2023-09-09T17:44:15,601 Created temporary directory: /tmp/pip-build-tracker-_u16rgoe 2023-09-09T17:44:15,602 Initialized build tracking at /tmp/pip-build-tracker-_u16rgoe 2023-09-09T17:44:15,602 Created build tracker: /tmp/pip-build-tracker-_u16rgoe 2023-09-09T17:44:15,603 Entered build tracker: /tmp/pip-build-tracker-_u16rgoe 2023-09-09T17:44:15,603 Created temporary directory: /tmp/pip-wheel-hkgwrsa0 2023-09-09T17:44:15,607 Created temporary directory: /tmp/pip-ephem-wheel-cache-81sjwg54 2023-09-09T17:44:15,628 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-09T17:44:15,632 2 location(s) to search for versions of khmer: 2023-09-09T17:44:15,632 * https://pypi.org/simple/khmer/ 2023-09-09T17:44:15,632 * https://www.piwheels.org/simple/khmer/ 2023-09-09T17:44:15,633 Fetching project page and analyzing links: https://pypi.org/simple/khmer/ 2023-09-09T17:44:15,633 Getting page https://pypi.org/simple/khmer/ 2023-09-09T17:44:15,635 Found index url https://pypi.org/simple/ 2023-09-09T17:44:15,779 Fetched page https://pypi.org/simple/khmer/ as application/vnd.pypi.simple.v1+json 2023-09-09T17:44:15,786 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/) 2023-09-09T17:44:15,787 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/) 2023-09-09T17:44:15,788 Found link https://files.pythonhosted.org/packages/b9/d6/e343a534406110221eb690dc3ffa7548f03f2d51c4d9d407bf2e72278861/khmer-0.6.tar.gz (from https://pypi.org/simple/khmer/), version: 0.6 2023-09-09T17:44:15,788 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 2023-09-09T17:44:15,789 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/) 2023-09-09T17:44:15,789 Found link https://files.pythonhosted.org/packages/3a/bd/b1eb804f77e6ea99f9db02688c1474628d844e2f59a4f77d7bc00f8c990b/khmer-0.7.tar.gz (from https://pypi.org/simple/khmer/), version: 0.7 2023-09-09T17:44:15,790 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/) 2023-09-09T17:44:15,791 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 2023-09-09T17:44:15,791 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/) 2023-09-09T17:44:15,792 Found link https://files.pythonhosted.org/packages/31/8f/7063987e7713dfbcd05bc53e4778c2284e3ea905112fc97d83d03afa60d9/khmer-0.8.tar.gz (from https://pypi.org/simple/khmer/), version: 0.8 2023-09-09T17:44:15,793 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/) 2023-09-09T17:44:15,793 Found link https://files.pythonhosted.org/packages/67/d0/334f8bba7befb5d671bf5663d1073c73cba841f13088d6426b93dbb884ce/khmer-1.0.tar.gz (from https://pypi.org/simple/khmer/), version: 1.0 2023-09-09T17:44:15,794 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/) 2023-09-09T17:44:15,795 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 2023-09-09T17:44:15,796 Found link https://files.pythonhosted.org/packages/df/66/250be153108b73fa745d22b0e141d6d922cd011b6cda2233d46d34bcc596/khmer-1.1.tar.gz (from https://pypi.org/simple/khmer/), version: 1.1 2023-09-09T17:44:15,796 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/) 2023-09-09T17:44:15,797 Found link https://files.pythonhosted.org/packages/b8/b5/8143587dd5eba9204dea9eab50b990656b70e03538a44af56eec11a28f02/khmer-1.2.tar.gz (from https://pypi.org/simple/khmer/), version: 1.2 2023-09-09T17:44:15,797 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/) 2023-09-09T17:44:15,798 Found link https://files.pythonhosted.org/packages/6c/cf/37bd5901fe1322b59cd2cece9c53661944e18dddba3e8ebf2aa2d7834113/khmer-1.3.tar.gz (from https://pypi.org/simple/khmer/), version: 1.3 2023-09-09T17:44:15,798 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/) 2023-09-09T17:44:15,799 Found link https://files.pythonhosted.org/packages/5a/91/eb0c9a5fdab42699c56b8c60d0d02e806f4d4d42f809061eb9a1a9a59dfa/khmer-1.4.tar.gz (from https://pypi.org/simple/khmer/), version: 1.4 2023-09-09T17:44:15,800 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/) 2023-09-09T17:44:15,800 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/) 2023-09-09T17:44:15,801 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 2023-09-09T17:44:15,802 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/) 2023-09-09T17:44:15,802 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/) 2023-09-09T17:44:15,803 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/) 2023-09-09T17:44:15,804 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/) 2023-09-09T17:44:15,804 Found link https://files.pythonhosted.org/packages/52/3b/2c52a13937197391775f274ed75b4a33b2d7767a904faaf4032e14e10a55/khmer-2.0.tar.gz (from https://pypi.org/simple/khmer/), version: 2.0 2023-09-09T17:44:15,805 Found link https://files.pythonhosted.org/packages/57/17/a1f05b13895e02cadeac06d61f7ea63e8c32eda38312d57e9ba218d0ca9b/khmer-2.1rc3.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1rc3 2023-09-09T17:44:15,806 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/) 2023-09-09T17:44:15,807 Found link https://files.pythonhosted.org/packages/3e/e5/b3190cb9def69d665b42cd91ea27712f1d7de643f4b9c66ef2e5f1ab29c6/khmer-2.1.