2021-07-10T11:56:24,868 Created temporary directory: /tmp/pip-ephem-wheel-cache-g9l8zwg1 2021-07-10T11:56:24,871 Created temporary directory: /tmp/pip-req-tracker-et49n4p3 2021-07-10T11:56:24,872 Initialized build tracking at /tmp/pip-req-tracker-et49n4p3 2021-07-10T11:56:24,872 Created build tracker: /tmp/pip-req-tracker-et49n4p3 2021-07-10T11:56:24,872 Entered build tracker: /tmp/pip-req-tracker-et49n4p3 2021-07-10T11:56:24,873 Created temporary directory: /tmp/pip-wheel-d2ctow1s 2021-07-10T11:56:24,901 1 location(s) to search for versions of pybedtools: 2021-07-10T11:56:24,901 * https://pypi.org/simple/pybedtools/ 2021-07-10T11:56:24,902 Fetching project page and analyzing links: https://pypi.org/simple/pybedtools/ 2021-07-10T11:56:24,902 Getting page https://pypi.org/simple/pybedtools/ 2021-07-10T11:56:24,904 Found index url https://pypi.org/simple 2021-07-10T11:56:25,099 Found link https://files.pythonhosted.org/packages/00/d9/aca9636b3e5b29f232fd6f60859f07f3420ec3c0712b50cb25c734a02a1f/pybedtools-0.2.2dev.tar.gz#sha256=6ab084ce36f26c6086680ef25693873f9534ddb3aefec3aedbc8221e5f6f4fb6 (from https://pypi.org/simple/pybedtools/), version: 0.2.2dev 2021-07-10T11:56:25,099 Found link https://files.pythonhosted.org/packages/44/19/a9bebb9eccd8d64d58202d5b3a151de81ffc7703a47503161b7615554703/pybedtools-0.5dev.tar.gz#sha256=4e55a927a22979473c1414b43154cd3e5a51380b1895bc555a85ee4bf385ba25 (from https://pypi.org/simple/pybedtools/), version: 0.5dev 2021-07-10T11:56:25,100 Found link https://files.pythonhosted.org/packages/e4/2f/e842c6b1165d706ebc62c931c11d4dfffe60e6b045ecf80eef7ea78d7afc/pybedtools-0.5rc1.tar.gz#sha256=78ccf10923b00ec14cf337b3b9624e39fdd383ba29048f3cc03e3aabc52edb40 (from https://pypi.org/simple/pybedtools/), version: 0.5rc1 2021-07-10T11:56:25,100 Found link https://files.pythonhosted.org/packages/85/17/c89028c00537638629ca21be7f1b84e963fc8b63c1e9a5fda9884f86fb90/pybedtools-0.5.tar.gz#sha256=16e46c664e47cd36d926de202d9ac99cf7e8c970e6e008603ccb6a23139a257a (from https://pypi.org/simple/pybedtools/), version: 0.5 2021-07-10T11:56:25,100 Found link https://files.pythonhosted.org/packages/e7/9b/f082d2db470a0c9ba777a0d661fd5a7292c367840880040940de4a705e1f/pybedtools-0.5.5.tar.gz#sha256=4bc9cdadb12fae47c1a2e423f467cfd92dc282a52f2ac5d21c35611ef59c698d (from https://pypi.org/simple/pybedtools/), version: 0.5.5 2021-07-10T11:56:25,101 Found link https://files.pythonhosted.org/packages/3c/e7/365015ec8104195329635cb75ef745bff45d905271cd165f5048efaf48e3/pybedtools-0.6rc1.tar.gz#sha256=006e637d2a2e6f98f7b178211adc69fabf3cf37e168c730dbfe9e2fa810f8f8d (from https://pypi.org/simple/pybedtools/), version: 0.6rc1 2021-07-10T11:56:25,101 Found link https://files.pythonhosted.org/packages/04/ce/0e1480725fe80eb9a401f59e1bcc28fce721f6c2c5d7be233894d0154551/pybedtools-0.6.tar.gz#sha256=416406bbf059372e3214c68688447cbb9cd4e45b6a58b1615be4ff932975ede6 (from https://pypi.org/simple/pybedtools/), version: 0.6 2021-07-10T11:56:25,101 Found link https://files.pythonhosted.org/packages/ac/25/c971ba83c6df08cbd17626339ec637df57a0aa409ba3042408ff349dd710/pybedtools-0.6.1.tar.gz#sha256=da3f1ec9e6d23cba6627adb124a27d291f72b855006a277d91c1b366bfccdb22 (from https://pypi.org/simple/pybedtools/), version: 0.6.1 2021-07-10T11:56:25,102 Found link https://files.pythonhosted.org/packages/3e/71/cb09c7b874a87803f9fb9a9b679d02a82879b9cadca4c93756e05e65a439/pybedtools-0.6.2.tar.gz#sha256=7263d2a32a4805e0b0c25be32f38a17de760557c2d83234e46364ecd2debec14 (from https://pypi.org/simple/pybedtools/), version: 0.6.2 2021-07-10T11:56:25,102 Found link https://files.pythonhosted.org/packages/28/0b/15291a1aac0a2a1eb814a0c883ccebf2eebaebbef9923bfa0444df0cb3a8/pybedtools-0.6.3.tar.gz#sha256=bd7ad8584d6d19eef175a0f9b9ff00db903db532ae4c3e8bad614246974daff0 (from https://pypi.org/simple/pybedtools/), version: 0.6.3 2021-07-10T11:56:25,102 Found link https://files.pythonhosted.org/packages/7a/12/73027be04fc57dd3340e2120f0148c0aca569b16e62333f32a40b2b06ee0/pybedtools-0.6.4.tar.gz#sha256=98cd0e8bc278e8d3bf584cde5eea43f23251c91bbd70407172db206d2f3f751f (from https://pypi.org/simple/pybedtools/), version: 0.6.4 2021-07-10T11:56:25,102 Found link https://files.pythonhosted.org/packages/a4/98/dab963ff44ddd40849a01b145b6d769158d9794b979fdbfd173728e06e5b/pybedtools-0.6.5.tar.gz#sha256=0ee69c4670bae332f6de600af5edb4ed45e8dcaf3988e7eb78ab53a1889a8d9c (from https://pypi.org/simple/pybedtools/), version: 0.6.5 2021-07-10T11:56:25,103 Found link https://files.pythonhosted.org/packages/a3/91/02e900caea18ee909665440727222a9f37c9a532170c52684123f07d6e21/pybedtools-0.6.6.tar.gz#sha256=b7d2436c2f29b92cf7c2a4552a6a13adc73b2026d7a25c4aaae6797589698c68 (from https://pypi.org/simple/pybedtools/), version: 0.6.6 2021-07-10T11:56:25,103 Found link https://files.pythonhosted.org/packages/af/ff/7d488b19b8e4109bbaf7b7e4c5dc53207f2c4354d7729cf73f17a79fa104/pybedtools-0.6.7.tar.gz#sha256=b31853473db3a755bbe668b5fc209f0cd9ed876f15e192c244e348f4a7cb1cfb (from https://pypi.org/simple/pybedtools/), version: 0.6.7 2021-07-10T11:56:25,103 Found link https://files.pythonhosted.org/packages/aa/e9/c92a7e58326bf76534af1fbd4074def6999130b1838b4dcc51e9f3ba5e17/pybedtools-0.6.8.tar.gz#sha256=a278a1b5ae230eb9c1b57c4da45dad5646aead899e927ad4d9f38df3f90841db (from https://pypi.org/simple/pybedtools/), version: 0.6.8 