2021-07-11T20:35:23,676 Created temporary directory: /tmp/pip-ephem-wheel-cache-vqhtxg7h 2021-07-11T20:35:23,679 Created temporary directory: /tmp/pip-req-tracker-kh2z9zrr 2021-07-11T20:35:23,680 Initialized build tracking at /tmp/pip-req-tracker-kh2z9zrr 2021-07-11T20:35:23,680 Created build tracker: /tmp/pip-req-tracker-kh2z9zrr 2021-07-11T20:35:23,680 Entered build tracker: /tmp/pip-req-tracker-kh2z9zrr 2021-07-11T20:35:23,681 Created temporary directory: /tmp/pip-wheel-yrm3o8n8 2021-07-11T20:35:23,712 1 location(s) to search for versions of msmtools: 2021-07-11T20:35:23,712 * https://pypi.org/simple/msmtools/ 2021-07-11T20:35:23,712 Fetching project page and analyzing links: https://pypi.org/simple/msmtools/ 2021-07-11T20:35:23,713 Getting page https://pypi.org/simple/msmtools/ 2021-07-11T20:35:23,714 Found index url https://pypi.org/simple 2021-07-11T20:35:23,906 Found link https://files.pythonhosted.org/packages/06/eb/7ea49c965c6d6cc5d49cf7619eb365b9f80f92d449fa2d83286d57c23b09/msmtools-1.0.tar.gz#sha256=cd2cfbb47327eb24d4855b7585868fbbc3be14c824a2eaa3fa0c2a7e76310595 (from https://pypi.org/simple/msmtools/), version: 1.0 2021-07-11T20:35:23,906 Found link https://files.pythonhosted.org/packages/c4/ca/50da8c42c7aad77f9d8f5c5cf1aa0f8812c01b78ea07c4719daca73a90fb/msmtools-1.0.1.tar.gz#sha256=b6704dea0bb816e3aca0be871f15199a18964a799854a000135ffe95a13ea0d6 (from https://pypi.org/simple/msmtools/), version: 1.0.1 2021-07-11T20:35:23,907 Found link https://files.pythonhosted.org/packages/f7/e7/8fad6dccdaf5c35379a3d670c5b17546fcf5e9b2c7feec293dec0e9fc935/msmtools-1.0.2.tar.gz#sha256=f5f9cb4a2b10f7d7f2d5b7cf520703011e6d6f7961a858c5a88b82f0ad2c494a (from https://pypi.org/simple/msmtools/), version: 1.0.2 2021-07-11T20:35:23,907 Found link https://files.pythonhosted.org/packages/83/de/45faf7ef66fef33f236ad809c86ea890dbf3df09ddb4e61cfe5420dc1d85/msmtools-1.0.3.tar.gz#sha256=82ec80a0002c587441e938d9c5ad74bd6bd984dc18ddc11a504d899c3699e710 (from https://pypi.org/simple/msmtools/), version: 1.0.3 2021-07-11T20:35:23,907 Found link https://files.pythonhosted.org/packages/e7/f8/d44eec9b8b2c1ba9b174b5343d56012c836fa3ad7f153cd732306cb2c98b/msmtools-1.0.4.tar.gz#sha256=c6e4ae2cb5c093f6791e43f2e1a82108c1b420de9c7b8bea4ad0f3f2528fb969 (from https://pypi.org/simple/msmtools/), version: 1.0.4 2021-07-11T20:35:23,908 Found link https://files.pythonhosted.org/packages/34/59/777a834fc5f75e23f2f9bb634b45c15de9a9b7f4d2eb3c6eb266c3306003/msmtools-1.1.tar.gz#sha256=74aa54d3ef38b19723d9ca54f68a0b4a9177bbf2fbb674d08e1992e941dd07c5 (from https://pypi.org/simple/msmtools/), version: 1.1 2021-07-11T20:35:23,908 Found link https://files.pythonhosted.org/packages/0a/7a/e97dc727a53d28ddaaf0d3643bf436a674d0d31e927d00fa2ded3d3095e3/msmtools-1.1.1.tar.gz#sha256=5104c598e685a767655480154e701bb4a9c79687997473fba23619cc91bc051b (from https://pypi.org/simple/msmtools/), version: 1.1.1 2021-07-11T20:35:23,908 Found link https://files.pythonhosted.org/packages/d8/83/2de718bea8c6ffd64287549e1f443695c9c7eae576e4ec8b695748735bcc/msmtools-1.1.2.tar.gz#sha256=1ae40e839dff551575e38bb8c061073a2f1e69279e53ed62f66c88006a1f0a4f (from https://pypi.org/simple/msmtools/), version: 1.1.2 2021-07-11T20:35:23,908 Found link https://files.pythonhosted.org/packages/1d/e2/b1984cd7c48fe218ade6ce2dd15849f743d0315d0091417f936f0c34f1d1/msmtools-1.1.3.tar.gz#sha256=0e96ea16139c9e58e710c8962ad37bb1941bac2a7827f5608eb1e9454bb9c29b (from https://pypi.org/simple/msmtools/), version: 1.1.3 2021-07-11T20:35:23,909 Found link https://files.pythonhosted.org/packages/d9/96/6b785ff9b8977b4eec9c2c209e05945a2584c76cb3a7886885bcf9c2c163/msmtools-1.1.4.tar.gz#sha256=ce4690748358f9b62dbebca1917426ecd6b6c298f436b90480012b245765de53 (from https://pypi.org/simple/msmtools/), version: 1.1.4 2021-07-11T20:35:23,909 Found link https://files.pythonhosted.org/packages/5e/a2/42d30177e9f8b9071a5cf17c6cd0a75b9b245d708fc626b015599308a898/msmtools-1.2.tar.gz#sha256=eb509f9b2bebd5a07896ec563b14df3ebee2b9871730f5ac87e1ab3179c8c6c4 (from https://pypi.org/simple/msmtools/), version: 1.2 2021-07-11T20:35:23,909 Found link https://files.pythonhosted.org/packages/c5/bb/79aa3617eed8eaea3c2639d172929079b680e1904d4e19b50d35612c5db3/msmtools-1.2.1.tar.gz#sha256=7282cec96360372e8440146dfe27848273bc3d83d18806ea56e3986a14d5bdec (from https://pypi.org/simple/msmtools/), version: 1.2.1 2021-07-11T20:35:23,909 Found link https://files.pythonhosted.org/packages/5a/56/8407c6fa43244d97fa8cfa3c47d090bc35ba7259bb3c557f6ccece19b2c0/msmtools-1.2.2.tar.gz#sha256=d184266b5a81c04730f7fcfac09bbdb9936f78711262ddbe476d566c14e3f589 (from https://pypi.org/simple/msmtools/), version: 1.2.2 2021-07-11T20:35:23,910 Found link https://files.pythonhosted.org/packages/53/84/416bd9c21c408ef59953804c1b4ec805950adfd89102c43c54685b6f3cdf/msmtools-1.2.3.tar.gz#sha256=3f3c39a4558887575dd2bfdb0711b6d073446cb0b8767eafda16bfe0b92409c9 (from https://pypi.org/simple/msmtools/), version: 1.2.3 2021-07-11T20:35:23,910 Found link https://files.pythonhosted.org/packages/c2/40/d5852a4ffb58d610467891b103f43d4adaf2602b6bcd8202969b5c66bbc8/msmtools-1.2.4.tar.gz#sha256=9f4015dd20c651e8f90666a51ffece4aa6f030559b2d58a3dfa6b48e0e17f32b (from https://pypi.org/simple/msmtools/), version: 1.2.4 2021-07-11T20:35:23,910 Found link https://files.pythonhosted.org/packages/9e/95/ac5dfa19f13379490dbef764a994c6d564b32de2d68e712042af8ff84d2a/msmtools-1.2.5.tar.gz#sha256=e07b73ad9e4e8ef8aca82e6b5bb55f57f8400a65fb2fd656b521f72237a7310a (from https://pypi.org/simple/msmtools/), version: 1.2.5 2021-07-11T20:35:23,910 Found link https://files.pythonhosted.org/packages/e4/1f/366f5c37c1231f87b6789f904e4e68ae47b4b910119da9ec5905e9fa1387/msmtools-1.2.6.tar.gz#sha256=2bfa6c02fff9ed9433c90d7ddc7860a8e2cf881fc67ec1ea5ef93f34a7e03541 (from https://pypi.org/simple/msmtools/), version: 1.2.6 2021-07-11T20:35:23,911 Skipping link: not a file: https://pypi.org/simple/msmtools/ 2021-07-11T20:35:23,931 Given no hashes to check 1 links for project 'msmtools': discarding no candidates 2021-07-11T20:35:23,950 Collecting msmtools==1.2 2021-07-11T20:35:23,951 Created temporary directory: /tmp/pip-unpack-dj21lad3 2021-07-11T20:35:24,524 Downloading msmtools-1.2.tar.gz (679 kB) 2021-07-11T20:35:25,188 Added msmtools==1.2 from https://files.pythonhosted.org/packages/5e/a2/42d30177e9f8b9071a5cf17c6cd0a75b9b245d708fc626b015599308a898/msmtools-1.2.tar.gz#sha256=eb509f9b2bebd5a07896ec563b14df3ebee2b9871730f5ac87e1ab3179c8c6c4 to build tracker '/tmp/pip-req-tracker-kh2z9zrr' 2021-07-11T20:35:25,189 Running setup.py (path:/tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/setup.py) egg_info for package msmtools 2021-07-11T20:35:25,190 Created temporary directory: /tmp/pip-pip-egg-info-1juwczek 2021-07-11T20:35:25,190 Running command python setup.py egg_info 2021-07-11T20:35:26,398 running egg_info 2021-07-11T20:35:26,401 creating /tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info 2021-07-11T20:35:26,403 writing /tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info/PKG-INFO 2021-07-11T20:35:26,406 writing dependency_links to /tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info/dependency_links.txt 2021-07-11T20:35:26,408 writing requirements to /tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info/requires.txt 2021-07-11T20:35:26,618 creating /tmp/hasfunction-ouafgtg0/tmp 2021-07-11T20:35:26,619 creating /tmp/hasfunction-ouafgtg0/tmp/hasfunction-ouafgtg0 2021-07-11T20:35:26,620 cc -c /tmp/hasfunction-ouafgtg0/funcname.c -o /tmp/hasfunction-ouafgtg0/tmp/hasfunction-ouafgtg0/funcname.o 2021-07-11T20:35:26,719 cc /tmp/hasfunction-ouafgtg0/tmp/hasfunction-ouafgtg0/funcname.o -o /tmp/hasfunction-ouafgtg0/a.out 2021-07-11T20:35:26,842 creating /tmp/hasfunction-mtgij6v4/tmp 2021-07-11T20:35:26,843 creating /tmp/hasfunction-mtgij6v4/tmp/hasfunction-mtgij6v4 2021-07-11T20:35:26,844 cc -c /tmp/hasfunction-mtgij6v4/funcname.c -o /tmp/hasfunction-mtgij6v4/tmp/hasfunction-mtgij6v4/funcname.o 2021-07-11T20:35:26,931 cc /tmp/hasfunction-mtgij6v4/tmp/hasfunction-mtgij6v4/funcname.o -lgomp -o /tmp/hasfunction-mtgij6v4/a.out 2021-07-11T20:35:28,040 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/msmtools/estimation/dense/mle_trev.pyx 2021-07-11T20:35:28,040 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-11T20:35:29,459 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/msmtools/estimation/dense/mle_trev_given_pi.pyx 2021-07-11T20:35:29,460 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-11T20:35:30,821 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/msmtools/estimation/dense/sampler_rev.pyx 2021-07-11T20:35:30,821 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-11T20:35:32,450 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/msmtools/estimation/dense/sampler_revpi.pyx 2021-07-11T20:35:32,451 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-11T20:35:34,255 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/msmtools/estimation/sparse/mle_trev.pyx 2021-07-11T20:35:34,255 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-11T20:35:35,735 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/msmtools/estimation/sparse/mle_trev_given_pi.pyx 2021-07-11T20:35:35,736 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-11T20:35:37,115 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/msmtools/util/kahandot_src/kahandot.pyx 2021-07-11T20:35:37,116 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-11T20:35:38,448 Compiling msmtools/estimation/dense/mle_trev_given_pi.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-11T20:35:38,449 Compiling msmtools/estimation/sparse/mle_trev_given_pi.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-11T20:35:38,449 Compiling msmtools/estimation/dense/mle_trev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-11T20:35:38,449 Compiling msmtools/estimation/sparse/mle_trev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-11T20:35:38,449 Compiling msmtools/estimation/dense/sampler_rev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-11T20:35:38,449 Compiling msmtools/estimation/dense/sampler_revpi.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-11T20:35:38,450 Compiling msmtools/util/kahandot_src/kahandot.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-11T20:35:38,450 [1/7] Cythonizing msmtools/estimation/dense/mle_trev.pyx 2021-07-11T20:35:38,450 [2/7] Cythonizing msmtools/estimation/dense/mle_trev_given_pi.pyx 2021-07-11T20:35:38,450 [3/7] Cythonizing msmtools/estimation/dense/sampler_rev.pyx 2021-07-11T20:35:38,450 [4/7] Cythonizing msmtools/estimation/dense/sampler_revpi.pyx 2021-07-11T20:35:38,451 [5/7] Cythonizing msmtools/estimation/sparse/mle_trev.pyx 2021-07-11T20:35:38,451 [6/7] Cythonizing msmtools/estimation/sparse/mle_trev_given_pi.pyx 2021-07-11T20:35:38,451 [7/7] Cythonizing msmtools/util/kahandot_src/kahandot.pyx 2021-07-11T20:35:38,451 /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/setup.py:164: UserWarning: enabled openmp 2021-07-11T20:35:38,452 warnings.warn('enabled openmp') 2021-07-11T20:35:38,452 writing top-level names to /tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info/top_level.txt 2021-07-11T20:35:38,452 writing manifest file '/tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info/SOURCES.txt' 2021-07-11T20:35:38,495 reading manifest file '/tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info/SOURCES.txt' 2021-07-11T20:35:38,496 reading manifest template 'MANIFEST.in' 2021-07-11T20:35:38,595 warning: no files found matching 'tests/data/*' under directory 'msmtools' 2021-07-11T20:35:38,645 warning: no files found matching 'testfiles/' under directory 'msmtools' 2021-07-11T20:35:38,893 adding license file 'LICENSE.txt' 2021-07-11T20:35:38,904 writing manifest file '/tmp/pip-pip-egg-info-1juwczek/msmtools.egg-info/SOURCES.txt' 2021-07-11T20:35:39,096 Source in /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105 has version 1.2, which satisfies requirement msmtools==1.2 from https://files.pythonhosted.org/packages/5e/a2/42d30177e9f8b9071a5cf17c6cd0a75b9b245d708fc626b015599308a898/msmtools-1.2.tar.gz#sha256=eb509f9b2bebd5a07896ec563b14df3ebee2b9871730f5ac87e1ab3179c8c6c4 2021-07-11T20:35:39,097 Removed msmtools==1.2 from https://files.pythonhosted.org/packages/5e/a2/42d30177e9f8b9071a5cf17c6cd0a75b9b245d708fc626b015599308a898/msmtools-1.2.tar.gz#sha256=eb509f9b2bebd5a07896ec563b14df3ebee2b9871730f5ac87e1ab3179c8c6c4 from build tracker '/tmp/pip-req-tracker-kh2z9zrr' 2021-07-11T20:35:39,101 Created temporary directory: /tmp/pip-unpack-9p400eq_ 2021-07-11T20:35:39,102 Building wheels for collected packages: msmtools 2021-07-11T20:35:39,106 Created temporary directory: /tmp/pip-wheel-ibldax9x 2021-07-11T20:35:39,106 Building wheel for msmtools (setup.py): started 2021-07-11T20:35:39,106 Destination directory: /tmp/pip-wheel-ibldax9x 2021-07-11T20:35:39,107 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-ibldax9x 2021-07-11T20:35:40,336 running bdist_wheel 2021-07-11T20:35:40,531 creating /tmp/hasfunction-k5tl17iw/tmp 2021-07-11T20:35:40,531 creating /tmp/hasfunction-k5tl17iw/tmp/hasfunction-k5tl17iw 2021-07-11T20:35:40,531 cc -c /tmp/hasfunction-k5tl17iw/funcname.c -o /tmp/hasfunction-k5tl17iw/tmp/hasfunction-k5tl17iw/funcname.o 2021-07-11T20:35:40,624 cc /tmp/hasfunction-k5tl17iw/tmp/hasfunction-k5tl17iw/funcname.o -o /tmp/hasfunction-k5tl17iw/a.out 2021-07-11T20:35:40,740 creating /tmp/hasfunction-xyu1m70y/tmp 2021-07-11T20:35:40,741 creating /tmp/hasfunction-xyu1m70y/tmp/hasfunction-xyu1m70y 2021-07-11T20:35:40,741 cc -c /tmp/hasfunction-xyu1m70y/funcname.c -o /tmp/hasfunction-xyu1m70y/tmp/hasfunction-xyu1m70y/funcname.o 2021-07-11T20:35:40,832 cc /tmp/hasfunction-xyu1m70y/tmp/hasfunction-xyu1m70y/funcname.o -lgomp -o /tmp/hasfunction-xyu1m70y/a.out 2021-07-11T20:35:41,750 /tmp/pip-wheel-yrm3o8n8/msmtools_ee6dbe34da7a4277a2582c6bb8e6d105/setup.py:164: UserWarning: enabled openmp 2021-07-11T20:35:41,750 warnings.warn('enabled openmp') 2021-07-11T20:35:41,753 running build 2021-07-11T20:35:41,754 running build_py 2021-07-11T20:35:41,759 creating build 2021-07-11T20:35:41,760 creating build/lib.linux-armv7l-3.9 2021-07-11T20:35:41,760 creating build/lib.linux-armv7l-3.9/msmtools 2021-07-11T20:35:41,762 copying msmtools/_version.py -> build/lib.linux-armv7l-3.9/msmtools 2021-07-11T20:35:41,763 copying msmtools/__init__.py -> build/lib.linux-armv7l-3.9/msmtools 2021-07-11T20:35:41,766 creating build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-11T20:35:41,767 copying msmtools/estimation/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-11T20:35:41,769 copying msmtools/estimation/api.py -> build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-11T20:35:41,773 creating build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-11T20:35:41,774 copying msmtools/analysis/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-11T20:35:41,776 copying msmtools/analysis/api.py -> build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-11T20:35:41,780 creating build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-11T20:35:41,781 copying msmtools/flux/reactive_flux.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-11T20:35:41,784 copying msmtools/flux/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-11T20:35:41,786 copying msmtools/flux/reactive_flux_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-11T20:35:41,789 copying msmtools/flux/api.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-11T20:35:41,792 creating build/lib.linux-armv7l-3.9/msmtools/util 2021-07-11T20:35:41,793 copying msmtools/util/statistics.