2022-01-18T05:07:00,452 Created temporary directory: /tmp/pip-ephem-wheel-cache-58qimja3 2022-01-18T05:07:00,458 Created temporary directory: /tmp/pip-req-tracker-wllinlot 2022-01-18T05:07:00,458 Initialized build tracking at /tmp/pip-req-tracker-wllinlot 2022-01-18T05:07:00,459 Created build tracker: /tmp/pip-req-tracker-wllinlot 2022-01-18T05:07:00,459 Entered build tracker: /tmp/pip-req-tracker-wllinlot 2022-01-18T05:07:00,460 Created temporary directory: /tmp/pip-wheel-diakq9_7 2022-01-18T05:07:00,519 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-01-18T05:07:00,525 2 location(s) to search for versions of westpa: 2022-01-18T05:07:00,525 * https://pypi.org/simple/westpa/ 2022-01-18T05:07:00,525 * https://www.piwheels.org/simple/westpa/ 2022-01-18T05:07:00,526 Fetching project page and analyzing links: https://pypi.org/simple/westpa/ 2022-01-18T05:07:00,527 Getting page https://pypi.org/simple/westpa/ 2022-01-18T05:07:00,530 Found index url https://pypi.org/simple 2022-01-18T05:07:00,808 Found link https://files.pythonhosted.org/packages/a8/57/c4b43d48677bb48b620e3f0cda3c71aa997ab3a039ba4ba0cb05d807df19/westpa-0.0.2.tar.gz#sha256=0e8c0ce2ffe19a92d66528962c6a9e1175208010ad65885e77deee9fcf429d0e (from https://pypi.org/simple/westpa/), version: 0.0.2 2022-01-18T05:07:00,809 Found link https://files.pythonhosted.org/packages/b0/49/26240704f4fcc44e3187b617d080c7b96a1f8b4004a79b19b189bf738a49/westpa-0.0.3.tar.gz#sha256=227f5f9dce782401892d9c38f7336a5ba6b864e964b9a9ec3201bb31935cc083 (from https://pypi.org/simple/westpa/), version: 0.0.3 2022-01-18T05:07:00,810 Found link https://files.pythonhosted.org/packages/d6/81/c5fea3140456e5d1317e3ed32e1d5e01f2e9452cd100b0b3656b67cada3c/westpa-2.0.dev1.tar.gz#sha256=663cf1e633f3008f9018bcc2c281653f165d3da551c4b19949174971603fdd21 (from https://pypi.org/simple/westpa/) (requires-python:>=3.6), version: 2.0.dev1 2022-01-18T05:07:00,812 Found link https://files.pythonhosted.org/packages/fe/e9/e9ef53a71a73dfe76a8875a8eb2ce1c16942a7878502270922c5fdc8016f/westpa-2.0b5.tar.gz#sha256=4ade13c94c46fa1e277eb6ce29390303593619c2c718fc7a78851a6bd703eee0 (from https://pypi.org/simple/westpa/) (requires-python:>=3.6), version: 2.0b5 2022-01-18T05:07:00,812 Fetching project page and analyzing links: https://www.piwheels.org/simple/westpa/ 2022-01-18T05:07:00,813 Getting page https://www.piwheels.org/simple/westpa/ 2022-01-18T05:07:00,815 Found index url https://www.piwheels.org/simple 2022-01-18T05:07:01,074 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.2-cp35-cp35m-linux_armv6l.whl#sha256=94be102c7e48aae37ae6d7e184182204193924634440f5439edddba2a23108db (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,074 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.2-cp35-cp35m-linux_armv7l.whl#sha256=94be102c7e48aae37ae6d7e184182204193924634440f5439edddba2a23108db (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,075 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.2-cp37-cp37m-linux_armv6l.whl#sha256=dee88fa69865b2bb166916e14cd5902f71b995e802ced263858b6d74197941fe (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,075 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.2-cp37-cp37m-linux_armv7l.whl#sha256=dee88fa69865b2bb166916e14cd5902f71b995e802ced263858b6d74197941fe (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,076 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.2-cp39-cp39-linux_armv6l.whl#sha256=8509f9b39ad64419d29b6f438ddb27216474513474b4f93982348610125b3bb8 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,076 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.2-cp39-cp39-linux_armv7l.whl#sha256=8509f9b39ad64419d29b6f438ddb27216474513474b4f93982348610125b3bb8 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,077 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.3-cp35-cp35m-linux_armv6l.whl#sha256=2d56e31ec6b4eb41aa74e6d9651effcd50d495f9344506d52c76dc17b3d8c273 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,078 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.3-cp35-cp35m-linux_armv7l.whl#sha256=2d56e31ec6b4eb41aa74e6d9651effcd50d495f9344506d52c76dc17b3d8c273 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,078 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.3-cp37-cp37m-linux_armv6l.whl#sha256=46ad4b8e3a72b7f3f633d7068c61ff09c546afaf7391cdadf507e4757283abe5 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,079 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.3-cp37-cp37m-linux_armv7l.whl#sha256=46ad4b8e3a72b7f3f633d7068c61ff09c546afaf7391cdadf507e4757283abe5 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,079 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.3-cp39-cp39-linux_armv6l.whl#sha256=ab08db8aa33ca1961dfe69ed87059da32ce65f1aa29d6bb022b7cab651f39766 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,079 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-0.0.3-cp39-cp39-linux_armv7l.whl#sha256=ab08db8aa33ca1961dfe69ed87059da32ce65f1aa29d6bb022b7cab651f39766 (from https://www.piwheels.org/simple/westpa/) 2022-01-18T05:07:01,080 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-2.0b5-cp37-cp37m-linux_armv6l.whl#sha256=e58d94fe97bced92cd8183a94b3ec32d3361426501e12211218f73838032bd40 (from https://www.piwheels.org/simple/westpa/) (requires-python:>=3.6) 2022-01-18T05:07:01,080 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-2.0b5-cp37-cp37m-linux_armv7l.whl#sha256=e58d94fe97bced92cd8183a94b3ec32d3361426501e12211218f73838032bd40 (from https://www.piwheels.org/simple/westpa/) (requires-python:>=3.6) 2022-01-18T05:07:01,081 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-2.0b5-cp39-cp39-linux_armv6l.whl#sha256=265f76630d30cd17eff4c3ec815f806705c85ae8128470bbc86f80728eca0577 (from https://www.piwheels.org/simple/westpa/) (requires-python:>=3.6) 2022-01-18T05:07:01,081 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-2.0b5-cp39-cp39-linux_armv7l.whl#sha256=265f76630d30cd17eff4c3ec815f806705c85ae8128470bbc86f80728eca0577 (from https://www.piwheels.org/simple/westpa/) (requires-python:>=3.6) 2022-01-18T05:07:01,082 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-2.0.dev1-cp37-cp37m-linux_armv6l.whl#sha256=2f29fa867961beab5862b4d3331b574743a7502341a3e6204756f9dce4374fd6 (from https://www.piwheels.org/simple/westpa/) (requires-python:>=3.6) 2022-01-18T05:07:01,082 Skipping link: No binaries permitted for westpa: https://www.piwheels.org/simple/westpa/westpa-2.0.dev1-cp37-cp37m-linux_armv7l.whl#sha256=2f29fa867961beab5862b4d3331b574743a7502341a3e6204756f9dce4374fd6 (from https://www.piwheels.org/simple/westpa/) (requires-python:>=3.6) 2022-01-18T05:07:01,083 Skipping link: not a file: https://www.piwheels.org/simple/westpa/ 2022-01-18T05:07:01,084 Skipping link: not a file: https://pypi.org/simple/westpa/ 2022-01-18T05:07:01,125 Given no hashes to check 1 links for project 'westpa': discarding no candidates 2022-01-18T05:07:01,163 Collecting westpa==2.0.dev1 2022-01-18T05:07:01,166 Created temporary directory: /tmp/pip-unpack-z1vhatqw 2022-01-18T05:07:01,258 Downloading westpa-2.0.dev1.tar.gz (1.1 MB) 2022-01-18T05:07:02,866 Added westpa==2.0.dev1 from https://files.pythonhosted.org/packages/d6/81/c5fea3140456e5d1317e3ed32e1d5e01f2e9452cd100b0b3656b67cada3c/westpa-2.0.dev1.tar.gz#sha256=663cf1e633f3008f9018bcc2c281653f165d3da551c4b19949174971603fdd21 to build tracker '/tmp/pip-req-tracker-wllinlot' 2022-01-18T05:07:02,885 Created temporary directory: /tmp/pip-build-env-ved2ua2e 2022-01-18T05:07:02,905 Created temporary directory: /tmp/pip-standalone-pip-iucz2qly 2022-01-18T05:07:04,623 Installing build dependencies: started 2022-01-18T05:07:04,624 Running command /usr/bin/python3 /tmp/pip-standalone-pip-iucz2qly/__env_pip__.zip/pip install --ignore-installed --no-user --prefix /tmp/pip-build-env-ved2ua2e/overlay --no-warn-script-location -v --no-binary westpa --only-binary :none: -i https://pypi.org/simple --extra-index-url https://www.piwheels.org/simple --prefer-binary -- 'setuptools>=40.8.0' wheel 'Cython>=0.29.16' oldest-supported-numpy 'scipy>=0.19.1' versioneer-518 2022-01-18T05:07:13,699 Using pip 21.3.1 from /tmp/pip-standalone-pip-iucz2qly/__env_pip__.zip/pip (python 3.9) 2022-01-18T05:07:14,565 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-01-18T05:07:19,551 Collecting setuptools>=40.8.0 2022-01-18T05:07:19,771 Using cached https://www.piwheels.org/simple/setuptools/setuptools-60.5.0-py3-none-any.whl (958 kB) 2022-01-18T05:07:20,526 Collecting wheel 2022-01-18T05:07:20,559 Using cached https://www.piwheels.org/simple/wheel/wheel-0.37.1-py2.py3-none-any.whl (35 kB) 2022-01-18T05:07:25,493 Collecting Cython>=0.29.16 2022-01-18T05:07:25,543 Using cached Cython-0.29.26-py2.py3-none-any.whl (983 kB) 2022-01-18T05:07:25,887 Collecting oldest-supported-numpy 2022-01-18T05:07:25,918 Using cached https://www.piwheels.org/simple/oldest-supported-numpy/oldest_supported_numpy-0.15-py3-none-any.whl (5.5 kB) 2022-01-18T05:07:29,113 Collecting scipy>=0.19.1 2022-01-18T05:07:41,403 Using cached https://www.piwheels.org/simple/scipy/scipy-1.7.3-cp39-cp39-linux_armv7l.whl (67.0 MB) 2022-01-18T05:07:46,213 Collecting versioneer-518 2022-01-18T05:07:46,244 Downloading https://www.piwheels.org/simple/versioneer-518/versioneer_518-0.19-py2.py3-none-any.whl (17 kB) 2022-01-18T05:07:51,889 Collecting numpy==1.19.3 2022-01-18T05:07:53,808 Using cached https://www.piwheels.org/simple/numpy/numpy-1.19.3-cp39-cp39-linux_armv7l.whl (10.5 MB) 2022-01-18T05:07:58,429 Installing collected packages: numpy, wheel, versioneer-518, setuptools, scipy, oldest-supported-numpy, Cython 2022-01-18T05:08:12,793 Creating /tmp/pip-build-env-ved2ua2e/overlay/bin 2022-01-18T05:08:12,796 changing mode of /tmp/pip-build-env-ved2ua2e/overlay/bin/f2py to 755 2022-01-18T05:08:12,799 changing mode of /tmp/pip-build-env-ved2ua2e/overlay/bin/f2py3 to 755 2022-01-18T05:08:12,802 changing mode of /tmp/pip-build-env-ved2ua2e/overlay/bin/f2py3.9 to 755 2022-01-18T05:08:13,114 changing mode of /tmp/pip-build-env-ved2ua2e/overlay/bin/wheel to 755 2022-01-18T05:08:57,454 changing mode of /tmp/pip-build-env-ved2ua2e/overlay/bin/cygdb to 755 2022-01-18T05:08:57,457 changing mode of /tmp/pip-build-env-ved2ua2e/overlay/bin/cython to 755 2022-01-18T05:08:57,460 changing mode of /tmp/pip-build-env-ved2ua2e/overlay/bin/cythonize to 755 2022-01-18T05:08:57,522 Successfully installed Cython-0.29.26 numpy-1.19.3 oldest-supported-numpy-0.15 scipy-1.7.3 setuptools-60.5.0 versioneer-518-0.19 wheel-0.37.1 2022-01-18T05:08:58,334 Installing build dependencies: finished with status 'done' 2022-01-18T05:08:58,357 Getting requirements to build wheel: started 2022-01-18T05:08:58,358 Running command /usr/bin/python3 /usr/local/lib/python3.9/dist-packages/pip/_vendor/pep517/in_process/_in_process.py get_requires_for_build_wheel /tmp/tmplrd4v4_c 2022-01-18T05:09:36,061 warning: src/westpa/core/reweight/_reweight.pyx:351:13: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:09:36,063 warning: src/westpa/core/reweight/_reweight.pyx:351:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:09:36,063 warning: src/westpa/core/reweight/_reweight.pyx:351:32: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:09:36,063 warning: src/westpa/core/reweight/_reweight.pyx:352:15: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:09:36,064 warning: src/westpa/core/reweight/_reweight.pyx:352:24: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:09:36,064 warning: src/westpa/core/reweight/_reweight.pyx:352:35: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:09:36,064 warning: src/westpa/core/reweight/_reweight.pyx:352:46: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:09:36,065 warning: src/westpa/core/reweight/_reweight.pyx:352:54: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2022-01-18T05:10:01,920 Compiling src/westpa/fasthist/_fasthist.