2021-07-12T07:55:29,657 Created temporary directory: /tmp/pip-ephem-wheel-cache-6pq2fniq 2021-07-12T07:55:29,660 Created temporary directory: /tmp/pip-req-tracker-8iy7pzla 2021-07-12T07:55:29,661 Initialized build tracking at /tmp/pip-req-tracker-8iy7pzla 2021-07-12T07:55:29,661 Created build tracker: /tmp/pip-req-tracker-8iy7pzla 2021-07-12T07:55:29,662 Entered build tracker: /tmp/pip-req-tracker-8iy7pzla 2021-07-12T07:55:29,662 Created temporary directory: /tmp/pip-wheel-auh137dn 2021-07-12T07:55:29,692 1 location(s) to search for versions of msmtools: 2021-07-12T07:55:29,692 * https://pypi.org/simple/msmtools/ 2021-07-12T07:55:29,692 Fetching project page and analyzing links: https://pypi.org/simple/msmtools/ 2021-07-12T07:55:29,693 Getting page https://pypi.org/simple/msmtools/ 2021-07-12T07:55:29,694 Found index url https://pypi.org/simple 2021-07-12T07:55:29,887 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 2021-07-12T07:55:29,888 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 2021-07-12T07:55:29,888 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 2021-07-12T07:55:29,888 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 2021-07-12T07:55:29,889 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 2021-07-12T07:55:29,889 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 2021-07-12T07:55:29,889 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 2021-07-12T07:55:29,889 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 2021-07-12T07:55:29,890 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 2021-07-12T07:55:29,890 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 2021-07-12T07:55:29,890 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 2021-07-12T07:55:29,890 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 2021-07-12T07:55:29,891 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 2021-07-12T07:55:29,891 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 2021-07-12T07:55:29,891 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 2021-07-12T07:55:29,892 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 2021-07-12T07:55:29,892 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 2021-07-12T07:55:29,892 Skipping link: not a file: https://pypi.org/simple/msmtools/ 2021-07-12T07:55:29,912 Given no hashes to check 1 links for project 'msmtools': discarding no candidates 2021-07-12T07:55:29,931 Collecting msmtools==1.2.1 2021-07-12T07:55:29,933 Created temporary directory: /tmp/pip-unpack-vf4zdqak 2021-07-12T07:55:30,345 Downloading msmtools-1.2.1.tar.gz (741 kB) 2021-07-12T07:55:31,084 Added msmtools==1.2.1 from https://files.pythonhosted.org/packages/c5/bb/79aa3617eed8eaea3c2639d172929079b680e1904d4e19b50d35612c5db3/msmtools-1.2.1.tar.gz#sha256=7282cec96360372e8440146dfe27848273bc3d83d18806ea56e3986a14d5bdec to build tracker '/tmp/pip-req-tracker-8iy7pzla' 2021-07-12T07:55:31,086 Running setup.py (path:/tmp/pip-wheel-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/setup.py) egg_info for package msmtools 2021-07-12T07:55:31,086 Created temporary directory: /tmp/pip-pip-egg-info-x8cxpxzx 2021-07-12T07:55:31,087 Running command python setup.py egg_info 2021-07-12T07:55:32,276 running egg_info 2021-07-12T07:55:32,279 creating /tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info 2021-07-12T07:55:32,280 writing /tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info/PKG-INFO 2021-07-12T07:55:32,283 writing dependency_links to /tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info/dependency_links.txt 2021-07-12T07:55:32,284 writing requirements to /tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info/requires.txt 2021-07-12T07:55:32,486 creating /tmp/hasfunction-0_ppf4_c/tmp 2021-07-12T07:55:32,486 creating /tmp/hasfunction-0_ppf4_c/tmp/hasfunction-0_ppf4_c 2021-07-12T07:55:32,487 cc -c /tmp/hasfunction-0_ppf4_c/funcname.c -o /tmp/hasfunction-0_ppf4_c/tmp/hasfunction-0_ppf4_c/funcname.o 2021-07-12T07:55:32,572 cc /tmp/hasfunction-0_ppf4_c/tmp/hasfunction-0_ppf4_c/funcname.o -o /tmp/hasfunction-0_ppf4_c/a.out 2021-07-12T07:55:32,691 creating /tmp/hasfunction-gommxsat/tmp 2021-07-12T07:55:32,691 creating /tmp/hasfunction-gommxsat/tmp/hasfunction-gommxsat 2021-07-12T07:55:32,692 cc -c /tmp/hasfunction-gommxsat/funcname.c -o /tmp/hasfunction-gommxsat/tmp/hasfunction-gommxsat/funcname.o 2021-07-12T07:55:32,779 cc /tmp/hasfunction-gommxsat/tmp/hasfunction-gommxsat/funcname.o -lgomp -o /tmp/hasfunction-gommxsat/a.out 2021-07-12T07:55:33,846 /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-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/msmtools/estimation/dense/mle_trev.pyx 2021-07-12T07:55:33,847 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T07:55:35,295 /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-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/msmtools/estimation/dense/mle_trev_given_pi.pyx 2021-07-12T07:55:35,295 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T07:55:36,681 /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-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/msmtools/estimation/dense/sampler_rev.pyx 2021-07-12T07:55:36,682 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T07:55:38,340 /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-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/msmtools/estimation/dense/sampler_revpi.pyx 2021-07-12T07:55:38,340 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T07:55:40,195 /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-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/msmtools/estimation/sparse/mle_trev.pyx 2021-07-12T07:55:40,196 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T07:55:41,713 /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-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/msmtools/estimation/sparse/mle_trev_given_pi.pyx 2021-07-12T07:55:41,713 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T07:55:43,127 /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-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/msmtools/util/kahandot_src/kahandot.pyx 2021-07-12T07:55:43,127 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T07:55:44,493 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. 2021-07-12T07:55:44,494 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. 2021-07-12T07:55:44,494 Compiling msmtools/estimation/dense/mle_trev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-12T07:55:44,494 Compiling msmtools/estimation/sparse/mle_trev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-12T07:55:44,494 Compiling msmtools/estimation/dense/sampler_rev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-12T07:55:44,494 Compiling msmtools/estimation/dense/sampler_revpi.