2021-07-13T17:34:29,341 Created temporary directory: /tmp/pip-ephem-wheel-cache-7vg_pn3f 2021-07-13T17:34:29,344 Created temporary directory: /tmp/pip-req-tracker-x71_dnyb 2021-07-13T17:34:29,344 Initialized build tracking at /tmp/pip-req-tracker-x71_dnyb 2021-07-13T17:34:29,344 Created build tracker: /tmp/pip-req-tracker-x71_dnyb 2021-07-13T17:34:29,344 Entered build tracker: /tmp/pip-req-tracker-x71_dnyb 2021-07-13T17:34:29,345 Created temporary directory: /tmp/pip-wheel-259_ayeo 2021-07-13T17:34:29,374 1 location(s) to search for versions of msmtools: 2021-07-13T17:34:29,374 * https://pypi.org/simple/msmtools/ 2021-07-13T17:34:29,374 Fetching project page and analyzing links: https://pypi.org/simple/msmtools/ 2021-07-13T17:34:29,375 Getting page https://pypi.org/simple/msmtools/ 2021-07-13T17:34:29,376 Found index url https://pypi.org/simple 2021-07-13T17:34:29,570 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 2021-07-13T17:34:29,571 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 2021-07-13T17:34:29,571 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 2021-07-13T17:34:29,571 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 2021-07-13T17:34:29,572 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 2021-07-13T17:34:29,572 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 2021-07-13T17:34:29,572 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 2021-07-13T17:34:29,572 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 2021-07-13T17:34:29,573 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 2021-07-13T17:34:29,573 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 2021-07-13T17:34:29,573 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 2021-07-13T17:34:29,573 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 2021-07-13T17:34:29,574 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 2021-07-13T17:34:29,574 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 2021-07-13T17:34:29,574 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 2021-07-13T17:34:29,575 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 2021-07-13T17:34:29,575 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 2021-07-13T17:34:29,575 Skipping link: not a file: https://pypi.org/simple/msmtools/ 2021-07-13T17:34:29,595 Given no hashes to check 1 links for project 'msmtools': discarding no candidates 2021-07-13T17:34:29,617 Collecting msmtools==1.2.3 2021-07-13T17:34:29,618 Created temporary directory: /tmp/pip-unpack-itd4x0y2 2021-07-13T17:34:30,100 Downloading msmtools-1.2.3.tar.gz (888 kB) 2021-07-13T17:34:30,936 Added msmtools==1.2.3 from https://files.pythonhosted.org/packages/53/84/416bd9c21c408ef59953804c1b4ec805950adfd89102c43c54685b6f3cdf/msmtools-1.2.3.tar.gz#sha256=3f3c39a4558887575dd2bfdb0711b6d073446cb0b8767eafda16bfe0b92409c9 to build tracker '/tmp/pip-req-tracker-x71_dnyb' 2021-07-13T17:34:30,938 Running setup.py (path:/tmp/pip-wheel-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/setup.py) egg_info for package msmtools 2021-07-13T17:34:30,938 Created temporary directory: /tmp/pip-pip-egg-info-ef4hi8nz 2021-07-13T17:34:30,939 Running command python setup.py egg_info 2021-07-13T17:34:32,413 running egg_info 2021-07-13T17:34:32,415 creating /tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info 2021-07-13T17:34:32,416 writing /tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info/PKG-INFO 2021-07-13T17:34:32,419 writing dependency_links to /tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info/dependency_links.txt 2021-07-13T17:34:32,421 writing requirements to /tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info/requires.txt 2021-07-13T17:34:33,428 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/estimation/dense/mle_trev.pyx 2021-07-13T17:34:33,429 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:34,849 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/estimation/dense/mle_trev_given_pi.pyx 2021-07-13T17:34:34,849 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:36,215 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/estimation/dense/sampler_rev.pyx 2021-07-13T17:34:36,215 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:37,833 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/estimation/dense/sampler_revpi.pyx 2021-07-13T17:34:37,834 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:39,646 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/estimation/sparse/mle_trev.pyx 2021-07-13T17:34:39,646 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:41,131 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/estimation/sparse/mle_trev_given_pi.pyx 2021-07-13T17:34:41,132 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:42,519 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/estimation/sparse/newton/objective_sparse.pyx 2021-07-13T17:34:42,520 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:44,551 /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-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/msmtools/util/kahandot_src/kahandot.pyx 2021-07-13T17:34:44,552 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-13T17:34:45,797 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. 2021-07-13T17:34:45,798 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. 2021-07-13T17:34:45,798 Compiling msmtools/estimation/dense/mle_trev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-13T17:34:45,798 Compiling msmtools/estimation/sparse/mle_trev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-13T17:34:45,798 Compiling msmtools/estimation/sparse/newton/objective_sparse.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-13T17:34:45,798 Compiling msmtools/estimation/dense/sampler_rev.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-13T17:34:45,798 Compiling msmtools/estimation/dense/sampler_revpi.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-13T17:34:45,798 Compiling msmtools/util/kahandot_src/kahandot.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-13T17:34:45,799 [1/8] Cythonizing msmtools/estimation/dense/mle_trev.pyx 2021-07-13T17:34:45,799 [2/8] Cythonizing msmtools/estimation/dense/mle_trev_given_pi.pyx 2021-07-13T17:34:45,799 [3/8] Cythonizing msmtools/estimation/dense/sampler_rev.pyx 2021-07-13T17:34:45,799 [4/8] Cythonizing msmtools/estimation/dense/sampler_revpi.pyx 2021-07-13T17:34:45,799 [5/8] Cythonizing msmtools/estimation/sparse/mle_trev.pyx 2021-07-13T17:34:45,799 [6/8] Cythonizing msmtools/estimation/sparse/mle_trev_given_pi.pyx 2021-07-13T17:34:45,799 [7/8] Cythonizing msmtools/estimation/sparse/newton/objective_sparse.pyx 2021-07-13T17:34:45,799 [8/8] Cythonizing msmtools/util/kahandot_src/kahandot.pyx 2021-07-13T17:34:45,800 writing top-level names to /tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info/top_level.txt 2021-07-13T17:34:45,800 writing manifest file '/tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info/SOURCES.txt' 2021-07-13T17:34:45,843 reading manifest file '/tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info/SOURCES.txt' 2021-07-13T17:34:45,845 reading manifest template 'MANIFEST.in' 2021-07-13T17:34:46,245 adding license file 'LICENSE.txt' 2021-07-13T17:34:46,257 writing manifest file '/tmp/pip-pip-egg-info-ef4hi8nz/msmtools.egg-info/SOURCES.txt' 2021-07-13T17:34:46,497 Source in /tmp/pip-wheel-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc has version 1.2.3, which satisfies requirement msmtools==1.2.3 from https://files.pythonhosted.org/packages/53/84/416bd9c21c408ef59953804c1b4ec805950adfd89102c43c54685b6f3cdf/msmtools-1.2.3.tar.gz#sha256=3f3c39a4558887575dd2bfdb0711b6d073446cb0b8767eafda16bfe0b92409c9 2021-07-13T17:34:46,498 Removed msmtools==1.2.3 from https://files.pythonhosted.org/packages/53/84/416bd9c21c408ef59953804c1b4ec805950adfd89102c43c54685b6f3cdf/msmtools-1.2.3.tar.gz#sha256=3f3c39a4558887575dd2bfdb0711b6d073446cb0b8767eafda16bfe0b92409c9 from build tracker '/tmp/pip-req-tracker-x71_dnyb' 2021-07-13T17:34:46,502 Created temporary directory: /tmp/pip-unpack-vitdhft_ 2021-07-13T17:34:46,503 Building wheels for collected packages: msmtools 2021-07-13T17:34:46,506 Created temporary directory: /tmp/pip-wheel-jpovi8xm 2021-07-13T17:34:46,507 Building wheel for msmtools (setup.py): started 2021-07-13T17:34:46,507 Destination directory: /tmp/pip-wheel-jpovi8xm 2021-07-13T17:34:46,507 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/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-jpovi8xm 2021-07-13T17:34:47,927 running bdist_wheel 2021-07-13T17:34:48,733 running build 2021-07-13T17:34:48,733 running build_py 2021-07-13T17:34:48,738 creating build 2021-07-13T17:34:48,739 creating build/lib.linux-armv7l-3.9 2021-07-13T17:34:48,739 creating build/lib.linux-armv7l-3.9/msmtools 2021-07-13T17:34:48,740 copying msmtools/_version.py -> build/lib.linux-armv7l-3.9/msmtools 2021-07-13T17:34:48,742 copying msmtools/__init__.py -> build/lib.linux-armv7l-3.9/msmtools 2021-07-13T17:34:48,744 creating build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-13T17:34:48,745 copying msmtools/estimation/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-13T17:34:48,747 copying msmtools/estimation/api.py -> build/lib.linux-armv7l-3.9/msmtools/estimation 2021-07-13T17:34:48,751 creating build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-13T17:34:48,752 copying msmtools/analysis/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-13T17:34:48,754 copying msmtools/analysis/api.py -> build/lib.linux-armv7l-3.9/msmtools/analysis 2021-07-13T17:34:48,759 creating build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-13T17:34:48,760 copying msmtools/flux/reactive_flux.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-13T17:34:48,762 copying msmtools/flux/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-13T17:34:48,764 copying msmtools/flux/reactive_flux_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-13T17:34:48,767 copying msmtools/flux/api.py -> build/lib.linux-armv7l-3.9/msmtools/flux 2021-07-13T17:34:48,770 creating build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,771 copying msmtools/util/statistics.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,774 copying msmtools/util/numeric.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,776 copying msmtools/util/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,777 copying msmtools/util/birth_death_chain.