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-11T20:35:41,796 copying msmtools/util/numeric.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-11T20:35:41,798 copying msmtools/util/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-11T20:35:41,800 copying msmtools/util/types.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-11T20:35:41,803 copying msmtools/util/annotators.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-11T20:35:41,806 copying msmtools/util/exceptions.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-11T20:35:41,809 creating build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-11T20:35:41,810 copying msmtools/generation/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-11T20:35:41,813 copying msmtools/generation/api.py -> build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-11T20:35:41,816 creating build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-11T20:35:41,817 copying msmtools/dtraj/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-11T20:35:41,819 copying msmtools/dtraj/api.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-11T20:35:41,824 creating build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,824 copying msmtools/estimation/sparse/connectivity_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,827 copying msmtools/estimation/sparse/connectivity.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,830 copying msmtools/estimation/sparse/prior_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,832 copying msmtools/estimation/sparse/effective_counts.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,834 copying msmtools/estimation/sparse/likelihood_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,836 copying msmtools/estimation/sparse/prior.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,838 copying msmtools/estimation/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,840 copying msmtools/estimation/sparse/transition_matrix_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,842 copying msmtools/estimation/sparse/count_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,844 copying msmtools/estimation/sparse/likelihood.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,846 copying msmtools/estimation/sparse/transition_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:41,849 creating build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,850 copying msmtools/estimation/dense/bootstrapping.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,853 copying msmtools/estimation/dense/ratematrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,856 copying msmtools/estimation/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,858 copying msmtools/estimation/dense/covariance.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,860 copying msmtools/estimation/dense/covariance_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,863 copying msmtools/estimation/dense/sampler_nrev.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,865 copying msmtools/estimation/dense/tmatrix_sampler.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,867 copying msmtools/estimation/dense/tmatrix_sampler_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,869 copying msmtools/estimation/dense/transition_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:41,872 creating build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,873 copying msmtools/analysis/sparse/expectations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,876 copying msmtools/analysis/sparse/decomposition_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,878 copying msmtools/analysis/sparse/fingerprints_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,881 copying msmtools/analysis/sparse/committor_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,883 copying msmtools/analysis/sparse/assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,886 copying msmtools/analysis/sparse/stationary_vector.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,889 copying msmtools/analysis/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,891 copying msmtools/analysis/sparse/birth_death_chain.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,893 copying msmtools/analysis/sparse/mean_first_passage_time.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,896 copying msmtools/analysis/sparse/expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,898 copying msmtools/analysis/sparse/committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,900 copying msmtools/analysis/sparse/assessment_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,903 copying msmtools/analysis/sparse/stationary_vector_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,905 copying msmtools/analysis/sparse/fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,908 copying msmtools/analysis/sparse/mean_first_passage_time_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,910 copying msmtools/analysis/sparse/decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-11T20:35:41,915 creating build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,916 copying msmtools/analysis/dense/correlations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,919 copying msmtools/analysis/dense/expectations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,921 copying msmtools/analysis/dense/decomposition_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,924 copying msmtools/analysis/dense/fingerprints_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,926 copying msmtools/analysis/dense/pcca.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,929 copying msmtools/analysis/dense/committor_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,931 copying msmtools/analysis/dense/assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,933 copying msmtools/analysis/dense/hitting_probability_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,935 copying msmtools/analysis/dense/stationary_vector.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,938 copying msmtools/analysis/dense/hitting_probability.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,940 copying msmtools/analysis/dense/correlations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,942 copying msmtools/analysis/dense/sensitivity_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,944 copying msmtools/analysis/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,946 copying msmtools/analysis/dense/birth_death_chain.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,949 copying msmtools/analysis/dense/mean_first_passage_time.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,951 copying msmtools/analysis/dense/pcca_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,953 copying msmtools/analysis/dense/sensitivity.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,956 copying msmtools/analysis/dense/expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,958 copying msmtools/analysis/dense/committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,960 copying msmtools/analysis/dense/assessment_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,962 copying msmtools/analysis/dense/stationary_vector_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,964 copying msmtools/analysis/dense/fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,967 copying msmtools/analysis/dense/mean_first_passage_time_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,969 copying msmtools/analysis/dense/decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-11T20:35:41,973 creating build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-11T20:35:41,973 copying msmtools/flux/sparse/pathways.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-11T20:35:41,976 copying msmtools/flux/sparse/tpt.