2023-09-09T17:41:24,342 Created temporary directory: /tmp/pip-build-tracker-ca_464dr 2023-09-09T17:41:24,343 Initialized build tracking at /tmp/pip-build-tracker-ca_464dr 2023-09-09T17:41:24,343 Created build tracker: /tmp/pip-build-tracker-ca_464dr 2023-09-09T17:41:24,344 Entered build tracker: /tmp/pip-build-tracker-ca_464dr 2023-09-09T17:41:24,345 Created temporary directory: /tmp/pip-wheel-6svxlvys 2023-09-09T17:41:24,348 Created temporary directory: /tmp/pip-ephem-wheel-cache-mmtghcw1 2023-09-09T17:41:24,369 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-09T17:41:24,372 2 location(s) to search for versions of khmer: 2023-09-09T17:41:24,372 * https://pypi.org/simple/khmer/ 2023-09-09T17:41:24,372 * https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:24,373 Fetching project page and analyzing links: https://pypi.org/simple/khmer/ 2023-09-09T17:41:24,374 Getting page https://pypi.org/simple/khmer/ 2023-09-09T17:41:24,375 Found index url https://pypi.org/simple/ 2023-09-09T17:41:24,522 Fetched page https://pypi.org/simple/khmer/ as application/vnd.pypi.simple.v1+json 2023-09-09T17:41:24,529 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/a5/8e/d814af49f243e9628cc68cf9a89a290fa761a1acdfbf4044e69bb5f3185b/khmer-0.6-py2.7-linux-x86_64.egg (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,530 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/f1/61/71c0e5b337f3fb110d22314a90985f58d2a643c8fe701dd832f7a3b3cbe7/khmer-0.6-py2.7-macosx-10.8-intel.egg (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,531 Found link https://files.pythonhosted.org/packages/b9/d6/e343a534406110221eb690dc3ffa7548f03f2d51c4d9d407bf2e72278861/khmer-0.6.tar.gz (from https://pypi.org/simple/khmer/), version: 0.6 2023-09-09T17:41:24,531 Found link https://files.pythonhosted.org/packages/81/89/085bcb663ac1bd3a0b363b5a1de8f5a1c7d3b10e4a3ec197c976c2911ab9/khmer-0.6.1.tar.gz (from https://pypi.org/simple/khmer/), version: 0.6.1 2023-09-09T17:41:24,532 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/74/ff/a33663f83fd01cd5ffc9903d8116bd3dfc065f1f865db5c91b080991690b/khmer-0.7-cp27-none-macosx_10_8_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,532 Found link https://files.pythonhosted.org/packages/3a/bd/b1eb804f77e6ea99f9db02688c1474628d844e2f59a4f77d7bc00f8c990b/khmer-0.7.tar.gz (from https://pypi.org/simple/khmer/), version: 0.7 2023-09-09T17:41:24,533 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/d5/8b/ae021e29186d3f9ed8cfdd4f8a81db44f7d4105446dc9e119afd908eea21/khmer-0.7.1-cp27-none-macosx_10_8_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,534 Found link https://files.pythonhosted.org/packages/92/11/b17b809e155f35cfc17710ea67b7515b6025e141de6506a4af4e32e32b70/khmer-0.7.1.tar.gz (from https://pypi.org/simple/khmer/), version: 0.7.1 2023-09-09T17:41:24,534 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/84/a8/09ee794b0db1cc2b113a4f2f56beb325769389c35b48f802289d67297e24/khmer-0.8-cp27-none-macosx_10_9_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,535 Found link https://files.pythonhosted.org/packages/31/8f/7063987e7713dfbcd05bc53e4778c2284e3ea905112fc97d83d03afa60d9/khmer-0.8.tar.gz (from https://pypi.org/simple/khmer/), version: 0.8 2023-09-09T17:41:24,536 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/4e/6c/33badfa2550b73b7f037afa2e37aa09b7506b5dbd58175b0c24f40ed8179/khmer-1.0-cp27-none-macosx_10_9_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,536 Found link https://files.pythonhosted.org/packages/67/d0/334f8bba7befb5d671bf5663d1073c73cba841f13088d6426b93dbb884ce/khmer-1.0.tar.gz (from https://pypi.org/simple/khmer/), version: 1.0 2023-09-09T17:41:24,537 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/fd/a6/5b64bad521c070581ecb1f22ecfcb33d2b297ec353094438d807028e4be0/khmer-1.0.1-cp27-none-macosx_10_9_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,537 Found link https://files.pythonhosted.org/packages/4e/73/cebb5f4952d79693ddd5c8a9efac21883f1b4cdff1d046adb2df1f2070bd/khmer-1.0.1.tar.gz (from https://pypi.org/simple/khmer/), version: 1.0.1 2023-09-09T17:41:24,538 Found link https://files.pythonhosted.org/packages/df/66/250be153108b73fa745d22b0e141d6d922cd011b6cda2233d46d34bcc596/khmer-1.1.tar.gz (from https://pypi.org/simple/khmer/), version: 1.1 2023-09-09T17:41:24,539 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/6d/0b/97e3dd8339736c4f4ebf3906274bcf972b2d308bb76db1702c187bfbd9fd/khmer-1.2-cp27-none-macosx_10_10_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,539 Found link https://files.pythonhosted.org/packages/b8/b5/8143587dd5eba9204dea9eab50b990656b70e03538a44af56eec11a28f02/khmer-1.2.tar.gz (from https://pypi.org/simple/khmer/), version: 1.2 2023-09-09T17:41:24,540 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/41/7a/d94ad453d04782d82aebe7825ef4f1a38fc9e3374b0b3cfe9b1c5400482e/khmer-1.3-cp27-none-macosx_10_10_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,540 