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,780 copying msmtools/util/types.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,782 copying msmtools/util/annotators.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,784 copying msmtools/util/exceptions.py -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:48,787 creating build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-13T17:34:48,788 copying msmtools/generation/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-13T17:34:48,790 copying msmtools/generation/api.py -> build/lib.linux-armv7l-3.9/msmtools/generation 2021-07-13T17:34:48,793 creating build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-13T17:34:48,794 copying msmtools/dtraj/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-13T17:34:48,796 copying msmtools/dtraj/api.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj 2021-07-13T17:34:48,800 creating build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,801 copying msmtools/estimation/tests/test_effective_count_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,803 copying msmtools/estimation/tests/test_count_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,806 copying msmtools/estimation/tests/test_ratematrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,808 copying msmtools/estimation/tests/test_likelihood.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,810 copying msmtools/estimation/tests/test_mle_trev.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,812 copying msmtools/estimation/tests/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,814 copying msmtools/estimation/tests/test_prior.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,816 copying msmtools/estimation/tests/test_connectivity.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,818 copying msmtools/estimation/tests/test_transition_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,821 copying msmtools/estimation/tests/test_mle_trev_given_pi.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,823 copying msmtools/estimation/tests/test_bootstrapping.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,825 copying msmtools/estimation/tests/test_tmatrix_sampling.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:48,829 creating build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,830 copying msmtools/estimation/sparse/connectivity_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,832 copying msmtools/estimation/sparse/connectivity.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,835 copying msmtools/estimation/sparse/prior_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,837 copying msmtools/estimation/sparse/effective_counts.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,839 copying msmtools/estimation/sparse/likelihood_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,841 copying msmtools/estimation/sparse/prior.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,843 copying msmtools/estimation/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,845 copying msmtools/estimation/sparse/transition_matrix_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,847 copying msmtools/estimation/sparse/count_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,849 copying msmtools/estimation/sparse/likelihood.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,851 copying msmtools/estimation/sparse/transition_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:48,854 creating build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,855 copying msmtools/estimation/dense/bootstrapping.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,857 copying msmtools/estimation/dense/ratematrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,860 copying msmtools/estimation/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,862 copying msmtools/estimation/dense/covariance.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,864 copying msmtools/estimation/dense/covariance_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,867 copying msmtools/estimation/dense/sampler_nrev.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,869 copying msmtools/estimation/dense/tmatrix_sampler.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,871 copying msmtools/estimation/dense/tmatrix_sampler_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,872 copying msmtools/estimation/dense/transition_matrix.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:48,875 creating build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:48,876 copying msmtools/estimation/sparse/newton/linsolve_sparse.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:48,879 copying msmtools/estimation/sparse/newton/mle_rev.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:48,881 copying msmtools/estimation/sparse/newton/mle_rev_test.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:48,883 copying msmtools/estimation/sparse/newton/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:48,885 copying msmtools/estimation/sparse/newton/objective_dense.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:48,888 copying msmtools/estimation/sparse/newton/linsolve.py -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:48,891 creating build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,892 copying msmtools/analysis/tests/test_fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,895 copying msmtools/analysis/tests/test_committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,897 copying msmtools/analysis/tests/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,898 copying msmtools/analysis/tests/test_sensitivity.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,900 copying msmtools/analysis/tests/test_decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,903 copying msmtools/analysis/tests/test_expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,906 copying msmtools/analysis/tests/test_assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,908 copying msmtools/analysis/tests/test_mfpt.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:48,912 creating build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,913 copying msmtools/analysis/sparse/expectations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,915 copying msmtools/analysis/sparse/decomposition_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,918 copying msmtools/analysis/sparse/fingerprints_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,920 copying msmtools/analysis/sparse/committor_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,922 copying msmtools/analysis/sparse/assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,925 copying msmtools/analysis/sparse/stationary_vector.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,927 copying msmtools/analysis/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,929 copying msmtools/analysis/sparse/mean_first_passage_time.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,931 copying msmtools/analysis/sparse/expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,933 copying msmtools/analysis/sparse/committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,936 copying msmtools/analysis/sparse/assessment_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,938 copying msmtools/analysis/sparse/stationary_vector_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,940 copying msmtools/analysis/sparse/fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,943 copying msmtools/analysis/sparse/mean_first_passage_time_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,945 copying msmtools/analysis/sparse/decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/sparse 2021-07-13T17:34:48,949 creating build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,950 copying msmtools/analysis/dense/correlations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,953 copying msmtools/analysis/dense/expectations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,955 copying msmtools/analysis/dense/decomposition_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,958 copying msmtools/analysis/dense/fingerprints_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,961 copying msmtools/analysis/dense/pcca.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,964 copying msmtools/analysis/dense/committor_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,965 copying msmtools/analysis/dense/assessment.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,967 copying msmtools/analysis/dense/hitting_probability_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,969 copying msmtools/analysis/dense/stationary_vector.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,972 copying msmtools/analysis/dense/hitting_probability.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,974 copying msmtools/analysis/dense/correlations_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,976 copying msmtools/analysis/dense/sensitivity_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,979 copying msmtools/analysis/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,981 copying msmtools/analysis/dense/mean_first_passage_time.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,983 copying msmtools/analysis/dense/pcca_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,985 copying msmtools/analysis/dense/sensitivity.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,988 copying msmtools/analysis/dense/expectations.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,990 copying msmtools/analysis/dense/committor.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,993 copying msmtools/analysis/dense/assessment_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,995 copying msmtools/analysis/dense/stationary_vector_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,997 copying msmtools/analysis/dense/fingerprints.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:48,999 copying msmtools/analysis/dense/mean_first_passage_time_test.