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-12T07:55:44,495 Compiling msmtools/util/kahandot_src/kahandot.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-12T07:55:44,495 [1/7] Cythonizing msmtools/estimation/dense/mle_trev.pyx 2021-07-12T07:55:44,495 [2/7] Cythonizing msmtools/estimation/dense/mle_trev_given_pi.pyx 2021-07-12T07:55:44,495 [3/7] Cythonizing msmtools/estimation/dense/sampler_rev.pyx 2021-07-12T07:55:44,495 [4/7] Cythonizing msmtools/estimation/dense/sampler_revpi.pyx 2021-07-12T07:55:44,495 [5/7] Cythonizing msmtools/estimation/sparse/mle_trev.pyx 2021-07-12T07:55:44,495 [6/7] Cythonizing msmtools/estimation/sparse/mle_trev_given_pi.pyx 2021-07-12T07:55:44,496 [7/7] Cythonizing msmtools/util/kahandot_src/kahandot.pyx 2021-07-12T07:55:44,496 /tmp/pip-wheel-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/setup.py:164: UserWarning: enabled openmp 2021-07-12T07:55:44,496 warnings.warn('enabled openmp') 2021-07-12T07:55:44,496 writing top-level names to /tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info/top_level.txt 2021-07-12T07:55:44,497 writing manifest file '/tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info/SOURCES.txt' 2021-07-12T07:55:44,539 reading manifest file '/tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info/SOURCES.txt' 2021-07-12T07:55:44,541 reading manifest template 'MANIFEST.in' 2021-07-12T07:55:44,649 warning: no files found matching 'tests/data/*' under directory 'msmtools' 2021-07-12T07:55:44,704 warning: no files found matching 'testfiles/' under directory 'msmtools' 2021-07-12T07:55:44,973 adding license file 'LICENSE.txt' 2021-07-12T07:55:44,984 writing manifest file '/tmp/pip-pip-egg-info-x8cxpxzx/msmtools.egg-info/SOURCES.txt' 2021-07-12T07:55:45,175 Source in /tmp/pip-wheel-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e has version 1.2.1, which satisfies requirement msmtools==1.2.1 from https://files.pythonhosted.org/packages/c5/bb/79aa3617eed8eaea3c2639d172929079b680e1904d4e19b50d35612c5db3/msmtools-1.2.1.tar.gz#sha256=7282cec96360372e8440146dfe27848273bc3d83d18806ea56e3986a14d5bdec 2021-07-12T07:55:45,176 Removed msmtools==1.2.1 from https://files.pythonhosted.org/packages/c5/bb/79aa3617eed8eaea3c2639d172929079b680e1904d4e19b50d35612c5db3/msmtools-1.2.1.tar.gz#sha256=7282cec96360372e8440146dfe27848273bc3d83d18806ea56e3986a14d5bdec from build tracker '/tmp/pip-req-tracker-8iy7pzla' 2021-07-12T07:55:45,180 Created temporary directory: /tmp/pip-unpack-xinumt1i 2021-07-12T07:55:45,181 Building wheels for collected packages: msmtools 2021-07-12T07:55:45,185 Created temporary directory: /tmp/pip-wheel-ct9leirs 2021-07-12T07:55:45,186 Building wheel for msmtools (setup.py): started 2021-07-12T07:55:45,186 Destination directory: /tmp/pip-wheel-ct9leirs 2021-07-12T07:55:45,186 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/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-ct9leirs 2021-07-12T07:55:46,392 running bdist_wheel 2021-07-12T07:55:46,591 creating /tmp/hasfunction-lkcda505/tmp 2021-07-12T07:55:46,591 creating /tmp/hasfunction-lkcda505/tmp/hasfunction-lkcda505 2021-07-12T07:55:46,592 cc -c /tmp/hasfunction-lkcda505/funcname.c -o /tmp/hasfunction-lkcda505/tmp/hasfunction-lkcda505/funcname.o 2021-07-12T07:55:46,680 cc /tmp/hasfunction-lkcda505/tmp/hasfunction-lkcda505/funcname.o -o /tmp/hasfunction-lkcda505/a.out 2021-07-12T07:55:46,796 creating /tmp/hasfunction-l5noq6bq/tmp 2021-07-12T07:55:46,797 creating /tmp/hasfunction-l5noq6bq/tmp/hasfunction-l5noq6bq 2021-07-12T07:55:46,797 cc -c /tmp/hasfunction-l5noq6bq/funcname.c -o /tmp/hasfunction-l5noq6bq/tmp/hasfunction-l5noq6bq/funcname.o 2021-07-12T07:55:46,885 cc /tmp/hasfunction-l5noq6bq/tmp/hasfunction-l5noq6bq/funcname.o -lgomp -o /tmp/hasfunction-l5noq6bq/a.out 2021-07-12T07:55:47,802 /tmp/pip-wheel-auh137dn/msmtools_c786c5f85686406291acec6460d89d4e/setup.py:164: UserWarning: enabled openmp 2021-07-12T07:55:47,803 warnings.warn('enabled openmp') 2021-07-12T07:55:47,806 running build 2021-07-12T07:55:47,806 running build_py 2021-07-12T07:55:47,811 creating build 2021-07-12T07:55:47,812 creating build/lib.linux-armv7l-3.9 2021-07-12T07:55:47,812 creating build/lib.linux-armv7l-3.9/msmtools 2021-07-12T07:55:47,813 copying msmtools/_version.py -> build/lib.linux-armv7l-3.9/msmtools 2021-07-12T07:55:47,815 copying msmtools/__init__.py -> build/lib.linux-armv7l-3.9/msmtools 2021-07-12T07:55:47,817 creating build/lib.linux-armv7l-3.9/msmtools/util 2021-07-12T07:55:47,818 copying msmtools/util/exceptions.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-12T07:55:47,820 copying msmtools/util/types.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-12T07:55:47,822 copying msmtools/util/annotators.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-12T07:55:47,825 copying msmtools/util/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-12T07:55:47,826 copying msmtools/util/numeric.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-12T07:55:47,828 copying msmtools/util/statistics.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-12T07:55:47,831 creating build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-12T07:55:47,832 copying msmtools/estimation/api.py -> build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-12T07:55:47,836 copying msmtools/estimation/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-12T07:55:47,838 creating build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-12T07:55:47,839 copying msmtools/analysis/api.py -> build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-12T07:55:47,843 copying msmtools/analysis/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-12T07:55:47,845 creating build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-12T07:55:47,846 copying msmtools/dtraj/api.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-12T07:55:47,849 copying msmtools/dtraj/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-12T07:55:47,852 creating build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-12T07:55:47,852 copying msmtools/generation/api.py -> build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-12T07:55:47,855 copying msmtools/generation/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-12T07:55:47,858 creating build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-12T07:55:47,859 copying msmtools/flux/reactive_flux.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-12T07:55:47,861 copying msmtools/flux/reactive_flux_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-12T07:55:47,864 copying msmtools/flux/api.