2021-07-10T12:17:40,759 Created temporary directory: /tmp/pip-ephem-wheel-cache-6owe_n7j 2021-07-10T12:17:40,762 Created temporary directory: /tmp/pip-req-tracker-jzc07m1u 2021-07-10T12:17:40,762 Initialized build tracking at /tmp/pip-req-tracker-jzc07m1u 2021-07-10T12:17:40,763 Created build tracker: /tmp/pip-req-tracker-jzc07m1u 2021-07-10T12:17:40,763 Entered build tracker: /tmp/pip-req-tracker-jzc07m1u 2021-07-10T12:17:40,764 Created temporary directory: /tmp/pip-wheel-p09b3u1q 2021-07-10T12:17:40,793 1 location(s) to search for versions of pybedtools: 2021-07-10T12:17:40,793 * https://pypi.org/simple/pybedtools/ 2021-07-10T12:17:40,793 Fetching project page and analyzing links: https://pypi.org/simple/pybedtools/ 2021-07-10T12:17:40,794 Getting page https://pypi.org/simple/pybedtools/ 2021-07-10T12:17:40,795 Found index url https://pypi.org/simple 2021-07-10T12:17:40,989 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 2021-07-10T12:17:40,989 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 2021-07-10T12:17:40,989 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 2021-07-10T12:17:40,990 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 2021-07-10T12:17:40,990 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 2021-07-10T12:17:40,990 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 2021-07-10T12:17:40,991 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 2021-07-10T12:17:40,991 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 2021-07-10T12:17:40,991 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 2021-07-10T12:17:40,991 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 2021-07-10T12:17:40,992 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 2021-07-10T12:17:40,992 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 2021-07-10T12:17:40,992 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 2021-07-10T12:17:40,992 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 2021-07-10T12:17:40,993 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 2021-07-10T12:17:40,993 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 2021-07-10T12:17:40,993 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 2021-07-10T12:17:40,994 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 2021-07-10T12:17:40,994 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 2021-07-10T12:17:40,994 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 2021-07-10T12:17:40,994 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 2021-07-10T12:17:40,995 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 2021-07-10T12:17:40,995 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 2021-07-10T12:17:40,995 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 2021-07-10T12:17:40,995 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 2021-07-10T12:17:40,996 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 2021-07-10T12:17:40,996 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 2021-07-10T12:17:40,996 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 2021-07-10T12:17:40,997 Skipping link: not a file: https://pypi.org/simple/pybedtools/ 2021-07-10T12:17:41,018 Given no hashes to check 1 links for project 'pybedtools': discarding no candidates 2021-07-10T12:17:41,037 Collecting pybedtools==0.7.6 2021-07-10T12:17:41,038 Created temporary directory: /tmp/pip-unpack-vxgiwhol 2021-07-10T12:17:44,321 Downloading pybedtools-0.7.6.tar.gz (12.6 MB) 2021-07-10T12:17:46,356 Added pybedtools==0.7.6 from https://files.pythonhosted.org/packages/f4/49/ce7ccc0ad79189eb8b8eec170c350643e7a209f98e34dae239a954d6fdb0/pybedtools-0.7.6.tar.gz#sha256=8b6382036c715b49f83e35cc787d7084c1633ebe94a2a3c4102e805613f7426b to build tracker '/tmp/pip-req-tracker-jzc07m1u' 2021-07-10T12:17:46,357 Running setup.py (path:/tmp/pip-wheel-p09b3u1q/pybedtools_46d40a7b430e447fb9c4454f8bfb2a39/setup.py) egg_info for package pybedtools 2021-07-10T12:17:46,358 Created temporary directory: /tmp/pip-pip-egg-info-x73hrn48 2021-07-10T12:17:46,358 Running command python setup.py egg_info 2021-07-10T12:17:47,377 running egg_info 2021-07-10T12:17:47,379 creating /tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info 2021-07-10T12:17:47,380 writing /tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info/PKG-INFO 2021-07-10T12:17:47,382 writing dependency_links to /tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info/dependency_links.txt 2021-07-10T12:17:47,384 writing requirements to /tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info/requires.txt 2021-07-10T12:17:47,385 writing top-level names to /tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info/top_level.txt 2021-07-10T12:17:47,386 writing manifest file '/tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info/SOURCES.txt' 2021-07-10T12:17:47,584 reading manifest file '/tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info/SOURCES.txt' 2021-07-10T12:17:47,586 reading manifest template 'MANIFEST.in' 2021-07-10T12:17:47,822 warning: no previously-included files matching '__pycache__' found under directory '*' 2021-07-10T12:17:47,823 warning: no previously-included files matching '*.py[co]' found under directory '*' 2021-07-10T12:17:47,824 adding license file 'LICENSE.txt' 2021-07-10T12:17:47,835 writing