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-11T20:35:41,978 copying msmtools/flux/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-11T20:35:41,980 copying msmtools/flux/sparse/tpt_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-11T20:35:41,983 copying msmtools/flux/sparse/pathways_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-11T20:35:41,985 creating build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-11T20:35:41,986 copying msmtools/flux/dense/tpt.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-11T20:35:41,989 copying msmtools/flux/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-11T20:35:41,991 copying msmtools/flux/dense/tpt_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-11T20:35:41,994 creating build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-11T20:35:41,995 copying msmtools/util/matrix/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-11T20:35:41,997 copying msmtools/util/matrix/matrix_test.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-11T20:35:41,999 copying msmtools/util/matrix/matrix.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-11T20:35:42,007 creating build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,008 copying msmtools/analysis/tests/test_fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,011 copying msmtools/analysis/tests/test_committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,015 copying msmtools/analysis/tests/P_rev_251x251.dat -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,054 copying msmtools/analysis/tests/birth_death_chain.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,057 copying msmtools/analysis/tests/test_sensitivity.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,059 copying msmtools/analysis/tests/test_decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,062 copying msmtools/analysis/tests/test_expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,065 copying msmtools/analysis/tests/test_assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,068 copying msmtools/analysis/tests/test_mfpt.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-11T20:35:42,070 creating build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,071 copying msmtools/util/matrix/testfiles/spmatrix_complex.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,073 copying msmtools/util/matrix/testfiles/matrix_int.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,076 copying msmtools/util/matrix/testfiles/spmatrix_int.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,078 copying msmtools/util/matrix/testfiles/matrix_float.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,080 copying msmtools/util/matrix/testfiles/matrix_complex.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,082 copying msmtools/util/matrix/testfiles/matrix_float.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,084 copying msmtools/util/matrix/testfiles/spmatrix_int.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,086 copying msmtools/util/matrix/testfiles/spmatrix_float.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,089 copying msmtools/util/matrix/testfiles/matrix_complex.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,091 copying msmtools/util/matrix/testfiles/spmatrix_complex_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,093 copying msmtools/util/matrix/testfiles/spmatrix_float_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,096 copying msmtools/util/matrix/testfiles/spmatrix_complex.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,099 copying msmtools/util/matrix/testfiles/matrix_int.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,101 copying msmtools/util/matrix/testfiles/spmatrix_float.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,103 copying msmtools/util/matrix/testfiles/spmatrix_int_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-11T20:35:42,116 running build_ext 2021-07-11T20:35:42,120 building 'msmtools.estimation.dense.mle_trev_given_pi' extension 2021-07-11T20:35:42,121 creating build/temp.linux-armv7l-3.9 2021-07-11T20:35:42,121 creating build/temp.linux-armv7l-3.9/msmtools 2021-07-11T20:35:42,122 creating build/temp.linux-armv7l-3.9/msmtools/estimation 2021-07-11T20:35:42,123 creating build/temp.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-11T20:35:42,123 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/_mle_trev_given_pi.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev_given_pi.o -fopenmp 2021-07-11T20:35:42,529 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/mle_trev_given_pi.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev_given_pi.o -fopenmp 2021-07-11T20:35:42,930 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-11T20:35:42,931 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-11T20:35:42,931 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-11T20:35:42,931 from msmtools/estimation/dense/mle_trev_given_pi.c:638: 2021-07-11T20:35:42,931 /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] 2021-07-11T20:35:42,931 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-11T20:35:42,931 | ^~~~~~~ 2021-07-11T20:35:45,907 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev_given_pi.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev_given_pi.o -o build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-11T20:35:46,044 building 'msmtools.estimation.sparse.mle_trev_given_pi' extension 2021-07-11T20:35:46,045 creating build/temp.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-11T20:35:46,046 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/sparse -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/sparse/_mle_trev_given_pi.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev_given_pi.o -fopenmp 2021-07-11T20:35:46,402 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/sparse -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/sparse/mle_trev_given_pi.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev_given_pi.o -fopenmp 2021-07-11T20:35:46,782 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-11T20:35:46,782 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-11T20:35:46,782 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-11T20:35:46,782 from msmtools/estimation/sparse/mle_trev_given_pi.c:639: 2021-07-11T20:35:46,783 /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] 2021-07-11T20:35:46,783 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-11T20:35:46,783 | ^~~~~~~ 2021-07-11T20:35:51,051 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev_given_pi.o build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev_given_pi.o -o build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-11T20:35:51,191 building 'msmtools.estimation.dense.mle_trev' extension 2021-07-11T20:35:51,191 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/_mle_trev.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev.o -fopenmp 2021-07-11T20:35:51,341 msmtools/estimation/dense/_mle_trev.c: In function ‘_mle_trev_dense’: 2021-07-11T20:35:51,342 msmtools/estimation/dense/_mle_trev.c:62:27: warning: unused variable ‘value’ [-Wunused-variable] 2021-07-11T20:35:51,343 62 | double rel_err, x_norm, value; 2021-07-11T20:35:51,343 | ^~~~~ 2021-07-11T20:35:51,566 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/mle_trev.