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:49,001 copying msmtools/analysis/dense/decomposition.py -> build/lib.linux-armv7l-3.9/msmtools/analysis/dense 2021-07-13T17:34:49,005 creating build/lib.linux-armv7l-3.9/msmtools/flux/tests 2021-07-13T17:34:49,005 copying msmtools/flux/tests/test_pathways.py -> build/lib.linux-armv7l-3.9/msmtools/flux/tests 2021-07-13T17:34:49,008 copying msmtools/flux/tests/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux/tests 2021-07-13T17:34:49,009 copying msmtools/flux/tests/test_tpt.py -> build/lib.linux-armv7l-3.9/msmtools/flux/tests 2021-07-13T17:34:49,013 creating build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-13T17:34:49,014 copying msmtools/flux/sparse/pathways.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-13T17:34:49,016 copying msmtools/flux/sparse/tpt.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-13T17:34:49,019 copying msmtools/flux/sparse/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-13T17:34:49,020 copying msmtools/flux/sparse/tpt_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-13T17:34:49,022 copying msmtools/flux/sparse/pathways_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/sparse 2021-07-13T17:34:49,025 creating build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-13T17:34:49,026 copying msmtools/flux/dense/tpt.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-13T17:34:49,029 copying msmtools/flux/dense/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-13T17:34:49,030 copying msmtools/flux/dense/tpt_test.py -> build/lib.linux-armv7l-3.9/msmtools/flux/dense 2021-07-13T17:34:49,033 creating build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-13T17:34:49,034 copying msmtools/util/matrix/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-13T17:34:49,036 copying msmtools/util/matrix/matrix_test.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-13T17:34:49,039 copying msmtools/util/matrix/matrix.py -> build/lib.linux-armv7l-3.9/msmtools/util/matrix 2021-07-13T17:34:49,042 creating build/lib.linux-armv7l-3.9/msmtools/generation/tests 2021-07-13T17:34:49,043 copying msmtools/generation/tests/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/generation/tests 2021-07-13T17:34:49,044 copying msmtools/generation/tests/test_generation.py -> build/lib.linux-armv7l-3.9/msmtools/generation/tests 2021-07-13T17:34:49,047 creating build/lib.linux-armv7l-3.9/msmtools/dtraj/tests 2021-07-13T17:34:49,048 copying msmtools/dtraj/tests/test_trajectory.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj/tests 2021-07-13T17:34:49,050 copying msmtools/dtraj/tests/__init__.py -> build/lib.linux-armv7l-3.9/msmtools/dtraj/tests 2021-07-13T17:34:49,051 running egg_info 2021-07-13T17:34:49,062 writing msmtools.egg-info/PKG-INFO 2021-07-13T17:34:49,064 writing dependency_links to msmtools.egg-info/dependency_links.txt 2021-07-13T17:34:49,066 writing requirements to msmtools.egg-info/requires.txt 2021-07-13T17:34:49,067 writing top-level names to msmtools.egg-info/top_level.txt 2021-07-13T17:34:49,090 reading manifest file 'msmtools.egg-info/SOURCES.txt' 2021-07-13T17:34:49,096 reading manifest template 'MANIFEST.in' 2021-07-13T17:34:49,480 adding license file 'LICENSE.txt' 2021-07-13T17:34:49,497 writing manifest file 'msmtools.egg-info/SOURCES.txt' 2021-07-13T17:34:49,512 copying msmtools/analysis/tests/P_rev_251x251.dat -> build/lib.linux-armv7l-3.9/msmtools/analysis/tests 2021-07-13T17:34:49,546 copying msmtools/util/sigint_handler.h -> build/lib.linux-armv7l-3.9/msmtools/util 2021-07-13T17:34:49,548 creating build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-13T17:34:49,549 copying msmtools/util/kahandot_src/_kahandot.c -> build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-13T17:34:49,551 copying msmtools/util/kahandot_src/_kahandot.h -> build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-13T17:34:49,553 copying msmtools/util/kahandot_src/kahandot.c -> build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-13T17:34:49,561 copying msmtools/util/kahandot_src/kahandot.pyx -> build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-13T17:34:49,563 copying msmtools/estimation/tests/test_transition_matrix.py.orig -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests 2021-07-13T17:34:49,566 creating build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,567 copying msmtools/estimation/tests/testfiles/C_13_lag.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,569 copying msmtools/estimation/tests/testfiles/C_13_sliding.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,571 copying msmtools/estimation/tests/testfiles/C_1_lag.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,574 copying msmtools/estimation/tests/testfiles/C_1_sliding.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,576 copying msmtools/estimation/tests/testfiles/C_7_lag.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,579 copying msmtools/estimation/tests/testfiles/C_7_sliding.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,581 copying msmtools/estimation/tests/testfiles/dtraj.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,585 copying msmtools/estimation/tests/testfiles/dwell.npz -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,609 copying msmtools/estimation/tests/testfiles/pi.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles 2021-07-13T17:34:49,612 copying msmtools/estimation/sparse/_mle_trev.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,614 copying msmtools/estimation/sparse/_mle_trev.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,617 copying msmtools/estimation/sparse/_mle_trev_given_pi.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,619 copying msmtools/estimation/sparse/_mle_trev_given_pi.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,621 copying msmtools/estimation/sparse/mle_trev.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,632 copying msmtools/estimation/sparse/mle_trev.pyx -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,635 copying msmtools/estimation/sparse/mle_trev_given_pi.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,647 copying msmtools/estimation/sparse/mle_trev_given_pi.pyx -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:49,649 copying msmtools/estimation/dense/_mle_trev.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,652 copying msmtools/estimation/dense/_mle_trev.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,654 copying msmtools/estimation/dense/_mle_trev_given_pi.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,656 copying msmtools/estimation/dense/_mle_trev_given_pi.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,659 copying msmtools/estimation/dense/mle_trev.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,669 copying msmtools/estimation/dense/mle_trev.pyx -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,671 copying msmtools/estimation/dense/mle_trev_given_pi.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,679 copying msmtools/estimation/dense/mle_trev_given_pi.pyx -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,681 copying msmtools/estimation/dense/sample_rev.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,684 copying msmtools/estimation/dense/sample_rev.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,687 copying msmtools/estimation/dense/sample_revpi.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,690 copying msmtools/estimation/dense/sample_revpi.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,692 copying msmtools/estimation/dense/sampler_rev.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,706 copying msmtools/estimation/dense/sampler_rev.pyx -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,708 copying msmtools/estimation/dense/sampler_revpi.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,726 copying msmtools/estimation/dense/sampler_revpi.pyx -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,729 copying msmtools/estimation/dense/util.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:49,731 creating build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib 2021-07-13T17:34:49,732 copying msmtools/estimation/dense/rnglib/ranlib.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib 2021-07-13T17:34:49,737 copying msmtools/estimation/dense/rnglib/ranlib.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib 2021-07-13T17:34:49,739 copying msmtools/estimation/dense/rnglib/rnglib.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib 2021-07-13T17:34:49,742 copying msmtools/estimation/dense/rnglib/rnglib.h -> build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib 2021-07-13T17:34:49,745 copying msmtools/estimation/sparse/newton/objective_sparse.c -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:49,762 copying msmtools/estimation/sparse/newton/objective_sparse.pyx -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:34:49,765 creating build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/testfiles 2021-07-13T17:34:49,766 copying msmtools/estimation/sparse/newton/testfiles/C.dat -> build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/testfiles 2021-07-13T17:34:49,777 creating build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,777 copying msmtools/util/matrix/testfiles/matrix_complex.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,780 copying msmtools/util/matrix/testfiles/matrix_complex.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,782 copying msmtools/util/matrix/testfiles/matrix_float.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,785 copying msmtools/util/matrix/testfiles/matrix_float.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,787 copying msmtools/util/matrix/testfiles/matrix_int.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,789 copying msmtools/util/matrix/testfiles/matrix_int.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,791 copying msmtools/util/matrix/testfiles/spmatrix_complex.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,794 copying msmtools/util/matrix/testfiles/spmatrix_complex.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,797 copying msmtools/util/matrix/testfiles/spmatrix_complex_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,800 copying msmtools/util/matrix/testfiles/spmatrix_float.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,802 copying msmtools/util/matrix/testfiles/spmatrix_float.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,805 copying msmtools/util/matrix/testfiles/spmatrix_float_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,807 copying msmtools/util/matrix/testfiles/spmatrix_int.coo.