manifest file '/tmp/pip-pip-egg-info-x73hrn48/pybedtools.egg-info/SOURCES.txt' 2021-07-10T12:17:47,916 Source in /tmp/pip-wheel-p09b3u1q/pybedtools_46d40a7b430e447fb9c4454f8bfb2a39 has version 0.7.6, which satisfies requirement pybedtools==0.7.6 from https://files.pythonhosted.org/packages/f4/49/ce7ccc0ad79189eb8b8eec170c350643e7a209f98e34dae239a954d6fdb0/pybedtools-0.7.6.tar.gz#sha256=8b6382036c715b49f83e35cc787d7084c1633ebe94a2a3c4102e805613f7426b 2021-07-10T12:17:47,917 Removed pybedtools==0.7.6 from https://files.pythonhosted.org/packages/f4/49/ce7ccc0ad79189eb8b8eec170c350643e7a209f98e34dae239a954d6fdb0/pybedtools-0.7.6.tar.gz#sha256=8b6382036c715b49f83e35cc787d7084c1633ebe94a2a3c4102e805613f7426b from build tracker '/tmp/pip-req-tracker-jzc07m1u' 2021-07-10T12:17:47,921 Created temporary directory: /tmp/pip-unpack-oo66v5rj 2021-07-10T12:17:47,922 Building wheels for collected packages: pybedtools 2021-07-10T12:17:47,925 Created temporary directory: /tmp/pip-wheel-y2rzm6ml 2021-07-10T12:17:47,926 Building wheel for pybedtools (setup.py): started 2021-07-10T12:17:47,926 Destination directory: /tmp/pip-wheel-y2rzm6ml 2021-07-10T12:17:47,926 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-p09b3u1q/pybedtools_46d40a7b430e447fb9c4454f8bfb2a39/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-p09b3u1q/pybedtools_46d40a7b430e447fb9c4454f8bfb2a39/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-y2rzm6ml 2021-07-10T12:17:48,944 running bdist_wheel 2021-07-10T12:17:48,945 The [wheel] section is deprecated. Use [bdist_wheel] instead. 2021-07-10T12:17:48,947 running build 2021-07-10T12:17:48,947 running build_py 2021-07-10T12:17:49,087 creating build 2021-07-10T12:17:49,087 creating build/lib.linux-armv7l-3.9 2021-07-10T12:17:49,088 creating build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,089 copying pybedtools/logger.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,091 copying pybedtools/__main__.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,093 copying pybedtools/parallel.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,095 copying pybedtools/filenames.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,096 copying pybedtools/genome_registry.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,099 copying pybedtools/settings.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,101 copying pybedtools/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,102 copying pybedtools/stats.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,104 copying pybedtools/bedtool.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,109 copying pybedtools/version.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,111 copying pybedtools/helpers.py -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,115 creating build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,116 copying pybedtools/test/test_scripts.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,118 copying pybedtools/test/regression_tests.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,120 copying pybedtools/test/test_iter.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,123 copying pybedtools/test/test_cbedtools.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,125 copying pybedtools/test/tfuncs.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,127 copying pybedtools/test/test_helpers.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,129 copying pybedtools/test/test_gzip_support.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,131 copying pybedtools/test/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,133 copying pybedtools/test/test1.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,137 copying pybedtools/test/test_len_leak.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,139 copying pybedtools/test/test_contrib.py -> build/lib.linux-armv7l-3.9/pybedtools/test 2021-07-10T12:17:49,142 creating build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,142 copying pybedtools/contrib/venn_maker.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,145 copying pybedtools/contrib/plotting.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,147 copying pybedtools/contrib/intersection_matrix.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,150 copying pybedtools/contrib/bigbed.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,152 copying pybedtools/contrib/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,153 copying pybedtools/contrib/classifier.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,156 copying pybedtools/contrib/long_range_interaction.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,159 copying pybedtools/contrib/bigwig.py -> build/lib.linux-armv7l-3.9/pybedtools/contrib 2021-07-10T12:17:49,162 creating build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,163 copying pybedtools/scripts/peak_pie.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,165 copying pybedtools/scripts/intersection_matrix.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,168 copying pybedtools/scripts/venn_gchart.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,170 copying pybedtools/scripts/venn_mpl.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,172 copying pybedtools/scripts/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,174 copying pybedtools/scripts/py_ms_example.