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev.o -fopenmp 2021-07-11T20:35:51,940 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-11T20:35:51,941 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-11T20:35:51,941 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-11T20:35:51,941 from msmtools/estimation/dense/mle_trev.c:638: 2021-07-11T20:35:51,941 /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] 2021-07-11T20:35:51,941 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-11T20:35:51,941 | ^~~~~~~ 2021-07-11T20:35:55,597 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev.o -o build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-11T20:35:55,737 building 'msmtools.estimation.sparse.mle_trev' extension 2021-07-11T20:35:55,737 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/sparse -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/sparse/_mle_trev.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev.o -fopenmp 2021-07-11T20:35:56,119 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/sparse -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/sparse/mle_trev.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev.o -fopenmp 2021-07-11T20:35:56,498 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-11T20:35:56,498 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-11T20:35:56,498 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-11T20:35:56,498 from msmtools/estimation/sparse/mle_trev.c:638: 2021-07-11T20:35:56,499 /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] 2021-07-11T20:35:56,499 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-11T20:35:56,499 | ^~~~~~~ 2021-07-11T20:36:00,846 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev.o build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev.o -o build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-11T20:36:00,978 building 'msmtools.estimation.dense.sampler_rev' extension 2021-07-11T20:36:00,979 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/_ranlib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_ranlib.o -fopenmp 2021-07-11T20:36:01,138 msmtools/estimation/dense/_ranlib.c: In function ‘ignpoi’: 2021-07-11T20:36:01,139 msmtools/estimation/dense/_ranlib.c:1567:7: warning: variable ‘m’ set but not used [-Wunused-but-set-variable] 2021-07-11T20:36:01,139 1567 | int m; 2021-07-11T20:36:01,139 | ^ 2021-07-11T20:36:02,639 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/_rnglib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_rnglib.o -fopenmp 2021-07-11T20:36:02,755 msmtools/estimation/dense/_rnglib.c: In function ‘cgn_memory’: 2021-07-11T20:36:02,756 msmtools/estimation/dense/_rnglib.c:467:7: warning: unused variable ‘j’ [-Wunused-variable] 2021-07-11T20:36:02,756 467 | int j; 2021-07-11T20:36:02,756 | ^ 2021-07-11T20:36:02,762 msmtools/estimation/dense/_rnglib.c: In function ‘set_initial_seed’: 2021-07-11T20:36:02,763 msmtools/estimation/dense/_rnglib.c:1628:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-11T20:36:02,763 1628 | int i; 2021-07-11T20:36:02,764 | ^ 2021-07-11T20:36:02,764 msmtools/estimation/dense/_rnglib.c: In function ‘set_seed’: 2021-07-11T20:36:02,765 msmtools/estimation/dense/_rnglib.c:1727:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-11T20:36:02,765 1727 | int i; 2021-07-11T20:36:02,765 | ^ 2021-07-11T20:36:03,283 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/sample_rev.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sample_rev.o -fopenmp 2021-07-11T20:36:03,880 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/sampler_rev.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sampler_rev.o -fopenmp 2021-07-11T20:36:04,258 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-11T20:36:04,258 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-11T20:36:04,259 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-11T20:36:04,259 from msmtools/estimation/dense/sampler_rev.c:640: 2021-07-11T20:36:04,259 /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] 2021-07-11T20:36:04,259 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-11T20:36:04,259 | ^~~~~~~ 2021-07-11T20:36:12,620 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_ranlib.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_rnglib.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sample_rev.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sampler_rev.o -o build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_rev.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-11T20:36:12,800 building 'msmtools.estimation.dense.sampler_revpi' extension 2021-07-11T20:36:12,800 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/_ranlib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_ranlib.o -fopenmp 2021-07-11T20:36:12,962 msmtools/estimation/dense/_ranlib.c: In function ‘ignpoi’: 2021-07-11T20:36:12,962 msmtools/estimation/dense/_ranlib.c:1567:7: warning: variable ‘m’ set but not used [-Wunused-but-set-variable] 2021-07-11T20:36:12,962 1567 | int m; 2021-07-11T20:36:12,962 | ^ 2021-07-11T20:36:14,425 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/_rnglib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_rnglib.o -fopenmp 2021-07-11T20:36:14,542 msmtools/estimation/dense/_rnglib.c: In function ‘cgn_memory’: 2021-07-11T20:36:14,542 msmtools/estimation/dense/_rnglib.c:467:7: warning: unused variable ‘j’ [-Wunused-variable] 2021-07-11T20:36:14,542 467 | int j; 2021-07-11T20:36:14,543 | ^ 2021-07-11T20:36:14,549 msmtools/estimation/dense/_rnglib.c: In function ‘set_initial_seed’: 2021-07-11T20:36:14,550 msmtools/estimation/dense/_rnglib.c:1628:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-11T20:36:14,550 1628 | int i; 2021-07-11T20:36:14,550 | ^ 2021-07-11T20:36:14,551 msmtools/estimation/dense/_rnglib.c: In function ‘set_seed’: 2021-07-11T20:36:14,551 msmtools/estimation/dense/_rnglib.c:1727:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-11T20:36:14,552 1727 | int i; 2021-07-11T20:36:14,552 | ^ 2021-07-11T20:36:15,070 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/sample_revpi.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sample_revpi.o -fopenmp 2021-07-11T20:36:15,509 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/estimation/dense -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/dense/sampler_revpi.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sampler_revpi.o -fopenmp 2021-07-11T20:36:15,891 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-11T20:36:15,891 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-11T20:36:15,891 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-11T20:36:15,891 from msmtools/estimation/dense/sampler_revpi.c:640: 2021-07-11T20:36:15,892 /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] 2021-07-11T20:36:15,892 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-11T20:36:15,892 | ^~~~~~~ 2021-07-11T20:36:25,324 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_ranlib.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/_rnglib.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sample_revpi.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/sampler_revpi.o -o build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_revpi.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-11T20:36:25,490 building 'msmtools.util.kahandot' extension 2021-07-11T20:36:25,491 creating build/temp.linux-armv7l-3.9/msmtools/util 2021-07-11T20:36:25,491 creating build/temp.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-11T20:36:25,492 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/util/kahandot_src -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/util/kahandot_src/_kahandot.c -o build/temp.linux-armv7l-3.9/msmtools/util/kahandot_src/_kahandot.o -fopenmp 2021-07-11T20:36:25,709 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUSE_OPENMP -Imsmtools/util/kahandot_src -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/util/kahandot_src/kahandot.c -o build/temp.linux-armv7l-3.9/msmtools/util/kahandot_src/kahandot.o -fopenmp 2021-07-11T20:36:26,102 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-11T20:36:26,103 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-11T20:36:26,103 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-11T20:36:26,103 from msmtools/util/kahandot_src/kahandot.c:637: 2021-07-11T20:36:26,103 /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] 2021-07-11T20:36:26,103 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-11T20:36:26,103 | ^~~~~~~ 2021-07-11T20:36:27,888 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/msmtools/util/kahandot_src/_kahandot.o build/temp.linux-armv7l-3.9/msmtools/util/kahandot_src/kahandot.o -o build/lib.linux-armv7l-3.9/msmtools/util/kahandot.