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,809 copying msmtools/util/matrix/testfiles/spmatrix_int.coo.npy -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,812 copying msmtools/util/matrix/testfiles/spmatrix_int_reference.dat -> build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles 2021-07-13T17:34:49,814 creating build/lib.linux-armv7l-3.9/msmtools/dtraj/tests/testfiles 2021-07-13T17:34:49,815 copying msmtools/dtraj/tests/testfiles/dtraj.dat -> build/lib.linux-armv7l-3.9/msmtools/dtraj/tests/testfiles 2021-07-13T17:34:49,818 copying msmtools/dtraj/tests/testfiles/dtraj.npy -> build/lib.linux-armv7l-3.9/msmtools/dtraj/tests/testfiles 2021-07-13T17:34:49,840 running build_ext 2021-07-13T17:34:50,299 /tmp/pip-wheel-259_ayeo/msmtools_5050cf1125e74a8883992a35daf7efdc/setup.py:200: UserWarning: enabled openmp 2021-07-13T17:34:50,299 warnings.warn('enabled openmp') 2021-07-13T17:34:50,300 building 'msmtools.estimation.dense.mle_trev_given_pi' extension 2021-07-13T17:34:50,301 creating build/temp.linux-armv7l-3.9 2021-07-13T17:34:50,301 creating build/temp.linux-armv7l-3.9/msmtools 2021-07-13T17:34:50,302 creating build/temp.linux-armv7l-3.9/msmtools/estimation 2021-07-13T17:34:50,303 creating build/temp.linux-armv7l-3.9/msmtools/estimation/dense 2021-07-13T17:34:50,303 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 2021-07-13T17:34:50,694 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 2021-07-13T17:34:51,081 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:34:51,081 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:34:51,081 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:34:51,081 from msmtools/estimation/dense/mle_trev_given_pi.c:638: 2021-07-13T17:34:51,082 /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] 2021-07-13T17:34:51,082 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:34:51,082 | ^~~~~~~ 2021-07-13T17:34:54,047 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 2021-07-13T17:34:54,181 building 'msmtools.estimation.sparse.mle_trev_given_pi' extension 2021-07-13T17:34:54,182 creating build/temp.linux-armv7l-3.9/msmtools/estimation/sparse 2021-07-13T17:34:54,182 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 2021-07-13T17:34:54,545 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 2021-07-13T17:34:54,941 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:34:54,941 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:34:54,941 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:34:54,941 from msmtools/estimation/sparse/mle_trev_given_pi.c:639: 2021-07-13T17:34:54,941 /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] 2021-07-13T17:34:54,941 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:34:54,942 | ^~~~~~~ 2021-07-13T17:34:59,233 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 2021-07-13T17:34:59,371 building 'msmtools.estimation.dense.mle_trev' extension 2021-07-13T17:34:59,372 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 2021-07-13T17:34:59,528 msmtools/estimation/dense/_mle_trev.c: In function ‘_mle_trev_dense’: 2021-07-13T17:34:59,528 msmtools/estimation/dense/_mle_trev.c:62:27: warning: unused variable ‘value’ [-Wunused-variable] 2021-07-13T17:34:59,529 62 | double rel_err, x_norm, value; 2021-07-13T17:34:59,529 | ^~~~~ 2021-07-13T17:34:59,751 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 2021-07-13T17:35:00,135 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:35:00,135 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:35:00,135 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:35:00,136 from msmtools/estimation/dense/mle_trev.c:638: 2021-07-13T17:35:00,136 /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] 2021-07-13T17:35:00,136 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:35:00,136 | ^~~~~~~ 2021-07-13T17:35:03,873 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 2021-07-13T17:35:04,001 building 'msmtools.estimation.sparse.mle_trev' extension 2021-07-13T17:35:04,001 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 2021-07-13T17:35:04,379 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 2021-07-13T17:35:04,760 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:35:04,760 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:35:04,760 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:35:04,760 from msmtools/estimation/sparse/mle_trev.c:638: 2021-07-13T17:35:04,761 /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] 2021-07-13T17:35:04,761 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:35:04,761 | ^~~~~~~ 2021-07-13T17:35:09,132 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 2021-07-13T17:35:09,262 building 'msmtools.estimation.sparse.newton.objective_sparse' extension 2021-07-13T17:35:09,263 creating build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/newton 2021-07-13T17:35:09,263 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 -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c msmtools/estimation/sparse/newton/objective_sparse.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/sparse/newton/objective_sparse.o -fopenmp 2021-07-13T17:35:09,637 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:35:09,637 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:35:09,638 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:35:09,638 from msmtools/estimation/sparse/newton/objective_sparse.c:637: 2021-07-13T17:35:09,638 /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] 2021-07-13T17:35:09,638 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:35:09,638 | ^~~~~~~ 2021-07-13T17:35:09,714 msmtools/estimation/sparse/newton/objective_sparse.c: In function ‘__pyx_pf_8msmtools_10estimation_6sparse_6newton_16objective_sparse_convert_solution’: 2021-07-13T17:35:09,715 msmtools/estimation/sparse/newton/objective_sparse.c:2763:245: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘__pyx_t_8msmtools_10estimation_6sparse_6newton_16objective_sparse_DTYPE_INT_t’ {aka ‘long int’} [-Wsign-compare] 2021-07-13T17:35:09,715 2763 | for (__pyx_t_18 = (*__Pyx_BufPtrStrided1d(__pyx_t_8msmtools_10estimation_6sparse_6newton_16objective_sparse_DTYPE_INT_t *, __pyx_pybuffernd_indptr.rcbuffer->pybuffer.buf, __pyx_t_17, __pyx_pybuffernd_indptr.diminfo[0].strides)); __pyx_t_18 < __pyx_t_20; __pyx_t_18+=1) { 2021-07-13T17:35:09,715 | ^ 2021-07-13T17:35:09,750 msmtools/estimation/sparse/newton/objective_sparse.c: In function ‘__pyx_pf_8msmtools_10estimation_6sparse_6newton_16objective_sparse_2F’: 2021-07-13T17:35:09,751 msmtools/estimation/sparse/newton/objective_sparse.c:3676:245: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘__pyx_t_8msmtools_10estimation_6sparse_6newton_16objective_sparse_DTYPE_INT_t’ {aka ‘long int’} [-Wsign-compare] 2021-07-13T17:35:09,751 3676 | for (__pyx_t_18 = (*__Pyx_BufPtrStrided1d(__pyx_t_8msmtools_10estimation_6sparse_6newton_16objective_sparse_DTYPE_INT_t *, __pyx_pybuffernd_indptr.rcbuffer->pybuffer.buf, __pyx_t_17, __pyx_pybuffernd_indptr.diminfo[0].strides)); __pyx_t_18 < __pyx_t_20; __pyx_t_18+=1) { 2021-07-13T17:35:09,751 | ^ 2021-07-13T17:35:09,792 msmtools/estimation/sparse/newton/objective_sparse.c: In function ‘__pyx_pf_8msmtools_10estimation_6sparse_6newton_16objective_sparse_4_DF’: 2021-07-13T17:35:09,795 msmtools/estimation/sparse/newton/objective_sparse.c:4710:190: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘__pyx_t_5numpy_int32_t’ {aka ‘long int’} [-Wsign-compare] 2021-07-13T17:35:09,795 4710 | for (__pyx_t_21 = (*__Pyx_BufPtrStrided1d(__pyx_t_5numpy_int32_t *, __pyx_pybuffernd_indptr.rcbuffer->pybuffer.buf, __pyx_t_18, __pyx_pybuffernd_indptr.diminfo[0].strides)); __pyx_t_21 < __pyx_t_20; __pyx_t_21+=1) { 2021-07-13T17:35:09,795 | ^ 2021-07-13T17:35:23,390 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/newton/objective_sparse.o -lm -o build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/objective_sparse.cpython-39-arm-linux-gnueabihf.so -lgomp 2021-07-13T17:35:23,569 building 'msmtools.estimation.dense.sampler_rev' extension 2021-07-13T17:35:23,569 creating build/temp.linux-armv7l-3.9/msmtools/estimation/dense/rnglib 2021-07-13T17:35:23,570 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/ranlib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/ranlib.o -fopenmp 2021-07-13T17:35:23,732 msmtools/estimation/dense/rnglib/ranlib.c: In function ‘ignpoi’: 2021-07-13T17:35:23,733 msmtools/estimation/dense/rnglib/ranlib.c:1549:7: warning: variable ‘m’ set but not used [-Wunused-but-set-variable] 2021-07-13T17:35:23,733 1549 | int m; 2021-07-13T17:35:23,733 | ^ 2021-07-13T17:35:25,193 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/rnglib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/rnglib.o -fopenmp 2021-07-13T17:35:25,313 msmtools/estimation/dense/rnglib/rnglib.c: In function ‘cgn_memory’: 2021-07-13T17:35:25,313 msmtools/estimation/dense/rnglib/rnglib.c:449:7: warning: unused variable ‘j’ [-Wunused-variable] 2021-07-13T17:35:25,313 449 | int j; 2021-07-13T17:35:25,314 | ^ 2021-07-13T17:35:25,320 msmtools/estimation/dense/rnglib/rnglib.c: In function ‘set_initial_seed’: 2021-07-13T17:35:25,320 msmtools/estimation/dense/rnglib/rnglib.c:1610:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-13T17:35:25,320 1610 | int i; 2021-07-13T17:35:25,321 | ^ 2021-07-13T17:35:25,321 msmtools/estimation/dense/rnglib/rnglib.c: In function ‘set_seed’: 2021-07-13T17:35:25,322 msmtools/estimation/dense/rnglib/rnglib.c:1709:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-13T17:35:25,322 1709 | int i; 2021-07-13T17:35:25,322 | ^ 2021-07-13T17:35:25,841 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 2021-07-13T17:35:26,454 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 2021-07-13T17:35:26,834 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:35:26,835 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:35:26,835 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:35:26,835 from msmtools/estimation/dense/sampler_rev.c:640: 2021-07-13T17:35:26,835 /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] 2021-07-13T17:35:26,835 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:35:26,836 | ^~~~~~~ 2021-07-13T17:35:35,286 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/rnglib/ranlib.