2024-04-26T17:27:57,434 Created temporary directory: /tmp/pip-build-tracker-9bwvf6gf 2024-04-26T17:27:57,436 Initialized build tracking at /tmp/pip-build-tracker-9bwvf6gf 2024-04-26T17:27:57,436 Created build tracker: /tmp/pip-build-tracker-9bwvf6gf 2024-04-26T17:27:57,436 Entered build tracker: /tmp/pip-build-tracker-9bwvf6gf 2024-04-26T17:27:57,436 Created temporary directory: /tmp/pip-wheel-oa6q25t9 2024-04-26T17:27:57,440 Created temporary directory: /tmp/pip-ephem-wheel-cache-fsukho6f 2024-04-26T17:27:57,464 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-04-26T17:27:57,468 2 location(s) to search for versions of pyemma: 2024-04-26T17:27:57,468 * https://pypi.org/simple/pyemma/ 2024-04-26T17:27:57,468 * https://www.piwheels.org/simple/pyemma/ 2024-04-26T17:27:57,469 Fetching project page and analyzing links: https://pypi.org/simple/pyemma/ 2024-04-26T17:27:57,469 Getting page https://pypi.org/simple/pyemma/ 2024-04-26T17:27:57,470 Found index url https://pypi.org/simple/ 2024-04-26T17:27:57,522 Fetched page https://pypi.org/simple/pyemma/ as application/vnd.pypi.simple.v1+json 2024-04-26T17:27:57,531 Found link https://files.pythonhosted.org/packages/8e/31/2c2e23bbc16b404c8808c1043ebaf3aebfdd31dd90b979f213caad01f5bf/pyEMMA-1.0a2.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.0a2 2024-04-26T17:27:57,531 Found link https://files.pythonhosted.org/packages/1c/e3/453e32e448baa4274c622c82c87862164a34939b5139f4660db1fd470e2c/pyEMMA-1.0a3.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.0a3 2024-04-26T17:27:57,531 Found link https://files.pythonhosted.org/packages/9d/5a/d614dfaef84835bed7ec482b6fbaf1b94cc6fec0ca1e2f2ada7d3fdb9b7e/pyEMMA-1.0.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.0 2024-04-26T17:27:57,532 Found link https://files.pythonhosted.org/packages/a9/99/1cd8cd711306a1b5e1461930de3a5aeea69b20640444db8d5c934b5bf4f5/pyEMMA-1.0.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.0.1 2024-04-26T17:27:57,532 Found link https://files.pythonhosted.org/packages/7a/bd/5126cb767a26903e90a4d3679d5cc2a62c4f199aa14f26f1aae5ea4bf4e8/pyEMMA-1.0.2.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.0.2 2024-04-26T17:27:57,532 Found link https://files.pythonhosted.org/packages/c3/28/e677fb5d7f98e1fc80442da7fd5bd56b96738d7c63c5dee64321128d7223/pyEMMA-1.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.1 2024-04-26T17:27:57,533 Found link https://files.pythonhosted.org/packages/67/3c/a2a915fe09e7c9fa2a45b4c7d8d1d95e08210930b7e578d7a3f3b478f652/pyEMMA-1.1.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.1.1 2024-04-26T17:27:57,533 Found link https://files.pythonhosted.org/packages/47/96/218449a170c586187e1de74a06a0c0b09cdd5e1b887b3b79156c8079ca68/pyEMMA-1.1.2.tar.gz (from https://pypi.org/simple/pyemma/), version: 1.1.2 2024-04-26T17:27:57,533 Found link https://files.pythonhosted.org/packages/a9/f4/d6db0d7f70baf531ec67a59f85a31e1f0940fcea4a9389527ddb47c0ac8b/pyEMMA-1.2.zip (from https://pypi.org/simple/pyemma/), version: 1.2 2024-04-26T17:27:57,533 Found link https://files.pythonhosted.org/packages/d1/34/5b0f37c1c3236e03508b304d34ed7b44e312664ad937fa7c6552ddd40e66/pyEMMA-1.2.1.zip (from https://pypi.org/simple/pyemma/), version: 1.2.1 2024-04-26T17:27:57,534 Found link https://files.pythonhosted.org/packages/05/61/da32c04877549e4e9670608bf59e77a2fb0740ad21fcb62c4ee5d8b062bf/pyEMMA-1.2.2.zip (from https://pypi.org/simple/pyemma/), version: 1.2.2 2024-04-26T17:27:57,534 Found link https://files.pythonhosted.org/packages/88/aa/78bbf546f420dc9c54b8d71f23ab0e17a7f6860ac986f36303544d13c747/pyEMMA-2.0.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.0 2024-04-26T17:27:57,534 Found link https://files.pythonhosted.org/packages/d8/06/061aae0063cce0512e6a9fbaaba83c18e3a27e2e941e574fcd5378c2251f/pyEMMA-2.0.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.0.1 2024-04-26T17:27:57,535 Found link https://files.pythonhosted.org/packages/85/dd/02b5a23c7a75bfbfa3654f5455dac18374ba9ab179e092a8e89ed5336091/pyEMMA-2.0.2.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.0.2 2024-04-26T17:27:57,535 Found link https://files.pythonhosted.org/packages/7f/23/4644bd57de697aeed05a915096b6afc93c17a11ef1e4ecaf0e880e371b30/pyEMMA-2.0.3.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.0.3 2024-04-26T17:27:57,535 Found link https://files.pythonhosted.org/packages/c1/04/f0d3459815c08a1740ab4cf48c2ea0044cd11507d6103e45fbc15d7741de/pyEMMA-2.0.4.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.0.4 2024-04-26T17:27:57,535 Found link https://files.pythonhosted.org/packages/92/75/afa9da7a4e730829b583eb1e0851397b9a4775d823721fc9d640cb1812a4/pyemma-2.1rc1.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.1rc1 2024-04-26T17:27:57,536 Found link https://files.pythonhosted.org/packages/3e/99/e330c14650f11a7660b41d209d75b7de8f92173216c2f6b61041006b9429/pyEMMA-2.1rc2.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.1rc2 2024-04-26T17:27:57,536 Found link https://files.pythonhosted.org/packages/43/59/2d2adbb91b148051a271b4b5ae7676313622c5427b62e552762bbf829790/pyEMMA-2.1rc3.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.1rc3 2024-04-26T17:27:57,536 Found link https://files.pythonhosted.org/packages/52/19/fc61cfeb577540e680beba38ee21fe917e5f2bd74fcd60e9347c24199739/pyEMMA-2.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.1 2024-04-26T17:27:57,536 Found link https://files.pythonhosted.org/packages/79/87/d9d41d3dd1b4048f078935e7a99991680af380ee46798db3635adf99de0a/pyEMMA-2.1.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.1.1 2024-04-26T17:27:57,537 Found link https://files.pythonhosted.org/packages/ae/1f/61acb5b29f8bd8afd313d07a52ac91f47a4738c508b8a6e08cd2be82bc4b/pyEMMA-2.2.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.2 2024-04-26T17:27:57,537 Found link https://files.pythonhosted.org/packages/8b/fa/5b40eb124d6c6862b4c51579bb71c0c78f076309869902f3fffb64d257b6/pyEMMA-2.2.1.zip (from https://pypi.org/simple/pyemma/), version: 2.2.1 2024-04-26T17:27:57,537 Found link https://files.pythonhosted.org/packages/fd/9c/91875451360dff2aa4ad4c11f89fa3e79020ce776adef66d80e146d704fc/pyEMMA-2.2.2.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.2.2 2024-04-26T17:27:57,537 Found link https://files.pythonhosted.org/packages/d4/85/6430704c7947a7b01c20f864ffffdbc32c22369c32258051219a6e780596/pyEMMA-2.2.3.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.2.3 2024-04-26T17:27:57,538 Found link https://files.pythonhosted.org/packages/f5/68/281c3f2eea8a056492e97d89c74848a692f2d5f956d65e29fb315055e663/pyEMMA-2.2.4.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.2.4 2024-04-26T17:27:57,538 Found link https://files.pythonhosted.org/packages/21/6d/82871b5b782d6934909144e19d312a319b034e2d9bee366b37a713bcac22/pyEMMA-2.2.6.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.2.6 2024-04-26T17:27:57,538 Found link https://files.pythonhosted.org/packages/98/81/3449d189b584c10d0ee52fb46cc0ca2602ff6c444b5be14ef2483eba76e7/pyEMMA-2.2.7.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.2.7 2024-04-26T17:27:57,538 Found link https://files.pythonhosted.org/packages/d6/51/799c7406a1b5d6433360be894123ad0e326fd0c2370752d8b386c35cbbb7/pyEMMA-2.3.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.3 2024-04-26T17:27:57,539 Found link https://files.pythonhosted.org/packages/94/5f/4553bd29e1acbbfab6693c53e6c8a983094115528a7ef103a905e3bf5bbb/pyEMMA-2.3.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.3.1 2024-04-26T17:27:57,539 Found link https://files.pythonhosted.org/packages/ff/21/6deb0b2673f5d0c6c95838d12006d651e3796b4d497fa908926ba40f2841/pyEMMA-2.3.2.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.3.2 2024-04-26T17:27:57,539 Found link https://files.pythonhosted.org/packages/45/d1/017a5298d6e67ab777268989c1793eb4d5d0869f366df7f1adf2a36a84e7/pyEMMA-2.4.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.4 2024-04-26T17:27:57,540 Found link https://files.pythonhosted.org/packages/8e/f7/9e5573f5da3d5314dcc79a41e138c5c9a6891bd72b92f9d18b7f59e85ab6/pyEMMA-2.5.zip (from https://pypi.org/simple/pyemma/), version: 2.5 2024-04-26T17:27:57,540 Found link https://files.pythonhosted.org/packages/9c/9c/65d49916d9913a2fd9eb2ae6f54d5fe59ec03c44c47d3706173f71483a6d/pyEMMA-2.5.1.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.1 2024-04-26T17:27:57,540 Found link https://files.pythonhosted.org/packages/66/f1/b477414811f2eb96e6f4b66a4d2329c4ba32ae5c16333bdfbc51d45ee367/pyEMMA-2.5.2.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.2 2024-04-26T17:27:57,540 Found link https://files.pythonhosted.org/packages/be/07/b646fa951d631a57d022a79a82a2f28ce268b2b1760d21ffd4df6a4bcc1b/pyEMMA-2.5.3.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.3 2024-04-26T17:27:57,541 Found link https://files.pythonhosted.org/packages/b9/06/2ea0e6238158d70462d1d274c48b0e6fecc1296c5a2d31d56a10fbb1ec69/pyEMMA-2.5.4.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.4 2024-04-26T17:27:57,541 Found link https://files.pythonhosted.org/packages/16/67/b086d88f3fdda0263856214dc53484299c0576d749256771b7f15513dcf8/pyEMMA-2.5.5.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.5 2024-04-26T17:27:57,541 Found link https://files.pythonhosted.org/packages/33/9c/bccb53b4377849d7f34a0206e3fe0d70d4062957a634a875ae3754a9c5a8/pyEMMA-2.5.6.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.6 2024-04-26T17:27:57,542 Found link https://files.pythonhosted.org/packages/74/dd/efc917ca0ae55e8ae1930954fa867a4fca868ec9bce43fc4b7db66e40d4b/pyEMMA-2.5.7.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.7 2024-04-26T17:27:57,542 Found link https://files.pythonhosted.org/packages/ef/20/86a0791773019fdd900f3c5cec4bf24fa7f31d23ff8898feed03965bfe08/pyEMMA-2.5.8.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.8 2024-04-26T17:27:57,542 Found link https://files.pythonhosted.org/packages/c4/a5/4dd5a28342db2d7664bfea39afb5945de82ed72ceca7230509b9615e1241/pyEMMA-2.5.9.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.9 2024-04-26T17:27:57,542 Found link https://files.pythonhosted.org/packages/4d/db/a8d56cf87e94b7b1f1b16b68b619b8bcc9cfea9b7527b38f58e6dfc7e227/pyEMMA-2.5.10.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.10 2024-04-26T17:27:57,543 Found link https://files.pythonhosted.org/packages/b8/f0/8453c5a9d5d7f84b3f49f283d200965ae9fd3648e18c450980e0a2faf90b/pyEMMA-2.5.11.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.11 2024-04-26T17:27:57,543 Found link https://files.pythonhosted.org/packages/fb/f2/7bb51bcfad7bd49ab6f86c597fff4ac9a7143dd906e5ed707d9922a7be51/pyEMMA-2.5.12.tar.gz (from https://pypi.org/simple/pyemma/), version: 2.5.12 2024-04-26T17:27:57,543 Fetching project page and analyzing links: https://www.piwheels.org/simple/pyemma/ 2024-04-26T17:27:57,544 Getting page https://www.piwheels.org/simple/pyemma/ 2024-04-26T17:27:57,545 Found index url https://www.piwheels.org/simple/ 2024-04-26T17:27:57,757 Fetched page https://www.piwheels.org/simple/pyemma/ as text/html 2024-04-26T17:27:57,760 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.2.3-cp39-cp39-linux_armv6l.whl#sha256=c643ee36812f31eb86e608115dd78c33ea1d987242f636f4fe0f341f49c221a5 (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,760 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.2.3-cp39-cp39-linux_armv7l.whl#sha256=c643ee36812f31eb86e608115dd78c33ea1d987242f636f4fe0f341f49c221a5 (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,760 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.2.1-cp39-cp39-linux_armv6l.whl#sha256=32d2163e9bc45f473bb9cd7022b5f7d459caa2ec784fcd56e25c186a47cb97ee (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,761 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.2.1-cp39-cp39-linux_armv7l.whl#sha256=32d2163e9bc45f473bb9cd7022b5f7d459caa2ec784fcd56e25c186a47cb97ee (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,761 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.2-cp39-cp39-linux_armv6l.whl#sha256=99ea8563b6c5c5af380aebafdecf899b0573195e2fd0f2f271c4483f4534f5e0 (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,761 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.2-cp39-cp39-linux_armv7l.whl#sha256=99ea8563b6c5c5af380aebafdecf899b0573195e2fd0f2f271c4483f4534f5e0 (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,761 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.1.1-cp39-cp39-linux_armv6l.whl#sha256=83cc6795c4869158d9287b93439aeb1f8acf18e327510afa0515fdc2e454a996 (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,761 Skipping link: No binaries permitted for pyemma: https://www.piwheels.org/simple/pyemma/pyEMMA-2.1.1-cp39-cp39-linux_armv7l.whl#sha256=83cc6795c4869158d9287b93439aeb1f8acf18e327510afa0515fdc2e454a996 (from https://www.piwheels.org/simple/pyemma/) 2024-04-26T17:27:57,762 Skipping link: not a file: https://www.piwheels.org/simple/pyemma/ 2024-04-26T17:27:57,762 Skipping link: not a file: https://pypi.org/simple/pyemma/ 2024-04-26T17:27:57,785 Given no hashes to check 1 links for project 'pyemma': discarding no candidates 2024-04-26T17:27:57,802 Collecting pyemma==2.4 2024-04-26T17:27:57,804 Created temporary directory: /tmp/pip-unpack-6egr_92y 2024-04-26T17:27:58,573 Downloading pyEMMA-2.4.tar.gz (1.6 MB) 2024-04-26T17:27:59,585 Added pyemma==2.4 from https://files.pythonhosted.org/packages/45/d1/017a5298d6e67ab777268989c1793eb4d5d0869f366df7f1adf2a36a84e7/pyEMMA-2.4.tar.gz to build tracker '/tmp/pip-build-tracker-9bwvf6gf' 2024-04-26T17:27:59,587 Running setup.py (path:/tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/setup.py) egg_info for package pyemma 2024-04-26T17:27:59,587 Created temporary directory: /tmp/pip-pip-egg-info-nrqatz4w 2024-04-26T17:27:59,588 Preparing metadata (setup.py): started 2024-04-26T17:27:59,589 Running command python setup.py egg_info 2024-04-26T17:28:00,494 /usr/local/lib/python3.9/dist-packages/setuptools/__init__.py:81: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2024-04-26T17:28:00,494 !! 2024-04-26T17:28:00,495 ******************************************************************************** 2024-04-26T17:28:00,495 Requirements should be satisfied by a PEP 517 installer. 2024-04-26T17:28:00,495 If you are using pip, you can try `pip install --use-pep517`. 2024-04-26T17:28:00,495 ******************************************************************************** 2024-04-26T17:28:00,495 !! 2024-04-26T17:28:00,495 dist.fetch_build_eggs(dist.setup_requires) 2024-04-26T17:28:09,499 running egg_info 2024-04-26T17:28:09,500 creating /tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info 2024-04-26T17:28:09,544 writing /tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info/PKG-INFO 2024-04-26T17:28:09,548 writing dependency_links to /tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info/dependency_links.txt 2024-04-26T17:28:09,550 writing requirements to /tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info/requires.txt 2024-04-26T17:28:09,571 creating /tmp/hasfunction-u27cep46/tmp 2024-04-26T17:28:09,571 creating /tmp/hasfunction-u27cep46/tmp/hasfunction-u27cep46 2024-04-26T17:28:09,572 cc -c /tmp/hasfunction-u27cep46/funcname.c -o /tmp/hasfunction-u27cep46/tmp/hasfunction-u27cep46/funcname.o 2024-04-26T17:28:09,645 cc /tmp/hasfunction-u27cep46/tmp/hasfunction-u27cep46/funcname.o -o /tmp/hasfunction-u27cep46/a.out 2024-04-26T17:28:09,745 creating /tmp/hasfunction-x5m8pnxv/tmp 2024-04-26T17:28:09,745 creating /tmp/hasfunction-x5m8pnxv/tmp/hasfunction-x5m8pnxv 2024-04-26T17:28:09,746 cc -c /tmp/hasfunction-x5m8pnxv/funcname.c -o /tmp/hasfunction-x5m8pnxv/tmp/hasfunction-x5m8pnxv/funcname.o 2024-04-26T17:28:09,817 cc /tmp/hasfunction-x5m8pnxv/tmp/hasfunction-x5m8pnxv/funcname.o -lgomp -o /tmp/hasfunction-x5m8pnxv/a.out 2024-04-26T17:28:14,066 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/pyemma/_ext/orderedset/_orderedset.pyx 2024-04-26T17:28:14,067 tree = Parsing.p_module(s, pxd, full_module_name) 2024-04-26T17:28:16,207 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/pyemma/_ext/variational/estimators/covar_c/covartools.pyx 2024-04-26T17:28:16,208 tree = Parsing.p_module(s, pxd, full_module_name) 2024-04-26T17:28:16,995 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/pyemma/_ext/variational/solvers/eig_qr/eig_qr.pyx 2024-04-26T17:28:16,995 tree = Parsing.p_module(s, pxd, full_module_name) 2024-04-26T17:28:22,828 Compiling pyemma/_ext/variational/estimators/covar_c/covartools.pyx because it changed. 