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1 2023-09-09T17:44:15,808 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/) 2023-09-09T17:44:15,809 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/) 2023-09-09T17:44:15,809 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/) 2023-09-09T17:44:15,810 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/) 2023-09-09T17:44:15,810 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/) 2023-09-09T17:44:15,811 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 2023-09-09T17:44:15,811 Fetching project page and analyzing links: https://www.piwheels.org/simple/khmer/ 2023-09-09T17:44:15,812 Getting page https://www.piwheels.org/simple/khmer/ 2023-09-09T17:44:15,813 Found index url https://www.piwheels.org/simple/ 2023-09-09T17:44:16,174 Fetched page https://www.piwheels.org/simple/khmer/ as text/html 2023-09-09T17:44:16,175 Skipping link: not a file: https://www.piwheels.org/simple/khmer/ 2023-09-09T17:44:16,176 Skipping link: not a file: https://pypi.org/simple/khmer/ 2023-09-09T17:44:16,195 Given no hashes to check 1 links for project 'khmer': discarding no candidates 2023-09-09T17:44:16,213 Collecting khmer==2.1.1 2023-09-09T17:44:16,215 Created temporary directory: /tmp/pip-unpack-angyjsyx 2023-09-09T17:44:16,357 Downloading khmer-2.1.1.tar.gz (8.5 MB) 2023-09-09T17:44:21,136 Added khmer==2.1.1 from https://files.pythonhosted.org/packages/78/c9/caee0a310f249c86fd351706d2513e197e036231f4db6f3bda7a363ea1c4/khmer-2.1.1.tar.gz to build tracker '/tmp/pip-build-tracker-_u16rgoe' 2023-09-09T17:44:21,137 Running setup.py (path:/tmp/pip-wheel-hkgwrsa0/khmer_0051827eaacd4efcb70ec73d86879f04/setup.py) egg_info for package khmer 2023-09-09T17:44:21,138 Created temporary directory: /tmp/pip-pip-egg-info-anwdys9c 2023-09-09T17:44:21,139 Preparing metadata (setup.py): started 2023-09-09T17:44:21,140 Running command python setup.py egg_info 2023-09-09T17:44:22,273 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:44:22,273 !! 2023-09-09T17:44:22,274 ******************************************************************************** 2023-09-09T17:44:22,275 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:44:22,275 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:44:22,277 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:44:22,277 or your builds will no longer be supported. 2023-09-09T17:44:22,278 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:44:22,279 ******************************************************************************** 2023-09-09T17:44:22,280 !! 2023-09-09T17:44:22,280 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:44:22,314 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:44:22,315 !! 2023-09-09T17:44:22,316 ******************************************************************************** 2023-09-09T17:44:22,316 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:44:22,317 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:44:22,317 ******************************************************************************** 2023-09-09T17:44:22,318 !! 2023-09-09T17:44:22,318 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:44:25,109 running egg_info 2023-09-09T17:44:25,111 creating /tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info 2023-09-09T17:44:25,136 writing /tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info/PKG-INFO 2023-09-09T17:44:25,142 writing dependency_links to /tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info/dependency_links.txt 2023-09-09T17:44:25,145 writing requirements to /tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info/requires.txt 2023-09-09T17:44:25,146 writing top-level names to /tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info/top_level.txt 2023-09-09T17:44:25,147 writing manifest file '/tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info/SOURCES.txt' 2023-09-09T17:44:25,239 reading manifest file '/tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info/SOURCES.txt' 2023-09-09T17:44:25,240 reading manifest template 'MANIFEST.in' 2023-09-09T17:44:25,241 warning: no files found matching 'ChangeLog' 2023-09-09T17:44:25,242 warning: no files found matching 'IDEAS' 2023-09-09T17:44:25,242 warning: no files found matching 'README.md' 2023-09-09T17:44:25,243 warning: no files found matching 'CONTRIBUTING.md' 2023-09-09T17:44:25,244 warning: no files found matching 'TODO' 2023-09-09T17:44:25,282 warning: no files found matching 'get_version.py' under directory 'lib' 2023-09-09T17:44:28,524 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-09T17:44:28,525 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-09T17:44:28,530 warning: no files found matching 'README.txt' under directory 'scripts' 2023-09-09T17:44:28,540 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-09T17:44:28,542 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-09T17:44:28,543 adding license file 'LICENSE' 2023-09-09T17:44:28,568 writing manifest file '/tmp/pip-pip-egg-info-anwdys9c/khmer.egg-info/SOURCES.txt' 2023-09-09T17:44:28,686 Preparing metadata (setup.py): finished with status 'done' 2023-09-09T17:44:28,690 Source in /tmp/pip-wheel-hkgwrsa0/khmer_0051827eaacd4efcb70ec73d86879f04 has version 2.1.1, which satisfies requirement khmer==2.1.1 from https://files.pythonhosted.org/packages/78/c9/caee0a310f249c86fd351706d2513e197e036231f4db6f3bda7a363ea1c4/khmer-2.1.1.tar.gz 2023-09-09T17:44:28,691 Removed khmer==2.1.1 from https://files.pythonhosted.org/packages/78/c9/caee0a310f249c86fd351706d2513e197e036231f4db6f3bda7a363ea1c4/khmer-2.1.1.tar.gz from build tracker '/tmp/pip-build-tracker-_u16rgoe' 2023-09-09T17:44:28,695 Created temporary directory: /tmp/pip-unpack-csyjn0z5 2023-09-09T17:44:28,696 Created temporary directory: /tmp/pip-unpack-ykapo396 2023-09-09T17:44:28,715 Building wheels for collected packages: khmer 2023-09-09T17:44:28,719 Created temporary directory: /tmp/pip-wheel-x84d7_p6 2023-09-09T17:44:28,720 Building wheel for khmer (setup.py): started 2023-09-09T17:44:28,722 Destination directory: /tmp/pip-wheel-x84d7_p6 2023-09-09T17:44:28,722 Running command python setup.py bdist_wheel 2023-09-09T17:44:29,773 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:44:29,773 !! 