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/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 2021-07-13T17:35:35,448 building 'msmtools.estimation.dense.sampler_revpi' extension 2021-07-13T17:35:35,449 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/ranlib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/ranlib.o -fopenmp 2021-07-13T17:35:35,602 msmtools/estimation/dense/rnglib/ranlib.c: In function ‘ignpoi’: 2021-07-13T17:35:35,603 msmtools/estimation/dense/rnglib/ranlib.c:1549:7: warning: variable ‘m’ set but not used [-Wunused-but-set-variable] 2021-07-13T17:35:35,603 1549 | int m; 2021-07-13T17:35:35,604 | ^ 2021-07-13T17:35:37,066 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/rnglib.c -o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/rnglib.o -fopenmp 2021-07-13T17:35:37,183 msmtools/estimation/dense/rnglib/rnglib.c: In function ‘cgn_memory’: 2021-07-13T17:35:37,183 msmtools/estimation/dense/rnglib/rnglib.c:449:7: warning: unused variable ‘j’ [-Wunused-variable] 2021-07-13T17:35:37,183 449 | int j; 2021-07-13T17:35:37,184 | ^ 2021-07-13T17:35:37,190 msmtools/estimation/dense/rnglib/rnglib.c: In function ‘set_initial_seed’: 2021-07-13T17:35:37,190 msmtools/estimation/dense/rnglib/rnglib.c:1610:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-13T17:35:37,190 1610 | int i; 2021-07-13T17:35:37,191 | ^ 2021-07-13T17:35:37,191 msmtools/estimation/dense/rnglib/rnglib.c: In function ‘set_seed’: 2021-07-13T17:35:37,192 msmtools/estimation/dense/rnglib/rnglib.c:1709:7: warning: unused variable ‘i’ [-Wunused-variable] 2021-07-13T17:35:37,192 1709 | int i; 2021-07-13T17:35:37,192 | ^ 2021-07-13T17:35:37,718 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 2021-07-13T17:35:38,161 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 2021-07-13T17:35:38,549 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:35:38,550 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:35:38,550 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:35:38,550 from msmtools/estimation/dense/sampler_revpi.c:640: 2021-07-13T17:35:38,550 /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] 2021-07-13T17:35:38,550 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:35:38,550 | ^~~~~~~ 2021-07-13T17:35:47,963 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/rnglib/ranlib.o build/temp.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/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 2021-07-13T17:35:48,127 building 'msmtools.util.kahandot' extension 2021-07-13T17:35:48,128 creating build/temp.linux-armv7l-3.9/msmtools/util 2021-07-13T17:35:48,128 creating build/temp.linux-armv7l-3.9/msmtools/util/kahandot_src 2021-07-13T17:35:48,133 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 2021-07-13T17:35:48,353 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 2021-07-13T17:35:48,734 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-13T17:35:48,734 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-13T17:35:48,735 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-13T17:35:48,735 from msmtools/util/kahandot_src/kahandot.c:637: 2021-07-13T17:35:48,735 /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] 2021-07-13T17:35:48,735 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-13T17:35:48,735 | ^~~~~~~ 2021-07-13T17:35:50,508 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 2021-07-13T17:35:50,645 installing to build/bdist.linux-armv7l/wheel 2021-07-13T17:35:50,645 running install 2021-07-13T17:35:50,647 running install_lib 2021-07-13T17:35:50,652 creating build/bdist.linux-armv7l 2021-07-13T17:35:50,652 creating build/bdist.linux-armv7l/wheel 2021-07-13T17:35:50,655 creating build/bdist.linux-armv7l/wheel/msmtools 2021-07-13T17:35:50,657 creating build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-13T17:35:50,659 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,660 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_effective_count_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,663 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_count_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,666 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_ratematrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,669 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,671 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/C_1_sliding.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,673 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/pi.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,675 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/dtraj.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,678 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/C_7_lag.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,681 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/C_1_lag.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,683 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/C_13_lag.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,686 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/dwell.npz -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,707 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/C_7_sliding.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,709 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/testfiles/C_13_sliding.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests/testfiles 2021-07-13T17:35:50,711 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_likelihood.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,713 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_mle_trev.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,715 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,716 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_prior.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,718 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_connectivity.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,721 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_transition_matrix.py.orig -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,723 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_transition_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,726 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_mle_trev_given_pi.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,728 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_bootstrapping.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,730 copying build/lib.linux-armv7l-3.9/msmtools/estimation/tests/test_tmatrix_sampling.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/tests 2021-07-13T17:35:50,732 copying build/lib.linux-armv7l-3.9/msmtools/estimation/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-13T17:35:50,735 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,736 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/connectivity_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,739 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev_given_pi.pyx -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,741 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/connectivity.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,743 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/prior_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,745 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev_given_pi.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,758 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 2021-07-13T17:35:50,766 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/effective_counts.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,769 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/likelihood_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,771 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/prior.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,772 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev_given_pi.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,775 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,776 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/objective_sparse.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,798 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/linsolve_sparse.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,801 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton/testfiles 2021-07-13T17:35:50,802 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/testfiles/C.dat -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton/testfiles 2021-07-13T17:35:50,812 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/mle_rev.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,814 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/mle_rev_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,816 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,818 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/objective_sparse.pyx -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,820 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/objective_dense.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,822 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/objective_sparse.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,839 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/newton/linsolve.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse/newton 2021-07-13T17:35:50,841 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,843 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/transition_matrix_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,845 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev.pyx -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,847 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev_given_pi.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,849 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/count_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,851 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,853 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/likelihood.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,855 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/_mle_trev.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,857 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/mle_trev.