2024-04-26T17:28:22,828 Compiling pyemma/_ext/variational/solvers/eig_qr/eig_qr.pyx because it changed. 2024-04-26T17:28:22,828 Compiling pyemma/_ext/orderedset/_orderedset.pyx because it changed. 2024-04-26T17:28:22,829 [1/3] Cythonizing pyemma/_ext/orderedset/_orderedset.pyx 2024-04-26T17:28:22,829 [2/3] Cythonizing pyemma/_ext/variational/estimators/covar_c/covartools.pyx 2024-04-26T17:28:22,829 [3/3] Cythonizing pyemma/_ext/variational/solvers/eig_qr/eig_qr.pyx 2024-04-26T17:28:22,830 /tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/setup.py:167: UserWarning: enabled openmp 2024-04-26T17:28:22,830 warnings.warn('enabled openmp') 2024-04-26T17:28:22,831 writing top-level names to /tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info/top_level.txt 2024-04-26T17:28:22,833 writing manifest file '/tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info/SOURCES.txt' 2024-04-26T17:28:23,001 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:28:23,002 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:28:23,002 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:28:23,002 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:28:23,003 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:28:23,050 reading manifest file '/tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info/SOURCES.txt' 2024-04-26T17:28:23,053 reading manifest template 'MANIFEST.in' 2024-04-26T17:28:23,228 warning: no files found matching 'testfiles/*' under directory 'pyemma' 2024-04-26T17:28:23,230 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2024-04-26T17:28:23,231 warning: no previously-included files matching '*.orig' found anywhere in distribution 2024-04-26T17:28:23,236 no previously-included directories found matching 'doc/build' 2024-04-26T17:28:23,238 no previously-included directories found matching 'doc/source/generated' 2024-04-26T17:28:23,239 no previously-included directories found matching 'doc/source/api/generated' 2024-04-26T17:28:23,240 warning: no previously-included files matching 'git' found under directory '*' 2024-04-26T17:28:23,242 warning: no previously-included files matching '.git*' found under directory '*' 2024-04-26T17:28:23,518 no previously-included directories found matching '.eggs' 2024-04-26T17:28:23,519 adding license file 'LICENSE.txt' 2024-04-26T17:28:23,532 writing manifest file '/tmp/pip-pip-egg-info-nrqatz4w/pyEMMA.egg-info/SOURCES.txt' 2024-04-26T17:28:24,356 Preparing metadata (setup.py): finished with status 'done' 2024-04-26T17:28:24,361 Source in /tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28 has version 2.4, which satisfies requirement pyemma==2.4 from https://files.pythonhosted.org/packages/45/d1/017a5298d6e67ab777268989c1793eb4d5d0869f366df7f1adf2a36a84e7/pyEMMA-2.4.tar.gz 2024-04-26T17:28:24,362 Removed pyemma==2.4 from https://files.pythonhosted.org/packages/45/d1/017a5298d6e67ab777268989c1793eb4d5d0869f366df7f1adf2a36a84e7/pyEMMA-2.4.tar.gz from build tracker '/tmp/pip-build-tracker-9bwvf6gf' 2024-04-26T17:28:24,367 Created temporary directory: /tmp/pip-unpack-8u1h_9cn 2024-04-26T17:28:24,368 Created temporary directory: /tmp/pip-unpack-fx6vi7vu 2024-04-26T17:28:24,387 Building wheels for collected packages: pyemma 2024-04-26T17:28:24,391 Created temporary directory: /tmp/pip-wheel-u_t58y4i 2024-04-26T17:28:24,391 Building wheel for pyemma (setup.py): started 2024-04-26T17:28:24,393 Destination directory: /tmp/pip-wheel-u_t58y4i 2024-04-26T17:28:24,393 Running command python setup.py bdist_wheel 2024-04-26T17:28:25,292 /usr/local/lib/python3.9/dist-packages/setuptools/__init__.py:81: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2024-04-26T17:28:25,293 !! 2024-04-26T17:28:25,293 ******************************************************************************** 2024-04-26T17:28:25,293 Requirements should be satisfied by a PEP 517 installer. 2024-04-26T17:28:25,293 If you are using pip, you can try `pip install --use-pep517`. 2024-04-26T17:28:25,293 ******************************************************************************** 2024-04-26T17:28:25,294 !! 2024-04-26T17:28:25,294 dist.fetch_build_eggs(dist.setup_requires) 2024-04-26T17:28:26,387 running bdist_wheel 2024-04-26T17:28:26,496 creating /tmp/hasfunction-_i0ioaj2/tmp 2024-04-26T17:28:26,496 creating /tmp/hasfunction-_i0ioaj2/tmp/hasfunction-_i0ioaj2 2024-04-26T17:28:26,497 cc -c /tmp/hasfunction-_i0ioaj2/funcname.c -o /tmp/hasfunction-_i0ioaj2/tmp/hasfunction-_i0ioaj2/funcname.o 2024-04-26T17:28:26,570 cc /tmp/hasfunction-_i0ioaj2/tmp/hasfunction-_i0ioaj2/funcname.o -o /tmp/hasfunction-_i0ioaj2/a.out 2024-04-26T17:28:26,670 creating /tmp/hasfunction-50xwmayp/tmp 2024-04-26T17:28:26,670 creating /tmp/hasfunction-50xwmayp/tmp/hasfunction-50xwmayp 2024-04-26T17:28:26,671 cc -c /tmp/hasfunction-50xwmayp/funcname.c -o /tmp/hasfunction-50xwmayp/tmp/hasfunction-50xwmayp/funcname.o 2024-04-26T17:28:26,743 cc /tmp/hasfunction-50xwmayp/tmp/hasfunction-50xwmayp/funcname.o -lgomp -o /tmp/hasfunction-50xwmayp/a.out 2024-04-26T17:28:28,818 /tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/setup.py:167: UserWarning: enabled openmp 2024-04-26T17:28:28,819 warnings.warn('enabled openmp') 2024-04-26T17:28:28,908 running build 2024-04-26T17:28:28,908 running build_py 2024-04-26T17:28:28,914 creating build 2024-04-26T17:28:28,914 creating build/lib.linux-armv7l-cpython-39 2024-04-26T17:28:28,915 creating build/lib.linux-armv7l-cpython-39/pyemma 2024-04-26T17:28:28,916 copying pyemma/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma 2024-04-26T17:28:28,918 copying pyemma/conftest.py -> build/lib.linux-armv7l-cpython-39/pyemma 2024-04-26T17:28:28,920 copying pyemma/_version.py -> build/lib.linux-armv7l-cpython-39/pyemma 2024-04-26T17:28:28,922 creating build/lib.linux-armv7l-cpython-39/pyemma/plots 2024-04-26T17:28:28,923 copying pyemma/plots/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots 2024-04-26T17:28:28,924 copying pyemma/plots/networks.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots 2024-04-26T17:28:28,927 copying pyemma/plots/thermoplots.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots 2024-04-26T17:28:28,929 copying pyemma/plots/plots2d.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots 2024-04-26T17:28:28,931 copying pyemma/plots/timescales.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots 2024-04-26T17:28:28,933 copying pyemma/plots/markovtests.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots 2024-04-26T17:28:28,935 creating build/lib.linux-armv7l-cpython-39/pyemma/_base 2024-04-26T17:28:28,936 copying pyemma/_base/model.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base 2024-04-26T17:28:28,938 copying pyemma/_base/estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base 2024-04-26T17:28:28,940 copying pyemma/_base/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base 2024-04-26T17:28:28,942 copying pyemma/_base/logging.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base 2024-04-26T17:28:28,944 copying pyemma/_base/parallel.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base 2024-04-26T17:28:28,946 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext 2024-04-26T17:28:28,947 copying pyemma/_ext/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext 2024-04-26T17:28:28,949 creating build/lib.linux-armv7l-cpython-39/pyemma/msm 2024-04-26T17:28:28,950 copying pyemma/msm/api.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm 2024-04-26T17:28:28,953 copying pyemma/msm/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm 2024-04-26T17:28:28,955 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates 2024-04-26T17:28:28,956 copying pyemma/coordinates/api.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates 2024-04-26T17:28:28,959 copying pyemma/coordinates/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates 2024-04-26T17:28:28,961 copying pyemma/coordinates/acf.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates 2024-04-26T17:28:28,963 copying pyemma/coordinates/pipelines.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates 2024-04-26T17:28:28,966 creating build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,967 copying pyemma/util/testing_tools.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,969 copying pyemma/util/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,970 copying pyemma/util/indices.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,972 copying pyemma/util/metrics.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,974 copying pyemma/util/log.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,976 copying pyemma/util/units.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,978 copying pyemma/util/types.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,980 copying pyemma/util/exceptions.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,982 copying pyemma/util/numeric.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,984 copying pyemma/util/statistics.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,986 copying pyemma/util/contexts.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,987 copying pyemma/util/linalg.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,989 copying pyemma/util/files.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,991 copying pyemma/util/annotators.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,993 copying pyemma/util/reflection.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,995 copying pyemma/util/_config.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,997 copying pyemma/util/debug.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:28,999 copying pyemma/util/discrete_trajectories.py -> build/lib.linux-armv7l-cpython-39/pyemma/util 2024-04-26T17:28:29,001 creating build/lib.linux-armv7l-cpython-39/pyemma/thermo 2024-04-26T17:28:29,002 copying pyemma/thermo/api.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo 2024-04-26T17:28:29,006 copying pyemma/thermo/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo 2024-04-26T17:28:29,008 creating build/lib.linux-armv7l-cpython-39/pyemma/datasets 2024-04-26T17:28:29,009 copying pyemma/datasets/api.py -> build/lib.linux-armv7l-cpython-39/pyemma/datasets 2024-04-26T17:28:29,011 copying pyemma/datasets/double_well_discrete.py -> build/lib.linux-armv7l-cpython-39/pyemma/datasets 2024-04-26T17:28:29,012 copying pyemma/datasets/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/datasets 2024-04-26T17:28:29,014 copying pyemma/datasets/double_well_thermo.py -> build/lib.linux-armv7l-cpython-39/pyemma/datasets 2024-04-26T17:28:29,016 creating build/lib.linux-armv7l-cpython-39/pyemma/plots/_ext 2024-04-26T17:28:29,017 copying pyemma/plots/_ext/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots/_ext 2024-04-26T17:28:29,018 copying pyemma/plots/_ext/fruchterman_reingold.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots/_ext 2024-04-26T17:28:29,021 creating build/lib.linux-armv7l-cpython-39/pyemma/plots/tests 2024-04-26T17:28:29,021 copying pyemma/plots/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots/tests 2024-04-26T17:28:29,023 copying pyemma/plots/tests/test_networks.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots/tests 2024-04-26T17:28:29,025 copying pyemma/plots/tests/test_its.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots/tests 2024-04-26T17:28:29,027 copying pyemma/plots/tests/test_markovtests.py -> build/lib.linux-armv7l-cpython-39/pyemma/plots/tests 2024-04-26T17:28:29,029 creating build/lib.linux-armv7l-cpython-39/pyemma/_base/progress 2024-04-26T17:28:29,030 copying pyemma/_base/progress/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base/progress 2024-04-26T17:28:29,031 copying pyemma/_base/progress/test_progress.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base/progress 2024-04-26T17:28:29,033 creating build/lib.linux-armv7l-cpython-39/pyemma/_base/progress/reporter 2024-04-26T17:28:29,034 copying pyemma/_base/progress/reporter/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_base/progress/reporter 2024-04-26T17:28:29,036 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/sklearn 2024-04-26T17:28:29,037 copying pyemma/_ext/sklearn/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/sklearn 2024-04-26T17:28:29,038 copying pyemma/_ext/sklearn/parameter_search.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/sklearn 2024-04-26T17:28:29,040 copying pyemma/_ext/sklearn/base.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/sklearn 2024-04-26T17:28:29,043 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/orderedset 2024-04-26T17:28:29,044 copying pyemma/_ext/orderedset/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/orderedset 2024-04-26T17:28:29,046 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational 2024-04-26T17:28:29,047 copying pyemma/_ext/variational/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational 2024-04-26T17:28:29,049 copying pyemma/_ext/variational/util.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational 2024-04-26T17:28:29,051 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators 2024-04-26T17:28:29,052 copying pyemma/_ext/variational/estimators/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators 2024-04-26T17:28:29,053 copying pyemma/_ext/variational/estimators/moments.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators 2024-04-26T17:28:29,056 copying pyemma/_ext/variational/estimators/running_moments.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators 2024-04-26T17:28:29,059 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers 2024-04-26T17:28:29,060 copying pyemma/_ext/variational/solvers/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers 2024-04-26T17:28:29,061 copying pyemma/_ext/variational/solvers/direct.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers 2024-04-26T17:28:29,064 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests 2024-04-26T17:28:29,065 copying pyemma/_ext/variational/estimators/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests 2024-04-26T17:28:29,067 copying pyemma/_ext/variational/estimators/tests/test_moments.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests 2024-04-26T17:28:29,069 copying pyemma/_ext/variational/estimators/tests/benchmark_moments.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests 2024-04-26T17:28:29,071 copying pyemma/_ext/variational/estimators/tests/test_running_moments.