Found link https://files.pythonhosted.org/packages/6c/cf/37bd5901fe1322b59cd2cece9c53661944e18dddba3e8ebf2aa2d7834113/khmer-1.3.tar.gz (from https://pypi.org/simple/khmer/), version: 1.3 2023-09-09T17:41:24,541 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/89/b4/310a7e99bac77a488cc482f4184480aa803f65bad8ffacb961c94f819335/khmer-1.4-cp27-none-macosx_10_10_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,541 Found link https://files.pythonhosted.org/packages/5a/91/eb0c9a5fdab42699c56b8c60d0d02e806f4d4d42f809061eb9a1a9a59dfa/khmer-1.4.tar.gz (from https://pypi.org/simple/khmer/), version: 1.4 2023-09-09T17:41:24,542 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/5c/44/1d4273abe1bf162cd1a8c8d5424cec23e65971f90951659a0b590beaf364/khmer-1.4.1-cp27-none-macosx_10_10_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,542 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/96/b7/76a047a594778ad4d2646754e4454ac9d484b7e64548ebed24362c5aba4f/khmer-1.4.1-cp27-none-macosx_10_6_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,543 Found link https://files.pythonhosted.org/packages/5e/16/15243a0612c798595e8dd8bdf0477a7ce065929b9de5dbfebdf461006f05/khmer-1.4.1.tar.gz (from https://pypi.org/simple/khmer/), version: 1.4.1 2023-09-09T17:41:24,543 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/5d/f6/791f79f68be58cb20c6426726063d742b3dd778b222873cb9f01ab65bc09/khmer-2.0-cp27-none-macosx_10_6_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,544 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/22/37/6c6fb54d9b8feb8a64e52e6e16cd409bc47d8240294caf8449fac6523f64/khmer-2.0-cp33-cp33m-macosx_10_6_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,545 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/69/21/de9ff69a24a90e6f4e788b57a6d911b046cbc768436060c18a0c18c2e187/khmer-2.0-cp34-cp34m-macosx_10_6_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,545 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/36/cb/4a1638d5ca5a9b0d53c1b5484cefdcda9f3079bfb0b92e2ae2fac6d83bfd/khmer-2.0-cp35-cp35m-macosx_10_6_intel.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,546 Found link https://files.pythonhosted.org/packages/52/3b/2c52a13937197391775f274ed75b4a33b2d7767a904faaf4032e14e10a55/khmer-2.0.tar.gz (from https://pypi.org/simple/khmer/), version: 2.0 2023-09-09T17:41:24,546 Found link https://files.pythonhosted.org/packages/57/17/a1f05b13895e02cadeac06d61f7ea63e8c32eda38312d57e9ba218d0ca9b/khmer-2.1rc3.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1rc3 2023-09-09T17:41:24,547 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/c9/bb/8cccf9bf31082b3d78aa628ca62e8603f81de83b7a5056f0ce026cfb50fd/khmer-2.1-cp36-cp36m-macosx_10_12_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,548 Found link https://files.pythonhosted.org/packages/3e/e5/b3190cb9def69d665b42cd91ea27712f1d7de643f4b9c66ef2e5f1ab29c6/khmer-2.1.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1 2023-09-09T17:41:24,548 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/d3/55/d3f5da570677903679e0c40aa4b93323853ebe15e75944b4a0d7d25d11c8/khmer-2.1.1-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,549 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/40/5a/328d310361d98bb2f29361128eaa2493f44b51997d6837c72f1766c4ec7b/khmer-2.1.1-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,549 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/34/a5/f3815d5ec3ee20f884f140ae4a2f253ae6d59885684fa8adc5525a9ed4f4/khmer-2.1.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,550 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/5f/7a/dd356f3b267d2adf079deebdd94590e42edbc376a2058759ff78ee6a75c5/khmer-2.1.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,550 Skipping link: No binaries permitted for khmer: https://files.pythonhosted.org/packages/3f/1e/931281ac388cbb15d40319d0dcd54cfc3f1d972da5de2fa3063facedc966/khmer-2.1.1-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/khmer/) 2023-09-09T17:41:24,551 Found link https://files.pythonhosted.org/packages/78/c9/caee0a310f249c86fd351706d2513e197e036231f4db6f3bda7a363ea1c4/khmer-2.1.1.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1.1 2023-09-09T17:41:24,551 Fetching project page and analyzing links: https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:24,552 Getting page https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:24,553 Found index url https://www.piwheels.org/simple/ 2023-09-09T17:41:24,832 Fetched page https://www.piwheels.org/simple/khmer/ as text/html 2023-09-09T17:41:24,834 Skipping link: not a file: https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:24,835 Skipping link: not a file: https://pypi.org/simple/khmer/ 2023-09-09T17:41:24,858 Given no hashes to check 1 links for project 'khmer': discarding no candidates 2023-09-09T17:41:24,876 Collecting khmer==2.1 