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-12T07:55:47,866 copying msmtools/flux/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-12T07:55:47,869 creating build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-12T07:55:47,870 copying msmtools/util/matrix/matrix_test.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-12T07:55:47,873 copying msmtools/util/matrix/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-12T07:55:47,875 copying msmtools/util/matrix/matrix.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-12T07:55:47,879 creating build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,879 copying msmtools/estimation/dense/tmatrix_sampler.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,881 copying msmtools/estimation/dense/transition_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,883 copying msmtools/estimation/dense/bootstrapping.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,886 copying msmtools/estimation/dense/sampler_nrev.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,887 copying msmtools/estimation/dense/tmatrix_sampler_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,890 copying msmtools/estimation/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,891 copying msmtools/estimation/dense/covariance.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,894 copying msmtools/estimation/dense/covariance_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,896 copying msmtools/estimation/dense/ratematrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:47,900 creating build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,901 copying msmtools/estimation/sparse/prior.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,903 copying msmtools/estimation/sparse/transition_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,905 copying msmtools/estimation/sparse/prior_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,907 copying msmtools/estimation/sparse/likelihood_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,909 copying msmtools/estimation/sparse/count_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,911 copying msmtools/estimation/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,913 copying msmtools/estimation/sparse/transition_matrix_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,915 copying msmtools/estimation/sparse/effective_counts.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,917 copying msmtools/estimation/sparse/connectivity_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,920 copying msmtools/estimation/sparse/connectivity.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,923 copying msmtools/estimation/sparse/likelihood.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:47,927 creating build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,928 copying msmtools/analysis/dense/pcca_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,930 copying msmtools/analysis/dense/correlations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,933 copying msmtools/analysis/dense/stationary_vector_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,935 copying msmtools/analysis/dense/pcca.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,938 copying msmtools/analysis/dense/decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,941 copying msmtools/analysis/dense/assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,943 copying msmtools/analysis/dense/sensitivity_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,945 copying msmtools/analysis/dense/correlations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,948 copying msmtools/analysis/dense/fingerprints_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,951 copying msmtools/analysis/dense/fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,953 copying msmtools/analysis/dense/committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,956 copying msmtools/analysis/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,957 copying msmtools/analysis/dense/mean_first_passage_time.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,959 copying msmtools/analysis/dense/assessment_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,961 copying msmtools/analysis/dense/birth_death_chain.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,964 copying msmtools/analysis/dense/mean_first_passage_time_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,966 copying msmtools/analysis/dense/decomposition_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,968 copying msmtools/analysis/dense/expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,971 copying msmtools/analysis/dense/stationary_vector.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,973 copying msmtools/analysis/dense/hitting_probability_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,976 copying msmtools/analysis/dense/committor_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,978 copying msmtools/analysis/dense/sensitivity.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,981 copying msmtools/analysis/dense/hitting_probability.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,983 copying msmtools/analysis/dense/expectations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-12T07:55:47,987 creating build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:47,988 copying msmtools/analysis/sparse/stationary_vector_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:47,990 copying msmtools/analysis/sparse/decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:47,993 copying msmtools/analysis/sparse/assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:47,995 copying msmtools/analysis/sparse/fingerprints_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:47,998 copying msmtools/analysis/sparse/fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,001 copying msmtools/analysis/sparse/committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,003 copying msmtools/analysis/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,005 copying msmtools/analysis/sparse/mean_first_passage_time.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,007 copying msmtools/analysis/sparse/assessment_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,010 copying msmtools/analysis/sparse/birth_death_chain.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,013 copying msmtools/analysis/sparse/mean_first_passage_time_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,015 copying msmtools/analysis/sparse/decomposition_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,018 copying msmtools/analysis/sparse/expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,020 copying msmtools/analysis/sparse/stationary_vector.