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2022-01-18T05:10:01,921 Compiling src/westpa/trajtree/_trajtree.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2022-01-18T05:10:01,921 Compiling src/westpa/mclib/_mclib.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2022-01-18T05:10:01,922 Compiling src/westpa/core/binning/_assign.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2022-01-18T05:10:01,923 Compiling src/westpa/core/kinetics/_kinetics.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2022-01-18T05:10:01,923 Compiling src/westpa/core/reweight/_reweight.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2022-01-18T05:10:01,924 [1/6] Cythonizing src/westpa/core/binning/_assign.pyx 2022-01-18T05:10:01,924 [2/6] Cythonizing src/westpa/core/kinetics/_kinetics.pyx 2022-01-18T05:10:01,924 [3/6] Cythonizing src/westpa/core/reweight/_reweight.pyx 2022-01-18T05:10:01,925 [4/6] Cythonizing src/westpa/fasthist/_fasthist.pyx 2022-01-18T05:10:01,925 [5/6] Cythonizing src/westpa/mclib/_mclib.pyx 2022-01-18T05:10:01,925 [6/6] Cythonizing src/westpa/trajtree/_trajtree.pyx 2022-01-18T05:10:02,361 /usr/local/lib/python3.9/dist-packages/setuptools/dist.py:493: UserWarning: Normalizing '2.0dev1' to '2.0.dev1' 2022-01-18T05:10:02,362 warnings.warn(tmpl.format(**locals())) 2022-01-18T05:10:02,488 running egg_info 2022-01-18T05:10:02,733 writing manifest file 'src/westpa.egg-info/SOURCES.txt' 2022-01-18T05:10:03,632 Getting requirements to build wheel: finished with status 'done' 2022-01-18T05:10:03,656 Created temporary directory: /tmp/pip-modern-metadata-jc4nhdzm 2022-01-18T05:10:03,662 Preparing metadata (pyproject.toml): started 2022-01-18T05:10:03,663 Running command /usr/bin/python3 /usr/local/lib/python3.9/dist-packages/pip/_vendor/pep517/in_process/_in_process.py prepare_metadata_for_build_wheel /tmp/tmp8d59p_2n 2022-01-18T05:10:07,777 /usr/local/lib/python3.9/dist-packages/setuptools/dist.py:493: UserWarning: Normalizing '2.0dev1' to '2.0.dev1' 2022-01-18T05:10:07,779 warnings.warn(tmpl.format(**locals())) 2022-01-18T05:10:07,893 running dist_info 2022-01-18T05:10:07,914 creating /tmp/pip-modern-metadata-jc4nhdzm/westpa.egg-info 2022-01-18T05:10:07,933 writing manifest file '/tmp/pip-modern-metadata-jc4nhdzm/westpa.egg-info/SOURCES.txt' 2022-01-18T05:10:08,079 writing manifest file '/tmp/pip-modern-metadata-jc4nhdzm/westpa.egg-info/SOURCES.txt' 2022-01-18T05:10:08,512 Preparing metadata (pyproject.toml): finished with status 'done' 2022-01-18T05:10:08,525 Source in /tmp/pip-wheel-diakq9_7/westpa_8974c516c50c463295cd975c2f7ea995 has version 2.0.dev1, which satisfies requirement westpa==2.0.dev1 from https://files.pythonhosted.org/packages/d6/81/c5fea3140456e5d1317e3ed32e1d5e01f2e9452cd100b0b3656b67cada3c/westpa-2.0.dev1.tar.gz#sha256=663cf1e633f3008f9018bcc2c281653f165d3da551c4b19949174971603fdd21 2022-01-18T05:10:08,527 Removed westpa==2.0.dev1 from https://files.pythonhosted.org/packages/d6/81/c5fea3140456e5d1317e3ed32e1d5e01f2e9452cd100b0b3656b67cada3c/westpa-2.0.dev1.tar.gz#sha256=663cf1e633f3008f9018bcc2c281653f165d3da551c4b19949174971603fdd21 from build tracker '/tmp/pip-req-tracker-wllinlot' 2022-01-18T05:10:08,541 Created temporary directory: /tmp/pip-unpack-55bmyoa5 2022-01-18T05:10:08,543 Building wheels for collected packages: westpa 2022-01-18T05:10:08,551 Created temporary directory: /tmp/pip-wheel-xk7ur245 2022-01-18T05:10:08,551 Destination directory: /tmp/pip-wheel-xk7ur245 2022-01-18T05:10:08,556 Building wheel for westpa (pyproject.toml): started 2022-01-18T05:10:08,557 Running command /usr/bin/python3 /usr/local/lib/python3.9/dist-packages/pip/_vendor/pep517/in_process/_in_process.py build_wheel /tmp/tmpmsmk5fv1 2022-01-18T05:10:12,512 /usr/local/lib/python3.9/dist-packages/setuptools/dist.py:493: UserWarning: Normalizing '2.0dev1' to '2.0.dev1' 2022-01-18T05:10:12,514 warnings.warn(tmpl.format(**locals())) 2022-01-18T05:10:12,690 running bdist_wheel 2022-01-18T05:10:12,698 running build 2022-01-18T05:10:12,699 running build_py 2022-01-18T05:10:12,710 creating build 2022-01-18T05:10:12,711 creating build/lib.linux-armv7l-3.9 2022-01-18T05:10:12,712 creating build/lib.linux-armv7l-3.9/westpa 2022-01-18T05:10:12,714 copying src/westpa/__init__.py -> build/lib.linux-armv7l-3.9/westpa 2022-01-18T05:10:12,718 copying src/westpa/_version.py -> build/lib.linux-armv7l-3.9/westpa 2022-01-18T05:10:12,722 creating build/lib.linux-armv7l-3.9/westpa/cli 2022-01-18T05:10:12,724 copying src/westpa/cli/__init__.py -> build/lib.linux-armv7l-3.9/westpa/cli 2022-01-18T05:10:12,728 creating build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,730 copying src/westpa/tools/core.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,735 copying src/westpa/tools/dtypes.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,738 copying src/westpa/tools/kinetics_tool.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,742 copying src/westpa/tools/plot.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,747 copying src/westpa/tools/selected_segs.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,751 copying src/westpa/tools/__init__.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,754 copying src/westpa/tools/iter_range.