2023-09-09T17:41:24,879 Created temporary directory: /tmp/pip-unpack-uae5zhu_ 2023-09-09T17:41:25,622 Downloading khmer-2.1.tar.gz (8.5 MB) 2023-09-09T17:41:30,961 Added khmer==2.1 from https://files.pythonhosted.org/packages/3e/e5/b3190cb9def69d665b42cd91ea27712f1d7de643f4b9c66ef2e5f1ab29c6/khmer-2.1.tar.gz to build tracker '/tmp/pip-build-tracker-ca_464dr' 2023-09-09T17:41:30,963 Running setup.py (path:/tmp/pip-wheel-6svxlvys/khmer_5556cbfcdcff44989b636ad2b03b1a47/setup.py) egg_info for package khmer 2023-09-09T17:41:30,963 Created temporary directory: /tmp/pip-pip-egg-info-ik4gy8le 2023-09-09T17:41:30,964 Preparing metadata (setup.py): started 2023-09-09T17:41:30,965 Running command python setup.py egg_info 2023-09-09T17:41:32,116 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:41:32,116 !! 2023-09-09T17:41:32,118 ******************************************************************************** 2023-09-09T17:41:32,118 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:41:32,119 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:41:32,120 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:41:32,121 or your builds will no longer be supported. 2023-09-09T17:41:32,122 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:41:32,122 ******************************************************************************** 2023-09-09T17:41:32,123 !! 2023-09-09T17:41:32,123 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:41:32,159 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:41:32,160 !! 2023-09-09T17:41:32,160 ******************************************************************************** 2023-09-09T17:41:32,161 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:41:32,161 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:41:32,162 ******************************************************************************** 2023-09-09T17:41:32,163 !! 2023-09-09T17:41:32,163 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:41:34,978 running egg_info 2023-09-09T17:41:34,980 creating /tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info 2023-09-09T17:41:35,007 writing /tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info/PKG-INFO 2023-09-09T17:41:35,014 writing dependency_links to /tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info/dependency_links.txt 2023-09-09T17:41:35,017 writing requirements to /tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info/requires.txt 2023-09-09T17:41:35,017 writing top-level names to /tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info/top_level.txt 2023-09-09T17:41:35,019 writing manifest file '/tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:35,111 reading manifest file '/tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:35,113 reading manifest template 'MANIFEST.in' 2023-09-09T17:41:35,114 warning: no files found matching 'ChangeLog' 2023-09-09T17:41:35,115 warning: no files found matching 'IDEAS' 2023-09-09T17:41:35,115 warning: no files found matching 'README.md' 2023-09-09T17:41:35,116 warning: no files found matching 'CONTRIBUTING.md' 2023-09-09T17:41:35,117 warning: no files found matching 'TODO' 2023-09-09T17:41:35,155 warning: no files found matching 'get_version.py' under directory 'lib' 2023-09-09T17:41:38,384 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-09T17:41:38,385 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-09T17:41:38,390 warning: no files found matching 'README.txt' under directory 'scripts' 2023-09-09T17:41:38,401 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-09T17:41:38,403 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-09T17:41:38,404 adding license file 'LICENSE' 2023-09-09T17:41:38,429 writing manifest file '/tmp/pip-pip-egg-info-ik4gy8le/khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:38,549 Preparing metadata (setup.py): finished with status 'done' 2023-09-09T17:41:38,553 Source in /tmp/pip-wheel-6svxlvys/khmer_5556cbfcdcff44989b636ad2b03b1a47 has version 2.1, which satisfies requirement khmer==2.1 from https://files.pythonhosted.org/packages/3e/e5/b3190cb9def69d665b42cd91ea27712f1d7de643f4b9c66ef2e5f1ab29c6/khmer-2.1.tar.gz 2023-09-09T17:41:38,554 Removed khmer==2.1 from https://files.pythonhosted.org/packages/3e/e5/b3190cb9def69d665b42cd91ea27712f1d7de643f4b9c66ef2e5f1ab29c6/khmer-2.1.tar.gz from build tracker '/tmp/pip-build-tracker-ca_464dr' 2023-09-09T17:41:38,558 Created temporary directory: /tmp/pip-unpack-q8w6syjp 2023-09-09T17:41:38,559 Created temporary directory: /tmp/pip-unpack-uk_m3k0a 2023-09-09T17:41:38,579 Building wheels for collected packages: khmer 2023-09-09T17:41:38,583 Created temporary directory: /tmp/pip-wheel-o3lacyi8 2023-09-09T17:41:38,584 Building wheel for khmer (setup.py): started 2023-09-09T17:41:38,585 Destination directory: /tmp/pip-wheel-o3lacyi8 2023-09-09T17:41:38,586 Running command python setup.py bdist_wheel 2023-09-09T17:41:39,648 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:41:39,648 !! 