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-11T20:36:28,027 installing to build/bdist.linux-armv7l/wheel 2021-07-11T20:36:28,028 running install 2021-07-11T20:36:28,030 running install_lib 2021-07-11T20:36:28,035 creating build/bdist.linux-armv7l 2021-07-11T20:36:28,036 creating build/bdist.linux-armv7l/wheel 2021-07-11T20:36:28,039 creating build/bdist.linux-armv7l/wheel/msmtools 2021-07-11T20:36:28,041 creating build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-11T20:36:28,042 copying build/lib.linux-armv7l-3.9/msmtools/estimation/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-11T20:36:28,046 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,047 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/connectivity_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,050 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/connectivity.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,053 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/prior_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,055 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,067 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/effective_counts.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,071 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/likelihood_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,074 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/prior.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,078 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,081 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/transition_matrix_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,085 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/count_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,088 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/likelihood.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,091 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/transition_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,093 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-11T20:36:28,147 copying build/lib.linux-armv7l-3.9/msmtools/estimation/api.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-11T20:36:28,154 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,156 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/bootstrapping.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,161 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_rev.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,184 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/ratematrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,188 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,196 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_revpi.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,217 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,219 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/covariance.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,222 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/covariance_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,224 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_nrev.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,226 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/tmatrix_sampler.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,228 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/tmatrix_sampler_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,230 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/transition_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,233 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-11T20:36:28,240 copying build/lib.linux-armv7l-3.9/msmtools/_version.py -> build/bdist.linux-armv7l/wheel/msmtools 2021-07-11T20:36:28,243 creating build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-11T20:36:28,244 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,245 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,248 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,250 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/P_rev_251x251.dat -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,293 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,296 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_sensitivity.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,300 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,304 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,307 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,310 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_mfpt.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-11T20:36:28,312 copying build/lib.linux-armv7l-3.9/msmtools/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-11T20:36:28,316 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,318 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/expectations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,321 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/decomposition_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,325 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/fingerprints_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,328 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/committor_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,331 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,336 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/stationary_vector.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,339 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,342 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,345 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/mean_first_passage_time.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,347 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,349 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,352 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/assessment_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,355 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/stationary_vector_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,358 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,361 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/mean_first_passage_time_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,364 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-11T20:36:28,367 copying build/lib.linux-armv7l-3.9/msmtools/analysis/api.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-11T20:36:28,373 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,374 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/correlations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,378 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/expectations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,381 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/decomposition_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,384 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/fingerprints_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,388 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/pcca.