2021-07-10T11:56:25,104 Found link https://files.pythonhosted.org/packages/79/20/2a0861cc9ffc41043efd814cdf860828f4b2213573c82ea6138eb6cb221b/pybedtools-0.6.9.tar.gz#sha256=56915b3e2200c6fb56260a36f839e66ce27d7dd3ef55fba278c3931b786fbfd1 (from https://pypi.org/simple/pybedtools/), version: 0.6.9 2021-07-10T11:56:25,104 Found link https://files.pythonhosted.org/packages/e6/8d/06beb4e8a9e9a4ce042af337a5b855a789da586072d0c418ed9cb9398628/pybedtools-0.7.0.tar.gz#sha256=a0b3bd7c32786067a767585ab17ab9e04bf7e227f275ff3883fab9c1d8e458ba (from https://pypi.org/simple/pybedtools/), version: 0.7.0 2021-07-10T11:56:25,104 Found link https://files.pythonhosted.org/packages/b5/1c/1b7e66668105e5b84cc6224a54ce552c6a6113e9b34c980fc436140e6be1/pybedtools-0.7.1.tar.gz#sha256=d889e8e1f75803b13f0f774320ca3e38eea88e7998866a1c90e9ba51caa855be (from https://pypi.org/simple/pybedtools/), version: 0.7.1 2021-07-10T11:56:25,104 Found link https://files.pythonhosted.org/packages/a2/43/d80dbf32da421c78ea84a386402e1840dd06f3aba7e5fe73e8134e1ce50a/pybedtools-0.7.4.tar.gz#sha256=15cfae9e8a207ded403ad9fa2e77f09d14c2fe377d1bc5f8b063647e2d0554e0 (from https://pypi.org/simple/pybedtools/), version: 0.7.4 2021-07-10T11:56:25,105 Found link https://files.pythonhosted.org/packages/ed/f1/2caa4dc57b62707f0df147c0820d1fc8565e439c5f5c86778df7a2fec59f/pybedtools-0.7.5.tar.gz#sha256=f2428b4845083eff36385bec241ddddf7488a7de3f18886a78c73226e9e3306c (from https://pypi.org/simple/pybedtools/), version: 0.7.5 2021-07-10T11:56:25,105 Found link https://files.pythonhosted.org/packages/f4/49/ce7ccc0ad79189eb8b8eec170c350643e7a209f98e34dae239a954d6fdb0/pybedtools-0.7.6.tar.gz#sha256=8b6382036c715b49f83e35cc787d7084c1633ebe94a2a3c4102e805613f7426b (from https://pypi.org/simple/pybedtools/), version: 0.7.6 2021-07-10T11:56:25,105 Found link https://files.pythonhosted.org/packages/c2/a6/29fd41e86b38e7ca39eb7818c422e927534f2bd324c34cfd411cfca203b0/pybedtools-0.7.7.tar.gz#sha256=dba8758bd86121e4dcfc8b25ebae7d3b2de6ff9e38e4cdd9dc03f128bf5d4c9d (from https://pypi.org/simple/pybedtools/), version: 0.7.7 2021-07-10T11:56:25,105 Found link https://files.pythonhosted.org/packages/2d/ee/aa19e50e03e06c817d00eadf8b56824b9e473da8c3e8ca3b33a11717ee6f/pybedtools-0.7.8.tar.gz#sha256=e80e8b73b233ec6950069e0e1cf14127aff8310a8eaf3ee663bdfbcb61309fdc (from https://pypi.org/simple/pybedtools/), version: 0.7.8 2021-07-10T11:56:25,106 Found link https://files.pythonhosted.org/packages/7c/66/8aecffd830eddbd05c1c3e737f87220cef9f2a8358f1d692f85b30269520/pybedtools-0.7.9.tar.gz#sha256=e9134d7dc3de41b90126df633fe3aa854a0427d7ada834dc8681081e8b2fea14 (from https://pypi.org/simple/pybedtools/), version: 0.7.9 2021-07-10T11:56:25,106 Found link https://files.pythonhosted.org/packages/09/57/e7668e8644c60413be05b8cc9c23aaea3a0717b4025843d8c26b7c4822af/pybedtools-0.7.10.tar.gz#sha256=518a2311bd33f29cf2ee8fc1a028dda8c8e380c9fc83fcb0fbaa206933174b50 (from https://pypi.org/simple/pybedtools/), version: 0.7.10 2021-07-10T11:56:25,106 Found link https://files.pythonhosted.org/packages/ca/b6/af143d5247cfe331e32c96ca92056293140eb8ce788d37842f6dcea734b4/pybedtools-0.8.0.tar.gz#sha256=4eebd2cd1764ee1c604fd881703c3e329195485350b987b7fb8db42d232984f6 (from https://pypi.org/simple/pybedtools/), version: 0.8.0 2021-07-10T11:56:25,107 Found link https://files.pythonhosted.org/packages/bf/14/152220f39cda6b9b72810eeed103c6ec78422429adabe3aafc3eaf6feb40/pybedtools-0.8.1.tar.gz#sha256=c035e078617f94720eb627e20c91f2377a7bd9158a137872a6ac88f800898593 (from https://pypi.org/simple/pybedtools/), version: 0.8.1 2021-07-10T11:56:25,107 Found link https://files.pythonhosted.org/packages/5b/57/46e9c8135954550d1d3a05db5b0462a264239f7f71c78af304bb47c5c900/pybedtools-0.8.2.tar.gz#sha256=a184a36099458627e7ef52ea88218f7c00dc9c505b4256ece9ede58b1efa8771 (from https://pypi.org/simple/pybedtools/), version: 0.8.2 2021-07-10T11:56:25,107 Skipping link: not a file: https://pypi.org/simple/pybedtools/ 2021-07-10T11:56:25,128 Given no hashes to check 1 links for project 'pybedtools': discarding no candidates 2021-07-10T11:56:25,147 Collecting pybedtools==0.7.5 2021-07-10T11:56:25,149 Created temporary directory: /tmp/pip-unpack-uv6731fx 2021-07-10T11:56:28,396 Downloading pybedtools-0.7.5.tar.gz (12.6 MB) 2021-07-10T11:56:30,430 Added pybedtools==0.7.5 from https://files.pythonhosted.org/packages/ed/f1/2caa4dc57b62707f0df147c0820d1fc8565e439c5f5c86778df7a2fec59f/pybedtools-0.7.5.tar.gz#sha256=f2428b4845083eff36385bec241ddddf7488a7de3f18886a78c73226e9e3306c to build tracker '/tmp/pip-req-tracker-et49n4p3' 2021-07-10T11:56:30,431 Running setup.py (path:/tmp/pip-wheel-d2ctow1s/pybedtools_82324452d3954fb488bb71ee64d8a4e8/setup.py) egg_info for package pybedtools 2021-07-10T11:56:30,432 Created temporary directory: /tmp/pip-pip-egg-info-tf08rccb 2021-07-10T11:56:30,432 Running command python setup.py egg_info 2021-07-10T11:56:31,390 running egg_info 2021-07-10T11:56:31,392 creating /tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info 2021-07-10T11:56:31,393 writing /tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info/PKG-INFO 2021-07-10T11:56:31,396 writing dependency_links to /tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info/dependency_links.txt 2021-07-10T11:56:31,398 writing requirements to /tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info/requires.txt 