2023-09-09T17:44:29,774 ******************************************************************************** 2023-09-09T17:44:29,775 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:44:29,775 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:44:29,776 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:44:29,776 or your builds will no longer be supported. 2023-09-09T17:44:29,777 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:44:29,778 ******************************************************************************** 2023-09-09T17:44:29,779 !! 2023-09-09T17:44:29,779 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:44:29,814 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:44:29,814 !! 2023-09-09T17:44:29,815 ******************************************************************************** 2023-09-09T17:44:29,816 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:44:29,816 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:44:29,817 ******************************************************************************** 2023-09-09T17:44:29,818 !! 2023-09-09T17:44:29,818 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:44:30,177 running bdist_wheel 2023-09-09T17:44:30,253 running build 2023-09-09T17:44:30,254 running build_py 2023-09-09T17:44:30,259 creating build 2023-09-09T17:44:30,259 creating build/lib.linux-armv7l-cpython-311 2023-09-09T17:44:30,260 creating build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,261 copying khmer/khmer_logger.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,263 copying khmer/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,265 copying khmer/khmer_args.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,268 copying khmer/_version.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,269 copying khmer/kfile.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,271 copying khmer/thread_utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,274 copying khmer/trimming.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,275 copying khmer/utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:30,279 creating build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,280 copying tests/test_hashset.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,282 copying tests/test_read_handling.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,285 copying tests/test_counttable.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,287 copying tests/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,289 copying tests/test_functions.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,291 copying tests/test_labelhash.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,294 copying tests/test_sequence_validation.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,296 copying tests/test_streaming_io.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,299 copying tests/test_assembly.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,301 copying tests/test_threaded_sequence_processor.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,304 copying tests/test_read_aligner.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,306 copying tests/test_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,309 copying tests/test_countgraph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,312 copying tests/test_normalize_by_median.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,315 copying tests/test_tabletype.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,317 copying tests/test_script_arguments.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,320 copying tests/test_oxli_functions.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,322 copying tests/test_read_parsers.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,325 copying tests/test_script_output.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,327 copying tests/test_subset_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,330 copying tests/test_nodegraph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,333 copying tests/test_version.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,335 copying tests/test_nibblestorage.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,337 copying tests/test_counting_single.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,340 copying tests/test_hll.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,342 copying tests/test_lump.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,344 copying tests/test_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,349 copying tests/test_sandbox_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,351 copying tests/khmer_tst_utils.