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,023 copying msmtools/analysis/sparse/committor_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,026 copying msmtools/analysis/sparse/expectations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-12T07:55:48,029 creating build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-12T07:55:48,030 copying msmtools/flux/dense/tpt.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-12T07:55:48,033 copying msmtools/flux/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-12T07:55:48,034 copying msmtools/flux/dense/tpt_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-12T07:55:48,038 creating build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-12T07:55:48,039 copying msmtools/flux/sparse/tpt.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-12T07:55:48,042 copying msmtools/flux/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-12T07:55:48,044 copying msmtools/flux/sparse/pathways_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-12T07:55:48,046 copying msmtools/flux/sparse/pathways.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-12T07:55:48,048 copying msmtools/flux/sparse/tpt_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-12T07:55:48,056 creating build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,057 copying msmtools/analysis/tests/test_sensitivity.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,061 copying msmtools/analysis/tests/test_fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,064 copying msmtools/analysis/tests/test_assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,067 copying msmtools/analysis/tests/P_rev_251x251.dat -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,112 copying msmtools/analysis/tests/test_expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,115 copying msmtools/analysis/tests/test_decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,121 copying msmtools/analysis/tests/test_committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,124 copying msmtools/analysis/tests/test_mfpt.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,128 copying msmtools/analysis/tests/birth_death_chain.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-12T07:55:48,131 creating build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,133 copying msmtools/util/matrix/testfiles/spmatrix_float_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,135 copying msmtools/util/matrix/testfiles/spmatrix_float.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,138 copying msmtools/util/matrix/testfiles/spmatrix_complex.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,141 copying msmtools/util/matrix/testfiles/spmatrix_complex_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,144 copying msmtools/util/matrix/testfiles/matrix_complex.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,147 copying msmtools/util/matrix/testfiles/matrix_int.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,149 copying msmtools/util/matrix/testfiles/matrix_int.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,151 copying msmtools/util/matrix/testfiles/matrix_float.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,154 copying msmtools/util/matrix/testfiles/spmatrix_float.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,156 copying msmtools/util/matrix/testfiles/spmatrix_int.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,159 copying msmtools/util/matrix/testfiles/matrix_complex.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,161 copying msmtools/util/matrix/testfiles/spmatrix_int.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,164 copying msmtools/util/matrix/testfiles/spmatrix_int_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,168 copying msmtools/util/matrix/testfiles/matrix_float.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,390 copying msmtools/util/matrix/testfiles/spmatrix_complex.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-12T07:55:48,414 running build_ext 2021-07-12T07:55:48,418 building 'msmtools.estimation.dense.mle_trev_given_pi' extension 2021-07-12T07:55:48,419 creating build/temp.linux-armv7l-3.9 2021-07-12T07:55:48,419 creating build/temp.linux-armv7l-3.9/msmtools 2021-07-12T07:55:48,420 creating build/temp.linux-armv7l-3.9/msmtools/estimation 2021-07-12T07:55:48,420 creating build/temp.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-12T07:55:48,421 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 2021-07-12T07:55:48,821 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 2021-07-12T07:55:49,204 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T07:55:49,205 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T07:55:49,205 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T07:55:49,205 from msmtools/estimation/dense/mle_trev_given_pi.c:638: 2021-07-12T07:55:49,205 /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] 2021-07-12T07:55:49,205 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T07:55:49,205 | ^~~~~~~ 2021-07-12T07:55:52,171 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 2021-07-12T07:55:52,308 building 'msmtools.estimation.sparse.mle_trev_given_pi' extension 2021-07-12T07:55:52,309 creating build/temp.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-12T07:55:52,309 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 2021-07-12T07:55:52,671 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 2021-07-12T07:55:53,060 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T07:55:53,060 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T07:55:53,060 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T07:55:53,060 from msmtools/estimation/sparse/mle_trev_given_pi.c:639: 2021-07-12T07:55:53,060 /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] 2021-07-12T07:55:53,061 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T07:55:53,061 | ^~~~~~~ 2021-07-12T07:55:57,319 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 2021-07-12T07:55:57,459 building 'msmtools.estimation.dense.mle_trev' extension 2021-07-12T07:55:57,460 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 2021-07-12T07:55:57,837 msmtools/estimation/dense/_mle_trev.c: In function ‘_mle_trev_dense’: 2021-07-12T07:55:57,838 msmtools/estimation/dense/_mle_trev.c:62:27: warning: unused variable ‘value’ [-Wunused-variable] 2021-07-12T07:55:57,838 62 | double rel_err, x_norm, value; 2021-07-12T07:55:57,838 | ^~~~~ 2021-07-12T07:55:58,056 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 2021-07-12T07:55:58,441 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T07:55:58,441 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T07:55:58,441 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T07:55:58,442 from msmtools/estimation/dense/mle_trev.c:638: 