2021-07-10T11:56:31,399 writing top-level names to /tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info/top_level.txt 2021-07-10T11:56:31,400 writing manifest file '/tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info/SOURCES.txt' 2021-07-10T11:56:31,595 reading manifest file '/tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info/SOURCES.txt' 2021-07-10T11:56:31,597 reading manifest template 'MANIFEST.in' 2021-07-10T11:56:31,820 warning: no previously-included files matching '__pycache__' found under directory '*' 2021-07-10T11:56:31,822 warning: no previously-included files matching '*.py[co]' found under directory '*' 2021-07-10T11:56:31,822 adding license file 'LICENSE.txt' 2021-07-10T11:56:31,835 writing manifest file '/tmp/pip-pip-egg-info-tf08rccb/pybedtools.egg-info/SOURCES.txt' 2021-07-10T11:56:31,910 Source in /tmp/pip-wheel-d2ctow1s/pybedtools_82324452d3954fb488bb71ee64d8a4e8 has version 0.7.5, which satisfies requirement pybedtools==0.7.5 from https://files.pythonhosted.org/packages/ed/f1/2caa4dc57b62707f0df147c0820d1fc8565e439c5f5c86778df7a2fec59f/pybedtools-0.7.5.tar.gz#sha256=f2428b4845083eff36385bec241ddddf7488a7de3f18886a78c73226e9e3306c 2021-07-10T11:56:31,911 Removed pybedtools==0.7.5 from https://files.pythonhosted.org/packages/ed/f1/2caa4dc57b62707f0df147c0820d1fc8565e439c5f5c86778df7a2fec59f/pybedtools-0.7.5.tar.gz#sha256=f2428b4845083eff36385bec241ddddf7488a7de3f18886a78c73226e9e3306c from build tracker '/tmp/pip-req-tracker-et49n4p3' 2021-07-10T11:56:31,916 Created temporary directory: /tmp/pip-unpack-ptt157o7 2021-07-10T11:56:31,916 Building wheels for collected packages: pybedtools 2021-07-10T11:56:31,920 Created temporary directory: /tmp/pip-wheel-rj3p533q 2021-07-10T11:56:31,921 Building wheel for pybedtools (setup.py): started 2021-07-10T11:56:31,921 Destination directory: /tmp/pip-wheel-rj3p533q 2021-07-10T11:56:31,921 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-d2ctow1s/pybedtools_82324452d3954fb488bb71ee64d8a4e8/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-d2ctow1s/pybedtools_82324452d3954fb488bb71ee64d8a4e8/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-rj3p533q 2021-07-10T11:56:32,855 running bdist_wheel 2021-07-10T11:56:32,856 The [wheel] section is deprecated. Use [bdist_wheel] instead. 2021-07-10T11:56:32,858 running build 2021-07-10T11:56:32,858 running build_py 2021-07-10T11:56:32,998 creating build 2021-07-10T11:56:32,999 creating build/lib.linux-armv7l-3.9 2021-07-10T11:56:32,999 creating build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,000 copying pybedtools/__main__.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,003 copying pybedtools/parallel.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,005 copying pybedtools/version.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,007 copying pybedtools/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,009 copying pybedtools/settings.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,010 copying pybedtools/logger.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,012 copying pybedtools/genome_registry.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,015 copying pybedtools/stats.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,017 copying pybedtools/filenames.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,019 copying pybedtools/helpers.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,021 copying pybedtools/bedtool.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,028 creating build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,029 copying pybedtools/test/test_gzip_support.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,031 copying pybedtools/test/tfuncs.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,033 copying pybedtools/test/test_helpers.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,035 copying pybedtools/test/test_iter.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,038 copying pybedtools/test/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,040 copying pybedtools/test/test_len_leak.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,042 copying pybedtools/test/test1.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,045 copying pybedtools/test/test_scripts.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,048 copying pybedtools/test/regression_tests.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,050 copying pybedtools/test/test_contrib.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,052 copying pybedtools/test/test_cbedtools.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T11:56:33,056 creating build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,057 copying pybedtools/contrib/bigbed.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,059 copying pybedtools/contrib/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,061 copying pybedtools/contrib/classifier.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,064 copying pybedtools/contrib/bigwig.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,067 copying pybedtools/contrib/venn_maker.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,070 copying pybedtools/contrib/plotting.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,073 copying pybedtools/contrib/intersection_matrix.