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,353 copying tests/test_cpython_hierarchy.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,355 copying tests/test_filter_abund.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:30,358 creating build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:44:30,359 copying oxli/__init__.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:44:30,362 copying oxli/partition.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:44:30,363 copying oxli/functions.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:44:30,365 copying oxli/build_graph.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:44:30,367 running egg_info 2023-09-09T17:44:30,418 writing khmer.egg-info/PKG-INFO 2023-09-09T17:44:30,423 writing dependency_links to khmer.egg-info/dependency_links.txt 2023-09-09T17:44:30,425 writing requirements to khmer.egg-info/requires.txt 2023-09-09T17:44:30,427 writing top-level names to khmer.egg-info/top_level.txt 2023-09-09T17:44:30,463 reading manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-09T17:44:30,480 reading manifest template 'MANIFEST.in' 2023-09-09T17:44:30,481 warning: no files found matching 'ChangeLog' 2023-09-09T17:44:30,482 warning: no files found matching 'IDEAS' 2023-09-09T17:44:30,482 warning: no files found matching 'README.md' 2023-09-09T17:44:30,483 warning: no files found matching 'CONTRIBUTING.md' 2023-09-09T17:44:30,484 warning: no files found matching 'TODO' 2023-09-09T17:44:30,520 warning: no files found matching 'get_version.py' under directory 'lib' 2023-09-09T17:44:33,245 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-09T17:44:33,247 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-09T17:44:33,252 warning: no files found matching 'README.txt' under directory 'scripts' 2023-09-09T17:44:33,263 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-09T17:44:33,267 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-09T17:44:33,268 adding license file 'LICENSE' 2023-09-09T17:44:33,300 writing manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-09T17:44:33,335 copying khmer/_cpy_counttable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:33,337 copying khmer/_cpy_hashgraph.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:33,341 copying khmer/_cpy_nodetable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:33,343 copying khmer/_cpy_smallcountgraph.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:33,346 copying khmer/_cpy_smallcounttable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:33,349 copying khmer/_khmer.cc -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:44:33,353 copying tests/.gitignore -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:44:33,355 creating build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,356 copying tests/test-data/100-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,359 copying tests/test-data/100-reads.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,362 copying tests/test-data/100-reads.fq.truncated.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,364 copying tests/test-data/100-reads.fq.truncated.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,366 copying tests/test-data/README.rst -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,368 copying tests/test-data/all-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,370 copying tests/test-data/badversion-k12.ct -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,372 copying tests/test-data/badversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,374 copying tests/test-data/badversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,376 copying tests/test-data/badversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,378 copying tests/test-data/biglump-random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,381 copying tests/test-data/casava_18-pe.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,383 copying tests/test-data/combine_parts_1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,385 copying tests/test-data/dn-test-all-paired-all-keep.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,387 copying tests/test-data/dn-test-none-paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,389 copying tests/test-data/dn-test-some-paired-all-keep.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,391 copying tests/test-data/empty-file -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,393 copying tests/test-data/empty-file.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,395 copying tests/test-data/empty-file.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,398 copying tests/test-data/fakelump.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,400 copying tests/test-data/fakelump.fa.stoptags.txt -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,403 copying tests/test-data/filter-test-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,405 copying tests/test-data/filter-test-B.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,407 copying tests/test-data/goodversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,409 copying tests/test-data/goodversion-k12.ht.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,411 copying tests/test-data/goodversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,413 copying tests/test-data/goodversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,415 copying tests/test-data/multi-output.