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests 2024-04-26T17:28:29,074 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c 2024-04-26T17:28:29,075 copying pyemma/_ext/variational/estimators/covar_c/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c 2024-04-26T17:28:29,077 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/tests 2024-04-26T17:28:29,078 copying pyemma/_ext/variational/solvers/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/tests 2024-04-26T17:28:29,079 copying pyemma/_ext/variational/solvers/tests/test_direct.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/tests 2024-04-26T17:28:29,082 creating build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr 2024-04-26T17:28:29,082 copying pyemma/_ext/variational/solvers/eig_qr/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr 2024-04-26T17:28:29,085 creating build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,086 copying pyemma/msm/tests/test_msm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,089 copying pyemma/msm/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,090 copying pyemma/msm/tests/test_reactive_flux.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,092 copying pyemma/msm/tests/test_bayesian_msm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,095 copying pyemma/msm/tests/test_tpt.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,097 copying pyemma/msm/tests/test_dtraj_stats.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,099 copying pyemma/msm/tests/test_bayesian_hmsm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,101 copying pyemma/msm/tests/test_its_oom.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,103 copying pyemma/msm/tests/test_cktest.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,105 copying pyemma/msm/tests/test_hmsm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,108 copying pyemma/msm/tests/test_its.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,110 copying pyemma/msm/tests/test_subset.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,112 copying pyemma/msm/tests/test_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,114 copying pyemma/msm/tests/test_oom_msm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,117 copying pyemma/msm/tests/birth_death_chain.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests 2024-04-26T17:28:29,120 creating build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,121 copying pyemma/msm/estimators/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,123 copying pyemma/msm/estimators/_dtraj_stats.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,125 copying pyemma/msm/estimators/maximum_likelihood_hmsm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,128 copying pyemma/msm/estimators/implied_timescales.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,130 copying pyemma/msm/estimators/_OOM_MSM.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,132 copying pyemma/msm/estimators/lagged_model_validators.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,134 copying pyemma/msm/estimators/maximum_likelihood_msm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,138 copying pyemma/msm/estimators/bayesian_hmsm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,140 copying pyemma/msm/estimators/bayesian_msm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators 2024-04-26T17:28:29,142 creating build/lib.linux-armv7l-cpython-39/pyemma/msm/models 2024-04-26T17:28:29,143 copying pyemma/msm/models/hmsm_sampled.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/models 2024-04-26T17:28:29,145 copying pyemma/msm/models/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/models 2024-04-26T17:28:29,147 copying pyemma/msm/models/msm_sampled.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/models 2024-04-26T17:28:29,148 copying pyemma/msm/models/hmsm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/models 2024-04-26T17:28:29,151 copying pyemma/msm/models/reactive_flux.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/models 2024-04-26T17:28:29,153 copying pyemma/msm/models/msm.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/models 2024-04-26T17:28:29,156 creating build/lib.linux-armv7l-cpython-39/pyemma/msm/util 2024-04-26T17:28:29,157 copying pyemma/msm/util/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/util 2024-04-26T17:28:29,158 copying pyemma/msm/util/subset.py -> build/lib.linux-armv7l-cpython-39/pyemma/msm/util 2024-04-26T17:28:29,162 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,163 copying pyemma/coordinates/tests/test_pca.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,165 copying pyemma/coordinates/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,167 copying pyemma/coordinates/tests/test_frames_from_file.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,169 copying pyemma/coordinates/tests/test_acf.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,171 copying pyemma/coordinates/tests/test_featurereader.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,173 copying pyemma/coordinates/tests/test_koopman_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,174 copying pyemma/coordinates/tests/test_featurereader_and_tica_projection.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,176 copying pyemma/coordinates/tests/test_eq_covar_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,178 copying pyemma/coordinates/tests/test_uniform_time.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,180 copying pyemma/coordinates/tests/test_tica.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,182 copying pyemma/coordinates/tests/test_api_load.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,184 copying pyemma/coordinates/tests/test_random_access_stride.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,186 copying pyemma/coordinates/tests/test_api_source.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,188 copying pyemma/coordinates/tests/test_cluster_samples.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,190 copying pyemma/coordinates/tests/test_featurereader_and_tica.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,192 copying pyemma/coordinates/tests/test_datainmemory.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,194 copying pyemma/coordinates/tests/test_regspace.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,196 copying pyemma/coordinates/tests/test_fragmented_trajectory.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,198 copying pyemma/coordinates/tests/test_featurizer.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,201 copying pyemma/coordinates/tests/test_csvreader.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,203 copying pyemma/coordinates/tests/util.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,205 copying pyemma/coordinates/tests/test_traj_info_cache.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,207 copying pyemma/coordinates/tests/test_mini_batch_kmeans.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,209 copying pyemma/coordinates/tests/test_source.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,211 copying pyemma/coordinates/tests/test_discretizer.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,213 copying pyemma/coordinates/tests/test_covar_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,215 copying pyemma/coordinates/tests/test_stride.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,217 copying pyemma/coordinates/tests/test_cluster.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,219 copying pyemma/coordinates/tests/test_kmeans.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,221 copying pyemma/coordinates/tests/test_save_traj.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,223 copying pyemma/coordinates/tests/test_pipeline.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,225 copying pyemma/coordinates/tests/test_coordinates_iterator.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,227 copying pyemma/coordinates/tests/test_save_trajs.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,229 copying pyemma/coordinates/tests/test_numpyfilereader.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,231 copying pyemma/coordinates/tests/test_assign.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests 2024-04-26T17:28:29,234 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/estimation 2024-04-26T17:28:29,235 copying pyemma/coordinates/estimation/covariance.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/estimation 2024-04-26T17:28:29,237 copying pyemma/coordinates/estimation/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/estimation 2024-04-26T17:28:29,238 copying pyemma/coordinates/estimation/koopman.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/estimation 2024-04-26T17:28:29,241 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/transform 2024-04-26T17:28:29,242 copying pyemma/coordinates/transform/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/transform 2024-04-26T17:28:29,244 copying pyemma/coordinates/transform/pca.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/transform 2024-04-26T17:28:29,246 copying pyemma/coordinates/transform/tica.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/transform 2024-04-26T17:28:29,249 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,250 copying pyemma/coordinates/clustering/assign.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,251 copying pyemma/coordinates/clustering/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,253 copying pyemma/coordinates/clustering/uniform_time.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,255 copying pyemma/coordinates/clustering/kmeans.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,257 copying pyemma/coordinates/clustering/regspace.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,259 copying pyemma/coordinates/clustering/interface.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,262 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util 2024-04-26T17:28:29,263 copying pyemma/coordinates/util/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util 2024-04-26T17:28:29,264 copying pyemma/coordinates/util/patches.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util 2024-04-26T17:28:29,266 copying pyemma/coordinates/util/stat.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util 2024-04-26T17:28:29,268 copying pyemma/coordinates/util/change_notification.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util 2024-04-26T17:28:29,270 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data 2024-04-26T17:28:29,271 copying pyemma/coordinates/data/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data 2024-04-26T17:28:29,273 copying pyemma/coordinates/data/numpy_filereader.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data 2024-04-26T17:28:29,275 copying pyemma/coordinates/data/fragmented_trajectory_reader.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data 2024-04-26T17:28:29,277 copying pyemma/coordinates/data/data_in_memory.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data 2024-04-26T17:28:29,279 copying pyemma/coordinates/data/feature_reader.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data 2024-04-26T17:28:29,282 copying pyemma/coordinates/data/py_csv_reader.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data 2024-04-26T17:28:29,285 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base 2024-04-26T17:28:29,285 copying pyemma/coordinates/data/_base/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base 2024-04-26T17:28:29,287 copying pyemma/coordinates/data/_base/random_accessible.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base 2024-04-26T17:28:29,289 copying pyemma/coordinates/data/_base/iterable.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base 2024-04-26T17:28:29,291 copying pyemma/coordinates/data/_base/datasource.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base 2024-04-26T17:28:29,293 copying pyemma/coordinates/data/_base/streaming_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base 2024-04-26T17:28:29,295 copying pyemma/coordinates/data/_base/transformer.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base 2024-04-26T17:28:29,298 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,298 copying pyemma/coordinates/data/featurization/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,300 copying pyemma/coordinates/data/featurization/misc.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,302 copying pyemma/coordinates/data/featurization/angles.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,304 copying pyemma/coordinates/data/featurization/_base.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,305 copying pyemma/coordinates/data/featurization/distances.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,307 copying pyemma/coordinates/data/featurization/util.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,309 copying pyemma/coordinates/data/featurization/featurizer.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization 2024-04-26T17:28:29,313 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util 2024-04-26T17:28:29,314 copying pyemma/coordinates/data/util/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util 2024-04-26T17:28:29,315 copying pyemma/coordinates/data/util/traj_info_backends.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util 2024-04-26T17:28:29,317 copying pyemma/coordinates/data/util/frames_from_file.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util 2024-04-26T17:28:29,319 copying pyemma/coordinates/data/util/traj_info_cache.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util 2024-04-26T17:28:29,321 copying pyemma/coordinates/data/util/reader_utils.py -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util 2024-04-26T17:28:29,324 creating build/lib.linux-armv7l-cpython-39/pyemma/util/_ext 2024-04-26T17:28:29,325 copying pyemma/util/_ext/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/_ext 2024-04-26T17:28:29,326 copying pyemma/util/_ext/shimmodule.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/_ext 2024-04-26T17:28:29,329 creating build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,329 copying pyemma/util/tests/test_discrete_trajectories.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,331 copying pyemma/util/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,333 copying pyemma/util/tests/test_attribute_context.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,335 copying pyemma/util/tests/test_units.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,336 copying pyemma/util/tests/statistics_test.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,338 copying pyemma/util/tests/test_log.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,339 copying pyemma/util/tests/test_config.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,341 copying pyemma/util/tests/test_estimation_required_decorator.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,343 copying pyemma/util/tests/test_shortcut.py -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests 2024-04-26T17:28:29,345 creating build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators 2024-04-26T17:28:29,346 copying pyemma/thermo/estimators/_callback.