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T11:56:33,077 creating build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,078 copying pybedtools/scripts/peak_pie.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,080 copying pybedtools/scripts/intron_exon_reads.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,082 copying pybedtools/scripts/annotate.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,084 copying pybedtools/scripts/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,086 copying pybedtools/scripts/venn_gchart.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,088 copying pybedtools/scripts/venn_mpl.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,090 copying pybedtools/scripts/intersection_matrix.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,093 copying pybedtools/scripts/py_ms_example.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T11:56:33,095 creating build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,096 copying pybedtools/test/data/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,110 copying pybedtools/test/data/dm3-chr2L-5M.gff.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,123 copying pybedtools/test/data/tag_test2.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,125 copying pybedtools/test/data/CTCF_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,128 copying pybedtools/test/data/gdc.50.200.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,130 copying pybedtools/test/data/BEAF_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,134 copying pybedtools/test/data/gdc.1.100.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,136 copying pybedtools/test/data/dm3-chr2L-5M-invalid.gff.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,148 copying pybedtools/test/data/mm9.bed12 -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,151 copying pybedtools/test/data/bedpe2.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,153 copying pybedtools/test/data/bedpe.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,155 copying pybedtools/test/data/c.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,157 copying pybedtools/test/data/SuHw_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,162 copying pybedtools/test/data/a.links.html -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,164 copying pybedtools/test/data/a.igv_script -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,166 copying pybedtools/test/data/hg19.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,176 copying pybedtools/test/data/Cp190_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,183 copying pybedtools/test/data/test.fa.fai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,185 copying pybedtools/test/data/BEAF_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,190 copying pybedtools/test/data/small.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,192 copying pybedtools/test/data/tag_test1.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,194 copying pybedtools/test/data/gdc.50.200.bam.bai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,196 copying pybedtools/test/data/x.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,253 copying pybedtools/test/data/snps.bed.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,411 copying pybedtools/test/data/hg38-problem.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,413 copying pybedtools/test/data/gdc.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,415 copying pybedtools/test/data/gdc.1.100.bam.bai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,417 copying pybedtools/test/data/venn.b.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,419 copying pybedtools/test/data/a.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,421 copying pybedtools/test/data/expand_test.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,424 copying pybedtools/test/data/venn.c.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,427 copying pybedtools/test/data/gdc.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,429 copying pybedtools/test/data/CTCF_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,433 copying pybedtools/test/data/gdc.sorted.bam.bai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,436 copying pybedtools/test/data/gdc.sorted.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,438 copying pybedtools/test/data/Cp190_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,444 copying pybedtools/test/data/v.vcf -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,447 copying pybedtools/test/data/reads.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,449 copying pybedtools/test/data/m1.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,451 copying pybedtools/test/data/d.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,453 copying pybedtools/test/data/SuHw_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,458 copying pybedtools/test/data/multibamcov_test.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,460 copying pybedtools/test/data/gdc.gff.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,462 copying pybedtools/test/data/rmsk.hg18.chr21.small.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,466 copying pybedtools/test/data/vcf-stderr-test.vcf -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,469 copying pybedtools/test/data/x.