18): undefined reference to `log' 2023-09-09T22:39:20,058 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xac3c): undefined reference to `log' 2023-09-09T22:39:20,059 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xaf3c): undefined reference to `exp' 2023-09-09T22:39:20,059 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xaf54): undefined reference to `exp' 2023-09-09T22:39:20,060 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xaf6c): undefined reference to `exp' 2023-09-09T22:39:20,061 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xaf98): undefined reference to `exp' 2023-09-09T22:39:20,062 /usr/bin/ld: FastTree-2.1.10.c:(.text+0xafb4): undefined reference to `exp' 2023-09-09T22:39:20,062 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0xafd0): more undefined references to `exp' follow 2023-09-09T22:39:20,063 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `GammaLogLk': 2023-09-09T22:39:20,064 FastTree-2.1.10.c:(.text+0xb00c): undefined reference to `log' 2023-09-09T22:39:20,064 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `SplitSupport': 2023-09-09T22:39:20,065 FastTree-2.1.10.c:(.text+0x123e0): undefined reference to `log' 2023-09-09T22:39:20,065 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x12410): undefined reference to `log' 2023-09-09T22:39:20,066 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x1249c): undefined reference to `log' 2023-09-09T22:39:20,067 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x124b4): undefined reference to `log' 2023-09-09T22:39:20,068 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x126b4): more undefined references to `log' follow 2023-09-09T22:39:20,069 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `InitTopHits': 2023-09-09T22:39:20,070 FastTree-2.1.10.c:(.text+0x16338): undefined reference to `sqrt' 2023-09-09T22:39:20,070 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `SetAllLeafTopHits': 2023-09-09T22:39:20,071 FastTree-2.1.10.c:(.text+0x16fa4): undefined reference to `log' 2023-09-09T22:39:20,072 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x17060): undefined reference to `sqrt' 2023-09-09T22:39:20,073 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `TopHitJoin': 2023-09-09T22:39:20,074 FastTree-2.1.10.c:(.text+0x198b0): undefined reference to `log' 2023-09-09T22:39:20,074 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x198d4): undefined reference to `log' 2023-09-09T22:39:20,075 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `FastNJ': 2023-09-09T22:39:20,076 FastTree-2.1.10.c:(.text+0x1ce10): undefined reference to `sqrt' 2023-09-09T22:39:20,077 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `pnorm': 2023-09-09T22:39:20,077 FastTree-2.1.10.c:(.text+0x1e2f0): undefined reference to `exp' 2023-09-09T22:39:20,078 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x1e33c): undefined reference to `exp' 2023-09-09T22:39:20,079 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `TreeLogLk': 2023-09-09T22:39:20,080 FastTree-2.1.10.c:(.text+0x2423c): undefined reference to `log' 2023-09-09T22:39:20,081 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24250): undefined reference to `log' 2023-09-09T22:39:20,081 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24264): undefined reference to `log' 2023-09-09T22:39:20,082 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24294): undefined reference to `log' 2023-09-09T22:39:20,083 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x242ac): undefined reference to `log' 2023-09-09T22:39:20,084 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x242c4): more undefined references to `log' follow 2023-09-09T22:39:20,085 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `SetMLRates': 2023-09-09T22:39:20,085 FastTree-2.1.10.c:(.text+0x24ae8): undefined reference to `exp' 2023-09-09T22:39:20,086 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24b08): undefined reference to `exp' 2023-09-09T22:39:20,087 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24b28): undefined reference to `exp' 2023-09-09T22:39:20,088 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24b58): undefined reference to `exp' 2023-09-09T22:39:20,089 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24b78): undefined reference to `exp' 2023-09-09T22:39:20,089 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x24b98): more undefined references to `exp' follow 2023-09-09T22:39:20,090 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `SetMLRates': 2023-09-09T22:39:20,092 FastTree-2.1.10.c:(.text+0x24c80): undefined reference to `log' 2023-09-09T22:39:20,092 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24cc4): undefined reference to `log' 2023-09-09T22:39:20,093 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24cf8): undefined reference to `log' 2023-09-09T22:39:20,094 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24d40): undefined reference to `log' 2023-09-09T22:39:20,094 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x24d70): undefined reference to `log' 2023-09-09T22:39:20,095 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x24d9c): more undefined references to `log' follow 2023-09-09T22:39:20,095 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `tred2': 2023-09-09T22:39:20,096 FastTree-2.1.10.c:(.text+0x34e04): undefined reference to `sqrt' 2023-09-09T22:39:20,097 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `pythag': 2023-09-09T22:39:20,098 FastTree-2.1.10.c:(.text+0x34e9c): undefined reference to `sqrt' 2023-09-09T22:39:20,098 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x34ea8): undefined reference to `sqrt' 2023-09-09T22:39:20,099 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `tqli': 2023-09-09T22:39:20,099 FastTree-2.1.10.c:(.text+0x35500): undefined reference to `sqrt' 2023-09-09T22:39:20,100 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x35518): undefined reference to `sqrt' 2023-09-09T22:39:20,101 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x3553c): more undefined references to `sqrt' follow 2023-09-09T22:39:20,102 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `CreateTransitionMatrix': 2023-09-09T22:39:20,102 FastTree-2.1.10.c:(.text+0x35fc8): undefined reference to `exp' 2023-09-09T22:39:20,103 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x35fd8): undefined reference to `exp' 2023-09-09T22:39:20,104 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x35fe8): undefined reference to `exp' 2023-09-09T22:39:20,104 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x35ff8): undefined reference to `exp' 2023-09-09T22:39:20,105 /usr/bin/ld: FastTree-2.1.10.c:(.text+0x36008): undefined reference to `exp' 2023-09-09T22:39:20,106 /usr/bin/ld: /tmp/ccd4DN0N.o:FastTree-2.1.10.c:(.text+0x36018): more undefined references to `exp' follow 2023-09-09T22:39:20,106 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `CreateTransitionMatrix': 2023-09-09T22:39:20,107 FastTree-2.1.10.c:(.text+0x36b94): undefined reference to `sqrt' 2023-09-09T22:39:20,108 /usr/bin/ld: /tmp/ccd4DN0N.o: in function `main': 2023-09-09T22:39:20,109 FastTree-2.1.10.c:(.text.startup+0x1094): undefined reference to `log' 2023-09-09T22:39:20,109 /usr/bin/ld: FastTree-2.1.10.c:(.text.startup+0x10bc): undefined reference to `log' 2023-09-09T22:39:20,110 /usr/bin/ld: FastTree-2.1.10.c:(.text.startup+0x2d28): undefined reference to `log' 2023-09-09T22:39:20,111 /usr/bin/ld: FastTree-2.1.10.c:(.text.startup+0x2d54): undefined reference to `log' 2023-09-09T22:39:20,111 /usr/bin/ld: FastTree-2.1.10.c:(.text.startup+0x2f3c): undefined reference to `log' 2023-09-09T22:39:20,112 collect2: error: ld returned 1 exit status 2023-09-09T22:39:20,113 Traceback (most recent call last): 2023-09-09T22:39:20,114 File "", line 2, in 2023-09-09T22:39:20,115 File "", line 34, in 2023-09-09T22:39:20,115 File "/tmp/pip-wheel-xthvd0ao/lorax_a415caa238f64588a46ac22b015cb155/setup.py", line 248, in 2023-09-09T22:39:20,116 setup( 2023-09-09T22:39:20,117 File "/usr/local/lib/python3.11/dist-packages/setuptools/__init__.py", line 103, in setup 2023-09-09T22:39:20,117 return distutils.core.setup(**attrs) 2023-09-09T22:39:20,118 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-09T22:39:20,119 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/core.py", line 185, in setup 2023-09-09T22:39:20,120 return run_commands(dist) 2023-09-09T22:39:20,121 ^^^^^^^^^^^^^^^^^^ 2023-09-09T22:39:20,122 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/core.py", line 201, in run_commands 2023-09-09T22:39:20,123 dist.run_commands() 