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,176 copying pybedtools/scripts/intron_exon_reads.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,178 copying pybedtools/scripts/annotate.py -> build/lib.linux-armv7l-3.9/pybedtools/scripts 2021-07-10T12:17:49,181 creating build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,182 copying pybedtools/test/data/__init__.py -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,197 copying pybedtools/test/data/vcf-stderr-test.vcf -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,199 copying pybedtools/test/data/gdc.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,202 copying pybedtools/test/data/gdc.sorted.bam.bai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,204 copying pybedtools/test/data/gdc.sorted.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,206 copying pybedtools/test/data/expand_test.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,208 copying pybedtools/test/data/SuHw_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,215 copying pybedtools/test/data/tag_test2.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,217 copying pybedtools/test/data/venn.b.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,220 copying pybedtools/test/data/d.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,222 copying pybedtools/test/data/bedpe.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,224 copying pybedtools/test/data/BEAF_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,228 copying pybedtools/test/data/dm3-chr2L-5M.gff.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,242 copying pybedtools/test/data/c.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,244 copying pybedtools/test/data/gdc.gff.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,246 copying pybedtools/test/data/multibamcov_test.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,248 copying pybedtools/test/data/reads.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,250 copying pybedtools/test/data/a.igv_script -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,253 copying pybedtools/test/data/issue_121.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,255 copying pybedtools/test/data/gdc.50.200.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,257 copying pybedtools/test/data/small.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,259 copying pybedtools/test/data/v.vcf -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,262 copying pybedtools/test/data/test_tsses.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,264 copying pybedtools/test/data/venn.c.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,267 copying pybedtools/test/data/x.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,312 copying pybedtools/test/data/gdc.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,314 copying pybedtools/test/data/rmsk.hg18.chr21.small.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,318 copying pybedtools/test/data/x.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,381 copying pybedtools/test/data/bedpe2.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,384 copying pybedtools/test/data/gdc.1.100.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,386 copying pybedtools/test/data/mm9.bed12 -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,389 copying pybedtools/test/data/test.fa.fai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,391 copying pybedtools/test/data/CTCF_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,395 copying pybedtools/test/data/hg19.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,406 copying pybedtools/test/data/Cp190_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,413 copying pybedtools/test/data/a.links.html -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,416 copying pybedtools/test/data/snps.bed.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,602 copying pybedtools/test/data/test_bedpe.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,604 copying pybedtools/test/data/1000genomes-example.vcf -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,607 copying pybedtools/test/data/democonfig.yaml -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,609 copying pybedtools/test/data/vcf-stderr-test.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,611 copying pybedtools/test/data/y.bam -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,614 copying pybedtools/test/data/rmsk.hg18.chr21.small.bed.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,616 copying pybedtools/test/data/CTCF_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,620 copying pybedtools/test/data/m1.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,622 copying pybedtools/test/data/tag_test1.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,624 copying pybedtools/test/data/dm3-chr2L-5M-invalid.gff.gz -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,638 copying pybedtools/test/data/gdc.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,641 copying pybedtools/test/data/a.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,643 copying pybedtools/test/data/hg38-base.