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators 2024-04-26T17:28:29,348 copying pyemma/thermo/estimators/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators 2024-04-26T17:28:29,349 copying pyemma/thermo/estimators/DTRAM_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators 2024-04-26T17:28:29,352 copying pyemma/thermo/estimators/MBAR_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators 2024-04-26T17:28:29,354 copying pyemma/thermo/estimators/WHAM_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators 2024-04-26T17:28:29,356 copying pyemma/thermo/estimators/TRAM_estimator.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators 2024-04-26T17:28:29,359 creating build/lib.linux-armv7l-cpython-39/pyemma/thermo/models 2024-04-26T17:28:29,360 copying pyemma/thermo/models/multi_therm.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/models 2024-04-26T17:28:29,362 copying pyemma/thermo/models/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/models 2024-04-26T17:28:29,363 copying pyemma/thermo/models/stationary.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/models 2024-04-26T17:28:29,366 copying pyemma/thermo/models/memm.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/models 2024-04-26T17:28:29,368 creating build/lib.linux-armv7l-cpython-39/pyemma/thermo/util 2024-04-26T17:28:29,369 copying pyemma/thermo/util/__init__.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/util 2024-04-26T17:28:29,371 copying pyemma/thermo/util/util.py -> build/lib.linux-armv7l-cpython-39/pyemma/thermo/util 2024-04-26T17:28:29,391 copying pyemma/pyemma.cfg -> build/lib.linux-armv7l-cpython-39/pyemma 2024-04-26T17:28:29,393 copying pyemma/logging.yml -> build/lib.linux-armv7l-cpython-39/pyemma 2024-04-26T17:28:29,395 copying pyemma/datasets/double_well_discrete.npz -> build/lib.linux-armv7l-cpython-39/pyemma/datasets 2024-04-26T17:28:29,398 creating build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/data 2024-04-26T17:28:29,399 copying pyemma/msm/tests/data/TestData_ITS_OOM.npz -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/data 2024-04-26T17:28:29,402 copying pyemma/msm/tests/data/TestData_OOM_MSM.npz -> build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/data 2024-04-26T17:28:29,409 creating build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,410 copying pyemma/coordinates/tests/data/bpti_mini.binpos -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,414 copying pyemma/coordinates/tests/data/bpti_ca.pdb -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,416 copying pyemma/coordinates/tests/data/bpti_mini.h5 -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,420 copying pyemma/coordinates/tests/data/bpti_mini.xtc -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,424 copying pyemma/coordinates/tests/data/bpti_mini.lh5 -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,428 copying pyemma/coordinates/tests/data/test.pdb -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,430 copying pyemma/coordinates/tests/data/bpti_034-066.xtc -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,432 copying pyemma/coordinates/tests/data/opsin_aa_1_frame.pdb.gz -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,436 copying pyemma/coordinates/tests/data/bpti_mini.nc -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,440 copying pyemma/coordinates/tests/data/bpti_mini.netcdf -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,444 copying pyemma/coordinates/tests/data/test_data_koopman.npz -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,453 copying pyemma/coordinates/tests/data/opsin_Ca_1_frame.pdb.gz -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,456 copying pyemma/coordinates/tests/data/bpti_mini.trr -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,460 copying pyemma/coordinates/tests/data/bpti_mini.dcd -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,463 copying pyemma/coordinates/tests/data/bpti_001-033.xtc -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,466 copying pyemma/coordinates/tests/data/bpti_067-100.xtc -> build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data 2024-04-26T17:28:29,468 creating build/lib.linux-armv7l-cpython-39/pyemma/util/tests/data 2024-04-26T17:28:29,469 copying pyemma/util/tests/data/dtraj.dat -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests/data 2024-04-26T17:28:29,472 copying pyemma/util/tests/data/dtraj.npy -> build/lib.linux-armv7l-cpython-39/pyemma/util/tests/data 2024-04-26T17:28:29,506 UPDATING build/lib.linux-armv7l-cpython-39/pyemma/_version.py 2024-04-26T17:28:29,507 set build/lib.linux-armv7l-cpython-39/pyemma/_version.py to '2.4' 2024-04-26T17:28:29,508 running build_ext 2024-04-26T17:28:29,515 building 'pyemma.coordinates.clustering.regspatial' extension 2024-04-26T17:28:29,516 creating build/temp.linux-armv7l-cpython-39 2024-04-26T17:28:29,516 creating build/temp.linux-armv7l-cpython-39/pyemma 2024-04-26T17:28:29,517 creating build/temp.linux-armv7l-cpython-39/pyemma/coordinates 2024-04-26T17:28:29,518 creating build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering 2024-04-26T17:28:29,519 creating build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src 2024-04-26T17:28:29,521 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -I/tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/.eggs/mdtraj-1.9.9-py3.9-linux-armv7l.egg/mdtraj/core/lib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -Ipyemma/coordinates/clustering/include -I/usr/include/python3.9 -c pyemma/coordinates/clustering/src/clustering.c -o build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/clustering.o -std=c99 -g -O3 -fopenmp 2024-04-26T17:28:29,878 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-26T17:28:29,879 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-26T17:28:29,879 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-26T17:28:29,879 from pyemma/coordinates/clustering/include/clustering.h:27, 2024-04-26T17:28:29,879 from pyemma/coordinates/clustering/src/clustering.c:20: 2024-04-26T17:28:29,879 /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] 2024-04-26T17:28:29,879 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-26T17:28:29,879 | ^~~~~~~ 2024-04-26T17:28:29,909 pyemma/coordinates/clustering/src/clustering.c: In function ‘c_assign’: 2024-04-26T17:28:29,909 pyemma/coordinates/clustering/src/clustering.c:81:23: warning: unused variable ‘trace_centers’ [-Wunused-variable] 2024-04-26T17:28:29,909 81 | float d, mindist, trace_centers; 2024-04-26T17:28:29,909 | ^~~~~~~~~~~~~ 2024-04-26T17:28:29,910 pyemma/coordinates/clustering/src/clustering.c:81:11: warning: unused variable ‘d’ [-Wunused-variable] 2024-04-26T17:28:29,910 81 | float d, mindist, trace_centers; 2024-04-26T17:28:29,910 | ^ 2024-04-26T17:28:29,918 In file included from pyemma/coordinates/clustering/src/clustering.c:20: 2024-04-26T17:28:29,918 At top level: 2024-04-26T17:28:29,919 pyemma/coordinates/clustering/include/clustering.h:59:13: warning: ‘ASSIGN_USAGE’ defined but not used [-Wunused-variable] 2024-04-26T17:28:29,919 59 | static char ASSIGN_USAGE[] = "assign(chunk, centers, dtraj, metric)\n"\ 2024-04-26T17:28:29,919 | ^~~~~~~~~~~~ 2024-04-26T17:28:29,921 pyemma/coordinates/clustering/src/clustering.c: In function ‘c_assign’: 2024-04-26T17:28:29,921 pyemma/coordinates/clustering/src/clustering.c:94:7: warning: ‘debug’ is used uninitialized in this function [-Wuninitialized] 2024-04-26T17:28:29,922 94 | if(debug) printf("using openmp; n_threads=%i\n", n_threads); 2024-04-26T17:28:29,922 | ^ 2024-04-26T17:28:30,051 pyemma/coordinates/clustering/src/clustering.c:135:13: warning: ‘distance’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2024-04-26T17:28:30,052 135 | #pragma omp parallel private(buffer_a, buffer_b, i, j, chunk_p, mindist, argmin) 2024-04-26T17:28:30,052 | ^~~ 2024-04-26T17:28:30,192 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -I/tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/.eggs/mdtraj-1.9.9-py3.9-linux-armv7l.egg/mdtraj/core/lib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -Ipyemma/coordinates/clustering/include -I/usr/include/python3.9 -c pyemma/coordinates/clustering/src/regspatial.c -o build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/regspatial.o -std=c99 -g -O3 -fopenmp 2024-04-26T17:28:30,497 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-26T17:28:30,497 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-26T17:28:30,498 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-26T17:28:30,498 from pyemma/coordinates/clustering/include/clustering.h:27, 2024-04-26T17:28:30,498 from pyemma/coordinates/clustering/src/regspatial.c:19: 2024-04-26T17:28:30,498 /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] 2024-04-26T17:28:30,498 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-26T17:28:30,498 | ^~~~~~~ 2024-04-26T17:28:30,534 pyemma/coordinates/clustering/src/regspatial.c:177:1: warning: ‘error_out’ defined but not used [-Wunused-function] 2024-04-26T17:28:30,534 177 | error_out(PyObject *m) { 2024-04-26T17:28:30,534 | ^~~~~~~~~ 2024-04-26T17:28:30,534 pyemma/coordinates/clustering/src/regspatial.c:127:13: warning: ‘MOD_USAGE’ defined but not used [-Wunused-variable] 2024-04-26T17:28:30,535 127 | static char MOD_USAGE[] = "Chunked regular spatial clustering"; 2024-04-26T17:28:30,535 | ^~~~~~~~~ 2024-04-26T17:28:30,817 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/clustering.o build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/regspatial.o -L/tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/.eggs/mdtraj-1.9.9-py3.9-linux-armv7l.egg/mdtraj/core/lib -L/usr/lib -ltheobald -o build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/regspatial.cpython-39-arm-linux-gnueabihf.so -lgomp 2024-04-26T17:28:30,942 building 'pyemma.coordinates.clustering.kmeans_clustering' extension 2024-04-26T17:28:30,943 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -I/tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/.eggs/mdtraj-1.9.9-py3.9-linux-armv7l.egg/mdtraj/core/lib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -Ipyemma/coordinates/clustering/include -I/usr/include/python3.9 -c pyemma/coordinates/clustering/src/clustering.c -o build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/clustering.o -std=c99 -fopenmp 2024-04-26T17:28:31,249 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-26T17:28:31,249 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-26T17:28:31,249 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-26T17:28:31,249 from pyemma/coordinates/clustering/include/clustering.h:27, 2024-04-26T17:28:31,250 from pyemma/coordinates/clustering/src/clustering.c:20: 2024-04-26T17:28:31,250 /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] 2024-04-26T17:28:31,250 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-26T17:28:31,250 | ^~~~~~~ 2024-04-26T17:28:31,275 pyemma/coordinates/clustering/src/clustering.c: In function ‘c_assign’: 2024-04-26T17:28:31,275 pyemma/coordinates/clustering/src/clustering.c:81:23: warning: unused variable ‘trace_centers’ [-Wunused-variable] 2024-04-26T17:28:31,276 81 | float d, mindist, trace_centers; 2024-04-26T17:28:31,276 | ^~~~~~~~~~~~~ 2024-04-26T17:28:31,276 pyemma/coordinates/clustering/src/clustering.c:81:11: warning: unused variable ‘d’ [-Wunused-variable] 2024-04-26T17:28:31,276 81 | float d, mindist, trace_centers; 2024-04-26T17:28:31,276 | ^ 2024-04-26T17:28:31,284 In file included from pyemma/coordinates/clustering/src/clustering.c:20: 2024-04-26T17:28:31,285 At top level: 2024-04-26T17:28:31,285 pyemma/coordinates/clustering/include/clustering.h:59:13: warning: ‘ASSIGN_USAGE’ defined but not used [-Wunused-variable] 2024-04-26T17:28:31,285 59 | static char ASSIGN_USAGE[] = "assign(chunk, centers, dtraj, metric)\n"\ 2024-04-26T17:28:31,285 | ^~~~~~~~~~~~ 2024-04-26T17:28:31,287 pyemma/coordinates/clustering/src/clustering.c: In function ‘c_assign’: 2024-04-26T17:28:31,288 pyemma/coordinates/clustering/src/clustering.c:94:7: warning: ‘debug’ is used uninitialized in this function [-Wuninitialized] 2024-04-26T17:28:31,288 94 | if(debug) printf("using openmp; n_threads=%i\n", n_threads); 2024-04-26T17:28:31,288 | ^ 2024-04-26T17:28:31,412 pyemma/coordinates/clustering/src/clustering.c:135:13: warning: ‘distance’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2024-04-26T17:28:31,412 135 | #pragma omp parallel private(buffer_a, buffer_b, i, j, chunk_p, mindist, argmin) 2024-04-26T17:28:31,412 | ^~~ 2024-04-26T17:28:31,550 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -I/tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/.eggs/mdtraj-1.9.9-py3.9-linux-armv7l.egg/mdtraj/core/lib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -Ipyemma/coordinates/clustering/include -I/usr/include/python3.9 -c pyemma/coordinates/clustering/src/kmeans.c -o build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/kmeans.o -std=c99 -fopenmp 2024-04-26T17:28:31,805 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-26T17:28:31,806 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-26T17:28:31,806 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-26T17:28:31,806 from pyemma/coordinates/clustering/include/clustering.h:27, 2024-04-26T17:28:31,806 from pyemma/coordinates/clustering/src/kmeans.c:20: 2024-04-26T17:28:31,806 /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] 2024-04-26T17:28:31,806 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-26T17:28:31,806 | ^~~~~~~ 2024-04-26T17:28:31,831 pyemma/coordinates/clustering/src/kmeans.c: In function ‘cluster’: 2024-04-26T17:28:31,831 pyemma/coordinates/clustering/src/kmeans.c:51:38: warning: variable ‘py_res’ set but not used [-Wunused-but-set-variable] 2024-04-26T17:28:31,831 51 | PyObject *py_centers, *py_item, *py_res; 2024-04-26T17:28:31,831 | ^~~~~~ 2024-04-26T17:28:31,832 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-26T17:28:31,832 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-26T17:28:31,832 from pyemma/coordinates/clustering/include/clustering.h:27, 2024-04-26T17:28:31,832 from pyemma/coordinates/clustering/src/kmeans.c:20: 2024-04-26T17:28:31,832 pyemma/coordinates/clustering/src/kmeans.c: In function ‘costFunction’: 2024-04-26T17:28:31,833 pyemma/coordinates/clustering/src/kmeans.c:252:47: warning: passing argument 1 of ‘PyList_GetItem’ from incompatible pointer type [-Wincompatible-pointer-types] 2024-04-26T17:28:31,833 252 | centers = PyArray_DATA(PyList_GetItem(np_centers,r)); 2024-04-26T17:28:31,833 | ^~~~~~~~~~ 2024-04-26T17:28:31,833 | | 2024-04-26T17:28:31,834 | PyArrayObject * {aka struct tagPyArrayObject_fields *} 2024-04-26T17:28:31,834 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1605:62: note: in definition of macro ‘PyArray_DATA’ 2024-04-26T17:28:31,834 1605 | #define PyArray_DATA(obj) ((void *)((PyArrayObject_fields *)(obj))->data) 2024-04-26T17:28:31,834 | ^~~ 2024-04-26T17:28:31,834 In file included from /usr/include/python3.9/Python.h:106, 2024-04-26T17:28:31,834 from pyemma/coordinates/clustering/include/clustering.h:25, 2024-04-26T17:28:31,834 from pyemma/coordinates/clustering/src/kmeans.c:20: 2024-04-26T17:28:31,835 /usr/include/python3.9/listobject.h:31:39: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘PyArrayObject *’ {aka ‘struct tagPyArrayObject_fields *’} 2024-04-26T17:28:31,835 31 | PyAPI_FUNC(PyObject *) PyList_GetItem(PyObject *, Py_ssize_t); 2024-04-26T17:28:31,835 | ^~~~~~~~~~ 2024-04-26T17:28:31,835 pyemma/coordinates/clustering/src/kmeans.c:218:18: warning: variable ‘d’ set