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,758 copying src/westpa/tools/data_reader.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,762 copying src/westpa/tools/progress.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,765 copying src/westpa/tools/binning.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,770 copying src/westpa/tools/wipi.py -> build/lib.linux-armv7l-3.9/westpa/tools 2022-01-18T05:10:12,776 creating build/lib.linux-armv7l-3.9/westpa/westext 2022-01-18T05:10:12,777 copying src/westpa/westext/__init__.py -> build/lib.linux-armv7l-3.9/westpa/westext 2022-01-18T05:10:12,782 creating build/lib.linux-armv7l-3.9/westpa/fasthist 2022-01-18T05:10:12,783 copying src/westpa/fasthist/__main__.py -> build/lib.linux-armv7l-3.9/westpa/fasthist 2022-01-18T05:10:12,787 copying src/westpa/fasthist/__init__.py -> build/lib.linux-armv7l-3.9/westpa/fasthist 2022-01-18T05:10:12,792 creating build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,793 copying src/westpa/core/wm_ops.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,797 copying src/westpa/core/h5io.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,802 copying src/westpa/core/data_manager.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,810 copying src/westpa/core/states.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,814 copying src/westpa/core/segment.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,817 copying src/westpa/core/_rc.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,822 copying src/westpa/core/systems.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,825 copying src/westpa/core/__init__.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,827 copying src/westpa/core/we_driver.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,833 copying src/westpa/core/trajectory.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,837 copying src/westpa/core/progress.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,841 copying src/westpa/core/textio.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,844 copying src/westpa/core/yamlcfg.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,849 copying src/westpa/core/extloader.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,852 copying src/westpa/core/sim_manager.py -> build/lib.linux-armv7l-3.9/westpa/core 2022-01-18T05:10:12,858 creating build/lib.linux-armv7l-3.9/westpa/trajtree 2022-01-18T05:10:12,859 copying src/westpa/trajtree/trajtree.py -> build/lib.linux-armv7l-3.9/westpa/trajtree 2022-01-18T05:10:12,863 copying src/westpa/trajtree/__init__.py -> build/lib.linux-armv7l-3.9/westpa/trajtree 2022-01-18T05:10:12,867 creating build/lib.linux-armv7l-3.9/westpa/mclib 2022-01-18T05:10:12,869 copying src/westpa/mclib/__main__.py -> build/lib.linux-armv7l-3.9/westpa/mclib 2022-01-18T05:10:12,872 copying src/westpa/mclib/__init__.py -> build/lib.linux-armv7l-3.9/westpa/mclib 2022-01-18T05:10:12,877 creating build/lib.linux-armv7l-3.9/westpa/analysis 2022-01-18T05:10:12,878 copying src/westpa/analysis/core.py -> build/lib.linux-armv7l-3.9/westpa/analysis 2022-01-18T05:10:12,883 copying src/westpa/analysis/statistics.py -> build/lib.linux-armv7l-3.9/westpa/analysis 2022-01-18T05:10:12,886 copying src/westpa/analysis/trajectories.py -> build/lib.linux-armv7l-3.9/westpa/analysis 2022-01-18T05:10:12,890 copying src/westpa/analysis/__init__.py -> build/lib.linux-armv7l-3.9/westpa/analysis 2022-01-18T05:10:12,895 creating build/lib.linux-armv7l-3.9/westpa/oldtools 2022-01-18T05:10:12,896 copying src/westpa/oldtools/__init__.py -> build/lib.linux-armv7l-3.9/westpa/oldtools 2022-01-18T05:10:12,900 copying src/westpa/oldtools/miscfn.py -> build/lib.linux-armv7l-3.9/westpa/oldtools 2022-01-18T05:10:12,903 copying src/westpa/oldtools/files.py -> build/lib.linux-armv7l-3.9/westpa/oldtools 2022-01-18T05:10:12,907 creating build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,908 copying src/westpa/work_managers/processes.py -> build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,912 copying src/westpa/work_managers/core.py -> build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,917 copying src/westpa/work_managers/serial.py -> build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,920 copying src/westpa/work_managers/__init__.py -> build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,923 copying src/westpa/work_managers/mpi.py -> build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,927 copying src/westpa/work_managers/threads.py -> build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,930 copying src/westpa/work_managers/environment.py -> build/lib.linux-armv7l-3.9/westpa/work_managers 2022-01-18T05:10:12,937 creating build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,939 copying src/westpa/cli/tools/w_stateprobs.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,942 copying src/westpa/cli/tools/w_assign.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,948 copying src/westpa/cli/tools/w_postanalysis_reweight.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,951 copying src/westpa/cli/tools/w_kinavg.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,955 copying src/westpa/cli/tools/w_trace.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,960 copying src/westpa/cli/tools/w_eddist.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,964 copying src/westpa/cli/tools/w_fluxanl.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,968 copying src/westpa/cli/tools/w_reweight.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,973 copying src/westpa/cli/tools/w_pdist.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,978 copying src/westpa/cli/tools/w_direct.