2023-09-09T17:41:39,649 ******************************************************************************** 2023-09-09T17:41:39,649 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:41:39,650 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:41:39,651 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:41:39,651 or your builds will no longer be supported. 2023-09-09T17:41:39,652 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:41:39,652 ******************************************************************************** 2023-09-09T17:41:39,653 !! 2023-09-09T17:41:39,654 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:41:39,689 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:41:39,689 !! 2023-09-09T17:41:39,690 ******************************************************************************** 2023-09-09T17:41:39,691 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:41:39,691 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:41:39,691 ******************************************************************************** 2023-09-09T17:41:39,692 !! 2023-09-09T17:41:39,693 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:41:40,053 running bdist_wheel 2023-09-09T17:41:40,128 running build 2023-09-09T17:41:40,128 running build_py 2023-09-09T17:41:40,133 creating build 2023-09-09T17:41:40,134 creating build/lib.linux-armv7l-cpython-311 2023-09-09T17:41:40,135 creating build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,136 copying khmer/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,139 copying khmer/khmer_logger.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,141 copying khmer/trimming.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,143 copying khmer/utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,145 copying khmer/thread_utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,147 copying khmer/kfile.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,150 copying khmer/khmer_args.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,152 copying khmer/_version.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:40,155 creating build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,156 copying tests/test_lump.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,158 copying tests/test_hashset.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,160 copying tests/test_script_arguments.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,162 copying tests/test_read_handling.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,165 copying tests/test_read_aligner.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,167 copying tests/test_tabletype.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,170 copying tests/khmer_tst_utils.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,171 copying tests/test_threaded_sequence_processor.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,173 copying tests/test_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,176 copying tests/test_filter_abund.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,178 copying tests/test_read_parsers.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,182 copying tests/test_functions.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,188 copying tests/test_counting_single.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,197 copying tests/test_assembly.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,210 copying tests/test_hll.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,216 copying tests/test_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,219 copying tests/test_sequence_validation.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,221 copying tests/test_labelhash.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,224 copying tests/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,226 copying tests/test_script_output.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,228 copying tests/test_nodegraph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,231 copying tests/test_countgraph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,234 copying tests/test_oxli_functions.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,237 copying tests/test_streaming_io.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,239 copying tests/test_subset_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,242 copying tests/test_version.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,244 copying tests/test_counttable.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,246 copying tests/test_normalize_by_median.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,249 copying tests/test_sandbox_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,252 copying tests/test_cpython_hierarchy.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,254 copying tests/test_nibblestorage.