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,514 copying pybedtools/test/data/gdc.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,516 copying pybedtools/test/data/hg38-base.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,518 copying pybedtools/test/data/b.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,521 copying pybedtools/test/data/test.fa -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,523 copying pybedtools/test/data/democonfig.yaml -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,525 copying pybedtools/test/data/y.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,528 copying pybedtools/test/data/exons.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,530 copying pybedtools/test/data/vcf-stderr-test.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,533 copying pybedtools/test/data/small.fastq -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,537 copying pybedtools/test/data/rmsk.hg18.chr21.small.bed.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T11:56:33,540 copying pybedtools/cbedtools.pyx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,543 copying pybedtools/_Window.pyx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,546 copying pybedtools/featurefuncs.pyx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,549 copying pybedtools/cbedtools.pxd -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,551 copying pybedtools/cbedtools.cxx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,576 copying pybedtools/featurefuncs.cxx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,586 copying pybedtools/_Window.c -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,598 running build_ext 2021-07-10T11:56:33,603 building 'pybedtools.cbedtools' extension 2021-07-10T11:56:33,603 creating build/temp.linux-armv7l-3.9 2021-07-10T11:56:33,604 creating build/temp.linux-armv7l-3.9/pybedtools 2021-07-10T11:56:33,605 creating build/temp.linux-armv7l-3.9/src 2021-07-10T11:56:33,605 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.9 -c pybedtools/cbedtools.cxx -o build/temp.linux-armv7l-3.9/pybedtools/cbedtools.o 2021-07-10T11:56:36,063 pybedtools/cbedtools.cxx: In function ‘PyObject* PyInit_cbedtools()’: 2021-07-10T11:56:36,063 pybedtools/cbedtools.cxx:15087:47: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-10T11:56:36,063 15087 | __pyx_type_10pybedtools_9cbedtools_Interval.tp_print = 0; 2021-07-10T11:56:36,063 | ^~~~~~~~ 2021-07-10T11:56:36,065 pybedtools/cbedtools.cxx:15102:55: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-10T11:56:36,065 15102 | __pyx_type_10pybedtools_9cbedtools_IntervalIterator.tp_print = 0; 2021-07-10T11:56:36,065 | ^~~~~~~~ 2021-07-10T11:56:36,066 pybedtools/cbedtools.cxx:15106:51: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-10T11:56:36,066 15106 | __pyx_type_10pybedtools_9cbedtools_IntervalFile.tp_print = 0; 2021-07-10T11:56:36,066 | ^~~~~~~~ 2021-07-10T11:56:36,108 pybedtools/cbedtools.cxx: In function ‘PyObject* __Pyx_decode_c_bytes(const char*, Py_ssize_t, Py_ssize_t, Py_ssize_t, const char*, const char*, PyObject* (*)(const char*, Py_ssize_t, const char*))’: 2021-07-10T11:56:36,108 pybedtools/cbedtools.cxx:16084:45: warning: ‘PyObject* PyUnicode_FromUnicode(const Py_UNICODE*, Py_ssize_t)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,108 16084 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-10T11:56:36,108 | ^ 2021-07-10T11:56:36,109 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T11:56:36,109 from /usr/include/python3.9/Python.h:97, 2021-07-10T11:56:36,110 from pybedtools/cbedtools.cxx:4: 2021-07-10T11:56:36,110 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-10T11:56:36,110 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-10T11:56:36,110 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,112 pybedtools/cbedtools.cxx: In function ‘int __Pyx_ParseOptionalKeywords(PyObject*, PyObject***, PyObject*, PyObject**, Py_ssize_t, const char*)’: 2021-07-10T11:56:36,112 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,112 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,112 | ^ 2021-07-10T11:56:36,112 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,113 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T11:56:36,113 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,113 pybedtools/cbedtools.cxx:16154:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,113 16154 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,113 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,113 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,113 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,114 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,114 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,114 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T11:56:36,114 | ^ 2021-07-10T11:56:36,114 pybedtools/cbedtools.cxx:16154:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,114 16154 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,114 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,115 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T11:56:36,115 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T11:56:36,115 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,115 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,115 