2021-07-12T07:55:58,442 /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] 2021-07-12T07:55:58,442 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T07:55:58,442 | ^~~~~~~ 2021-07-12T07:56:02,133 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 2021-07-12T07:56:02,267 building 'msmtools.estimation.sparse.mle_trev' extension 2021-07-12T07:56:02,267 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 2021-07-12T07:56:02,655 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 2021-07-12T07:56:03,050 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T07:56:03,050 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T07:56:03,050 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T07:56:03,050 from msmtools/estimation/sparse/mle_trev.c:638: 2021-07-12T07:56:03,051 /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] 2021-07-12T07:56:03,051 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T07:56:03,051 | ^~~~~~~ 2021-07-12T07:56:07,423 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 2021-07-12T07:56:07,557 building 'msmtools.estimation.dense.sampler_rev' extension 2021-07-12T07:56:07,557 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 2021-07-12T07:56:07,721 msmtools/estimation/dense/_ranlib.c: In function ‘ignpoi’: 2021-07-12T07:56:07,721 msmtools/estimation/dense/_ranlib.c:1567:7: warning: variable ‘m’ set but not used [-Wunused-but-set-variable] 2021-07-12T07:56:07,721 1567 | int m; 2021-07-12T07:56:07,721 | ^ 2021-07-12T07:56:09,179 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 2021-07-12T07:56:09,298 msmtools/estimation/dense/_rnglib.c: In function ‘cgn_memory’: 2021-07-12T07:56:09,298 msmtools/estimation/dense/_rnglib.c:467:7: warning: unused variable ‘j’ [-Wunused-variable] 2021-07-12T07:56:09,298 467 | int j; 2021-07-12T07:56:09,299 | ^ 2021-07-12T07:56:09,305 msmtools/estimation/dense/_rnglib.c: In function ‘set_initial_seed’: 2021-07-12T07:56:09,306 msmtools/estimation/dense/_rnglib.c:1628:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-12T07:56:09,306 1628 | int i; 2021-07-12T07:56:09,306 | ^ 2021-07-12T07:56:09,306 msmtools/estimation/dense/_rnglib.c: In function ‘set_seed’: 2021-07-12T07:56:09,307 msmtools/estimation/dense/_rnglib.c:1727:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-12T07:56:09,307 1727 | int i; 2021-07-12T07:56:09,308 | ^ 2021-07-12T07:56:09,828 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 2021-07-12T07:56:10,428 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 2021-07-12T07:56:10,830 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T07:56:10,831 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T07:56:10,831 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T07:56:10,831 from msmtools/estimation/dense/sampler_rev.c:640: 2021-07-12T07:56:10,831 /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] 2021-07-12T07:56:10,831 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T07:56:10,831 | ^~~~~~~ 2021-07-12T07:56:19,257 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 2021-07-12T07:56:19,425 building 'msmtools.estimation.dense.sampler_revpi' extension 2021-07-12T07:56:19,426 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 2021-07-12T07:56:19,586 msmtools/estimation/dense/_ranlib.c: In function ‘ignpoi’: 2021-07-12T07:56:19,586 msmtools/estimation/dense/_ranlib.c:1567:7: warning: variable ‘m’ set but not used [-Wunused-but-set-variable] 2021-07-12T07:56:19,586 1567 | int m; 2021-07-12T07:56:19,586 | ^ 2021-07-12T07:56:21,049 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 2021-07-12T07:56:21,162 msmtools/estimation/dense/_rnglib.c: In function ‘cgn_memory’: 2021-07-12T07:56:21,162 msmtools/estimation/dense/_rnglib.c:467:7: warning: unused variable ‘j’ [-Wunused-variable] 2021-07-12T07:56:21,162 467 | int j; 2021-07-12T07:56:21,162 | ^ 2021-07-12T07:56:21,169 msmtools/estimation/dense/_rnglib.c: In function ‘set_initial_seed’: 2021-07-12T07:56:21,170 msmtools/estimation/dense/_rnglib.c:1628:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-12T07:56:21,170 1628 | int i; 2021-07-12T07:56:21,170 | ^ 2021-07-12T07:56:21,171 msmtools/estimation/dense/_rnglib.c: In function ‘set_seed’: 2021-07-12T07:56:21,172 msmtools/estimation/dense/_rnglib.c:1727:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-12T07:56:21,172 1727 | int i; 2021-07-12T07:56:21,173 | ^ 2021-07-12T07:56:21,693 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 2021-07-12T07:56:22,135 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 2021-07-12T07:56:22,523 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T07:56:22,523 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T07:56:22,523 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T07:56:22,523 from msmtools/estimation/dense/sampler_revpi.c:640: 2021-07-12T07:56:22,523 /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] 2021-07-12T07:56:22,523 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T07:56:22,524 | ^~~~~~~ 2021-07-12T07:56:31,851 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 2021-07-12T07:56:32,015 building 'msmtools.util.kahandot' extension 2021-07-12T07:56:32,016 creating build/temp.linux-armv7l-3.9/msmtools/util 2021-07-12T07:56:32,016 creating build/temp.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-12T07:56:32,018 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 2021-07-12T07:56:32,238 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 2021-07-12T07:56:32,621 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T07:56:32,621 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T07:56:32,621 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T07:56:32,622 from msmtools/util/kahandot_src/kahandot.c:637: 2021-07-12T07:56:32,622 /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] 2021-07-12T07:56:32,622 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T07:56:32,622 | ^~~~~~~ 2021-07-12T07:56:34,443 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 2021-07-12T07:56:34,586 installing to build/bdist.linux-armv7l/wheel 2021-07-12T07:56:34,586 running install 2021-07-12T07:56:34,588 running install_lib 2021-07-12T07:56:34,593 creating build/bdist.linux-armv7l 2021-07-12T07:56:34,593 creating build/bdist.linux-armv7l/wheel 2021-07-12T07:56:34,596 creating build/bdist.linux-armv7l/wheel/msmtools 2021-07-12T07:56:34,598 creating build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,599 copying build/lib.linux-armv7l-3.9/msmtools/util/exceptions.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,601 copying build/lib.linux-armv7l-3.9/msmtools/util/types.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,604 copying build/lib.linux-armv7l-3.9/msmtools/util/annotators.