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:40,256 creating build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:40,258 copying oxli/functions.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:40,260 copying oxli/build_graph.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:40,262 copying oxli/__init__.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:40,264 copying oxli/partition.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:40,266 running egg_info 2023-09-09T17:41:40,317 writing khmer.egg-info/PKG-INFO 2023-09-09T17:41:40,323 writing dependency_links to khmer.egg-info/dependency_links.txt 2023-09-09T17:41:40,326 writing requirements to khmer.egg-info/requires.txt 2023-09-09T17:41:40,327 writing top-level names to khmer.egg-info/top_level.txt 2023-09-09T17:41:40,364 reading manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:40,381 reading manifest template 'MANIFEST.in' 2023-09-09T17:41:40,382 warning: no files found matching 'ChangeLog' 2023-09-09T17:41:40,383 warning: no files found matching 'IDEAS' 2023-09-09T17:41:40,383 warning: no files found matching 'README.md' 2023-09-09T17:41:40,384 warning: no files found matching 'CONTRIBUTING.md' 2023-09-09T17:41:40,385 warning: no files found matching 'TODO' 2023-09-09T17:41:40,421 warning: no files found matching 'get_version.py' under directory 'lib' 2023-09-09T17:41:43,215 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-09T17:41:43,216 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-09T17:41:43,222 warning: no files found matching 'README.txt' under directory 'scripts' 2023-09-09T17:41:43,231 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-09T17:41:43,235 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-09T17:41:43,235 adding license file 'LICENSE' 2023-09-09T17:41:43,267 writing manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:43,302 copying khmer/_cpy_counttable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:43,304 copying khmer/_cpy_hashgraph.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:43,307 copying khmer/_cpy_nodetable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:43,310 copying khmer/_cpy_smallcountgraph.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:43,312 copying khmer/_cpy_smallcounttable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:43,315 copying khmer/_khmer.cc -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:43,320 copying tests/.gitignore -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:43,322 creating build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,323 copying tests/test-data/100-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,326 copying tests/test-data/100-reads.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,329 copying tests/test-data/100-reads.fq.truncated.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,331 copying tests/test-data/100-reads.fq.truncated.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,333 copying tests/test-data/README.rst -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,335 copying tests/test-data/all-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,337 copying tests/test-data/badversion-k12.ct -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,339 copying tests/test-data/badversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,341 copying tests/test-data/badversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,343 copying tests/test-data/badversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,345 copying tests/test-data/biglump-random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,347 copying tests/test-data/casava_18-pe.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,349 copying tests/test-data/combine_parts_1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,352 copying tests/test-data/dn-test-all-paired-all-keep.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,354 copying tests/test-data/dn-test-none-paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,356 copying tests/test-data/dn-test-some-paired-all-keep.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,359 copying tests/test-data/empty-file -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,362 copying tests/test-data/empty-file.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,365 copying tests/test-data/empty-file.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,368 copying tests/test-data/fakelump.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,371 copying tests/test-data/fakelump.fa.stoptags.txt -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,374 copying tests/test-data/filter-test-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,377 copying tests/test-data/filter-test-B.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,380 copying tests/test-data/goodversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,384 copying tests/test-data/goodversion-k12.ht.