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,982 copying src/westpa/cli/tools/w_ntop.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,986 copying src/westpa/cli/tools/w_bins.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,990 copying src/westpa/cli/tools/w_multi_west.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,994 copying src/westpa/cli/tools/__init__.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:12,997 copying src/westpa/cli/tools/w_select.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,001 copying src/westpa/cli/tools/w_crawl.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,004 copying src/westpa/cli/tools/w_kinetics.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,007 copying src/westpa/cli/tools/w_red.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,011 copying src/westpa/cli/tools/plothist.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,016 copying src/westpa/cli/tools/ploterr.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,020 copying src/westpa/cli/tools/w_ipa.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,025 copying src/westpa/cli/tools/w_postanalysis_matrix.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,028 copying src/westpa/cli/tools/w_dumpsegs.py -> build/lib.linux-armv7l-3.9/westpa/cli/tools 2022-01-18T05:10:13,033 creating build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,034 copying src/westpa/cli/core/w_truncate.py -> build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,038 copying src/westpa/cli/core/w_run.py -> build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,041 copying src/westpa/cli/core/w_states.py -> build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,045 copying src/westpa/cli/core/w_fork.py -> build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,049 copying src/westpa/cli/core/w_init.py -> build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,052 copying src/westpa/cli/core/__init__.py -> build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,055 copying src/westpa/cli/core/w_succ.py -> build/lib.linux-armv7l-3.9/westpa/cli/core 2022-01-18T05:10:13,059 creating build/lib.linux-armv7l-3.9/westpa/westext/hamsm_restarting 2022-01-18T05:10:13,061 copying src/westpa/westext/hamsm_restarting/example_overrides.py -> build/lib.linux-armv7l-3.9/westpa/westext/hamsm_restarting 2022-01-18T05:10:13,064 copying src/westpa/westext/hamsm_restarting/restart_driver.py -> build/lib.linux-armv7l-3.9/westpa/westext/hamsm_restarting 2022-01-18T05:10:13,070 copying src/westpa/westext/hamsm_restarting/__init__.py -> build/lib.linux-armv7l-3.9/westpa/westext/hamsm_restarting 2022-01-18T05:10:13,074 creating build/lib.linux-armv7l-3.9/westpa/westext/adaptvoronoi 2022-01-18T05:10:13,076 copying src/westpa/westext/adaptvoronoi/__init__.py -> build/lib.linux-armv7l-3.9/westpa/westext/adaptvoronoi 2022-01-18T05:10:13,079 copying src/westpa/westext/adaptvoronoi/adaptVor_driver.py -> build/lib.linux-armv7l-3.9/westpa/westext/adaptvoronoi 2022-01-18T05:10:13,084 creating build/lib.linux-armv7l-3.9/westpa/westext/wess 2022-01-18T05:10:13,085 copying src/westpa/westext/wess/wess_driver.py -> build/lib.linux-armv7l-3.9/westpa/westext/wess 2022-01-18T05:10:13,089 copying src/westpa/westext/wess/__init__.py -> build/lib.linux-armv7l-3.9/westpa/westext/wess 2022-01-18T05:10:13,092 copying src/westpa/westext/wess/ProbAdjust.py -> build/lib.linux-armv7l-3.9/westpa/westext/wess 2022-01-18T05:10:13,097 creating build/lib.linux-armv7l-3.9/westpa/westext/stringmethod 2022-01-18T05:10:13,098 copying src/westpa/westext/stringmethod/fourier_fitting.py -> build/lib.linux-armv7l-3.9/westpa/westext/stringmethod 2022-01-18T05:10:13,101 copying src/westpa/westext/stringmethod/string_method.py -> build/lib.linux-armv7l-3.9/westpa/westext/stringmethod 2022-01-18T05:10:13,105 copying src/westpa/westext/stringmethod/__init__.py -> build/lib.linux-armv7l-3.9/westpa/westext/stringmethod 2022-01-18T05:10:13,108 copying src/westpa/westext/stringmethod/string_driver.py -> build/lib.linux-armv7l-3.9/westpa/westext/stringmethod 2022-01-18T05:10:13,114 creating build/lib.linux-armv7l-3.9/westpa/westext/weed 2022-01-18T05:10:13,115 copying src/westpa/westext/weed/weed_driver.py -> build/lib.linux-armv7l-3.9/westpa/westext/weed 2022-01-18T05:10:13,119 copying src/westpa/westext/weed/BinCluster.py -> build/lib.linux-armv7l-3.9/westpa/westext/weed 2022-01-18T05:10:13,123 copying src/westpa/westext/weed/__init__.py -> build/lib.linux-armv7l-3.9/westpa/westext/weed 2022-01-18T05:10:13,126 copying src/westpa/westext/weed/UncertMath.py -> build/lib.linux-armv7l-3.9/westpa/westext/weed 2022-01-18T05:10:13,130 copying src/westpa/westext/weed/ProbAdjustEquil.py -> build/lib.linux-armv7l-3.9/westpa/westext/weed 2022-01-18T05:10:13,135 creating build/lib.linux-armv7l-3.9/westpa/core/propagators 2022-01-18T05:10:13,136 copying src/westpa/core/propagators/__init__.py -> build/lib.linux-armv7l-3.9/westpa/core/propagators 2022-01-18T05:10:13,140 copying src/westpa/core/propagators/executable.py -> build/lib.linux-armv7l-3.9/westpa/core/propagators 2022-01-18T05:10:13,146 creating build/lib.linux-armv7l-3.9/westpa/core/kinetics 2022-01-18T05:10:13,147 copying src/westpa/core/kinetics/matrates.py -> build/lib.linux-armv7l-3.9/westpa/core/kinetics 2022-01-18T05:10:13,151 copying src/westpa/core/kinetics/events.py -> build/lib.linux-armv7l-3.9/westpa/core/kinetics 2022-01-18T05:10:13,155 copying src/westpa/core/kinetics/__init__.py -> build/lib.linux-armv7l-3.9/westpa/core/kinetics 2022-01-18T05:10:13,158 copying src/westpa/core/kinetics/rate_averaging.py -> build/lib.linux-armv7l-3.9/westpa/core/kinetics 