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,115 | ^ 2021-07-10T11:56:36,115 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,115 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T11:56:36,116 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,116 pybedtools/cbedtools.cxx:16154:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,116 16154 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,116 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,116 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,116 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,116 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,116 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,117 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,117 | ^ 2021-07-10T11:56:36,117 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,117 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T11:56:36,117 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,117 pybedtools/cbedtools.cxx:16154:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,117 16154 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,118 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,118 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,118 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,118 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,118 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,118 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T11:56:36,118 | ^ 2021-07-10T11:56:36,118 pybedtools/cbedtools.cxx:16154:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,119 16154 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,119 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,119 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T11:56:36,119 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T11:56:36,119 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,119 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,119 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,120 | ^ 2021-07-10T11:56:36,120 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,120 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T11:56:36,120 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,120 pybedtools/cbedtools.cxx:16154:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,120 16154 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,120 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,120 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,121 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,121 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,121 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,121 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,121 | ^ 2021-07-10T11:56:36,121 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,122 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T11:56:36,122 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,122 pybedtools/cbedtools.cxx:16170:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,122 16170 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,122 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,122 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,122 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,122 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,123 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,123 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T11:56:36,123 | ^ 2021-07-10T11:56:36,123 pybedtools/cbedtools.cxx:16170:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,123 16170 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,123 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,123 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T11:56:36,123 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T11:56:36,124 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,124 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,124 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,124 | ^ 2021-07-10T11:56:36,124 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,124 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T11:56:36,124 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,125 pybedtools/cbedtools.cxx:16170:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,125 16170 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,125 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,125 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,125 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,125 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,125 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,125 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,126 | ^ 2021-07-10T11:56:36,126 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,126 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T11:56:36,126 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,126 pybedtools/cbedtools.cxx:16170:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,126 16170 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,126 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,127 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,127 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,127 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,127 