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,645 copying pybedtools/test/data/BEAF_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,649 copying pybedtools/test/data/small.fastq -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,652 copying pybedtools/test/data/Cp190_Kc_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,657 copying pybedtools/test/data/SuHw_Mbn2_Bushey_2009.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,661 copying pybedtools/test/data/hg38-problem.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,664 copying pybedtools/test/data/b.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,666 copying pybedtools/test/data/test.fa -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,668 copying pybedtools/test/data/gdc.50.200.bam.bai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,671 copying pybedtools/test/data/gdc.1.100.bam.bai -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,673 copying pybedtools/test/data/test_peaks.bed -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,676 copying pybedtools/test/data/exons.gff -> build/lib.linux-armv7l-3.9/pybedtools/test/data 2021-07-10T12:17:49,678 copying pybedtools/featurefuncs.pyx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,681 copying pybedtools/cbedtools.pyx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,684 copying pybedtools/_Window.pyx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,687 copying pybedtools/cbedtools.pxd -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,690 copying pybedtools/featurefuncs.cxx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,706 copying pybedtools/cbedtools.cxx -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,730 copying pybedtools/_Window.c -> build/lib.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,743 running build_ext 2021-07-10T12:17:49,749 building 'pybedtools.cbedtools' extension 2021-07-10T12:17:49,750 creating build/temp.linux-armv7l-3.9 2021-07-10T12:17:49,751 creating build/temp.linux-armv7l-3.9/pybedtools 2021-07-10T12:17:49,752 creating build/temp.linux-armv7l-3.9/src 2021-07-10T12:17:49,752 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 2021-07-10T12:17:52,175 pybedtools/cbedtools.cxx: In function ‘PyObject* PyInit_cbedtools()’: 2021-07-10T12:17:52,175 pybedtools/cbedtools.cxx:15158:47: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-10T12:17:52,175 15158 | __pyx_type_10pybedtools_9cbedtools_Interval.tp_print = 0; 2021-07-10T12:17:52,175 | ^~~~~~~~ 2021-07-10T12:17:52,176 pybedtools/cbedtools.cxx:15173:55: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-10T12:17:52,176 15173 | __pyx_type_10pybedtools_9cbedtools_IntervalIterator.tp_print = 0; 2021-07-10T12:17:52,177 | ^~~~~~~~ 2021-07-10T12:17:52,177 pybedtools/cbedtools.cxx:15177:51: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-10T12:17:52,177 15177 | __pyx_type_10pybedtools_9cbedtools_IntervalFile.tp_print = 0; 2021-07-10T12:17:52,177 | ^~~~~~~~ 2021-07-10T12:17:52,218 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*))’: 2021-07-10T12:17:52,218 pybedtools/cbedtools.cxx:16155:45: warning: ‘PyObject* PyUnicode_FromUnicode(const Py_UNICODE*, Py_ssize_t)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,218 16155 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-10T12:17:52,219 | ^ 2021-07-10T12:17:52,219 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T12:17:52,219 from /usr/include/python3.9/Python.h:97, 2021-07-10T12:17:52,219 from pybedtools/cbedtools.cxx:4: 2021-07-10T12:17:52,219 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-10T12:17:52,219 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-10T12:17:52,219 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,221 pybedtools/cbedtools.cxx: In function ‘int __Pyx_ParseOptionalKeywords(PyObject*, PyObject***, PyObject*, PyObject**, Py_ssize_t, const char*)’: 2021-07-10T12:17:52,221 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,221 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,221 | ^ 2021-07-10T12:17:52,221 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,221 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T12:17:52,221 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,222 pybedtools/cbedtools.cxx:16225:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,222 16225 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,222 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,222 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,222 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,222 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,222 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,223 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T12:17:52,223 | ^ 2021-07-10T12:17:52,223 pybedtools/cbedtools.cxx:16225:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,223 16225 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,223 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,223 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T12:17:52,223 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T12:17:52,224 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,224 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,224 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,224 | ^ 2021-07-10T12:17:52,224 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,224 