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,388 copying tests/test-data/goodversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,392 copying tests/test-data/goodversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,394 copying tests/test-data/multi-output.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,396 copying tests/test-data/normC20k20.ct -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,458 copying tests/test-data/old-style-format-w-comments.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,460 copying tests/test-data/paired-broken.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,461 copying tests/test-data/paired-broken.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,463 copying tests/test-data/paired-broken.fq.badleft -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,465 copying tests/test-data/paired-broken.fq.badright -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,467 copying tests/test-data/paired-broken.fq.paired_bad -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,469 copying tests/test-data/paired-broken2.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,471 copying tests/test-data/paired-broken2.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,472 copying tests/test-data/paired-broken3.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,474 copying tests/test-data/paired-broken3.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,476 copying tests/test-data/paired-broken4.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,478 copying tests/test-data/paired-broken4.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,480 copying tests/test-data/paired-mixed-2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,482 copying tests/test-data/paired-mixed-broken.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,484 copying tests/test-data/paired-mixed-witherror.fa.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,486 copying tests/test-data/paired-mixed.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,488 copying tests/test-data/paired-mixed.fa.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,490 copying tests/test-data/paired-mixed.fa.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,492 copying tests/test-data/paired-mixed.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,494 copying tests/test-data/paired-mixed.fq.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,496 copying tests/test-data/paired-mixed.fq.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,498 copying tests/test-data/paired-slash1.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,500 copying tests/test-data/paired-slash1.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,502 copying tests/test-data/paired-slash1.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,504 copying tests/test-data/paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,506 copying tests/test-data/paired.fa.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,508 copying tests/test-data/paired.fa.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,510 copying tests/test-data/paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,512 copying tests/test-data/paired.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,513 copying tests/test-data/paired.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,515 copying tests/test-data/paired.malformat.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,517 copying tests/test-data/paired.malformat.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,519 copying tests/test-data/paired_one.base.dif.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,521 copying tests/test-data/random-20-X2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,525 copying tests/test-data/random-20-a.even.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,527 copying tests/test-data/random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,529 copying tests/test-data/random-20-a.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,531 copying tests/test-data/random-20-a.fa.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,536 copying tests/test-data/random-20-a.fa.part -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,538 copying tests/test-data/random-20-a.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,541 copying tests/test-data/random-20-a.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,543 copying tests/test-data/random-20-a.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,545 copying tests/test-data/random-20-a.odd.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,547 copying tests/test-data/random-20-b.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,549 copying tests/test-data/random-31-c.