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,127 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T11:56:36,127 | ^ 2021-07-10T11:56:36,127 pybedtools/cbedtools.cxx:16170:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,127 16170 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,128 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,128 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T11:56:36,128 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T11:56:36,128 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,128 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,128 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T11:56:36,128 | ^ 2021-07-10T11:56:36,128 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T11:56:36,129 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T11:56:36,129 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,129 pybedtools/cbedtools.cxx:16170:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T11:56:36,129 16170 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T11:56:36,129 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,129 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T11:56:36,129 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T11:56:36,129 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,144 pybedtools/cbedtools.cxx: In function ‘void __Pyx_ExceptionSave(PyObject**, PyObject**, PyObject**)’: 2021-07-10T11:56:36,145 pybedtools/cbedtools.cxx:16708:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T11:56:36,145 16708 | *type = tstate->exc_type; 2021-07-10T11:56:36,145 | ^~~~~~~~ 2021-07-10T11:56:36,145 | curexc_type 2021-07-10T11:56:36,145 pybedtools/cbedtools.cxx:16709:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T11:56:36,145 16709 | *value = tstate->exc_value; 2021-07-10T11:56:36,146 | ^~~~~~~~~ 2021-07-10T11:56:36,146 | curexc_value 2021-07-10T11:56:36,146 pybedtools/cbedtools.cxx:16710:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T11:56:36,146 16710 | *tb = tstate->exc_traceback; 2021-07-10T11:56:36,146 | ^~~~~~~~~~~~~ 2021-07-10T11:56:36,146 | curexc_traceback 2021-07-10T11:56:36,146 pybedtools/cbedtools.cxx: In function ‘void __Pyx_ExceptionReset(PyObject*, PyObject*, PyObject*)’: 2021-07-10T11:56:36,146 pybedtools/cbedtools.cxx:16722:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T11:56:36,147 16722 | tmp_type = tstate->exc_type; 2021-07-10T11:56:36,147 | ^~~~~~~~ 2021-07-10T11:56:36,147 | curexc_type 2021-07-10T11:56:36,147 pybedtools/cbedtools.cxx:16723:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T11:56:36,147 16723 | tmp_value = tstate->exc_value; 2021-07-10T11:56:36,147 | ^~~~~~~~~ 2021-07-10T11:56:36,148 | curexc_value 2021-07-10T11:56:36,148 pybedtools/cbedtools.cxx:16724:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T11:56:36,148 16724 | tmp_tb = tstate->exc_traceback; 2021-07-10T11:56:36,148 | ^~~~~~~~~~~~~ 2021-07-10T11:56:36,148 | curexc_traceback 2021-07-10T11:56:36,148 pybedtools/cbedtools.cxx:16725:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T11:56:36,148 16725 | tstate->exc_type = type; 2021-07-10T11:56:36,148 | ^~~~~~~~ 2021-07-10T11:56:36,149 | curexc_type 2021-07-10T11:56:36,149 pybedtools/cbedtools.cxx:16726:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T11:56:36,149 16726 | tstate->exc_value = value; 2021-07-10T11:56:36,149 | ^~~~~~~~~ 2021-07-10T11:56:36,149 | curexc_value 2021-07-10T11:56:36,149 pybedtools/cbedtools.cxx:16727:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T11:56:36,149 16727 | tstate->exc_traceback = tb; 2021-07-10T11:56:36,150 | ^~~~~~~~~~~~~ 2021-07-10T11:56:36,150 | curexc_traceback 2021-07-10T11:56:36,166 pybedtools/cbedtools.cxx: In function ‘PyObject* __Pyx_CyFunction_Call(PyObject*, PyObject*, PyObject*)’: 2021-07-10T11:56:36,166 pybedtools/cbedtools.cxx:17248:39: warning: ‘PyObject* PyCFunction_Call(PyObject*, PyObject*, PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,166 17248 | return PyCFunction_Call(func, arg, kw); 2021-07-10T11:56:36,167 | ^ 2021-07-10T11:56:36,167 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T11:56:36,167 from pybedtools/cbedtools.cxx:4: 2021-07-10T11:56:36,167 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T11:56:36,167 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T11:56:36,167 | ^~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,168 pybedtools/cbedtools.cxx: In function ‘int __pyx_CyFunction_init()’: 2021-07-10T11:56:36,168 pybedtools/cbedtools.cxx:17313:41: warning: ‘PyObject* PyCFunction_Call(PyObject*, PyObject*, PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,168 17313 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2021-07-10T11:56:36,168 | ^~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,168 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T11:56:36,168 from pybedtools/cbedtools.cxx:4: 2021-07-10T11:56:36,168 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T11:56:36,169 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T11:56:36,169 | ^~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,169 pybedtools/cbedtools.cxx:17313:41: warning: ‘PyObject* PyCFunction_Call(PyObject*, PyObject*, PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T11:56:36,169 17313 