but not used [-Wunused-but-set-variable] 2024-04-26T17:28:31,835 218 | float value, d; 2024-04-26T17:28:31,835 | ^ 2024-04-26T17:28:31,835 pyemma/coordinates/clustering/src/kmeans.c:217:15: warning: variable ‘j’ set but not used [-Wunused-but-set-variable] 2024-04-26T17:28:31,836 217 | int k, i, j, r; 2024-04-26T17:28:31,836 | ^ 2024-04-26T17:28:31,851 At top level: 2024-04-26T17:28:31,851 pyemma/coordinates/clustering/src/kmeans.c:569:1: warning: ‘error_out’ defined but not used [-Wunused-function] 2024-04-26T17:28:31,852 569 | error_out(PyObject *m) { 2024-04-26T17:28:31,852 | ^~~~~~~~~ 2024-04-26T17:28:31,852 pyemma/coordinates/clustering/src/kmeans.c:497:13: warning: ‘MOD_USAGE’ defined but not used [-Wunused-variable] 2024-04-26T17:28:31,852 497 | static char MOD_USAGE[] = "Chunked regular spatial clustering"; 2024-04-26T17:28:31,852 | ^~~~~~~~~ 2024-04-26T17:28:32,531 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/clustering.o build/temp.linux-armv7l-cpython-39/pyemma/coordinates/clustering/src/kmeans.o -L/tmp/pip-wheel-oa6q25t9/pyemma_8b394c32a6bd4bed93e51da8bd0a8f28/.eggs/mdtraj-1.9.9-py3.9-linux-armv7l.egg/mdtraj/core/lib -L/usr/lib -ltheobald -o build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/kmeans_clustering.cpython-39-arm-linux-gnueabihf.so -lgomp 2024-04-26T17:28:32,654 building 'pyemma._ext.variational.estimators.covar_c.covartools' extension 2024-04-26T17:28:32,655 creating build/temp.linux-armv7l-cpython-39/pyemma/_ext 2024-04-26T17:28:32,656 creating build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational 2024-04-26T17:28:32,656 creating build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators 2024-04-26T17:28:32,657 creating build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c 2024-04-26T17:28:32,658 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -Ipyemma/_ext/variational/estimators/covar_c -Ipyemma/_ext/variational/estimators/covar_c/ -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c pyemma/_ext/variational/estimators/covar_c/_covartools.c -o build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c/_covartools.o -std=c99 -O3 -fopenmp 2024-04-26T17:28:33,113 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -Ipyemma/_ext/variational/estimators/covar_c -Ipyemma/_ext/variational/estimators/covar_c/ -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c pyemma/_ext/variational/estimators/covar_c/covartools.c -o build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c/covartools.o -std=c99 -O3 -fopenmp 2024-04-26T17:28:33,430 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-26T17:28:33,431 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-26T17:28:33,431 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-26T17:28:33,431 from pyemma/_ext/variational/estimators/covar_c/covartools.c:1257: 2024-04-26T17:28:33,431 /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] 2024-04-26T17:28:33,431 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-26T17:28:33,432 | ^~~~~~~ 2024-04-26T17:28:33,539 pyemma/_ext/variational/estimators/covar_c/covartools.c: In function ‘__pyx_pf_6pyemma_4_ext_11variational_10estimators_7covar_c_10covartools_12subtract_row_float’: 2024-04-26T17:28:33,542 pyemma/_ext/variational/estimators/covar_c/covartools.c:6712:23: warning: passing argument 1 of ‘_subtract_row_float’ from incompatible pointer type [-Wincompatible-pointer-types] 2024-04-26T17:28:33,542 6712 | _subtract_row_float(__pyx_v_pX, __pyx_v_prow, __pyx_t_1, __pyx_t_2); 2024-04-26T17:28:33,542 | ^~~~~~~~~~ 2024-04-26T17:28:33,543 | | 2024-04-26T17:28:33,543 | float * 2024-04-26T17:28:33,543 In file included from pyemma/_ext/variational/estimators/covar_c/covartools.c:1262: 2024-04-26T17:28:33,543 pyemma/_ext/variational/estimators/covar_c/_covartools.h:5:34: note: expected ‘double *’ but argument is of type ‘float *’ 2024-04-26T17:28:33,543 5 | void _subtract_row_float(double* X, double* row, int M, int N); 2024-04-26T17:28:33,543 | ~~~~~~~~^ 2024-04-26T17:28:33,546 pyemma/_ext/variational/estimators/covar_c/covartools.c:6712:35: warning: passing argument 2 of ‘_subtract_row_float’ from incompatible pointer type [-Wincompatible-pointer-types] 2024-04-26T17:28:33,546 6712 | _subtract_row_float(__pyx_v_pX, __pyx_v_prow, __pyx_t_1, __pyx_t_2); 2024-04-26T17:28:33,546 | ^~~~~~~~~~~~ 2024-04-26T17:28:33,547 | | 2024-04-26T17:28:33,547 | float * 2024-04-26T17:28:33,547 In file included from pyemma/_ext/variational/estimators/covar_c/covartools.c:1262: 2024-04-26T17:28:33,547 pyemma/_ext/variational/estimators/covar_c/_covartools.h:5:45: note: expected ‘double *’ but argument is of type ‘float *’ 2024-04-26T17:28:33,547 5 | void _subtract_row_float(double* X, double* row, int M, int N); 2024-04-26T17:28:33,547 | ~~~~~~~~^~~ 2024-04-26T17:28:33,586 pyemma/_ext/variational/estimators/covar_c/covartools.c: In function ‘__pyx_pf_6pyemma_4_ext_11variational_10estimators_7covar_c_10covartools_18subtract_row_float_copy’: 2024-04-26T17:28:33,592 pyemma/_ext/variational/estimators/covar_c/covartools.c:7472:3: warning: implicit declaration of function ‘_subtract_row_float_copy’; did you mean ‘_subtract_row_float’? [-Wimplicit-function-declaration] 2024-04-26T17:28:33,592 7472 | _subtract_row_float_copy(__pyx_v_pX0, __pyx_v_pX, __pyx_v_prow, __pyx_t_6, __pyx_t_7); 2024-04-26T17:28:33,592 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2024-04-26T17:28:33,592 | _subtract_row_float 2024-04-26T17:28:44,581 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c/_covartools.o build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c/covartools.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c/covartools.cpython-39-arm-linux-gnueabihf.so -lgomp 2024-04-26T17:28:44,717 building 'pyemma._ext.variational.solvers.eig_qr.eig_qr' extension 2024-04-26T17:28:44,717 creating build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers 2024-04-26T17:28:44,718 creating build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr 2024-04-26T17:28:44,719 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -Ipyemma/_ext/variational/solvers/eig_qr/ -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c pyemma/_ext/variational/solvers/eig_qr/eig_qr.c -o build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr/eig_qr.o -std=c99 -O3 -fopenmp 2024-04-26T17:29:13,399 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr/eig_qr.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr/eig_qr.cpython-39-arm-linux-gnueabihf.so -lgomp 2024-04-26T17:29:13,577 building 'pyemma._ext.orderedset._orderedset' extension 2024-04-26T17:29:13,578 creating build/temp.linux-armv7l-cpython-39/pyemma/_ext/orderedset 2024-04-26T17:29:13,579 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DUSE_OPENMP -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c pyemma/_ext/orderedset/_orderedset.c -o build/temp.linux-armv7l-cpython-39/pyemma/_ext/orderedset/_orderedset.o -O3 -fopenmp 2024-04-26T17:29:39,535 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pyemma/_ext/orderedset/_orderedset.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/pyemma/_ext/orderedset/_orderedset.cpython-39-arm-linux-gnueabihf.so -lgomp 2024-04-26T17:29:39,767 /usr/local/lib/python3.9/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-04-26T17:29:39,767 !! 2024-04-26T17:29:39,767 ******************************************************************************** 2024-04-26T17:29:39,767 Please avoid running ``setup.py`` directly. 2024-04-26T17:29:39,767 Instead, use pypa/build, pypa/installer or other 2024-04-26T17:29:39,768 standards-based tools. 2024-04-26T17:29:39,768 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-04-26T17:29:39,768 ******************************************************************************** 2024-04-26T17:29:39,768 !! 2024-04-26T17:29:39,768 self.initialize_options() 2024-04-26T17:29:39,817 installing to build/bdist.linux-armv7l/wheel 2024-04-26T17:29:39,818 running install 2024-04-26T17:29:39,844 running install_lib 2024-04-26T17:29:39,888 creating build/bdist.linux-armv7l 2024-04-26T17:29:39,889 creating build/bdist.linux-armv7l/wheel 2024-04-26T17:29:39,890 creating build/bdist.linux-armv7l/wheel/pyemma 2024-04-26T17:29:39,892 creating build/bdist.linux-armv7l/wheel/pyemma/plots 2024-04-26T17:29:39,893 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/plots 2024-04-26T17:29:39,895 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/networks.py -> build/bdist.linux-armv7l/wheel/pyemma/plots 2024-04-26T17:29:39,898 creating build/bdist.linux-armv7l/wheel/pyemma/plots/_ext 2024-04-26T17:29:39,899 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/_ext/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/plots/_ext 2024-04-26T17:29:39,901 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/_ext/fruchterman_reingold.py -> build/bdist.linux-armv7l/wheel/pyemma/plots/_ext 2024-04-26T17:29:39,903 creating build/bdist.linux-armv7l/wheel/pyemma/plots/tests 2024-04-26T17:29:39,904 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/tests/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/plots/tests 2024-04-26T17:29:39,906 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/tests/test_networks.py -> build/bdist.linux-armv7l/wheel/pyemma/plots/tests 2024-04-26T17:29:39,907 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/tests/test_its.py -> build/bdist.linux-armv7l/wheel/pyemma/plots/tests 2024-04-26T17:29:39,909 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/tests/test_markovtests.py -> build/bdist.linux-armv7l/wheel/pyemma/plots/tests 2024-04-26T17:29:39,911 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/thermoplots.py -> build/bdist.linux-armv7l/wheel/pyemma/plots 2024-04-26T17:29:39,913 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/plots2d.py -> build/bdist.linux-armv7l/wheel/pyemma/plots 2024-04-26T17:29:39,915 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/timescales.py -> build/bdist.linux-armv7l/wheel/pyemma/plots 2024-04-26T17:29:39,917 copying build/lib.linux-armv7l-cpython-39/pyemma/plots/markovtests.py -> build/bdist.linux-armv7l/wheel/pyemma/plots 2024-04-26T17:29:39,919 copying build/lib.linux-armv7l-cpython-39/pyemma/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma 2024-04-26T17:29:39,922 creating build/bdist.linux-armv7l/wheel/pyemma/_base 2024-04-26T17:29:39,922 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/model.py -> build/bdist.linux-armv7l/wheel/pyemma/_base 2024-04-26T17:29:39,925 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/_base 2024-04-26T17:29:39,927 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_base 2024-04-26T17:29:39,929 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/logging.py -> build/bdist.linux-armv7l/wheel/pyemma/_base 2024-04-26T17:29:39,931 creating build/bdist.linux-armv7l/wheel/pyemma/_base/progress 2024-04-26T17:29:39,932 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/progress/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_base/progress 2024-04-26T17:29:39,934 creating build/bdist.linux-armv7l/wheel/pyemma/_base/progress/reporter 2024-04-26T17:29:39,935 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/progress/reporter/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_base/progress/reporter 2024-04-26T17:29:39,937 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/progress/test_progress.py -> build/bdist.linux-armv7l/wheel/pyemma/_base/progress 2024-04-26T17:29:39,938 copying build/lib.linux-armv7l-cpython-39/pyemma/_base/parallel.py -> build/bdist.linux-armv7l/wheel/pyemma/_base 2024-04-26T17:29:39,940 creating build/bdist.linux-armv7l/wheel/pyemma/_ext 2024-04-26T17:29:39,941 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext 2024-04-26T17:29:39,943 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/sklearn 2024-04-26T17:29:39,944 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/sklearn/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/sklearn 2024-04-26T17:29:39,946 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/sklearn/parameter_search.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/sklearn 2024-04-26T17:29:39,948 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/sklearn/base.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/sklearn 2024-04-26T17:29:39,950 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/orderedset 2024-04-26T17:29:39,951 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/orderedset/_orderedset.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pyemma/_ext/orderedset 2024-04-26T17:29:39,980 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/orderedset/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/orderedset 2024-04-26T17:29:39,982 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/variational 2024-04-26T17:29:39,983 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational 2024-04-26T17:29:39,985 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators 2024-04-26T17:29:39,986 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators 2024-04-26T17:29:39,988 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/tests 2024-04-26T17:29:39,989 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/tests 2024-04-26T17:29:39,991 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests/test_moments.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/tests 2024-04-26T17:29:39,993 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests/benchmark_moments.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/tests 2024-04-26T17:29:39,995 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/tests/test_running_moments.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/tests 2024-04-26T17:29:39,998 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/moments.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators 2024-04-26T17:29:40,001 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/covar_c 2024-04-26T17:29:40,002 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/covar_c 2024-04-26T17:29:40,003 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/covar_c/covartools.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators/covar_c 2024-04-26T17:29:40,019 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/estimators/running_moments.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/estimators 2024-04-26T17:29:40,021 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/util.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational 2024-04-26T17:29:40,024 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers 2024-04-26T17:29:40,024 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers 2024-04-26T17:29:40,026 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers/tests 2024-04-26T17:29:40,027 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/tests/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers/tests 2024-04-26T17:29:40,029 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/tests/test_direct.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers/tests 2024-04-26T17:29:40,031 creating build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers/eig_qr 2024-04-26T17:29:40,032 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers/eig_qr 2024-04-26T17:29:40,034 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/eig_qr/eig_qr.