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,553 copying tests/test-data/readaligner-default.json -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,555 copying tests/test-data/readaligner-k12.json -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,557 copying tests/test-data/real-partition-small.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,559 copying tests/test-data/real-partition-tiny.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,561 copying tests/test-data/simple-genome-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,565 copying tests/test-data/simple-genome.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,567 copying tests/test-data/single-read.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,569 copying tests/test-data/single-read.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,571 copying tests/test-data/test-abund-read-2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,575 copying tests/test-data/test-abund-read-2.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,578 copying tests/test-data/test-abund-read-2.fa.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,581 copying tests/test-data/test-abund-read-2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,589 copying tests/test-data/test-abund-read-2.paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,594 copying tests/test-data/test-abund-read-2.paired2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,596 copying tests/test-data/test-abund-read-3.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,599 copying tests/test-data/test-abund-read-impaired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,601 copying tests/test-data/test-abund-read-paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,605 copying tests/test-data/test-abund-read-paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,608 copying tests/test-data/test-abund-read.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,611 copying tests/test-data/test-empty.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,614 copying tests/test-data/test-empty.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,616 copying tests/test-data/test-error-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,619 copying tests/test-data/test-fastq-n-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,621 copying tests/test-data/test-fastq-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,625 copying tests/test-data/test-fastq-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,630 copying tests/test-data/test-filter-abund-Ns.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,634 copying tests/test-data/test-graph.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,639 copying tests/test-data/test-graph2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,645 copying tests/test-data/test-graph5.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,652 copying tests/test-data/test-labels.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,664 copying tests/test-data/test-large.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,850 copying tests/test-data/test-multi.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,852 copying tests/test-data/test-output-partitions.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,854 copying tests/test-data/test-overlap1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,876 copying tests/test-data/test-overlap2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,900 copying tests/test-data/test-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,938 copying tests/test-data/test-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,950 copying tests/test-data/test-reads.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,964 copying tests/test-data/test-short.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,966 copying tests/test-data/test-sweep-contigs.fp -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,967 copying tests/test-data/test-sweep-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,969 copying tests/test-data/test-sweep-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,971 copying tests/test-data/test-transcript.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,973 copying tests/test-data/truncated.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,975 copying tests/test-data/unclean-reads.fastq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,977 copying tests/test-data/valid-read-testing.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:43,981 UPDATING build/lib.linux-armv7l-cpython-311/khmer/_version.py 2023-09-09T17:41:43,982 set build/lib.linux-armv7l-cpython-311/khmer/_version.py to '2.1' 2023-09-09T17:41:43,986 running build_ext 2023-09-09T17:41:43,986 error: ['khmer', 'khmer.tests', 'oxli'] require 64-bit operating system 2023-09-09T17:41:44,102 ERROR: [present-rich] python setup.py bdist_wheel exited with 1 2023-09-09T17:41:44,116 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2023-09-09T17:41:44,116 exec(compile('"'"''"'"''"'"' 2023-09-09T17:41:44,116 # This is -- a caller that pip uses to run setup.py 2023-09-09T17:41:44,116 # 2023-09-09T17:41:44,116 # - It imports setuptools before invoking setup.py, to enable projects that directly 2023-09-09T17:41:44,116 # import from `distutils.core` to work with newer packaging standards. 