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,867 copying build/lib.linux-armv7l-3.9/msmtools/estimation/sparse/transition_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/sparse 2021-07-13T17:35:50,869 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 2021-07-13T17:35:50,879 copying build/lib.linux-armv7l-3.9/msmtools/estimation/api.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation 2021-07-13T17:35:50,884 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,885 creating build/bdist.linux-armv7l/wheel/msmtools/estimation/dense/rnglib 2021-07-13T17:35:50,886 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/ranlib.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense/rnglib 2021-07-13T17:35:50,888 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/ranlib.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense/rnglib 2021-07-13T17:35:50,892 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/rnglib.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense/rnglib 2021-07-13T17:35:50,895 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/rnglib/rnglib.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense/rnglib 2021-07-13T17:35:50,897 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sample_revpi.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,899 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_revpi.pyx -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,901 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev_given_pi.pyx -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,904 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/util.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,905 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/bootstrapping.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,908 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 2021-07-13T17:35:50,925 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/ratematrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,929 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_rev.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,940 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev_given_pi.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,948 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 2021-07-13T17:35:50,956 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 2021-07-13T17:35:50,976 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev_given_pi.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,978 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,980 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev.pyx -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,982 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev_given_pi.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,984 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/covariance.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,986 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sample_revpi.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:50,988 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_revpi.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,000 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sample_rev.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,002 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/covariance_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,005 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_nrev.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,007 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,009 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/_mle_trev.h -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,011 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/tmatrix_sampler.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,013 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/mle_trev.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,022 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sample_rev.c -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,025 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/sampler_rev.pyx -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,027 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/tmatrix_sampler_test.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,029 copying build/lib.linux-armv7l-3.9/msmtools/estimation/dense/transition_matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/estimation/dense 2021-07-13T17:35:51,031 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 2021-07-13T17:35:51,039 copying build/lib.linux-armv7l-3.9/msmtools/_version.py -> build/bdist.linux-armv7l/wheel/msmtools 2021-07-13T17:35:51,041 creating build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-13T17:35:51,043 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,044 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,047 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,049 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/P_rev_251x251.dat -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,087 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,089 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_sensitivity.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,091 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,094 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,096 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,098 copying build/lib.linux-armv7l-3.9/msmtools/analysis/tests/test_mfpt.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/tests 2021-07-13T17:35:51,100 copying build/lib.linux-armv7l-3.9/msmtools/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-13T17:35:51,102 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,103 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/expectations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,105 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/decomposition_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,108 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/fingerprints_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,111 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/committor_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,113 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,116 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/stationary_vector.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,118 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,120 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/mean_first_passage_time.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,123 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,125 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,128 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/assessment_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,130 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/stationary_vector_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,132 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,135 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/mean_first_passage_time_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,137 copying build/lib.linux-armv7l-3.9/msmtools/analysis/sparse/decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/sparse 2021-07-13T17:35:51,140 copying build/lib.linux-armv7l-3.9/msmtools/analysis/api.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis 2021-07-13T17:35:51,146 creating build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,147 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/correlations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,150 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/expectations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,153 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/decomposition_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,156 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/fingerprints_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,158 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/pcca.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,161 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/committor_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,164 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/assessment.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,166 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/hitting_probability_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,168 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/stationary_vector.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,170 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/hitting_probability.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,172 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/correlations_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,175 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/sensitivity_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,177 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,179 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/mean_first_passage_time.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,182 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/pcca_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,184 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/sensitivity.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,187 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/expectations.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,189 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/committor.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,192 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/assessment_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,194 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/stationary_vector_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,196 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/fingerprints.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,198 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/mean_first_passage_time_test.