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers/eig_qr 2024-04-26T17:29:40,060 copying build/lib.linux-armv7l-cpython-39/pyemma/_ext/variational/solvers/direct.py -> build/bdist.linux-armv7l/wheel/pyemma/_ext/variational/solvers 2024-04-26T17:29:40,062 copying build/lib.linux-armv7l-cpython-39/pyemma/pyemma.cfg -> build/bdist.linux-armv7l/wheel/pyemma 2024-04-26T17:29:40,064 copying build/lib.linux-armv7l-cpython-39/pyemma/logging.yml -> build/bdist.linux-armv7l/wheel/pyemma 2024-04-26T17:29:40,066 creating build/bdist.linux-armv7l/wheel/pyemma/msm 2024-04-26T17:29:40,067 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/api.py -> build/bdist.linux-armv7l/wheel/pyemma/msm 2024-04-26T17:29:40,070 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/msm 2024-04-26T17:29:40,073 creating build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,074 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_msm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,076 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,078 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_reactive_flux.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,080 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_bayesian_msm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,082 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_tpt.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,085 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_dtraj_stats.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,087 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_bayesian_hmsm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,089 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_its_oom.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,091 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_cktest.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,093 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_hmsm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,095 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_its.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,097 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_subset.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,099 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,101 creating build/bdist.linux-armv7l/wheel/pyemma/msm/tests/data 2024-04-26T17:29:40,102 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/data/TestData_ITS_OOM.npz -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests/data 2024-04-26T17:29:40,105 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/data/TestData_OOM_MSM.npz -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests/data 2024-04-26T17:29:40,110 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/test_oom_msm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,113 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/tests/birth_death_chain.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/tests 2024-04-26T17:29:40,116 creating build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,117 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,119 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/_dtraj_stats.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,121 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/maximum_likelihood_hmsm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,124 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/implied_timescales.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,126 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/_OOM_MSM.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,128 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/lagged_model_validators.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,131 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/maximum_likelihood_msm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,134 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/bayesian_hmsm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,137 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/estimators/bayesian_msm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/estimators 2024-04-26T17:29:40,139 creating build/bdist.linux-armv7l/wheel/pyemma/msm/models 2024-04-26T17:29:40,140 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/models/hmsm_sampled.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/models 2024-04-26T17:29:40,142 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/models/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/models 2024-04-26T17:29:40,144 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/models/msm_sampled.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/models 2024-04-26T17:29:40,146 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/models/hmsm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/models 2024-04-26T17:29:40,148 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/models/reactive_flux.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/models 2024-04-26T17:29:40,150 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/models/msm.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/models 2024-04-26T17:29:40,153 creating build/bdist.linux-armv7l/wheel/pyemma/msm/util 2024-04-26T17:29:40,154 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/util/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/util 2024-04-26T17:29:40,156 copying build/lib.linux-armv7l-cpython-39/pyemma/msm/util/subset.py -> build/bdist.linux-armv7l/wheel/pyemma/msm/util 2024-04-26T17:29:40,158 copying build/lib.linux-armv7l-cpython-39/pyemma/conftest.py -> build/bdist.linux-armv7l/wheel/pyemma 2024-04-26T17:29:40,160 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates 2024-04-26T17:29:40,161 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/api.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates 2024-04-26T17:29:40,165 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates 2024-04-26T17:29:40,168 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,169 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_pca.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,171 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,173 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_frames_from_file.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,175 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_acf.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,177 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_featurereader.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,179 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_koopman_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,181 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_featurereader_and_tica_projection.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,183 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_eq_covar_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,185 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_uniform_time.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,186 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_tica.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,189 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_api_load.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,191 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_random_access_stride.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,193 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_api_source.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,196 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_cluster_samples.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,197 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_featurereader_and_tica.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,199 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_datainmemory.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,202 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_regspace.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,204 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_fragmented_trajectory.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,206 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_featurizer.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,209 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_csvreader.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,211 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/util.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,213 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_traj_info_cache.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,216 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_mini_batch_kmeans.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,217 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_source.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,219 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_discretizer.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,221 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_covar_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,224 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_stride.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,226 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,227 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.binpos -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,230 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_ca.pdb -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,232 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.h5 -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,236 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.xtc -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,239 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.lh5 -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,243 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/test.pdb -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,244 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_034-066.xtc -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,247 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/opsin_aa_1_frame.pdb.gz -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,250 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.nc -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,254 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.netcdf -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,258 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/test_data_koopman.npz -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,267 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/opsin_Ca_1_frame.pdb.gz -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,269 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.trr -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,273 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_mini.dcd -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,277 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_001-033.xtc -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,279 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/data/bpti_067-100.xtc -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests/data 2024-04-26T17:29:40,281 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_cluster.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,283 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_kmeans.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,286 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_save_traj.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,288 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_pipeline.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,290 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_coordinates_iterator.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,292 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_save_trajs.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,294 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_numpyfilereader.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,296 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/tests/test_assign.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/tests 2024-04-26T17:29:40,298 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/acf.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates 2024-04-26T17:29:40,301 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/estimation 2024-04-26T17:29:40,302 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/estimation/covariance.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/estimation 2024-04-26T17:29:40,304 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/estimation/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/estimation 2024-04-26T17:29:40,306 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/estimation/koopman.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/estimation 2024-04-26T17:29:40,308 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/transform 2024-04-26T17:29:40,309 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/transform/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/transform 2024-04-26T17:29:40,311 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/transform/pca.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/transform 2024-04-26T17:29:40,313 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/transform/tica.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/transform 2024-04-26T17:29:40,317 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,317 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/assign.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,319 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,321 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/uniform_time.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,323 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/kmeans.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,325 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/regspatial.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,330 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/regspace.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,332 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/kmeans_clustering.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,337 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/clustering/interface.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/clustering 2024-04-26T17:29:40,339 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/util 2024-04-26T17:29:40,340 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/util 2024-04-26T17:29:40,342 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util/patches.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/util 2024-04-26T17:29:40,344 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util/stat.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/util 2024-04-26T17:29:40,346 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/util/change_notification.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/util 2024-04-26T17:29:40,348 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/data 2024-04-26T17:29:40,349 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data 2024-04-26T17:29:40,351 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/_base 2024-04-26T17:29:40,352 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/_base 2024-04-26T17:29:40,354 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base/random_accessible.