2023-09-09T22:39:20,125 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 969, in run_commands 2023-09-09T22:39:20,125 self.run_command(cmd) 2023-09-09T22:39:20,126 File "/usr/local/lib/python3.11/dist-packages/setuptools/dist.py", line 1001, in run_command 2023-09-09T22:39:20,127 super().run_command(command) 2023-09-09T22:39:20,128 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 988, in run_command 2023-09-09T22:39:20,128 cmd_obj.run() 2023-09-09T22:39:20,129 File "/usr/lib/python3/dist-packages/wheel/bdist_wheel.py", line 325, in run 2023-09-09T22:39:20,130 self.run_command("build") 2023-09-09T22:39:20,130 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py", line 318, in run_command 2023-09-09T22:39:20,131 self.distribution.run_command(command) 2023-09-09T22:39:20,132 File "/usr/local/lib/python3.11/dist-packages/setuptools/dist.py", line 1001, in run_command 2023-09-09T22:39:20,133 super().run_command(command) 2023-09-09T22:39:20,134 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 988, in run_command 2023-09-09T22:39:20,134 cmd_obj.run() 2023-09-09T22:39:20,135 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/command/build.py", line 131, in run 2023-09-09T22:39:20,136 self.run_command(cmd_name) 2023-09-09T22:39:20,136 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py", line 318, in run_command 2023-09-09T22:39:20,137 self.distribution.run_command(command) 2023-09-09T22:39:20,138 File "/usr/local/lib/python3.11/dist-packages/setuptools/dist.py", line 1001, in run_command 2023-09-09T22:39:20,139 super().run_command(command) 2023-09-09T22:39:20,140 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 988, in run_command 2023-09-09T22:39:20,140 cmd_obj.run() 2023-09-09T22:39:20,141 File "/tmp/pip-wheel-xthvd0ao/lorax_a415caa238f64588a46ac22b015cb155/setup.py", line 196, in run 2023-09-09T22:39:20,142 self.run_command('build_cbinary') 2023-09-09T22:39:20,143 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py", line 318, in run_command 2023-09-09T22:39:20,144 self.distribution.run_command(command) 2023-09-09T22:39:20,145 File "/usr/local/lib/python3.11/dist-packages/setuptools/dist.py", line 1001, in run_command 2023-09-09T22:39:20,146 super().run_command(command) 2023-09-09T22:39:20,147 File "/usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 988, in run_command 2023-09-09T22:39:20,148 cmd_obj.run() 2023-09-09T22:39:20,149 File "/tmp/pip-wheel-xthvd0ao/lorax_a415caa238f64588a46ac22b015cb155/setup.py", line 109, in run 2023-09-09T22:39:20,149 raise SystemError("Unable to compile C binary.") 2023-09-09T22:39:20,150 SystemError: Unable to compile C binary. 2023-09-09T22:39:20,185 ERROR: [present-rich] python setup.py bdist_wheel exited with 1 2023-09-09T22:39:20,198 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2023-09-09T22:39:20,198 exec(compile('"'"''"'"''"'"' 2023-09-09T22:39:20,198 # This is -- a caller that pip uses to run setup.py 2023-09-09T22:39:20,198 # 2023-09-09T22:39:20,198 # - It imports setuptools before invoking setup.py, to enable projects that directly 2023-09-09T22:39:20,198 # import from `distutils.core` to work with newer packaging standards. 2023-09-09T22:39:20,198 # - It provides a clear error message when setuptools is not installed. 2023-09-09T22:39:20,198 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2023-09-09T22:39:20,198 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2023-09-09T22:39:20,198 # manifest_maker: standard file '"'"'-c'"'"' not found". 2023-09-09T22:39:20,198 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2023-09-09T22:39:20,198 import os, sys, tokenize 2023-09-09T22:39:20,198 2023-09-09T22:39:20,198 try: 2023-09-09T22:39:20,198 import setuptools 2023-09-09T22:39:20,198 except ImportError as error: 2023-09-09T22:39:20,198 print( 2023-09-09T22:39:20,198 "ERROR: Can not execute `setup.py` since setuptools is not available in " 2023-09-09T22:39:20,198 "the build environment.", 2023-09-09T22:39:20,198 file=sys.stderr, 2023-09-09T22:39:20,198 ) 2023-09-09T22:39:20,198 sys.exit(1) 2023-09-09T22:39:20,198 2023-09-09T22:39:20,198 __file__ = %r 2023-09-09T22:39:20,198 sys.argv[0] = __file__ 2023-09-09T22:39:20,198 2023-09-09T22:39:20,198 if os.path.exists(__file__): 2023-09-09T22:39:20,198 filename = __file__ 