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2021-07-10T11:56:36,169 | ^~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,169 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T11:56:36,169 from pybedtools/cbedtools.cxx:4: 2021-07-10T11:56:36,170 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T11:56:36,170 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T11:56:36,170 | ^~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,175 pybedtools/cbedtools.cxx: In function ‘int __Pyx_GetException(PyObject**, PyObject**, PyObject**)’: 2021-07-10T11:56:36,175 pybedtools/cbedtools.cxx:17588:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T11:56:36,175 17588 | tmp_type = tstate->exc_type; 2021-07-10T11:56:36,176 | ^~~~~~~~ 2021-07-10T11:56:36,176 | curexc_type 2021-07-10T11:56:36,176 pybedtools/cbedtools.cxx:17589:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T11:56:36,176 17589 | tmp_value = tstate->exc_value; 2021-07-10T11:56:36,176 | ^~~~~~~~~ 2021-07-10T11:56:36,176 | curexc_value 2021-07-10T11:56:36,176 pybedtools/cbedtools.cxx:17590:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T11:56:36,176 17590 | tmp_tb = tstate->exc_traceback; 2021-07-10T11:56:36,177 | ^~~~~~~~~~~~~ 2021-07-10T11:56:36,177 | curexc_traceback 2021-07-10T11:56:36,177 pybedtools/cbedtools.cxx:17591:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T11:56:36,177 17591 | tstate->exc_type = local_type; 2021-07-10T11:56:36,177 | ^~~~~~~~ 2021-07-10T11:56:36,177 | curexc_type 2021-07-10T11:56:36,178 pybedtools/cbedtools.cxx:17592:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T11:56:36,178 17592 | tstate->exc_value = local_value; 2021-07-10T11:56:36,178 | ^~~~~~~~~ 2021-07-10T11:56:36,178 | curexc_value 2021-07-10T11:56:36,178 pybedtools/cbedtools.cxx:17593:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T11:56:36,179 17593 | tstate->exc_traceback = local_tb; 2021-07-10T11:56:36,179 | ^~~~~~~~~~~~~ 2021-07-10T11:56:36,179 | curexc_traceback 2021-07-10T11:56:36,205 pybedtools/cbedtools.cxx: In function ‘void __Pyx_ExceptionSwap(PyObject**, PyObject**, PyObject**)’: 2021-07-10T11:56:36,205 pybedtools/cbedtools.cxx:18110:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T11:56:36,205 18110 | tmp_type = tstate->exc_type; 2021-07-10T11:56:36,205 | ^~~~~~~~ 2021-07-10T11:56:36,205 | curexc_type 2021-07-10T11:56:36,206 pybedtools/cbedtools.cxx:18111:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T11:56:36,206 18111 | tmp_value = tstate->exc_value; 2021-07-10T11:56:36,206 | ^~~~~~~~~ 2021-07-10T11:56:36,206 | curexc_value 2021-07-10T11:56:36,206 pybedtools/cbedtools.cxx:18112:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T11:56:36,206 18112 | tmp_tb = tstate->exc_traceback; 2021-07-10T11:56:36,206 | ^~~~~~~~~~~~~ 2021-07-10T11:56:36,207 | curexc_traceback 2021-07-10T11:56:36,207 pybedtools/cbedtools.cxx:18113:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T11:56:36,207 18113 | tstate->exc_type = *type; 2021-07-10T11:56:36,207 | ^~~~~~~~ 2021-07-10T11:56:36,207 | curexc_type 2021-07-10T11:56:36,207 pybedtools/cbedtools.cxx:18114:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T11:56:36,207 18114 | tstate->exc_value = *value; 2021-07-10T11:56:36,208 | ^~~~~~~~~ 2021-07-10T11:56:36,208 | curexc_value 2021-07-10T11:56:36,208 pybedtools/cbedtools.cxx:18115:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T11:56:36,208 18115 | tstate->exc_traceback = *tb; 2021-07-10T11:56:36,208 | ^~~~~~~~~~~~~ 2021-07-10T11:56:36,208 | curexc_traceback 2021-07-10T11:56:36,792 pybedtools/cbedtools.cxx: At global scope: 2021-07-10T11:56:36,792 pybedtools/cbedtools.cxx:8376:12: warning: ‘int __pyx_pw_10pybedtools_9cbedtools_8Interval_33__nonzero__(PyObject*)’ defined but not used [-Wunused-function] 2021-07-10T11:56:36,792 8376 | static int __pyx_pw_10pybedtools_9cbedtools_8Interval_33__nonzero__(PyObject *__pyx_v_self) { 2021-07-10T11:56:36,792 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T11:56:36,808 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-10T11:56:36,883 Building wheel for pybedtools (setup.py): finished with status 'error' 2021-07-10T11:56:36,883 ERROR: Failed building wheel for pybedtools 2021-07-10T11:56:36,884 Running setup.py clean for pybedtools 2021-07-10T11:56:36,884 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-d2ctow1s/pybedtools_82324452d3954fb488bb71ee64d8a4e8/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-d2ctow1s/pybedtools_82324452d3954fb488bb71ee64d8a4e8/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' clean --all 2021-07-10T11:56:37,783 running clean 2021-07-10T11:56:37,893 Failed to build pybedtools 2021-07-10T11:56:37,893 ERROR: Failed to build one or more wheels 2021-07-10T11:56:37,894 Exception information: 2021-07-10T11:56:37,894 Traceback (most recent call last): 2021-07-10T11:56:37,894 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-10T11:56:37,894 status = self.run(options, args) 2021-07-10T11:56:37,894 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-10T11:56:37,894 return func(self, options, args) 2021-07-10T11:56:37,894 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-10T11:56:37,894 raise CommandError( 2021-07-10T11:56:37,894 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-10T11:56:37,897 Removed build tracker: '/tmp/pip-req-tracker-et49n4p3'