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T12:17:52,224 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,224 pybedtools/cbedtools.cxx:16225:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,225 16225 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,225 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,225 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,225 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,225 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,225 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,225 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,225 | ^ 2021-07-10T12:17:52,226 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,226 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T12:17:52,226 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,226 pybedtools/cbedtools.cxx:16225:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,226 16225 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,226 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,226 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,227 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,227 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,227 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,227 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T12:17:52,227 | ^ 2021-07-10T12:17:52,227 pybedtools/cbedtools.cxx:16225:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,227 16225 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,228 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,228 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T12:17:52,228 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T12:17:52,228 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,228 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,228 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,228 | ^ 2021-07-10T12:17:52,228 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,229 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T12:17:52,229 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,229 pybedtools/cbedtools.cxx:16225:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,229 16225 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,229 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,229 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,229 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,229 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,230 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,230 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,230 | ^ 2021-07-10T12:17:52,230 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,230 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T12:17:52,230 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,231 pybedtools/cbedtools.cxx:16241:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,231 16241 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,231 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,231 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,231 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,231 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,231 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,232 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T12:17:52,232 | ^ 2021-07-10T12:17:52,232 pybedtools/cbedtools.cxx:16241:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,232 16241 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,232 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,232 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T12:17:52,232 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T12:17:52,232 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,233 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,233 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,233 | ^ 2021-07-10T12:17:52,233 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,233 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T12:17:52,233 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,233 pybedtools/cbedtools.cxx:16241:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,234 16241 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,234 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,234 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,234 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,234 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,234 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,234 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,235 | ^ 2021-07-10T12:17:52,235 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,235 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-10T12:17:52,235 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,235 pybedtools/cbedtools.cxx:16241:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,235 16241 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,235 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,236 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,236 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,236 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,236 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,236 