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,201 copying build/lib.linux-armv7l-3.9/msmtools/analysis/dense/decomposition.py -> build/bdist.linux-armv7l/wheel/msmtools/analysis/dense 2021-07-13T17:35:51,204 creating build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-13T17:35:51,205 copying build/lib.linux-armv7l-3.9/msmtools/flux/reactive_flux.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-13T17:35:51,208 creating build/bdist.linux-armv7l/wheel/msmtools/flux/tests 2021-07-13T17:35:51,209 copying build/lib.linux-armv7l-3.9/msmtools/flux/tests/test_pathways.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/tests 2021-07-13T17:35:51,212 copying build/lib.linux-armv7l-3.9/msmtools/flux/tests/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/tests 2021-07-13T17:35:51,213 copying build/lib.linux-armv7l-3.9/msmtools/flux/tests/test_tpt.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/tests 2021-07-13T17:35:51,216 copying build/lib.linux-armv7l-3.9/msmtools/flux/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-13T17:35:51,219 creating build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-13T17:35:51,219 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/pathways.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-13T17:35:51,222 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/tpt.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-13T17:35:51,225 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-13T17:35:51,226 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/tpt_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-13T17:35:51,228 copying build/lib.linux-armv7l-3.9/msmtools/flux/sparse/pathways_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/sparse 2021-07-13T17:35:51,230 copying build/lib.linux-armv7l-3.9/msmtools/flux/reactive_flux_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-13T17:35:51,233 copying build/lib.linux-armv7l-3.9/msmtools/flux/api.py -> build/bdist.linux-armv7l/wheel/msmtools/flux 2021-07-13T17:35:51,236 creating build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-13T17:35:51,237 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/tpt.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-13T17:35:51,240 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-13T17:35:51,242 copying build/lib.linux-armv7l-3.9/msmtools/flux/dense/tpt_test.py -> build/bdist.linux-armv7l/wheel/msmtools/flux/dense 2021-07-13T17:35:51,244 copying build/lib.linux-armv7l-3.9/msmtools/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools 2021-07-13T17:35:51,246 creating build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,248 creating build/bdist.linux-armv7l/wheel/msmtools/util/kahandot_src 2021-07-13T17:35:51,249 copying build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src/_kahandot.c -> build/bdist.linux-armv7l/wheel/msmtools/util/kahandot_src 2021-07-13T17:35:51,251 copying build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src/_kahandot.h -> build/bdist.linux-armv7l/wheel/msmtools/util/kahandot_src 2021-07-13T17:35:51,253 copying build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src/kahandot.c -> build/bdist.linux-armv7l/wheel/msmtools/util/kahandot_src 2021-07-13T17:35:51,261 copying build/lib.linux-armv7l-3.9/msmtools/util/kahandot_src/kahandot.pyx -> build/bdist.linux-armv7l/wheel/msmtools/util/kahandot_src 2021-07-13T17:35:51,263 copying build/lib.linux-armv7l-3.9/msmtools/util/statistics.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,266 copying build/lib.linux-armv7l-3.9/msmtools/util/numeric.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,268 copying build/lib.linux-armv7l-3.9/msmtools/util/sigint_handler.h -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,270 copying build/lib.linux-armv7l-3.9/msmtools/util/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,271 copying build/lib.linux-armv7l-3.9/msmtools/util/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,274 copying build/lib.linux-armv7l-3.9/msmtools/util/types.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,276 copying build/lib.linux-armv7l-3.9/msmtools/util/annotators.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,279 copying build/lib.linux-armv7l-3.9/msmtools/util/kahandot.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,284 copying build/lib.linux-armv7l-3.9/msmtools/util/exceptions.py -> build/bdist.linux-armv7l/wheel/msmtools/util 2021-07-13T17:35:51,287 creating build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-13T17:35:51,288 creating build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,289 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,291 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_int.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,293 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,295 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_float.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,297 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_complex.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,299 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_float.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,300 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,302 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,304 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_complex.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,306 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,308 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,310 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_complex.coo.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,312 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/matrix_int.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,314 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_float.coo.npy -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,316 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/testfiles/spmatrix_int_reference.dat -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix/testfiles 2021-07-13T17:35:51,318 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-13T17:35:51,320 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/matrix_test.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-13T17:35:51,322 copying build/lib.linux-armv7l-3.9/msmtools/util/matrix/matrix.py -> build/bdist.linux-armv7l/wheel/msmtools/util/matrix 2021-07-13T17:35:51,326 creating build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-13T17:35:51,327 creating build/bdist.linux-armv7l/wheel/msmtools/generation/tests 2021-07-13T17:35:51,328 copying build/lib.linux-armv7l-3.9/msmtools/generation/tests/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/generation/tests 2021-07-13T17:35:51,330 copying build/lib.linux-armv7l-3.9/msmtools/generation/tests/test_generation.py -> build/bdist.linux-armv7l/wheel/msmtools/generation/tests 2021-07-13T17:35:51,331 copying build/lib.linux-armv7l-3.9/msmtools/generation/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-13T17:35:51,333 copying build/lib.linux-armv7l-3.9/msmtools/generation/api.py -> build/bdist.linux-armv7l/wheel/msmtools/generation 2021-07-13T17:35:51,336 creating build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-13T17:35:51,338 creating build/bdist.linux-armv7l/wheel/msmtools/dtraj/tests 2021-07-13T17:35:51,339 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/tests/test_trajectory.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj/tests 2021-07-13T17:35:51,341 creating build/bdist.linux-armv7l/wheel/msmtools/dtraj/tests/testfiles 2021-07-13T17:35:51,342 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/tests/testfiles/dtraj.npy -> build/bdist.linux-armv7l/wheel/msmtools/dtraj/tests/testfiles 2021-07-13T17:35:51,346 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/tests/testfiles/dtraj.dat -> build/bdist.linux-armv7l/wheel/msmtools/dtraj/tests/testfiles 2021-07-13T17:35:51,349 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/tests/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj/tests 2021-07-13T17:35:51,351 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/__init__.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-13T17:35:51,353 copying build/lib.linux-armv7l-3.9/msmtools/dtraj/api.py -> build/bdist.linux-armv7l/wheel/msmtools/dtraj 2021-07-13T17:35:51,355 running install_egg_info 2021-07-13T17:35:51,365 Copying msmtools.egg-info to build/bdist.linux-armv7l/wheel/msmtools-1.2.3-py3.9.egg-info 2021-07-13T17:35:51,380 running install_scripts 2021-07-13T17:35:51,430 adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*") 2021-07-13T17:35:51,435 creating build/bdist.linux-armv7l/wheel/msmtools-1.2.3.dist-info/WHEEL 2021-07-13T17:35:51,438 creating '/tmp/pip-wheel-jpovi8xm/msmtools-1.2.3-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-13T17:35:51,441 adding 'msmtools/__init__.py' 2021-07-13T17:35:51,442 adding 'msmtools/_version.py' 2021-07-13T17:35:51,445 adding 'msmtools/analysis/__init__.py' 2021-07-13T17:35:51,452 adding 'msmtools/analysis/api.py' 2021-07-13T17:35:51,454 adding 'msmtools/analysis/dense/__init__.py' 2021-07-13T17:35:51,456 adding 'msmtools/analysis/dense/assessment.py' 2021-07-13T17:35:51,457 adding 'msmtools/analysis/dense/assessment_test.py' 2021-07-13T17:35:51,459 adding 'msmtools/analysis/dense/committor.py' 2021-07-13T17:35:51,460 adding 'msmtools/analysis/dense/committor_test.py' 2021-07-13T17:35:51,462 adding 'msmtools/analysis/dense/correlations.py' 2021-07-13T17:35:51,463 adding 'msmtools/analysis/dense/correlations_test.py' 2021-07-13T17:35:51,466 adding 'msmtools/analysis/dense/decomposition.py' 2021-07-13T17:35:51,468 adding 'msmtools/analysis/dense/decomposition_test.py' 2021-07-13T17:35:51,469 adding 'msmtools/analysis/dense/expectations.py' 2021-07-13T17:35:51,471 adding 'msmtools/analysis/dense/expectations_test.py' 2021-07-13T17:35:51,473 adding 'msmtools/analysis/dense/fingerprints.py' 2021-07-13T17:35:51,475 adding 'msmtools/analysis/dense/fingerprints_test.py' 2021-07-13T17:35:51,476 adding 'msmtools/analysis/dense/hitting_probability.py' 2021-07-13T17:35:51,477 adding 'msmtools/analysis/dense/hitting_probability_test.py' 2021-07-13T17:35:51,479 adding 'msmtools/analysis/dense/mean_first_passage_time.py' 2021-07-13T17:35:51,480 adding 'msmtools/analysis/dense/mean_first_passage_time_test.py' 2021-07-13T17:35:51,483 adding 'msmtools/analysis/dense/pcca.py' 2021-07-13T17:35:51,485 adding 'msmtools/analysis/dense/pcca_test.py' 