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,391 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/committor_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,393 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,395 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/hitting_probability_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,397 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/stationary_vector.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,400 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/hitting_probability.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,402 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/correlations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,405 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/sensitivity_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,407 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,409 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,412 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/mean_first_passage_time.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,414 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/pcca_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,417 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/sensitivity.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,420 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,422 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,425 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/assessment_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,427 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/stationary_vector_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,429 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,432 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/mean_first_passage_time_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,434 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-11T20:36:28,438 creating build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-11T20:36:28,439 copying build/lib.linux-armv7l-3.9/msmtools/flux/reactive_flux.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-11T20:36:28,442 copying build/lib.linux-armv7l-3.9/msmtools/flux/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-11T20:36:28,445 creating build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-11T20:36:28,446 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/pathways.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-11T20:36:28,449 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/tpt.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-11T20:36:28,451 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-11T20:36:28,453 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/tpt_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-11T20:36:28,456 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/pathways_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-11T20:36:28,458 copying build/lib.linux-armv7l-3.9/msmtools/flux/reactive_flux_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-11T20:36:28,461 copying build/lib.linux-armv7l-3.9/msmtools/flux/api.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-11T20:36:28,464 creating build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-11T20:36:28,465 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/tpt.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-11T20:36:28,468 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-11T20:36:28,470 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/tpt_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-11T20:36:28,472 copying build/lib.linux-armv7l-3.9/msmtools/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools 2021-07-11T20:36:28,475 creating build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,476 copying build/lib.linux-armv7l-3.9/msmtools/util/statistics.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,479 copying build/lib.linux-armv7l-3.9/msmtools/util/numeric.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,481 copying build/lib.linux-armv7l-3.9/msmtools/util/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,483 copying build/lib.linux-armv7l-3.9/msmtools/util/types.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,486 copying build/lib.linux-armv7l-3.9/msmtools/util/annotators.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,489 copying build/lib.linux-armv7l-3.9/msmtools/util/kahandot.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,495 copying build/lib.linux-armv7l-3.9/msmtools/util/exceptions.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-11T20:36:28,497 creating build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-11T20:36:28,499 creating build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,500 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,502 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_int.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,504 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,506 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_float.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,508 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_complex.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,509 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_float.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,511 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,513 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,515 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_complex.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,517 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,519 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,521 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,524 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_int.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,526 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,528 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-11T20:36:28,530 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-11T20:36:28,532 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/matrix_test.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-11T20:36:28,535 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-11T20:36:28,538 creating build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-11T20:36:28,539 copying build/lib.linux-armv7l-3.9/msmtools/generation/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-11T20:36:28,541 copying build/lib.linux-armv7l-3.9/msmtools/generation/api.py -> build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-11T20:36:28,544 creating build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-11T20:36:28,545 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-11T20:36:28,547 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/api.