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/_base 2024-04-26T17:29:40,355 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base/iterable.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/_base 2024-04-26T17:29:40,358 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base/datasource.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/_base 2024-04-26T17:29:40,360 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base/streaming_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/_base 2024-04-26T17:29:40,362 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/_base/transformer.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/_base 2024-04-26T17:29:40,364 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/numpy_filereader.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data 2024-04-26T17:29:40,366 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/fragmented_trajectory_reader.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data 2024-04-26T17:29:40,369 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/data_in_memory.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data 2024-04-26T17:29:40,371 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,372 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,374 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization/misc.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,376 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization/angles.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,378 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization/_base.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,380 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization/distances.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,382 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization/util.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,384 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/featurization/featurizer.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/featurization 2024-04-26T17:29:40,386 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/feature_reader.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data 2024-04-26T17:29:40,389 creating build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/util 2024-04-26T17:29:40,390 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/util 2024-04-26T17:29:40,392 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util/traj_info_backends.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/util 2024-04-26T17:29:40,394 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util/frames_from_file.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/util 2024-04-26T17:29:40,396 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util/traj_info_cache.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/util 2024-04-26T17:29:40,398 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/util/reader_utils.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data/util 2024-04-26T17:29:40,401 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/data/py_csv_reader.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates/data 2024-04-26T17:29:40,403 copying build/lib.linux-armv7l-cpython-39/pyemma/coordinates/pipelines.py -> build/bdist.linux-armv7l/wheel/pyemma/coordinates 2024-04-26T17:29:40,406 creating build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,406 copying build/lib.linux-armv7l-cpython-39/pyemma/util/testing_tools.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,408 copying build/lib.linux-armv7l-cpython-39/pyemma/util/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,410 copying build/lib.linux-armv7l-cpython-39/pyemma/util/indices.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,411 copying build/lib.linux-armv7l-cpython-39/pyemma/util/metrics.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,414 copying build/lib.linux-armv7l-cpython-39/pyemma/util/log.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,416 copying build/lib.linux-armv7l-cpython-39/pyemma/util/units.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,418 creating build/bdist.linux-armv7l/wheel/pyemma/util/_ext 2024-04-26T17:29:40,419 copying build/lib.linux-armv7l-cpython-39/pyemma/util/_ext/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/util/_ext 2024-04-26T17:29:40,421 copying build/lib.linux-armv7l-cpython-39/pyemma/util/_ext/shimmodule.py -> build/bdist.linux-armv7l/wheel/pyemma/util/_ext 2024-04-26T17:29:40,423 creating build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,424 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/test_discrete_trajectories.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,426 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,428 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/test_attribute_context.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,429 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/test_units.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,431 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/statistics_test.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,433 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/test_log.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,435 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/test_config.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,437 creating build/bdist.linux-armv7l/wheel/pyemma/util/tests/data 2024-04-26T17:29:40,438 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/data/dtraj.dat -> build/bdist.linux-armv7l/wheel/pyemma/util/tests/data 2024-04-26T17:29:40,441 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/data/dtraj.npy -> build/bdist.linux-armv7l/wheel/pyemma/util/tests/data 2024-04-26T17:29:40,444 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/test_estimation_required_decorator.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,446 copying build/lib.linux-armv7l-cpython-39/pyemma/util/tests/test_shortcut.py -> build/bdist.linux-armv7l/wheel/pyemma/util/tests 2024-04-26T17:29:40,448 copying build/lib.linux-armv7l-cpython-39/pyemma/util/types.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,450 copying build/lib.linux-armv7l-cpython-39/pyemma/util/exceptions.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,451 copying build/lib.linux-armv7l-cpython-39/pyemma/util/numeric.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,453 copying build/lib.linux-armv7l-cpython-39/pyemma/util/statistics.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,455 copying build/lib.linux-armv7l-cpython-39/pyemma/util/contexts.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,457 copying build/lib.linux-armv7l-cpython-39/pyemma/util/linalg.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,459 copying build/lib.linux-armv7l-cpython-39/pyemma/util/files.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,461 copying build/lib.linux-armv7l-cpython-39/pyemma/util/annotators.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,463 copying build/lib.linux-armv7l-cpython-39/pyemma/util/reflection.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,464 copying build/lib.linux-armv7l-cpython-39/pyemma/util/_config.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,467 copying build/lib.linux-armv7l-cpython-39/pyemma/util/debug.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,468 copying build/lib.linux-armv7l-cpython-39/pyemma/util/discrete_trajectories.py -> build/bdist.linux-armv7l/wheel/pyemma/util 2024-04-26T17:29:40,471 creating build/bdist.linux-armv7l/wheel/pyemma/thermo 2024-04-26T17:29:40,472 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/api.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo 2024-04-26T17:29:40,475 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo 2024-04-26T17:29:40,477 creating build/bdist.linux-armv7l/wheel/pyemma/thermo/estimators 2024-04-26T17:29:40,478 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators/_callback.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/estimators 2024-04-26T17:29:40,480 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/estimators 2024-04-26T17:29:40,482 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators/DTRAM_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/estimators 2024-04-26T17:29:40,484 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators/MBAR_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/estimators 2024-04-26T17:29:40,486 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators/WHAM_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/estimators 2024-04-26T17:29:40,489 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/estimators/TRAM_estimator.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/estimators 2024-04-26T17:29:40,492 creating build/bdist.linux-armv7l/wheel/pyemma/thermo/models 2024-04-26T17:29:40,493 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/models/multi_therm.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/models 2024-04-26T17:29:40,495 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/models/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/models 2024-04-26T17:29:40,497 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/models/stationary.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/models 2024-04-26T17:29:40,499 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/models/memm.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/models 2024-04-26T17:29:40,501 creating build/bdist.linux-armv7l/wheel/pyemma/thermo/util 2024-04-26T17:29:40,502 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/util/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/util 2024-04-26T17:29:40,504 copying build/lib.linux-armv7l-cpython-39/pyemma/thermo/util/util.py -> build/bdist.linux-armv7l/wheel/pyemma/thermo/util 2024-04-26T17:29:40,507 creating build/bdist.linux-armv7l/wheel/pyemma/datasets 2024-04-26T17:29:40,507 copying build/lib.linux-armv7l-cpython-39/pyemma/datasets/api.py -> build/bdist.linux-armv7l/wheel/pyemma/datasets 2024-04-26T17:29:40,510 copying build/lib.linux-armv7l-cpython-39/pyemma/datasets/double_well_discrete.py -> build/bdist.linux-armv7l/wheel/pyemma/datasets 2024-04-26T17:29:40,511 copying build/lib.linux-armv7l-cpython-39/pyemma/datasets/__init__.py -> build/bdist.linux-armv7l/wheel/pyemma/datasets 2024-04-26T17:29:40,513 copying build/lib.linux-armv7l-cpython-39/pyemma/datasets/double_well_thermo.py -> build/bdist.linux-armv7l/wheel/pyemma/datasets 2024-04-26T17:29:40,515 copying build/lib.linux-armv7l-cpython-39/pyemma/datasets/double_well_discrete.npz -> build/bdist.linux-armv7l/wheel/pyemma/datasets 2024-04-26T17:29:40,519 copying build/lib.linux-armv7l-cpython-39/pyemma/_version.py -> build/bdist.linux-armv7l/wheel/pyemma 2024-04-26T17:29:40,520 running install_egg_info 2024-04-26T17:29:40,639 running egg_info 2024-04-26T17:29:40,685 writing pyEMMA.egg-info/PKG-INFO 2024-04-26T17:29:40,689 writing dependency_links to pyEMMA.egg-info/dependency_links.txt 2024-04-26T17:29:40,691 writing requirements to pyEMMA.egg-info/requires.txt 2024-04-26T17:29:40,692 writing top-level names to pyEMMA.egg-info/top_level.txt 2024-04-26T17:29:40,764 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:29:40,764 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:29:40,764 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:29:40,764 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:29:40,765 dependency /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-26T17:29:40,810 reading manifest file 'pyEMMA.egg-info/SOURCES.txt' 2024-04-26T17:29:40,824 reading manifest template 'MANIFEST.in' 2024-04-26T17:29:40,988 warning: no files found matching 'testfiles/*' under directory 'pyemma' 2024-04-26T17:29:40,990 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2024-04-26T17:29:40,992 warning: no previously-included files matching '*.orig' found anywhere in distribution 2024-04-26T17:29:40,996 no previously-included directories found matching 'doc/build' 2024-04-26T17:29:40,997 no previously-included directories found matching 'doc/source/generated' 2024-04-26T17:29:40,998 no previously-included directories found matching 'doc/source/api/generated' 2024-04-26T17:29:41,000 warning: no previously-included files matching 'git' found under directory '*' 2024-04-26T17:29:41,001 warning: no previously-included files matching '.git*' found under directory '*' 2024-04-26T17:29:41,277 no previously-included directories found matching '.eggs' 2024-04-26T17:29:41,277 adding license file 'LICENSE.txt' 2024-04-26T17:29:41,294 writing manifest file 'pyEMMA.egg-info/SOURCES.txt' 2024-04-26T17:29:41,296 Copying pyEMMA.egg-info to build/bdist.linux-armv7l/wheel/pyEMMA-2.4-py3.9.egg-info 2024-04-26T17:29:41,311 running install_scripts 2024-04-26T17:29:41,335 adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*") 2024-04-26T17:29:41,341 creating build/bdist.linux-armv7l/wheel/pyEMMA-2.4.dist-info/WHEEL 2024-04-26T17:29:41,343 creating '/tmp/pip-wheel-u_t58y4i/pyEMMA-2.4-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-04-26T17:29:41,347 adding 'pyemma/__init__.py' 2024-04-26T17:29:41,348 adding 'pyemma/_version.py' 2024-04-26T17:29:41,349 adding 'pyemma/conftest.py' 2024-04-26T17:29:41,351 adding 'pyemma/logging.yml' 2024-04-26T17:29:41,352 adding 'pyemma/pyemma.cfg' 2024-04-26T17:29:41,354 adding 'pyemma/_base/__init__.py' 2024-04-26T17:29:41,356 adding 'pyemma/_base/estimator.py' 2024-04-26T17:29:41,358 adding 'pyemma/_base/logging.py' 2024-04-26T17:29:41,360 adding 'pyemma/_base/model.py' 2024-04-26T17:29:41,361 adding 'pyemma/_base/parallel.py' 2024-04-26T17:29:41,363 adding 'pyemma/_base/progress/__init__.py' 2024-04-26T17:29:41,364 adding 'pyemma/_base/progress/test_progress.py' 2024-04-26T17:29:41,366 adding 'pyemma/_base/progress/reporter/__init__.py' 2024-04-26T17:29:41,368 adding 'pyemma/_ext/__init__.py' 2024-04-26T17:29:41,369 adding 'pyemma/_ext/orderedset/__init__.py' 2024-04-26T17:29:41,599 adding 'pyemma/_ext/orderedset/_orderedset.cpython-39-arm-linux-gnueabihf.so' 2024-04-26T17:29:41,609 adding 'pyemma/_ext/sklearn/__init__.py' 2024-04-26T17:29:41,611 adding 'pyemma/_ext/sklearn/base.py' 2024-04-26T17:29:41,613 adding 'pyemma/_ext/sklearn/parameter_search.py' 2024-04-26T17:29:41,615 adding 'pyemma/_ext/variational/__init__.py' 2024-04-26T17:29:41,616 adding 'pyemma/_ext/variational/util.py' 2024-04-26T17:29:41,617 adding 'pyemma/_ext/variational/estimators/__init__.py' 2024-04-26T17:29:41,621 adding 'pyemma/_ext/variational/estimators/moments.py' 2024-04-26T17:29:41,623 adding 'pyemma/_ext/variational/estimators/running_moments.py' 2024-04-26T17:29:41,625 adding 'pyemma/_ext/variational/estimators/covar_c/__init__.py' 2024-04-26T17:29:41,743 adding 'pyemma/_ext/variational/estimators/covar_c/covartools.cpython-39-arm-linux-gnueabihf.so' 2024-04-26T17:29:41,748 adding 'pyemma/_ext/variational/estimators/tests/__init__.py' 2024-04-26T17:29:41,750 adding 'pyemma/_ext/variational/estimators/tests/benchmark_moments.py' 2024-04-26T17:29:41,751 adding 'pyemma/_ext/variational/estimators/tests/test_moments.py' 2024-04-26T17:29:41,753 adding 'pyemma/_ext/variational/estimators/tests/test_running_moments.py' 