2021-07-13T17:35:51,487 adding 'msmtools/analysis/dense/sensitivity.py' 2021-07-13T17:35:51,488 adding 'msmtools/analysis/dense/sensitivity_test.py' 2021-07-13T17:35:51,490 adding 'msmtools/analysis/dense/stationary_vector.py' 2021-07-13T17:35:51,491 adding 'msmtools/analysis/dense/stationary_vector_test.py' 2021-07-13T17:35:51,493 adding 'msmtools/analysis/sparse/__init__.py' 2021-07-13T17:35:51,494 adding 'msmtools/analysis/sparse/assessment.py' 2021-07-13T17:35:51,496 adding 'msmtools/analysis/sparse/assessment_test.py' 2021-07-13T17:35:51,497 adding 'msmtools/analysis/sparse/committor.py' 2021-07-13T17:35:51,499 adding 'msmtools/analysis/sparse/committor_test.py' 2021-07-13T17:35:51,501 adding 'msmtools/analysis/sparse/decomposition.py' 2021-07-13T17:35:51,503 adding 'msmtools/analysis/sparse/decomposition_test.py' 2021-07-13T17:35:51,504 adding 'msmtools/analysis/sparse/expectations.py' 2021-07-13T17:35:51,506 adding 'msmtools/analysis/sparse/expectations_test.py' 2021-07-13T17:35:51,508 adding 'msmtools/analysis/sparse/fingerprints.py' 2021-07-13T17:35:51,509 adding 'msmtools/analysis/sparse/fingerprints_test.py' 2021-07-13T17:35:51,511 adding 'msmtools/analysis/sparse/mean_first_passage_time.py' 2021-07-13T17:35:51,512 adding 'msmtools/analysis/sparse/mean_first_passage_time_test.py' 2021-07-13T17:35:51,513 adding 'msmtools/analysis/sparse/stationary_vector.py' 2021-07-13T17:35:51,515 adding 'msmtools/analysis/sparse/stationary_vector_test.py' 2021-07-13T17:35:51,593 adding 'msmtools/analysis/tests/P_rev_251x251.dat' 2021-07-13T17:35:51,607 adding 'msmtools/analysis/tests/__init__.py' 2021-07-13T17:35:51,609 adding 'msmtools/analysis/tests/test_assessment.py' 2021-07-13T17:35:51,610 adding 'msmtools/analysis/tests/test_committor.py' 2021-07-13T17:35:51,612 adding 'msmtools/analysis/tests/test_decomposition.py' 2021-07-13T17:35:51,614 adding 'msmtools/analysis/tests/test_expectations.py' 2021-07-13T17:35:51,615 adding 'msmtools/analysis/tests/test_fingerprints.py' 2021-07-13T17:35:51,617 adding 'msmtools/analysis/tests/test_mfpt.py' 2021-07-13T17:35:51,618 adding 'msmtools/analysis/tests/test_sensitivity.py' 2021-07-13T17:35:51,620 adding 'msmtools/dtraj/__init__.py' 2021-07-13T17:35:51,622 adding 'msmtools/dtraj/api.py' 2021-07-13T17:35:51,624 adding 'msmtools/dtraj/tests/__init__.py' 2021-07-13T17:35:51,625 adding 'msmtools/dtraj/tests/test_trajectory.py' 2021-07-13T17:35:51,632 adding 'msmtools/dtraj/tests/testfiles/dtraj.dat' 2021-07-13T17:35:51,641 adding 'msmtools/dtraj/tests/testfiles/dtraj.npy' 2021-07-13T17:35:51,644 adding 'msmtools/estimation/__init__.py' 2021-07-13T17:35:51,650 adding 'msmtools/estimation/api.py' 2021-07-13T17:35:51,653 adding 'msmtools/estimation/dense/__init__.py' 2021-07-13T17:35:51,654 adding 'msmtools/estimation/dense/_mle_trev.c' 2021-07-13T17:35:51,656 adding 'msmtools/estimation/dense/_mle_trev.h' 2021-07-13T17:35:51,657 adding 'msmtools/estimation/dense/_mle_trev_given_pi.c' 2021-07-13T17:35:51,658 adding 'msmtools/estimation/dense/_mle_trev_given_pi.h' 2021-07-13T17:35:51,660 adding 'msmtools/estimation/dense/bootstrapping.py' 2021-07-13T17:35:51,661 adding 'msmtools/estimation/dense/covariance.py' 2021-07-13T17:35:51,663 adding 'msmtools/estimation/dense/covariance_test.py' 2021-07-13T17:35:51,689 adding 'msmtools/estimation/dense/mle_trev.c' 2021-07-13T17:35:51,744 adding 'msmtools/estimation/dense/mle_trev.cpython-39-arm-linux-gnueabihf.so' 2021-07-13T17:35:51,747 adding 'msmtools/estimation/dense/mle_trev.pyx' 2021-07-13T17:35:51,770 adding 'msmtools/estimation/dense/mle_trev_given_pi.c' 2021-07-13T17:35:51,814 adding 'msmtools/estimation/dense/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so' 2021-07-13T17:35:51,817 adding 'msmtools/estimation/dense/mle_trev_given_pi.pyx' 2021-07-13T17:35:51,820 adding 'msmtools/estimation/dense/ratematrix.py' 2021-07-13T17:35:51,822 adding 'msmtools/estimation/dense/sample_rev.c' 2021-07-13T17:35:51,824 adding 'msmtools/estimation/dense/sample_rev.h' 2021-07-13T17:35:51,825 adding 'msmtools/estimation/dense/sample_revpi.c' 2021-07-13T17:35:51,826 adding 'msmtools/estimation/dense/sample_revpi.h' 2021-07-13T17:35:51,827 adding 'msmtools/estimation/dense/sampler_nrev.py' 2021-07-13T17:35:51,866 adding 'msmtools/estimation/dense/sampler_rev.c' 2021-07-13T17:35:52,016 adding 'msmtools/estimation/dense/sampler_rev.cpython-39-arm-linux-gnueabihf.so' 2021-07-13T17:35:52,023 adding 'msmtools/estimation/dense/sampler_rev.pyx' 2021-07-13T17:35:52,064 adding 'msmtools/estimation/dense/sampler_revpi.c' 2021-07-13T17:35:52,222 adding 'msmtools/estimation/dense/sampler_revpi.cpython-39-arm-linux-gnueabihf.so' 2021-07-13T17:35:52,229 adding 'msmtools/estimation/dense/sampler_revpi.pyx' 2021-07-13T17:35:52,230 adding 'msmtools/estimation/dense/tmatrix_sampler.py' 2021-07-13T17:35:52,232 adding 'msmtools/estimation/dense/tmatrix_sampler_test.py' 2021-07-13T17:35:52,234 adding 'msmtools/estimation/dense/transition_matrix.py' 2021-07-13T17:35:52,235 adding 'msmtools/estimation/dense/util.h' 2021-07-13T17:35:52,243 adding 'msmtools/estimation/dense/rnglib/ranlib.c' 2021-07-13T17:35:52,245 adding 'msmtools/estimation/dense/rnglib/ranlib.h' 2021-07-13T17:35:52,248 adding 'msmtools/estimation/dense/rnglib/rnglib.c' 2021-07-13T17:35:52,249 adding 'msmtools/estimation/dense/rnglib/rnglib.h' 2021-07-13T17:35:52,252 adding 'msmtools/estimation/sparse/__init__.py' 2021-07-13T17:35:52,253 adding 'msmtools/estimation/sparse/_mle_trev.c' 2021-07-13T17:35:52,254 adding 'msmtools/estimation/sparse/_mle_trev.h' 2021-07-13T17:35:52,256 adding 'msmtools/estimation/sparse/_mle_trev_given_pi.c' 2021-07-13T17:35:52,257 adding 'msmtools/estimation/sparse/_mle_trev_given_pi.h' 2021-07-13T17:35:52,258 adding 'msmtools/estimation/sparse/connectivity.py' 2021-07-13T17:35:52,260 adding 'msmtools/estimation/sparse/connectivity_test.py' 2021-07-13T17:35:52,261 adding 'msmtools/estimation/sparse/count_matrix.py' 2021-07-13T17:35:52,263 adding 'msmtools/estimation/sparse/effective_counts.py' 2021-07-13T17:35:52,264 adding 'msmtools/estimation/sparse/likelihood.py' 2021-07-13T17:35:52,266 adding 'msmtools/estimation/sparse/likelihood_test.py' 2021-07-13T17:35:52,293 adding 'msmtools/estimation/sparse/mle_trev.c' 2021-07-13T17:35:52,355 adding 'msmtools/estimation/sparse/mle_trev.cpython-39-arm-linux-gnueabihf.so' 2021-07-13T17:35:52,359 adding 'msmtools/estimation/sparse/mle_trev.pyx' 2021-07-13T17:35:52,385 adding 'msmtools/estimation/sparse/mle_trev_given_pi.c' 2021-07-13T17:35:52,444 adding 'msmtools/estimation/sparse/mle_trev_given_pi.cpython-39-arm-linux-gnueabihf.so' 2021-07-13T17:35:52,447 adding 'msmtools/estimation/sparse/mle_trev_given_pi.pyx' 2021-07-13T17:35:52,449 adding 'msmtools/estimation/sparse/prior.py' 2021-07-13T17:35:52,450 adding 'msmtools/estimation/sparse/prior_test.py' 2021-07-13T17:35:52,451 adding 'msmtools/estimation/sparse/transition_matrix.py' 2021-07-13T17:35:52,452 adding 'msmtools/estimation/sparse/transition_matrix_test.py' 2021-07-13T17:35:52,454 adding 'msmtools/estimation/sparse/newton/__init__.py' 2021-07-13T17:35:52,456 adding 'msmtools/estimation/sparse/newton/linsolve.py' 2021-07-13T17:35:52,457 adding 'msmtools/estimation/sparse/newton/linsolve_sparse.py' 2021-07-13T17:35:52,459 adding 'msmtools/estimation/sparse/newton/mle_rev.py' 2021-07-13T17:35:52,460 adding 'msmtools/estimation/sparse/newton/mle_rev_test.py' 2021-07-13T17:35:52,462 adding 'msmtools/estimation/sparse/newton/objective_dense.py' 2021-07-13T17:35:52,507 adding 'msmtools/estimation/sparse/newton/objective_sparse.c' 2021-07-13T17:35:52,665 adding 'msmtools/estimation/sparse/newton/objective_sparse.cpython-39-arm-linux-gnueabihf.so' 2021-07-13T17:35:52,673 adding 'msmtools/estimation/sparse/newton/objective_sparse.pyx' 2021-07-13T17:35:52,681 adding 'msmtools/estimation/sparse/newton/testfiles/C.dat' 2021-07-13T17:35:52,685 adding 'msmtools/estimation/tests/__init__.py' 2021-07-13T17:35:52,686 adding 'msmtools/estimation/tests/test_bootstrapping.py' 2021-07-13T17:35:52,687 adding 'msmtools/estimation/tests/test_connectivity.py' 2021-07-13T17:35:52,689 adding 'msmtools/estimation/tests/test_count_matrix.py' 2021-07-13T17:35:52,690 adding 'msmtools/estimation/tests/test_effective_count_matrix.py' 2021-07-13T17:35:52,692 adding 'msmtools/estimation/tests/test_likelihood.py' 2021-07-13T17:35:52,693 adding 'msmtools/estimation/tests/test_mle_trev.py' 2021-07-13T17:35:52,695 adding 'msmtools/estimation/tests/test_mle_trev_given_pi.py' 2021-07-13T17:35:52,696 adding 'msmtools/estimation/tests/test_prior.py' 2021-07-13T17:35:52,697 adding 'msmtools/estimation/tests/test_ratematrix.py' 2021-07-13T17:35:52,699 adding 'msmtools/estimation/tests/test_tmatrix_sampling.py' 2021-07-13T17:35:52,700 adding 'msmtools/estimation/tests/test_transition_matrix.py' 2021-07-13T17:35:52,702 adding 'msmtools/estimation/tests/test_transition_matrix.py.orig' 2021-07-13T17:35:52,704 adding 'msmtools/estimation/tests/testfiles/C_13_lag.dat' 2021-07-13T17:35:52,705 adding 'msmtools/estimation/tests/testfiles/C_13_sliding.dat' 2021-07-13T17:35:52,706 adding 'msmtools/estimation/tests/testfiles/C_1_lag.dat' 2021-07-13T17:35:52,708 adding 'msmtools/estimation/tests/testfiles/C_1_sliding.dat' 2021-07-13T17:35:52,709 adding 'msmtools/estimation/tests/testfiles/C_7_lag.dat' 2021-07-13T17:35:52,710 adding 'msmtools/estimation/tests/testfiles/C_7_sliding.dat' 2021-07-13T17:35:52,719 adding 'msmtools/estimation/tests/testfiles/dtraj.dat' 2021-07-13T17:35:52,748 adding 'msmtools/estimation/tests/testfiles/dwell.npz' 2021-07-13T17:35:52,756 adding 'msmtools/estimation/tests/testfiles/pi.dat' 2021-07-13T17:35:52,758 adding 'msmtools/flux/__init__.py' 2021-07-13T17:35:52,760 adding 'msmtools/flux/api.py' 2021-07-13T17:35:52,762 adding 'msmtools/flux/reactive_flux.py' 2021-07-13T17:35:52,764 adding 'msmtools/flux/reactive_flux_test.py' 2021-07-13T17:35:52,766 adding 'msmtools/flux/dense/__init__.py' 2021-07-13T17:35:52,767 adding 'msmtools/flux/dense/tpt.py' 2021-07-13T17:35:52,769 adding 'msmtools/flux/dense/tpt_test.py' 2021-07-13T17:35:52,770 adding 'msmtools/flux/sparse/__init__.py' 2021-07-13T17:35:52,772 adding 'msmtools/flux/sparse/pathways.py' 2021-07-13T17:35:52,773 adding 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'/tmp/pip-req-tracker-x71_dnyb'