2022-01-18T05:10:13,163 creating build/lib.linux-armv7l-3.9/westpa/core/reweight 2022-01-18T05:10:13,165 copying src/westpa/core/reweight/matrix.py -> build/lib.linux-armv7l-3.9/westpa/core/reweight 2022-01-18T05:10:13,168 copying src/westpa/core/reweight/__init__.py -> build/lib.linux-armv7l-3.9/westpa/core/reweight 2022-01-18T05:10:13,173 creating build/lib.linux-armv7l-3.9/westpa/core/binning 2022-01-18T05:10:13,174 copying src/westpa/core/binning/mab_driver.py -> build/lib.linux-armv7l-3.9/westpa/core/binning 2022-01-18T05:10:13,177 copying src/westpa/core/binning/mab.py -> build/lib.linux-armv7l-3.9/westpa/core/binning 2022-01-18T05:10:13,181 copying src/westpa/core/binning/__init__.py -> build/lib.linux-armv7l-3.9/westpa/core/binning 2022-01-18T05:10:13,184 copying src/westpa/core/binning/assign.py -> build/lib.linux-armv7l-3.9/westpa/core/binning 2022-01-18T05:10:13,188 copying src/westpa/core/binning/mab_manager.py -> build/lib.linux-armv7l-3.9/westpa/core/binning 2022-01-18T05:10:13,191 copying src/westpa/core/binning/bins.py -> build/lib.linux-armv7l-3.9/westpa/core/binning 2022-01-18T05:10:13,196 creating build/lib.linux-armv7l-3.9/westpa/oldtools/stats 2022-01-18T05:10:13,197 copying src/westpa/oldtools/stats/edfs.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/stats 2022-01-18T05:10:13,201 copying src/westpa/oldtools/stats/mcbs.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/stats 2022-01-18T05:10:13,204 copying src/westpa/oldtools/stats/__init__.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/stats 2022-01-18T05:10:13,207 copying src/westpa/oldtools/stats/accumulator.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/stats 2022-01-18T05:10:13,212 creating build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,213 copying src/westpa/oldtools/aframe/trajwalker.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,217 copying src/westpa/oldtools/aframe/mcbs.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,221 copying src/westpa/oldtools/aframe/__init__.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,224 copying src/westpa/oldtools/aframe/output.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,227 copying src/westpa/oldtools/aframe/iter_range.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,231 copying src/westpa/oldtools/aframe/data_reader.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,235 copying src/westpa/oldtools/aframe/plotting.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,238 copying src/westpa/oldtools/aframe/base_mixin.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,241 copying src/westpa/oldtools/aframe/binning.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,245 copying src/westpa/oldtools/aframe/atool.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,248 copying src/westpa/oldtools/aframe/transitions.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,253 copying src/westpa/oldtools/aframe/kinetics.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/aframe 2022-01-18T05:10:13,257 creating build/lib.linux-armv7l-3.9/westpa/oldtools/cmds 2022-01-18T05:10:13,259 copying src/westpa/oldtools/cmds/w_ttimes.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/cmds 2022-01-18T05:10:13,263 copying src/westpa/oldtools/cmds/__init__.py -> build/lib.linux-armv7l-3.9/westpa/oldtools/cmds 2022-01-18T05:10:13,267 creating build/lib.linux-armv7l-3.9/westpa/work_managers/zeromq 2022-01-18T05:10:13,268 copying src/westpa/work_managers/zeromq/core.py -> build/lib.linux-armv7l-3.9/westpa/work_managers/zeromq 2022-01-18T05:10:13,273 copying src/westpa/work_managers/zeromq/node.py -> build/lib.linux-armv7l-3.9/westpa/work_managers/zeromq 2022-01-18T05:10:13,277 copying src/westpa/work_managers/zeromq/__init__.py -> build/lib.linux-armv7l-3.9/westpa/work_managers/zeromq 2022-01-18T05:10:13,280 copying src/westpa/work_managers/zeromq/worker.py -> build/lib.linux-armv7l-3.9/westpa/work_managers/zeromq 2022-01-18T05:10:13,284 copying src/westpa/work_managers/zeromq/work_manager.py -> build/lib.linux-armv7l-3.9/westpa/work_managers/zeromq 2022-01-18T05:10:13,329 UPDATING build/lib.linux-armv7l-3.9/westpa/_version.py 2022-01-18T05:10:13,330 set build/lib.linux-armv7l-3.9/westpa/_version.py to '2.0dev1' 2022-01-18T05:10:13,330 running build_ext 2022-01-18T05:10:13,343 creating build/temp.linux-armv7l-3.9 2022-01-18T05:10:13,344 creating build/temp.linux-armv7l-3.9/src 2022-01-18T05:10:13,345 creating build/temp.linux-armv7l-3.9/src/westpa 2022-01-18T05:10:13,346 creating build/temp.linux-armv7l-3.9/src/westpa/fasthist 2022-01-18T05:10:13,347 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/westpa/fasthist/_fasthist.c -o build/temp.linux-armv7l-3.9/src/westpa/fasthist/_fasthist.o -O3 2022-01-18T05:10:14,126 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-01-18T05:10:14,127 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-01-18T05:10:14,127 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-01-18T05:10:14,127 from src/westpa/fasthist/_fasthist.c:706: 2022-01-18T05:10:14,128 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-01-18T05:10:14,128 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-01-18T05:10:14,128 | ^~~~~~~ 2022-01-18T05:11:15,599 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/src/westpa/fasthist/_fasthist.o -L/usr/lib -o build/lib.linux-armv7l-3.9/westpa/fasthist/_fasthist.cpython-39-arm-linux-gnueabihf.so 2022-01-18T05:11:16,027 creating build/temp.linux-armv7l-3.9/src/westpa/trajtree 2022-01-18T05:11:16,028 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/westpa/trajtree/_trajtree.c -o build/temp.linux-armv7l-3.9/src/westpa/trajtree/_trajtree.o -O3 2022-01-18T05:11:16,832 