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-11T20:36:28,550 running install_egg_info 2021-07-11T20:36:28,572 running egg_info 2021-07-11T20:36:28,573 writing msmtools.egg-info/PKG-INFO 2021-07-11T20:36:28,575 writing dependency_links to msmtools.egg-info/dependency_links.txt 2021-07-11T20:36:28,577 writing requirements to msmtools.egg-info/requires.txt 2021-07-11T20:36:28,578 writing top-level names to msmtools.egg-info/top_level.txt 2021-07-11T20:36:28,614 reading manifest file 'msmtools.egg-info/SOURCES.txt' 2021-07-11T20:36:28,627 reading manifest template 'MANIFEST.in' 2021-07-11T20:36:28,721 warning: no files found matching 'tests/data/*' under directory 'msmtools' 2021-07-11T20:36:28,766 warning: no files found matching 'testfiles/' under directory 'msmtools' 2021-07-11T20:36:29,008 adding license file 'LICENSE.txt' 2021-07-11T20:36:29,021 writing manifest file 'msmtools.egg-info/SOURCES.txt' 2021-07-11T20:36:29,024 Copying msmtools.egg-info to build/bdist.linux-armv7l/wheel/msmtools-1.2-py3.9.egg-info 2021-07-11T20:36:29,038 running install_scripts 2021-07-11T20:36:29,086 adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*") 2021-07-11T20:36:29,091 creating build/bdist.linux-armv7l/wheel/msmtools-1.2.dist-info/WHEEL 2021-07-11T20:36:29,094 creating '/tmp/pip-wheel-ibldax9x/msmtools-1.2-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-11T20:36:29,097 adding 'msmtools/__init__.py' 2021-07-11T20:36:29,098 adding 'msmtools/_version.py' 2021-07-11T20:36:29,100 adding 'msmtools/analysis/__init__.py' 2021-07-11T20:36:29,106 adding 'msmtools/analysis/api.py' 2021-07-11T20:36:29,109 adding 'msmtools/analysis/dense/__init__.py' 2021-07-11T20:36:29,110 adding 'msmtools/analysis/dense/assessment.py' 2021-07-11T20:36:29,112 adding 'msmtools/analysis/dense/assessment_test.py' 2021-07-11T20:36:29,114 adding 'msmtools/analysis/dense/birth_death_chain.py' 2021-07-11T20:36:29,115 adding 'msmtools/analysis/dense/committor.py' 2021-07-11T20:36:29,117 adding 'msmtools/analysis/dense/committor_test.py' 2021-07-11T20:36:29,118 adding 'msmtools/analysis/dense/correlations.py' 2021-07-11T20:36:29,120 adding 'msmtools/analysis/dense/correlations_test.py' 2021-07-11T20:36:29,123 adding 'msmtools/analysis/dense/decomposition.py' 2021-07-11T20:36:29,124 adding 'msmtools/analysis/dense/decomposition_test.py' 2021-07-11T20:36:29,126 adding 'msmtools/analysis/dense/expectations.py' 2021-07-11T20:36:29,128 adding 'msmtools/analysis/dense/expectations_test.py' 2021-07-11T20:36:29,130 adding 'msmtools/analysis/dense/fingerprints.py' 2021-07-11T20:36:29,131 adding 'msmtools/analysis/dense/fingerprints_test.py' 2021-07-11T20:36:29,133 adding 'msmtools/analysis/dense/hitting_probability.py' 2021-07-11T20:36:29,134 adding 'msmtools/analysis/dense/hitting_probability_test.py' 2021-07-11T20:36:29,136 adding 'msmtools/analysis/dense/mean_first_passage_time.py' 2021-07-11T20:36:29,137 adding 'msmtools/analysis/dense/mean_first_passage_time_test.py' 2021-07-11T20:36:29,140 adding 'msmtools/analysis/dense/pcca.py' 2021-07-11T20:36:29,142 adding 'msmtools/analysis/dense/pcca_test.py' 2021-07-11T20:36:29,144 adding 'msmtools/analysis/dense/sensitivity.py' 2021-07-11T20:36:29,145 adding 'msmtools/analysis/dense/sensitivity_test.py' 2021-07-11T20:36:29,147 adding 'msmtools/analysis/dense/stationary_vector.py' 2021-07-11T20:36:29,148 adding 'msmtools/analysis/dense/stationary_vector_test.py' 2021-07-11T20:36:29,150 adding 'msmtools/analysis/sparse/__init__.py' 2021-07-11T20:36:29,151 adding 'msmtools/analysis/sparse/assessment.py' 2021-07-11T20:36:29,153 adding 'msmtools/analysis/sparse/assessment_test.py' 2021-07-11T20:36:29,155 adding 'msmtools/analysis/sparse/birth_death_chain.py' 2021-07-11T20:36:29,156 adding 'msmtools/analysis/sparse/committor.py' 2021-07-11T20:36:29,158 adding 'msmtools/analysis/sparse/committor_test.py' 2021-07-11T20:36:29,160 adding 'msmtools/analysis/sparse/decomposition.py' 2021-07-11T20:36:29,162 adding 'msmtools/analysis/sparse/decomposition_test.py' 2021-07-11T20:36:29,164 adding 'msmtools/analysis/sparse/expectations.py' 2021-07-11T20:36:29,165 adding 'msmtools/analysis/sparse/expectations_test.py' 2021-07-11T20:36:29,167 adding 'msmtools/analysis/sparse/fingerprints.py' 2021-07-11T20:36:29,169 adding 'msmtools/analysis/sparse/fingerprints_test.py' 2021-07-11T20:36:29,171 adding 'msmtools/analysis/sparse/mean_first_passage_time.py' 2021-07-11T20:36:29,173 adding 'msmtools/analysis/sparse/mean_first_passage_time_test.py' 2021-07-11T20:36:29,175 adding 'msmtools/analysis/sparse/stationary_vector.py' 2021-07-11T20:36:29,176 adding 'msmtools/analysis/sparse/stationary_vector_test.py' 2021-07-11T20:36:29,258 adding 'msmtools/analysis/tests/P_rev_251x251.dat' 2021-07-11T20:36:29,272 adding 'msmtools/analysis/tests/birth_death_chain.py' 2021-07-11T20:36:29,274 adding 'msmtools/analysis/tests/test_assessment.py' 2021-07-11T20:36:29,275 adding 'msmtools/analysis/tests/test_committor.py' 2021-07-11T20:36:29,277 adding 'msmtools/analysis/tests/test_decomposition.py' 2021-07-11T20:36:29,279 adding 'msmtools/analysis/tests/test_expectations.py' 2021-07-11T20:36:29,281 adding 'msmtools/analysis/tests/test_fingerprints.py' 2021-07-11T20:36:29,282 adding 'msmtools/analysis/tests/test_mfpt.py' 2021-07-11T20:36:29,284 adding 'msmtools/analysis/tests/test_sensitivity.py' 2021-07-11T20:36:29,286 adding 'msmtools/dtraj/__init__.py' 2021-07-11T20:36:29,288 adding 'msmtools/dtraj/api.py' 2021-07-11T20:36:29,290 adding 'msmtools/estimation/__init__.py' 2021-07-11T20:36:29,296 adding 'msmtools/estimation/api.py' 2021-07-11T20:36:29,299 adding 'msmtools/estimation/dense/__init__.py' 2021-07-11T20:36:29,300 adding 'msmtools/estimation/dense/bootstrapping.py' 2021-07-11T20:36:29,302 adding 'msmtools/estimation/dense/covariance.py' 2021-07-11T20:36:29,303 adding 'msmtools/estimation/dense/covariance_test.py' 2021-07-11T20:36:29,359 adding 'msmtools/estimation/dense/mle_trev.cpython-39-arm-linux-gnueabihf.so' 2021-07-11T20:36:29,403 adding 'msmtools/estimation/dense/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so' 2021-07-11T20:36:29,407 adding 'msmtools/estimation/dense/ratematrix.py' 2021-07-11T20:36:29,409 adding 'msmtools/estimation/dense/sampler_nrev.py' 2021-07-11T20:36:29,555 adding 'msmtools/estimation/dense/sampler_rev.cpython-39-arm-linux-gnueabihf.so' 2021-07-11T20:36:29,713 adding 'msmtools/estimation/dense/sampler_revpi.cpython-39-arm-linux-gnueabihf.so' 2021-07-11T20:36:29,720 adding 'msmtools/estimation/dense/tmatrix_sampler.py' 2021-07-11T20:36:29,721 adding 'msmtools/estimation/dense/tmatrix_sampler_test.py' 2021-07-11T20:36:29,722 adding 'msmtools/estimation/dense/transition_matrix.py' 2021-07-11T20:36:29,724 adding 'msmtools/estimation/sparse/__init__.py' 2021-07-11T20:36:29,726 adding 'msmtools/estimation/sparse/connectivity.py' 2021-07-11T20:36:29,727 adding 'msmtools/estimation/sparse/connectivity_test.py' 2021-07-11T20:36:29,728 adding 'msmtools/estimation/sparse/count_matrix.py' 2021-07-11T20:36:29,730 adding 'msmtools/estimation/sparse/effective_counts.py' 2021-07-11T20:36:29,731 adding 'msmtools/estimation/sparse/likelihood.py' 2021-07-11T20:36:29,732 adding 'msmtools/estimation/sparse/likelihood_test.py' 2021-07-11T20:36:29,794 adding 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adding 'msmtools/util/matrix/testfiles/spmatrix_float_reference.dat' 2021-07-11T20:36:29,945 adding 'msmtools/util/matrix/testfiles/spmatrix_int.coo.dat' 2021-07-11T20:36:29,946 adding 'msmtools/util/matrix/testfiles/spmatrix_int.coo.npy' 2021-07-11T20:36:29,947 adding 'msmtools/util/matrix/testfiles/spmatrix_int_reference.dat' 2021-07-11T20:36:29,950 adding 'msmtools-1.2.dist-info/LICENSE.txt' 2021-07-11T20:36:29,951 adding 'msmtools-1.2.dist-info/METADATA' 2021-07-11T20:36:29,952 adding 'msmtools-1.2.dist-info/WHEEL' 2021-07-11T20:36:29,953 adding 'msmtools-1.2.dist-info/pbr.json' 2021-07-11T20:36:29,954 adding 'msmtools-1.2.dist-info/top_level.txt' 2021-07-11T20:36:29,956 adding 'msmtools-1.2.dist-info/RECORD' 2021-07-11T20:36:29,978 removing build/bdist.linux-armv7l/wheel 2021-07-11T20:36:30,166 Building wheel for msmtools (setup.py): finished with status 'done' 2021-07-11T20:36:30,189 Created wheel for msmtools: filename=msmtools-1.2-cp39-cp39-linux_armv7l.whl size=1405149 sha256=122aff98a6c2b45d577177d2106bbf3f60ebb0048006c0e255b97f92068dd828 2021-07-11T20:36:30,189 Stored in directory: /tmp/pip-ephem-wheel-cache-vqhtxg7h/wheels/3b/96/bb/3b8e0c1989b3664f1dd4952c2a91dbdb3328cf51070719347a 2021-07-11T20:36:30,204 Successfully built msmtools 2021-07-11T20:36:30,255 Removed build tracker: '/tmp/pip-req-tracker-kh2z9zrr'