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,607 creating build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-12T07:56:34,609 creating build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,610 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,612 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,614 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,616 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,618 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_complex.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,621 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_int.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,623 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_int.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,625 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_float.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,628 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,630 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,632 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_complex.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,635 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,637 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,639 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_float.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,641 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-12T07:56:34,644 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/matrix_test.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-12T07:56:34,647 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-12T07:56:34,649 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-12T07:56:34,652 copying build/lib.linux-armv7l-3.9/msmtools/util/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,654 copying build/lib.linux-armv7l-3.9/msmtools/util/kahandot.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,660 copying build/lib.linux-armv7l-3.9/msmtools/util/numeric.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,663 copying build/lib.linux-armv7l-3.9/msmtools/util/statistics.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-12T07:56:34,665 copying build/lib.linux-armv7l-3.9/msmtools/_version.py -> build/bdist.linux-armv7l/wheel/msmtools 2021-07-12T07:56:34,668 creating build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-12T07:56:34,669 copying build/lib.linux-armv7l-3.9/msmtools/estimation/api.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-12T07:56:34,675 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,676 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 2021-07-12T07:56:34,687 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/tmatrix_sampler.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,690 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/transition_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,692 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/bootstrapping.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,694 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_nrev.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,696 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 2021-07-12T07:56:34,739 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/tmatrix_sampler_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,742 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,744 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 2021-07-12T07:56:34,753 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/covariance.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,756 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/covariance_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,758 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/ratematrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-12T07:56:34,762 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 2021-07-12T07:56:34,781 copying build/lib.linux-armv7l-3.9/msmtools/estimation/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-12T07:56:34,784 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,785 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 2021-07-12T07:56:34,796 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/prior.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,798 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/transition_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,800 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/prior_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,802 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/likelihood_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,803 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/count_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,805 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,807 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 2021-07-12T07:56:34,818 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/transition_matrix_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,820 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/effective_counts.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,823 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/connectivity_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,826 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/connectivity.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,829 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/likelihood.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-12T07:56:34,832 creating build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-12T07:56:34,833 copying build/lib.linux-armv7l-3.9/msmtools/analysis/api.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-12T07:56:34,839 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,840 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/pcca_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,843 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/correlations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,846 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/stationary_vector_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,848 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/pcca.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,851 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,855 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,857 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/sensitivity_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,860 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/correlations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,863 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/fingerprints_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,866 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,869 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,872 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,874 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/mean_first_passage_time.