2023-09-09T22:39:20,198 with tokenize.open(__file__) as f: 2023-09-09T22:39:20,198 setup_py_code = f.read() 2023-09-09T22:39:20,198 else: 2023-09-09T22:39:20,198 filename = "" 2023-09-09T22:39:20,198 setup_py_code = "from setuptools import setup; setup()" 2023-09-09T22:39:20,198 2023-09-09T22:39:20,198 exec(compile(setup_py_code, filename, "exec")) 2023-09-09T22:39:20,198 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-xthvd0ao/lorax_a415caa238f64588a46ac22b015cb155/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-aptzx2o2[/] 2023-09-09T22:39:20,199 [bold magenta]cwd[/]: /tmp/pip-wheel-xthvd0ao/lorax_a415caa238f64588a46ac22b015cb155/ 2023-09-09T22:39:20,199 Building wheel for lorax (setup.py): finished with status 'error' 2023-09-09T22:39:20,201 ERROR: Failed building wheel for lorax 2023-09-09T22:39:20,202 Running setup.py clean for lorax 2023-09-09T22:39:20,203 Running command python setup.py clean 2023-09-09T22:39:20,968 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T22:39:20,969 !! 2023-09-09T22:39:20,970 ******************************************************************************** 2023-09-09T22:39:20,970 Usage of dash-separated 'description-file' will not be supported in future 2023-09-09T22:39:20,971 versions. Please use the underscore name 'description_file' instead. 2023-09-09T22:39:20,972 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T22:39:20,973 or your builds will no longer be supported. 2023-09-09T22:39:20,974 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T22:39:20,975 ******************************************************************************** 2023-09-09T22:39:20,976 !! 2023-09-09T22:39:20,976 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T22:39:20,999 /usr/local/lib/python3.11/dist-packages/setuptools/config/setupcfg.py:293: _DeprecatedConfig: Deprecated config in `setup.cfg` 2023-09-09T22:39:21,000 !! 2023-09-09T22:39:21,001 ******************************************************************************** 2023-09-09T22:39:21,001 The license_file parameter is deprecated, use license_files instead. 2023-09-09T22:39:21,002 By 2023-Oct-30, you need to update your project and remove deprecated calls 2023-09-09T22:39:21,003 or your builds will no longer be supported. 2023-09-09T22:39:21,004 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T22:39:21,005 ******************************************************************************** 2023-09-09T22:39:21,006 !! 2023-09-09T22:39:21,006 parsed = self.parsers.get(option_name, lambda x: x)(value) 2023-09-09T22:39:21,007 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T22:39:21,008 !! 2023-09-09T22:39:21,009 ******************************************************************************** 2023-09-09T22:39:21,009 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T22:39:21,010 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T22:39:21,010 ******************************************************************************** 2023-09-09T22:39:21,011 !! 2023-09-09T22:39:21,011 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T22:39:21,670 running clean 2023-09-09T22:39:21,724 'build/lib' does not exist -- can't clean it 2023-09-09T22:39:21,725 'build/bdist.linux-armv7l' does not exist -- can't clean it 2023-09-09T22:39:21,726 'build/scripts-3.11' does not exist -- can't clean it 2023-09-09T22:39:21,857 Failed to build lorax 2023-09-09T22:39:21,859 ERROR: Failed to build one or more wheels 2023-09-09T22:39:21,860 Exception information: 2023-09-09T22:39:21,860 Traceback (most recent call last): 2023-09-09T22:39:21,860 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 180, in exc_logging_wrapper 2023-09-09T22:39:21,860 status = run_func(*args) 2023-09-09T22:39:21,860 ^^^^^^^^^^^^^^^ 2023-09-09T22:39:21,860 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 248, in wrapper 2023-09-09T22:39:21,860 return func(self, options, args) 2023-09-09T22:39:21,860 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-09T22:39:21,860 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 181, in run 2023-09-09T22:39:21,860 raise CommandError("Failed to build one or more wheels") 2023-09-09T22:39:21,860 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2023-09-09T22:39:21,863 Removed build tracker: '/tmp/pip-build-tracker-ffltfaed'