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-10T12:17:52,236 | ^ 2021-07-10T12:17:52,236 pybedtools/cbedtools.cxx:16241:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,236 16241 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,237 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,237 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T12:17:52,237 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T12:17:52,237 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,237 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,237 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-10T12:17:52,237 | ^ 2021-07-10T12:17:52,238 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-10T12:17:52,238 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-10T12:17:52,238 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,238 pybedtools/cbedtools.cxx:16241:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-10T12:17:52,238 16241 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T12:17:52,238 | ^~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,238 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T12:17:52,239 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T12:17:52,239 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,254 pybedtools/cbedtools.cxx: In function ‘void __Pyx_ExceptionSave(PyObject**, PyObject**, PyObject**)’: 2021-07-10T12:17:52,254 pybedtools/cbedtools.cxx:16779:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T12:17:52,254 16779 | *type = tstate->exc_type; 2021-07-10T12:17:52,254 | ^~~~~~~~ 2021-07-10T12:17:52,255 | curexc_type 2021-07-10T12:17:52,255 pybedtools/cbedtools.cxx:16780:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T12:17:52,255 16780 | *value = tstate->exc_value; 2021-07-10T12:17:52,255 | ^~~~~~~~~ 2021-07-10T12:17:52,255 | curexc_value 2021-07-10T12:17:52,255 pybedtools/cbedtools.cxx:16781:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T12:17:52,255 16781 | *tb = tstate->exc_traceback; 2021-07-10T12:17:52,256 | ^~~~~~~~~~~~~ 2021-07-10T12:17:52,256 | curexc_traceback 2021-07-10T12:17:52,256 pybedtools/cbedtools.cxx: In function ‘void __Pyx_ExceptionReset(PyObject*, PyObject*, PyObject*)’: 2021-07-10T12:17:52,256 pybedtools/cbedtools.cxx:16793:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T12:17:52,256 16793 | tmp_type = tstate->exc_type; 2021-07-10T12:17:52,256 | ^~~~~~~~ 2021-07-10T12:17:52,256 | curexc_type 2021-07-10T12:17:52,257 pybedtools/cbedtools.cxx:16794:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T12:17:52,257 16794 | tmp_value = tstate->exc_value; 2021-07-10T12:17:52,257 | ^~~~~~~~~ 2021-07-10T12:17:52,257 | curexc_value 2021-07-10T12:17:52,257 pybedtools/cbedtools.cxx:16795:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T12:17:52,257 16795 | tmp_tb = tstate->exc_traceback; 2021-07-10T12:17:52,257 | ^~~~~~~~~~~~~ 2021-07-10T12:17:52,258 | curexc_traceback 2021-07-10T12:17:52,258 pybedtools/cbedtools.cxx:16796:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T12:17:52,258 16796 | tstate->exc_type = type; 2021-07-10T12:17:52,258 | ^~~~~~~~ 2021-07-10T12:17:52,258 | curexc_type 2021-07-10T12:17:52,258 pybedtools/cbedtools.cxx:16797:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T12:17:52,259 16797 | tstate->exc_value = value; 2021-07-10T12:17:52,259 | ^~~~~~~~~ 2021-07-10T12:17:52,259 | curexc_value 2021-07-10T12:17:52,259 pybedtools/cbedtools.cxx:16798:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T12:17:52,259 16798 | tstate->exc_traceback = tb; 2021-07-10T12:17:52,259 | ^~~~~~~~~~~~~ 2021-07-10T12:17:52,259 | curexc_traceback 2021-07-10T12:17:52,276 pybedtools/cbedtools.cxx: In function ‘PyObject* __Pyx_CyFunction_Call(PyObject*, PyObject*, PyObject*)’: 2021-07-10T12:17:52,276 pybedtools/cbedtools.cxx:17319:39: warning: ‘PyObject* PyCFunction_Call(PyObject*, PyObject*, PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,277 17319 | return PyCFunction_Call(func, arg, kw); 2021-07-10T12:17:52,277 | ^ 2021-07-10T12:17:52,277 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T12:17:52,277 from pybedtools/cbedtools.cxx:4: 2021-07-10T12:17:52,277 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T12:17:52,277 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T12:17:52,277 | ^~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,278 pybedtools/cbedtools.cxx: In function ‘int __pyx_CyFunction_init()’: 2021-07-10T12:17:52,278 pybedtools/cbedtools.cxx:17384:41: warning: ‘PyObject* PyCFunction_Call(PyObject*, PyObject*, PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,278 17384 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2021-07-10T12:17:52,278 | ^~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,278 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T12:17:52,278 from pybedtools/cbedtools.cxx:4: 2021-07-10T12:17:52,278 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T12:17:52,279 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T12:17:52,279 | ^~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,279 pybedtools/cbedtools.cxx:17384:41: warning: ‘PyObject* PyCFunction_Call(PyObject*, PyObject*, PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-10T12:17:52,279 17384 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2021-07-10T12:17:52,279 | ^~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,279 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T12:17:52,280 from pybedtools/cbedtools.cxx:4: 2021-07-10T12:17:52,280 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T12:17:52,280 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T12:17:52,280 | ^~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,288 pybedtools/cbedtools.cxx: In function ‘int __Pyx_GetException(PyObject**, PyObject**, PyObject**)’: 2021-07-10T12:17:52,288 pybedtools/cbedtools.cxx:17659:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T12:17:52,288 17659 | tmp_type = tstate->exc_type; 2021-07-10T12:17:52,288 | ^~~~~~~~ 2021-07-10T12:17:52,288 | curexc_type 2021-07-10T12:17:52,288 pybedtools/cbedtools.cxx:17660:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T12:17:52,289 17660 | tmp_value = tstate->exc_value; 2021-07-10T12:17:52,289 | ^~~~~~~~~ 2021-07-10T12:17:52,289 | curexc_value 2021-07-10T12:17:52,289 pybedtools/cbedtools.cxx:17661:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T12:17:52,289 17661 | tmp_tb = tstate->exc_traceback; 2021-07-10T12:17:52,289 | ^~~~~~~~~~~~~ 2021-07-10T12:17:52,289 | curexc_traceback 2021-07-10T12:17:52,289 pybedtools/cbedtools.cxx:17662:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T12:17:52,290 17662 | tstate->exc_type = local_type; 2021-07-10T12:17:52,290 | ^~~~~~~~ 2021-07-10T12:17:52,290 | curexc_type 2021-07-10T12:17:52,290 pybedtools/cbedtools.cxx:17663:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T12:17:52,290 17663 | tstate->exc_value = local_value; 2021-07-10T12:17:52,290 | ^~~~~~~~~ 2021-07-10T12:17:52,291 | curexc_value 2021-07-10T12:17:52,291 pybedtools/cbedtools.cxx:17664:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T12:17:52,291 17664 | tstate->exc_traceback = local_tb; 2021-07-10T12:17:52,291 | ^~~~~~~~~~~~~ 2021-07-10T12:17:52,291 | curexc_traceback 2021-07-10T12:17:52,316 pybedtools/cbedtools.cxx: In function ‘void __Pyx_ExceptionSwap(PyObject**, PyObject**, PyObject**)’: 2021-07-10T12:17:52,316 pybedtools/cbedtools.cxx:18181:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T12:17:52,316 18181 | tmp_type = tstate->exc_type; 2021-07-10T12:17:52,316 | ^~~~~~~~ 2021-07-10T12:17:52,316 | curexc_type 2021-07-10T12:17:52,316 pybedtools/cbedtools.cxx:18182:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T12:17:52,317 18182 | tmp_value = tstate->exc_value; 2021-07-10T12:17:52,317 | ^~~~~~~~~ 2021-07-10T12:17:52,317 | curexc_value 2021-07-10T12:17:52,317 pybedtools/cbedtools.cxx:18183:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T12:17:52,317 18183 | tmp_tb = tstate->exc_traceback; 2021-07-10T12:17:52,317 | ^~~~~~~~~~~~~ 2021-07-10T12:17:52,318 | curexc_traceback 2021-07-10T12:17:52,318 pybedtools/cbedtools.cxx:18184:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T12:17:52,318 18184 | tstate->exc_type = *type; 2021-07-10T12:17:52,318 | ^~~~~~~~ 2021-07-10T12:17:52,318 | curexc_type 2021-07-10T12:17:52,318 pybedtools/cbedtools.cxx:18185:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T12:17:52,318 18185 | tstate->exc_value = *value; 2021-07-10T12:17:52,318 | ^~~~~~~~~ 2021-07-10T12:17:52,319 | curexc_value 2021-07-10T12:17:52,319 pybedtools/cbedtools.cxx:18186:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T12:17:52,319 18186 | tstate->exc_traceback = *tb; 2021-07-10T12:17:52,319 | ^~~~~~~~~~~~~ 2021-07-10T12:17:52,319 | curexc_traceback 2021-07-10T12:17:52,908 pybedtools/cbedtools.cxx: At global scope: 2021-07-10T12:17:52,909 pybedtools/cbedtools.cxx:8378:12: warning: ‘int __pyx_pw_10pybedtools_9cbedtools_8Interval_33__nonzero__(PyObject*)’ defined but not used [-Wunused-function] 2021-07-10T12:17:52,909 8378 | static int __pyx_pw_10pybedtools_9cbedtools_8Interval_33__nonzero__(PyObject *__pyx_v_self) { 2021-07-10T12:17:52,909 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T12:17:52,925 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-10T12:17:53,001 Building wheel for pybedtools (setup.py): finished with status 'error' 2021-07-10T12:17:53,001 ERROR: Failed building wheel for pybedtools 2021-07-10T12:17:53,002 Running setup.py clean for pybedtools 2021-07-10T12:17:53,002 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-p09b3u1q/pybedtools_46d40a7b430e447fb9c4454f8bfb2a39/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-p09b3u1q/pybedtools_46d40a7b430e447fb9c4454f8bfb2a39/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 2021-07-10T12:17:53,994 running clean 2021-07-10T12:17:54,103 Failed to build pybedtools 2021-07-10T12:17:54,103 ERROR: Failed to build one or more wheels 2021-07-10T12:17:54,104 Exception information: 2021-07-10T12:17:54,104 Traceback (most recent call last): 2021-07-10T12:17:54,104 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-10T12:17:54,104 status = self.run(options, args) 2021-07-10T12:17:54,104 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-10T12:17:54,104 return func(self, options, args) 2021-07-10T12:17:54,104 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-10T12:17:54,104 raise CommandError( 2021-07-10T12:17:54,104 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-10T12:17:54,107 Removed build tracker: '/tmp/pip-req-tracker-jzc07m1u'