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,877 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/assessment_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,879 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,882 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/mean_first_passage_time_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,884 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/decomposition_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,887 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,890 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/stationary_vector.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,893 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/hitting_probability_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,895 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/committor_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,898 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/sensitivity.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,901 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/hitting_probability.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,903 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/expectations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-12T07:56:34,906 copying build/lib.linux-armv7l-3.9/msmtools/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-12T07:56:34,909 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,910 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_sensitivity.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,913 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,916 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,919 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/P_rev_251x251.dat -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,964 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,967 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,969 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,971 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_mfpt.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,973 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-12T07:56:34,976 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:34,977 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/stationary_vector_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:34,979 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:34,982 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:34,985 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/fingerprints_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:34,990 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,214 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,218 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,222 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/mean_first_passage_time.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,226 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/assessment_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,230 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,234 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/mean_first_passage_time_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,236 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/decomposition_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,239 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,242 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/stationary_vector.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,244 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/committor_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,247 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/expectations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-12T07:56:35,250 copying build/lib.linux-armv7l-3.9/msmtools/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools 2021-07-12T07:56:35,253 creating build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-12T07:56:35,254 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/api.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-12T07:56:35,257 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-12T07:56:35,260 creating build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-12T07:56:35,261 copying build/lib.linux-armv7l-3.9/msmtools/generation/api.py -> build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-12T07:56:35,264 copying build/lib.linux-armv7l-3.9/msmtools/generation/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-12T07:56:35,267 creating build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-12T07:56:35,268 copying build/lib.linux-armv7l-3.9/msmtools/flux/reactive_flux.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-12T07:56:35,272 copying build/lib.linux-armv7l-3.9/msmtools/flux/reactive_flux_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-12T07:56:35,275 copying build/lib.linux-armv7l-3.9/msmtools/flux/api.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-12T07:56:35,279 creating build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-12T07:56:35,280 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/tpt.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-12T07:56:35,283 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-12T07:56:35,286 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/tpt_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-12T07:56:35,289 copying build/lib.linux-armv7l-3.9/msmtools/flux/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-12T07:56:35,292 creating build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-12T07:56:35,293 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/tpt.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-12T07:56:35,296 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-12T07:56:35,298 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/pathways_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-12T07:56:35,301 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/pathways.