2023-09-09T17:41:44,116 # - It provides a clear error message when setuptools is not installed. 2023-09-09T17:41:44,116 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2023-09-09T17:41:44,116 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2023-09-09T17:41:44,116 # manifest_maker: standard file '"'"'-c'"'"' not found". 2023-09-09T17:41:44,116 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2023-09-09T17:41:44,116 import os, sys, tokenize 2023-09-09T17:41:44,116 2023-09-09T17:41:44,116 try: 2023-09-09T17:41:44,116 import setuptools 2023-09-09T17:41:44,116 except ImportError as error: 2023-09-09T17:41:44,116 print( 2023-09-09T17:41:44,116 "ERROR: Can not execute `setup.py` since setuptools is not available in " 2023-09-09T17:41:44,116 "the build environment.", 2023-09-09T17:41:44,116 file=sys.stderr, 2023-09-09T17:41:44,116 ) 2023-09-09T17:41:44,116 sys.exit(1) 2023-09-09T17:41:44,116 2023-09-09T17:41:44,116 __file__ = %r 2023-09-09T17:41:44,116 sys.argv[0] = __file__ 2023-09-09T17:41:44,116 2023-09-09T17:41:44,116 if os.path.exists(__file__): 2023-09-09T17:41:44,116 filename = __file__ 2023-09-09T17:41:44,116 with tokenize.open(__file__) as f: 2023-09-09T17:41:44,116 setup_py_code = f.read() 2023-09-09T17:41:44,116 else: 2023-09-09T17:41:44,116 filename = "" 2023-09-09T17:41:44,116 setup_py_code = "from setuptools import setup; setup()" 2023-09-09T17:41:44,116 2023-09-09T17:41:44,116 exec(compile(setup_py_code, filename, "exec")) 2023-09-09T17:41:44,116 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-6svxlvys/khmer_5556cbfcdcff44989b636ad2b03b1a47/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-o3lacyi8[/] 2023-09-09T17:41:44,116 [bold magenta]cwd[/]: /tmp/pip-wheel-6svxlvys/khmer_5556cbfcdcff44989b636ad2b03b1a47/ 2023-09-09T17:41:44,117 Building wheel for khmer (setup.py): finished with status 'error' 2023-09-09T17:41:44,118 ERROR: Failed building wheel for khmer 2023-09-09T17:41:44,119 Running setup.py clean for khmer 2023-09-09T17:41:44,120 Running command python setup.py clean 2023-09-09T17:41:45,457 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:41:45,458 !! 2023-09-09T17:41:45,459 ******************************************************************************** 2023-09-09T17:41:45,459 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:41:45,460 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:41:45,461 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:41:45,462 or your builds will no longer be supported. 2023-09-09T17:41:45,463 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:41:45,463 ******************************************************************************** 2023-09-09T17:41:45,464 !! 2023-09-09T17:41:45,465 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:41:45,500 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:41:45,501 !! 2023-09-09T17:41:45,502 ******************************************************************************** 2023-09-09T17:41:45,502 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:41:45,502 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:41:45,503 ******************************************************************************** 2023-09-09T17:41:45,504 !! 2023-09-09T17:41:45,504 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:41:45,876 running clean 2023-09-09T17:41:45,926 removing 'build/lib.linux-armv7l-cpython-311' (and everything under it) 2023-09-09T17:41:45,986 'build/bdist.linux-armv7l' does not exist -- can't clean it 2023-09-09T17:41:45,987 'build/scripts-3.11' does not exist -- can't clean it 2023-09-09T17:41:45,987 removing 'build' 2023-09-09T17:41:46,106 Failed to build khmer 2023-09-09T17:41:46,107 ERROR: Failed to build one or more wheels 2023-09-09T17:41:46,108 Exception information: 2023-09-09T17:41:46,108 Traceback (most recent call last): 2023-09-09T17:41:46,108 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 180, in exc_logging_wrapper 2023-09-09T17:41:46,108 status = run_func(*args) 2023-09-09T17:41:46,108 ^^^^^^^^^^^^^^^ 2023-09-09T17:41:46,108 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 248, in wrapper 2023-09-09T17:41:46,108 return func(self, options, args) 2023-09-09T17:41:46,108 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-09T17:41:46,108 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 181, in run 2023-09-09T17:41:46,108 raise CommandError("Failed to build one or more wheels") 2023-09-09T17:41:46,108 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2023-09-09T17:41:46,112 Removed build tracker: '/tmp/pip-build-tracker-ca_464dr'