2024-04-26T17:29:41,755 adding 'pyemma/_ext/variational/solvers/__init__.py' 2024-04-26T17:29:41,756 adding 'pyemma/_ext/variational/solvers/direct.py' 2024-04-26T17:29:41,758 adding 'pyemma/_ext/variational/solvers/eig_qr/__init__.py' 2024-04-26T17:29:42,011 adding 'pyemma/_ext/variational/solvers/eig_qr/eig_qr.cpython-39-arm-linux-gnueabihf.so' 2024-04-26T17:29:42,020 adding 'pyemma/_ext/variational/solvers/tests/__init__.py' 2024-04-26T17:29:42,022 adding 'pyemma/_ext/variational/solvers/tests/test_direct.py' 2024-04-26T17:29:42,024 adding 'pyemma/coordinates/__init__.py' 2024-04-26T17:29:42,025 adding 'pyemma/coordinates/acf.py' 2024-04-26T17:29:42,035 adding 'pyemma/coordinates/api.py' 2024-04-26T17:29:42,037 adding 'pyemma/coordinates/pipelines.py' 2024-04-26T17:29:42,039 adding 'pyemma/coordinates/clustering/__init__.py' 2024-04-26T17:29:42,041 adding 'pyemma/coordinates/clustering/assign.py' 2024-04-26T17:29:42,043 adding 'pyemma/coordinates/clustering/interface.py' 2024-04-26T17:29:42,046 adding 'pyemma/coordinates/clustering/kmeans.py' 2024-04-26T17:29:42,068 adding 'pyemma/coordinates/clustering/kmeans_clustering.cpython-39-arm-linux-gnueabihf.so' 2024-04-26T17:29:42,070 adding 'pyemma/coordinates/clustering/regspace.py' 2024-04-26T17:29:42,089 adding 'pyemma/coordinates/clustering/regspatial.cpython-39-arm-linux-gnueabihf.so' 2024-04-26T17:29:42,091 adding 'pyemma/coordinates/clustering/uniform_time.py' 2024-04-26T17:29:42,094 adding 'pyemma/coordinates/data/__init__.py' 2024-04-26T17:29:42,096 adding 'pyemma/coordinates/data/data_in_memory.py' 2024-04-26T17:29:42,098 adding 'pyemma/coordinates/data/feature_reader.py' 2024-04-26T17:29:42,101 adding 'pyemma/coordinates/data/fragmented_trajectory_reader.py' 2024-04-26T17:29:42,102 adding 'pyemma/coordinates/data/numpy_filereader.py' 2024-04-26T17:29:42,105 adding 'pyemma/coordinates/data/py_csv_reader.py' 2024-04-26T17:29:42,107 adding 'pyemma/coordinates/data/_base/__init__.py' 2024-04-26T17:29:42,110 adding 'pyemma/coordinates/data/_base/datasource.py' 2024-04-26T17:29:42,112 adding 'pyemma/coordinates/data/_base/iterable.py' 2024-04-26T17:29:42,114 adding 'pyemma/coordinates/data/_base/random_accessible.py' 2024-04-26T17:29:42,115 adding 'pyemma/coordinates/data/_base/streaming_estimator.py' 2024-04-26T17:29:42,118 adding 'pyemma/coordinates/data/_base/transformer.py' 2024-04-26T17:29:42,119 adding 'pyemma/coordinates/data/featurization/__init__.py' 2024-04-26T17:29:42,121 adding 'pyemma/coordinates/data/featurization/_base.py' 2024-04-26T17:29:42,122 adding 'pyemma/coordinates/data/featurization/angles.py' 2024-04-26T17:29:42,124 adding 'pyemma/coordinates/data/featurization/distances.py' 2024-04-26T17:29:42,128 adding 'pyemma/coordinates/data/featurization/featurizer.py' 2024-04-26T17:29:42,130 adding 'pyemma/coordinates/data/featurization/misc.py' 2024-04-26T17:29:42,131 adding 'pyemma/coordinates/data/featurization/util.py' 2024-04-26T17:29:42,133 adding 'pyemma/coordinates/data/util/__init__.py' 2024-04-26T17:29:42,135 adding 'pyemma/coordinates/data/util/frames_from_file.py' 2024-04-26T17:29:42,137 adding 'pyemma/coordinates/data/util/reader_utils.py' 2024-04-26T17:29:42,139 adding 'pyemma/coordinates/data/util/traj_info_backends.py' 2024-04-26T17:29:42,141 adding 'pyemma/coordinates/data/util/traj_info_cache.py' 2024-04-26T17:29:42,143 adding 'pyemma/coordinates/estimation/__init__.py' 2024-04-26T17:29:42,144 adding 'pyemma/coordinates/estimation/covariance.py' 2024-04-26T17:29:42,146 adding 'pyemma/coordinates/estimation/koopman.py' 2024-04-26T17:29:42,148 adding 'pyemma/coordinates/tests/__init__.py' 2024-04-26T17:29:42,150 adding 'pyemma/coordinates/tests/test_acf.py' 2024-04-26T17:29:42,151 adding 'pyemma/coordinates/tests/test_api_load.py' 2024-04-26T17:29:42,153 adding 'pyemma/coordinates/tests/test_api_source.py' 2024-04-26T17:29:42,154 adding 'pyemma/coordinates/tests/test_assign.py' 2024-04-26T17:29:42,156 adding 'pyemma/coordinates/tests/test_cluster.py' 2024-04-26T17:29:42,157 adding 'pyemma/coordinates/tests/test_cluster_samples.py' 2024-04-26T17:29:42,159 adding 'pyemma/coordinates/tests/test_coordinates_iterator.py' 2024-04-26T17:29:42,161 adding 'pyemma/coordinates/tests/test_covar_estimator.py' 2024-04-26T17:29:42,163 adding 'pyemma/coordinates/tests/test_csvreader.py' 2024-04-26T17:29:42,165 adding 'pyemma/coordinates/tests/test_datainmemory.py' 2024-04-26T17:29:42,166 adding 'pyemma/coordinates/tests/test_discretizer.py' 2024-04-26T17:29:42,168 adding 'pyemma/coordinates/tests/test_eq_covar_estimator.py' 2024-04-26T17:29:42,170 adding 'pyemma/coordinates/tests/test_featurereader.py' 2024-04-26T17:29:42,171 adding 'pyemma/coordinates/tests/test_featurereader_and_tica.py' 2024-04-26T17:29:42,173 adding 'pyemma/coordinates/tests/test_featurereader_and_tica_projection.py' 2024-04-26T17:29:42,177 adding 'pyemma/coordinates/tests/test_featurizer.py' 2024-04-26T17:29:42,179 adding 'pyemma/coordinates/tests/test_fragmented_trajectory.py' 2024-04-26T17:29:42,180 adding 'pyemma/coordinates/tests/test_frames_from_file.py' 2024-04-26T17:29:42,182 adding 'pyemma/coordinates/tests/test_kmeans.py' 2024-04-26T17:29:42,184 adding 'pyemma/coordinates/tests/test_koopman_estimator.py' 2024-04-26T17:29:42,185 adding 'pyemma/coordinates/tests/test_mini_batch_kmeans.py' 2024-04-26T17:29:42,187 adding 'pyemma/coordinates/tests/test_numpyfilereader.py' 2024-04-26T17:29:42,188 adding 'pyemma/coordinates/tests/test_pca.py' 2024-04-26T17:29:42,190 adding 'pyemma/coordinates/tests/test_pipeline.py' 2024-04-26T17:29:42,193 adding 'pyemma/coordinates/tests/test_random_access_stride.py' 2024-04-26T17:29:42,194 adding 'pyemma/coordinates/tests/test_regspace.py' 2024-04-26T17:29:42,196 adding 'pyemma/coordinates/tests/test_save_traj.py' 2024-04-26T17:29:42,198 adding 'pyemma/coordinates/tests/test_save_trajs.py' 2024-04-26T17:29:42,199 adding 'pyemma/coordinates/tests/test_source.py' 2024-04-26T17:29:42,201 adding 'pyemma/coordinates/tests/test_stride.py' 2024-04-26T17:29:42,204 adding 'pyemma/coordinates/tests/test_tica.py' 2024-04-26T17:29:42,206 adding 'pyemma/coordinates/tests/test_traj_info_cache.py' 2024-04-26T17:29:42,208 adding 'pyemma/coordinates/tests/test_uniform_time.py' 2024-04-26T17:29:42,209 adding 'pyemma/coordinates/tests/util.py' 2024-04-26T17:29:42,211 adding 'pyemma/coordinates/tests/data/bpti_001-033.xtc' 2024-04-26T17:29:42,214 adding 'pyemma/coordinates/tests/data/bpti_034-066.xtc' 2024-04-26T17:29:42,216 adding 'pyemma/coordinates/tests/data/bpti_067-100.xtc' 2024-04-26T17:29:42,217 adding 'pyemma/coordinates/tests/data/bpti_ca.pdb' 2024-04-26T17:29:42,235 adding 'pyemma/coordinates/tests/data/bpti_mini.binpos' 2024-04-26T17:29:42,252 adding 'pyemma/coordinates/tests/data/bpti_mini.dcd' 2024-04-26T17:29:42,260 adding 'pyemma/coordinates/tests/data/bpti_mini.h5' 2024-04-26T17:29:42,267 adding 'pyemma/coordinates/tests/data/bpti_mini.lh5' 2024-04-26T17:29:42,289 adding 'pyemma/coordinates/tests/data/bpti_mini.nc' 2024-04-26T17:29:42,311 adding 'pyemma/coordinates/tests/data/bpti_mini.netcdf' 2024-04-26T17:29:42,327 adding 'pyemma/coordinates/tests/data/bpti_mini.trr' 2024-04-26T17:29:42,332 adding 'pyemma/coordinates/tests/data/bpti_mini.xtc' 2024-04-26T17:29:42,334 adding 'pyemma/coordinates/tests/data/opsin_Ca_1_frame.pdb.gz' 2024-04-26T17:29:42,343 adding 'pyemma/coordinates/tests/data/opsin_aa_1_frame.pdb.gz' 2024-04-26T17:29:42,345 adding 'pyemma/coordinates/tests/data/test.pdb' 2024-04-26T17:29:42,377 adding 'pyemma/coordinates/tests/data/test_data_koopman.npz' 2024-04-26T17:29:42,381 adding 'pyemma/coordinates/transform/__init__.py' 2024-04-26T17:29:42,383 adding 'pyemma/coordinates/transform/pca.py' 2024-04-26T17:29:42,385 adding 'pyemma/coordinates/transform/tica.py' 2024-04-26T17:29:42,387 adding 'pyemma/coordinates/util/__init__.py' 2024-04-26T17:29:42,389 adding 'pyemma/coordinates/util/change_notification.py' 2024-04-26T17:29:42,391 adding 'pyemma/coordinates/util/patches.py' 2024-04-26T17:29:42,392 adding 'pyemma/coordinates/util/stat.py' 2024-04-26T17:29:42,394 adding 'pyemma/datasets/__init__.py' 2024-04-26T17:29:42,396 adding 'pyemma/datasets/api.py' 2024-04-26T17:29:42,404 adding 'pyemma/datasets/double_well_discrete.npz' 2024-04-26T17:29:42,406 adding 'pyemma/datasets/double_well_discrete.py' 2024-04-26T17:29:42,407 adding 'pyemma/datasets/double_well_thermo.py' 2024-04-26T17:29:42,409 adding 'pyemma/msm/__init__.py' 2024-04-26T17:29:42,416 adding 'pyemma/msm/api.py' 2024-04-26T17:29:42,419 adding 'pyemma/msm/estimators/_OOM_MSM.py' 2024-04-26T17:29:42,420 adding 'pyemma/msm/estimators/__init__.py' 2024-04-26T17:29:42,422 adding 'pyemma/msm/estimators/_dtraj_stats.py' 2024-04-26T17:29:42,425 adding 'pyemma/msm/estimators/bayesian_hmsm.py' 2024-04-26T17:29:42,427 adding 'pyemma/msm/estimators/bayesian_msm.py' 2024-04-26T17:29:42,430 adding 'pyemma/msm/estimators/implied_timescales.py' 2024-04-26T17:29:42,432 adding 'pyemma/msm/estimators/lagged_model_validators.py' 2024-04-26T17:29:42,436 adding 'pyemma/msm/estimators/maximum_likelihood_hmsm.py' 2024-04-26T17:29:42,443 adding 'pyemma/msm/estimators/maximum_likelihood_msm.py' 2024-04-26T17:29:42,445 adding 'pyemma/msm/models/__init__.py' 2024-04-26T17:29:42,448 adding 'pyemma/msm/models/hmsm.py' 2024-04-26T17:29:42,449 adding 'pyemma/msm/models/hmsm_sampled.py' 2024-04-26T17:29:42,454 adding 'pyemma/msm/models/msm.py' 2024-04-26T17:29:42,456 adding 'pyemma/msm/models/msm_sampled.py' 2024-04-26T17:29:42,458 adding 'pyemma/msm/models/reactive_flux.py' 2024-04-26T17:29:42,460 adding 'pyemma/msm/tests/__init__.py' 2024-04-26T17:29:42,461 adding 'pyemma/msm/tests/birth_death_chain.py' 2024-04-26T17:29:42,463 adding 'pyemma/msm/tests/test_bayesian_hmsm.py' 2024-04-26T17:29:42,465 adding 'pyemma/msm/tests/test_bayesian_msm.py' 2024-04-26T17:29:42,467 adding 'pyemma/msm/tests/test_cktest.py' 2024-04-26T17:29:42,469 adding 'pyemma/msm/tests/test_dtraj_stats.py' 2024-04-26T17:29:42,470 adding 'pyemma/msm/tests/test_estimator.py' 2024-04-26T17:29:42,473 adding 'pyemma/msm/tests/test_hmsm.py' 2024-04-26T17:29:42,475 adding 'pyemma/msm/tests/test_its.py' 2024-04-26T17:29:42,476 adding 'pyemma/msm/tests/test_its_oom.py' 2024-04-26T17:29:42,480 adding 'pyemma/msm/tests/test_msm.py' 2024-04-26T17:29:42,485 adding 'pyemma/msm/tests/test_oom_msm.py' 2024-04-26T17:29:42,487 adding 'pyemma/msm/tests/test_reactive_flux.py' 2024-04-26T17:29:42,489 adding 'pyemma/msm/tests/test_subset.py' 2024-04-26T17:29:42,491 adding 'pyemma/msm/tests/test_tpt.py' 2024-04-26T17:29:42,493 adding 'pyemma/msm/tests/data/TestData_ITS_OOM.npz' 2024-04-26T17:29:42,515 adding 'pyemma/msm/tests/data/TestData_OOM_MSM.npz' 2024-04-26T17:29:42,518 adding 'pyemma/msm/util/__init__.py' 2024-04-26T17:29:42,519 adding 'pyemma/msm/util/subset.py' 2024-04-26T17:29:42,521 adding 'pyemma/plots/__init__.py' 2024-04-26T17:29:42,523 adding 'pyemma/plots/markovtests.py' 2024-04-26T17:29:42,526 adding 'pyemma/plots/networks.py' 2024-04-26T17:29:42,528 adding 'pyemma/plots/plots2d.py' 2024-04-26T17:29:42,530 adding 'pyemma/plots/thermoplots.py' 2024-04-26T17:29:42,531 adding 'pyemma/plots/timescales.py' 2024-04-26T17:29:42,533 adding 'pyemma/plots/_ext/__init__.py' 2024-04-26T17:29:42,534 adding 'pyemma/plots/_ext/fruchterman_reingold.py' 2024-04-26T17:29:42,536 adding 'pyemma/plots/tests/__init__.py' 2024-04-26T17:29:42,537 adding 'pyemma/plots/tests/test_its.py' 2024-04-26T17:29:42,539 adding 'pyemma/plots/tests/test_markovtests.py' 2024-04-26T17:29:42,540 adding 'pyemma/plots/tests/test_networks.py' 2024-04-26T17:29:42,542 adding 'pyemma/thermo/__init__.py' 2024-04-26T17:29:42,547 adding 'pyemma/thermo/api.py' 2024-04-26T17:29:42,550 adding 'pyemma/thermo/estimators/DTRAM_estimator.py' 2024-04-26T17:29:42,552 adding 'pyemma/thermo/estimators/MBAR_estimator.py' 2024-04-26T17:29:42,555 adding 'pyemma/thermo/estimators/TRAM_estimator.py' 2024-04-26T17:29:42,557 adding 'pyemma/thermo/estimators/WHAM_estimator.py' 2024-04-26T17:29:42,558 adding 'pyemma/thermo/estimators/__init__.py' 2024-04-26T17:29:42,560 adding 'pyemma/thermo/estimators/_callback.py' 2024-04-26T17:29:42,561 adding 'pyemma/thermo/models/__init__.py' 2024-04-26T17:29:42,563 adding 'pyemma/thermo/models/memm.py' 2024-04-26T17:29:42,565 adding 'pyemma/thermo/models/multi_therm.py' 2024-04-26T17:29:42,566 adding 'pyemma/thermo/models/stationary.py' 2024-04-26T17:29:42,568 adding 'pyemma/thermo/util/__init__.py' 2024-04-26T17:29:42,571 adding 'pyemma/thermo/util/util.py' 2024-04-26T17:29:42,573 adding 'pyemma/util/__init__.py' 2024-04-26T17:29:42,575 adding 'pyemma/util/_config.py' 2024-04-26T17:29:42,577 adding 'pyemma/util/annotators.py' 2024-04-26T17:29:42,579 adding 'pyemma/util/contexts.py' 2024-04-26T17:29:42,580 adding 'pyemma/util/debug.py' 2024-04-26T17:29:42,582 adding 'pyemma/util/discrete_trajectories.py' 2024-04-26T17:29:42,583 adding 'pyemma/util/exceptions.py' 2024-04-26T17:29:42,585 adding 'pyemma/util/files.py' 2024-04-26T17:29:42,586 adding 'pyemma/util/indices.py' 2024-04-26T17:29:42,588 adding 'pyemma/util/linalg.py' 2024-04-26T17:29:42,589 adding 'pyemma/util/log.py' 2024-04-26T17:29:42,591 adding 'pyemma/util/metrics.py' 2024-04-26T17:29:42,592 adding 'pyemma/util/numeric.py' 2024-04-26T17:29:42,594 adding 'pyemma/util/reflection.py' 2024-04-26T17:29:42,596 adding 'pyemma/util/statistics.py' 2024-04-26T17:29:42,597 adding 'pyemma/util/testing_tools.py' 2024-04-26T17:29:42,599 adding 'pyemma/util/types.py' 2024-04-26T17:29:42,601 adding 'pyemma/util/units.py' 2024-04-26T17:29:42,602 adding 'pyemma/util/_ext/__init__.py' 2024-04-26T17:29:42,604 adding 'pyemma/util/_ext/shimmodule.py' 2024-04-26T17:29:42,606 adding 'pyemma/util/tests/__init__.py' 2024-04-26T17:29:42,607 adding 'pyemma/util/tests/statistics_test.py' 2024-04-26T17:29:42,608 adding 'pyemma/util/tests/test_attribute_context.py' 2024-04-26T17:29:42,610 adding 'pyemma/util/tests/test_config.py' 2024-04-26T17:29:42,611 adding 'pyemma/util/tests/test_discrete_trajectories.py' 2024-04-26T17:29:42,613 adding 'pyemma/util/tests/test_estimation_required_decorator.py' 2024-04-26T17:29:42,614 adding 'pyemma/util/tests/test_log.py' 2024-04-26T17:29:42,616 adding 'pyemma/util/tests/test_shortcut.py' 2024-04-26T17:29:42,617 adding 'pyemma/util/tests/test_units.py' 2024-04-26T17:29:42,624 adding 'pyemma/util/tests/data/dtraj.dat' 2024-04-26T17:29:42,633 adding 'pyemma/util/tests/data/dtraj.npy' 2024-04-26T17:29:42,635 adding 'pyEMMA-2.4.dist-info/LICENSE.txt' 2024-04-26T17:29:42,636 adding 'pyEMMA-2.4.dist-info/METADATA' 2024-04-26T17:29:42,637 adding 'pyEMMA-2.4.dist-info/WHEEL' 2024-04-26T17:29:42,638 adding 'pyEMMA-2.4.dist-info/pbr.json' 2024-04-26T17:29:42,639 adding 'pyEMMA-2.4.dist-info/top_level.txt' 2024-04-26T17:29:42,643 adding 'pyEMMA-2.4.dist-info/RECORD' 2024-04-26T17:29:42,685 removing build/bdist.linux-armv7l/wheel 2024-04-26T17:29:43,003 Building wheel for pyemma (setup.py): finished with status 'done' 2024-04-26T17:29:43,032 Created wheel for pyemma: filename=pyEMMA-2.4-cp39-cp39-linux_armv7l.whl size=2544159 sha256=496a64bfb67acc49b87bc1822905391784e267b8cd4a6460f28a5d1ec2e15078 2024-04-26T17:29:43,033 Stored in directory: /tmp/pip-ephem-wheel-cache-fsukho6f/wheels/c8/0e/26/418bda367d72e070c5742d09596d028dba42eb28b3cc7e8d0e 2024-04-26T17:29:43,054 Successfully built pyemma 2024-04-26T17:29:43,116 Removed build tracker: '/tmp/pip-build-tracker-9bwvf6gf'