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-01-18T05:11:16,832 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-01-18T05:11:16,833 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-01-18T05:11:16,833 from src/westpa/trajtree/_trajtree.c:706: 2022-01-18T05:11:16,833 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-01-18T05:11:16,834 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-01-18T05:11:16,834 | ^~~~~~~ 2022-01-18T05:11:17,051 src/westpa/trajtree/_trajtree.c: In function ‘__pyx_f_6westpa_8trajtree_9_trajtree_14_trajtree_base__build_table’: 2022-01-18T05:11:17,055 src/westpa/trajtree/_trajtree.c:3243:35: warning: comparison of integer expressions of different signedness: ‘__pyx_t_5numpy_uint64_t’ {aka ‘long long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2022-01-18T05:11:17,055 3243 | for (__pyx_t_22 = 0; __pyx_t_22 < __pyx_t_27; __pyx_t_22+=1) { 2022-01-18T05:11:17,055 | ^ 2022-01-18T05:11:17,083 src/westpa/trajtree/_trajtree.c: In function ‘__pyx_f_6westpa_8trajtree_9_trajtree_14_trajtree_base_count_roots’: 2022-01-18T05:11:17,087 src/westpa/trajtree/_trajtree.c:3635:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_5numpy_uint64_t’ {aka ‘long long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2022-01-18T05:11:17,087 3635 | for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_7; __pyx_t_5+=1) { 2022-01-18T05:11:17,087 | ^ 2022-01-18T05:11:17,102 src/westpa/trajtree/_trajtree.c: In function ‘__pyx_f_6westpa_8trajtree_9_trajtree_14_trajtree_base_count_leaves’: 2022-01-18T05:11:17,107 src/westpa/trajtree/_trajtree.c:3877:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_5numpy_uint64_t’ {aka ‘long long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2022-01-18T05:11:17,107 3877 | for (__pyx_t_5 = 0; __pyx_t_5 < __pyx_t_7; __pyx_t_5+=1) { 2022-01-18T05:11:17,107 | ^ 2022-01-18T05:11:40,654 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/src/westpa/trajtree/_trajtree.o -L/usr/lib -o build/lib.linux-armv7l-3.9/westpa/trajtree/_trajtree.cpython-39-arm-linux-gnueabihf.so 2022-01-18T05:11:40,948 creating build/temp.linux-armv7l-3.9/src/westpa/mclib 2022-01-18T05:11:40,949 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/westpa/mclib/_mclib.c -o build/temp.linux-armv7l-3.9/src/westpa/mclib/_mclib.o -O3 2022-01-18T05:11:41,694 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-01-18T05:11:41,695 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-01-18T05:11:41,695 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-01-18T05:11:41,695 from src/westpa/mclib/_mclib.c:706: 2022-01-18T05:11:41,696 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-01-18T05:11:41,696 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-01-18T05:11:41,696 | ^~~~~~~ 2022-01-18T05:12:36,814 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/src/westpa/mclib/_mclib.o -L/usr/lib -o build/lib.linux-armv7l-3.9/westpa/mclib/_mclib.cpython-39-arm-linux-gnueabihf.so 2022-01-18T05:12:37,215 creating build/temp.linux-armv7l-3.9/src/westpa/core 2022-01-18T05:12:37,216 creating build/temp.linux-armv7l-3.9/src/westpa/core/binning 2022-01-18T05:12:37,218 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/westpa/core/binning/_assign.c -o build/temp.linux-armv7l-3.9/src/westpa/core/binning/_assign.o -O3 2022-01-18T05:12:37,976 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-01-18T05:12:37,977 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-01-18T05:12:37,977 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-01-18T05:12:37,977 from src/westpa/core/binning/_assign.c:706: 2022-01-18T05:12:37,978 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-01-18T05:12:37,978 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-01-18T05:12:37,979 | ^~~~~~~ 2022-01-18T05:13:27,396 src/westpa/core/binning/_assign.c: In function ‘__pyx_pw_6westpa_4core_7binning_7_assign_1rectilinear_assign’: 2022-01-18T05:13:27,400 src/westpa/core/binning/_assign.c:3292:165: warning: ‘__pyx_v_index’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-01-18T05:13:27,401 3292 | *((__pyx_t_6westpa_4core_7binning_7_assign_index_t *) ( /* dim=0 */ (__pyx_v_output.data + __pyx_t_15 * __pyx_v_output.strides[0]) )) += (__pyx_v_index * __pyx_v_stridefac); 2022-01-18T05:13:27,401 | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ 2022-01-18T05:13:27,405 src/westpa/core/binning/_assign.c:2787:51: note: ‘__pyx_v_index’ was declared here 2022-01-18T05:13:27,405 2787 | __pyx_t_6westpa_4core_7binning_7_assign_index_t __pyx_v_index; 2022-01-18T05:13:27,406 | ^~~~~~~~~~~~~ 2022-01-18T05:13:33,590 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/src/westpa/core/binning/_assign.o -L/usr/lib -o build/lib.linux-armv7l-3.9/westpa/core/binning/_assign.cpython-39-arm-linux-gnueabihf.so 2022-01-18T05:13:34,011 creating build/temp.linux-armv7l-3.9/src/westpa/core/kinetics 2022-01-18T05:13:34,012 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/westpa/core/kinetics/_kinetics.c -o build/temp.linux-armv7l-3.9/src/westpa/core/kinetics/_kinetics.o -O3 2022-01-18T05:13:34,782 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-01-18T05:13:34,782 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-01-18T05:13:34,783 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-01-18T05:13:34,783 from src/westpa/core/kinetics/_kinetics.c:706: 2022-01-18T05:13:34,783 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-01-18T05:13:34,784 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-01-18T05:13:34,784 | ^~~~~~~ 2022-01-18T05:14:29,888 src/westpa/core/kinetics/_kinetics.c: In function ‘__pyx_pw_6westpa_4core_8kinetics_9_kinetics_23sequence_macro_flux_to_rate’: 2022-01-18T05:14:29,890 