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-12T07:56:35,304 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/tpt_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-12T07:56:35,306 running install_egg_info 2021-07-12T07:56:35,330 running egg_info 2021-07-12T07:56:35,331 writing msmtools.egg-info/PKG-INFO 2021-07-12T07:56:35,334 writing dependency_links to msmtools.egg-info/dependency_links.txt 2021-07-12T07:56:35,336 writing requirements to msmtools.egg-info/requires.txt 2021-07-12T07:56:35,337 writing top-level names to msmtools.egg-info/top_level.txt 2021-07-12T07:56:35,377 reading manifest file 'msmtools.egg-info/SOURCES.txt' 2021-07-12T07:56:35,395 reading manifest template 'MANIFEST.in' 2021-07-12T07:56:35,505 warning: no files found matching 'tests/data/*' under directory 'msmtools' 2021-07-12T07:56:35,558 warning: no files found matching 'testfiles/' under directory 'msmtools' 2021-07-12T07:56:35,839 adding license file 'LICENSE.txt' 2021-07-12T07:56:35,854 writing manifest file 'msmtools.egg-info/SOURCES.txt' 2021-07-12T07:56:35,856 Copying msmtools.egg-info to build/bdist.linux-armv7l/wheel/msmtools-1.2.1-py3.9.egg-info 2021-07-12T07:56:35,872 running install_scripts 2021-07-12T07:56:35,921 adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*") 2021-07-12T07:56:35,926 creating build/bdist.linux-armv7l/wheel/msmtools-1.2.1.dist-info/WHEEL 2021-07-12T07:56:35,929 creating '/tmp/pip-wheel-ct9leirs/msmtools-1.2.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-12T07:56:35,932 adding 'msmtools/__init__.py' 2021-07-12T07:56:35,934 adding 'msmtools/_version.py' 2021-07-12T07:56:35,936 adding 'msmtools/analysis/__init__.py' 2021-07-12T07:56:35,944 adding 'msmtools/analysis/api.py' 2021-07-12T07:56:35,948 adding 'msmtools/analysis/dense/__init__.py' 2021-07-12T07:56:35,949 adding 'msmtools/analysis/dense/assessment.py' 2021-07-12T07:56:35,950 adding 'msmtools/analysis/dense/assessment_test.py' 2021-07-12T07:56:35,952 adding 'msmtools/analysis/dense/birth_death_chain.py' 2021-07-12T07:56:35,954 adding 'msmtools/analysis/dense/committor.py' 2021-07-12T07:56:35,955 adding 'msmtools/analysis/dense/committor_test.py' 2021-07-12T07:56:35,957 adding 'msmtools/analysis/dense/correlations.py' 2021-07-12T07:56:35,959 adding 'msmtools/analysis/dense/correlations_test.py' 2021-07-12T07:56:35,961 adding 'msmtools/analysis/dense/decomposition.py' 2021-07-12T07:56:35,963 adding 'msmtools/analysis/dense/decomposition_test.py' 2021-07-12T07:56:35,965 adding 'msmtools/analysis/dense/expectations.py' 2021-07-12T07:56:35,966 adding 'msmtools/analysis/dense/expectations_test.py' 2021-07-12T07:56:35,968 adding 'msmtools/analysis/dense/fingerprints.py' 2021-07-12T07:56:35,970 adding 'msmtools/analysis/dense/fingerprints_test.py' 2021-07-12T07:56:35,972 adding 'msmtools/analysis/dense/hitting_probability.py' 2021-07-12T07:56:35,973 adding 'msmtools/analysis/dense/hitting_probability_test.py' 2021-07-12T07:56:35,974 adding 'msmtools/analysis/dense/mean_first_passage_time.py' 2021-07-12T07:56:35,976 adding 'msmtools/analysis/dense/mean_first_passage_time_test.py' 2021-07-12T07:56:35,979 adding 'msmtools/analysis/dense/pcca.py' 2021-07-12T07:56:35,980 adding 'msmtools/analysis/dense/pcca_test.py' 2021-07-12T07:56:35,982 adding 'msmtools/analysis/dense/sensitivity.py' 2021-07-12T07:56:35,984 adding 'msmtools/analysis/dense/sensitivity_test.py' 2021-07-12T07:56:35,986 adding 'msmtools/analysis/dense/stationary_vector.py' 2021-07-12T07:56:35,987 adding 'msmtools/analysis/dense/stationary_vector_test.py' 2021-07-12T07:56:35,989 adding 'msmtools/analysis/sparse/__init__.py' 2021-07-12T07:56:35,991 adding 'msmtools/analysis/sparse/assessment.py' 2021-07-12T07:56:35,992 adding 'msmtools/analysis/sparse/assessment_test.py' 2021-07-12T07:56:35,994 adding 'msmtools/analysis/sparse/birth_death_chain.py' 2021-07-12T07:56:35,995 adding 'msmtools/analysis/sparse/committor.py' 2021-07-12T07:56:35,997 adding 'msmtools/analysis/sparse/committor_test.py' 2021-07-12T07:56:35,999 adding 'msmtools/analysis/sparse/decomposition.py' 2021-07-12T07:56:36,001 adding 'msmtools/analysis/sparse/decomposition_test.py' 2021-07-12T07:56:36,002 adding 'msmtools/analysis/sparse/expectations.py' 2021-07-12T07:56:36,004 adding 'msmtools/analysis/sparse/expectations_test.py' 2021-07-12T07:56:36,006 adding 'msmtools/analysis/sparse/fingerprints.py' 2021-07-12T07:56:36,007 adding 'msmtools/analysis/sparse/fingerprints_test.py' 2021-07-12T07:56:36,009 adding 'msmtools/analysis/sparse/mean_first_passage_time.py' 2021-07-12T07:56:36,010 adding 'msmtools/analysis/sparse/mean_first_passage_time_test.py' 2021-07-12T07:56:36,012 adding 'msmtools/analysis/sparse/stationary_vector.py' 2021-07-12T07:56:36,013 adding 'msmtools/analysis/sparse/stationary_vector_test.py' 2021-07-12T07:56:36,093 adding 'msmtools/analysis/tests/P_rev_251x251.dat' 2021-07-12T07:56:36,108 adding 'msmtools/analysis/tests/birth_death_chain.py' 2021-07-12T07:56:36,109 adding 'msmtools/analysis/tests/test_assessment.py' 2021-07-12T07:56:36,111 adding 'msmtools/analysis/tests/test_committor.py' 2021-07-12T07:56:36,113 adding 'msmtools/analysis/tests/test_decomposition.py' 2021-07-12T07:56:36,114 adding 'msmtools/analysis/tests/test_expectations.py' 2021-07-12T07:56:36,116 adding 'msmtools/analysis/tests/test_fingerprints.py' 2021-07-12T07:56:36,118 adding 'msmtools/analysis/tests/test_mfpt.py' 2021-07-12T07:56:36,119 adding 'msmtools/analysis/tests/test_sensitivity.py' 2021-07-12T07:56:36,121 adding 'msmtools/dtraj/__init__.py' 2021-07-12T07:56:36,124 adding 'msmtools/dtraj/api.py' 2021-07-12T07:56:36,126 adding 'msmtools/estimation/__init__.py' 2021-07-12T07:56:36,132 adding 'msmtools/estimation/api.py' 2021-07-12T07:56:36,135 adding 'msmtools/estimation/dense/__init__.py' 2021-07-12T07:56:36,136 adding 'msmtools/estimation/dense/bootstrapping.py' 2021-07-12T07:56:36,138 adding 'msmtools/estimation/dense/covariance.py' 2021-07-12T07:56:36,139 adding 'msmtools/estimation/dense/covariance_test.py' 2021-07-12T07:56:36,196 adding 'msmtools/estimation/dense/mle_trev.cpython-39-arm-linux-gnueabihf.so' 2021-07-12T07:56:36,241 adding 'msmtools/estimation/dense/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so' 2021-07-12T07:56:36,245 adding 'msmtools/estimation/dense/ratematrix.py' 2021-07-12T07:56:36,247 adding 'msmtools/estimation/dense/sampler_nrev.py' 2021-07-12T07:56:36,394 adding 'msmtools/estimation/dense/sampler_rev.cpython-39-arm-linux-gnueabihf.so' 2021-07-12T07:56:36,552 adding 'msmtools/estimation/dense/sampler_revpi.cpython-39-arm-linux-gnueabihf.so' 2021-07-12T07:56:36,559 adding 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/tmp/pip-ephem-wheel-cache-6pq2fniq/wheels/64/27/f9/1849661e9be41cb16089ac9f7c67eb0fa287942729d37996f9 2021-07-12T07:56:37,051 Successfully built msmtools 2021-07-12T07:56:37,098 Removed build tracker: '/tmp/pip-req-tracker-8iy7pzla'