src/westpa/core/kinetics/_kinetics.c:1732:79: warning: ‘__pyx_v_iiter’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-01-18T05:14:29,891 1732 | __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\ 2022-01-18T05:14:29,891 | ^~ 2022-01-18T05:14:29,891 1733 | (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\ 2022-01-18T05:14:29,892 | 2022-01-18T05:14:29,907 src/westpa/core/kinetics/_kinetics.c:7666:14: note: ‘__pyx_v_iiter’ was declared here 2022-01-18T05:14:29,907 7666 | Py_ssize_t __pyx_v_iiter; 2022-01-18T05:14:29,908 | ^~~~~~~~~~~~~ 2022-01-18T05:14:44,843 src/westpa/core/kinetics/_kinetics.c: In function ‘__pyx_pw_6westpa_4core_8kinetics_9_kinetics_27find_macrostate_transitions’: 2022-01-18T05:14:44,862 src/westpa/core/kinetics/_kinetics.c:10091:105: warning: ‘__pyx_v_tm’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-01-18T05:14:44,862 10091 | *((double *) ( /* dim=0 */ (__pyx_v__last_time.data + __pyx_t_8 * __pyx_v__last_time.strides[0]) )) = __pyx_v_tm; 2022-01-18T05:14:44,863 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-01-18T05:14:44,881 src/westpa/core/kinetics/_kinetics.c:9619:10: note: ‘__pyx_v_tm’ was declared here 2022-01-18T05:14:44,882 9619 | double __pyx_v_tm; 2022-01-18T05:14:44,882 | ^~~~~~~~~~ 2022-01-18T05:14:54,559 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/src/westpa/core/kinetics/_kinetics.o -L/usr/lib -o build/lib.linux-armv7l-3.9/westpa/core/kinetics/_kinetics.cpython-39-arm-linux-gnueabihf.so 2022-01-18T05:14:55,103 creating build/temp.linux-armv7l-3.9/src/westpa/core/reweight 2022-01-18T05:14:55,104 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/westpa/core/reweight/_reweight.c -o build/temp.linux-armv7l-3.9/src/westpa/core/reweight/_reweight.o -O3 2022-01-18T05:14:55,894 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-01-18T05:14:55,895 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-01-18T05:14:55,895 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-01-18T05:14:55,895 from src/westpa/core/reweight/_reweight.c:706: 2022-01-18T05:14:55,895 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-01-18T05:14:55,896 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-01-18T05:14:55,896 | ^~~~~~~ 2022-01-18T05:15:59,129 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/src/westpa/core/reweight/_reweight.o -L/usr/lib -o build/lib.linux-armv7l-3.9/westpa/core/reweight/_reweight.cpython-39-arm-linux-gnueabihf.so 2022-01-18T05:15:59,581 running install 2022-01-18T05:15:59,644 running install_lib 2022-01-18T05:15:59,651 creating build/bdist.linux-armv7l 2022-01-18T05:15:59,652 creating build/bdist.linux-armv7l/wheel 2022-01-18T05:15:59,655 creating build/bdist.linux-armv7l/wheel/westpa 2022-01-18T05:15:59,658 creating build/bdist.linux-armv7l/wheel/westpa/cli 2022-01-18T05:15:59,661 creating build/bdist.linux-armv7l/wheel/westpa/cli/tools 2022-01-18T05:15:59,758 creating build/bdist.linux-armv7l/wheel/westpa/cli/core 2022-01-18T05:15:59,787 creating build/bdist.linux-armv7l/wheel/westpa/tools 2022-01-18T05:15:59,831 creating build/bdist.linux-armv7l/wheel/westpa/westext 2022-01-18T05:15:59,834 creating build/bdist.linux-armv7l/wheel/westpa/westext/hamsm_restarting 2022-01-18T05:15:59,849 creating build/bdist.linux-armv7l/wheel/westpa/westext/adaptvoronoi 2022-01-18T05:15:59,861 creating build/bdist.linux-armv7l/wheel/westpa/westext/wess 2022-01-18T05:15:59,874 creating build/bdist.linux-armv7l/wheel/westpa/westext/stringmethod 2022-01-18T05:15:59,891 creating build/bdist.linux-armv7l/wheel/westpa/westext/weed 2022-01-18T05:15:59,912 creating build/bdist.linux-armv7l/wheel/westpa/fasthist 2022-01-18T05:16:00,037 creating build/bdist.linux-armv7l/wheel/westpa/core 2022-01-18T05:16:00,059 creating build/bdist.linux-armv7l/wheel/westpa/core/propagators 2022-01-18T05:16:00,078 creating build/bdist.linux-armv7l/wheel/westpa/core/kinetics 2022-01-18T05:16:00,191 creating build/bdist.linux-armv7l/wheel/westpa/core/reweight 2022-01-18T05:16:00,287 creating build/bdist.linux-armv7l/wheel/westpa/core/binning 2022-01-18T05:16:00,408 creating build/bdist.linux-armv7l/wheel/westpa/trajtree 2022-01-18T05:16:00,460 creating build/bdist.linux-armv7l/wheel/westpa/mclib 2022-01-18T05:16:00,548 creating build/bdist.linux-armv7l/wheel/westpa/analysis 2022-01-18T05:16:00,568 creating build/bdist.linux-armv7l/wheel/westpa/oldtools 2022-01-18T05:16:00,570 creating build/bdist.linux-armv7l/wheel/westpa/oldtools/stats 2022-01-18T05:16:00,586 creating build/bdist.linux-armv7l/wheel/westpa/oldtools/aframe 2022-01-18T05:16:00,639 creating build/bdist.linux-armv7l/wheel/westpa/oldtools/cmds 2022-01-18T05:16:00,653 creating build/bdist.linux-armv7l/wheel/westpa/work_managers 2022-01-18T05:16:00,675 creating build/bdist.linux-armv7l/wheel/westpa/work_managers/zeromq 2022-01-18T05:16:00,702 running install_egg_info 2022-01-18T05:16:00,738 running egg_info 2022-01-18T05:16:01,069 writing manifest file 'src/westpa.egg-info/SOURCES.txt' 2022-01-18T05:16:01,072 Copying src/westpa.egg-info to build/bdist.linux-armv7l/wheel/westpa-2.0.dev1-py3.9.egg-info 2022-01-18T05:16:01,098 running install_scripts 2022-01-18T05:16:06,570 Building wheel for westpa (pyproject.toml): finished with status 'done' 2022-01-18T05:16:06,776 Created wheel for westpa: filename=westpa-2.0.dev1-cp39-cp39-linux_armv7l.whl size=3305209 sha256=500629fe8f8e482464e9a60bc5b36d637ee23f35951b8f1ee229a452d0510a57 2022-01-18T05:16:06,777 Stored in directory: /tmp/pip-ephem-wheel-cache-58qimja3/wheels/d0/8d/77/5d67336e006a6191846a963221b36595b74e6809b1b1327799 2022-01-18T05:16:06,813 Successfully built westpa 2022-01-18T05:16:07,031 Removed build tracker: '/tmp/pip-req-tracker-wllinlot'