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,417 copying tests/test-data/normC20k20.ct -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,483 copying tests/test-data/old-style-format-w-comments.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,485 copying tests/test-data/paired-broken.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,487 copying tests/test-data/paired-broken.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,488 copying tests/test-data/paired-broken.fq.badleft -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,490 copying tests/test-data/paired-broken.fq.badright -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,492 copying tests/test-data/paired-broken.fq.paired_bad -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,494 copying tests/test-data/paired-broken2.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,496 copying tests/test-data/paired-broken2.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,497 copying tests/test-data/paired-broken3.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,499 copying tests/test-data/paired-broken3.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,501 copying tests/test-data/paired-broken4.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,503 copying tests/test-data/paired-broken4.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,505 copying tests/test-data/paired-mixed-2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,507 copying tests/test-data/paired-mixed-broken.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,509 copying tests/test-data/paired-mixed-witherror.fa.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,511 copying tests/test-data/paired-mixed.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,513 copying tests/test-data/paired-mixed.fa.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,515 copying tests/test-data/paired-mixed.fa.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,517 copying tests/test-data/paired-mixed.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,521 copying tests/test-data/paired-mixed.fq.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,525 copying tests/test-data/paired-mixed.fq.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,529 copying tests/test-data/paired-slash1.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,534 copying tests/test-data/paired-slash1.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,539 copying tests/test-data/paired-slash1.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,541 copying tests/test-data/paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,543 copying tests/test-data/paired.fa.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,545 copying tests/test-data/paired.fa.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,547 copying tests/test-data/paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,549 copying tests/test-data/paired.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,551 copying tests/test-data/paired.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,553 copying tests/test-data/paired.malformat.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,555 copying tests/test-data/paired.malformat.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,557 copying tests/test-data/paired_one.base.dif.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,559 copying tests/test-data/random-20-X2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,562 copying tests/test-data/random-20-a.even.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,564 copying tests/test-data/random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,567 copying tests/test-data/random-20-a.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,569 copying tests/test-data/random-20-a.fa.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,571 copying tests/test-data/random-20-a.fa.part -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,573 copying tests/test-data/random-20-a.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,576 copying tests/test-data/random-20-a.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,578 copying tests/test-data/random-20-a.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,580 copying tests/test-data/random-20-a.odd.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,582 copying tests/test-data/random-20-b.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,584 copying tests/test-data/random-31-c.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,588 copying tests/test-data/readaligner-default.json -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,590 copying tests/test-data/readaligner-k12.json -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,592 copying tests/test-data/real-partition-small.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,594 copying tests/test-data/real-partition-tiny.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,596 copying tests/test-data/simple-genome-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,600 copying tests/test-data/simple-genome.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,602 copying tests/test-data/single-read.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,604 copying tests/test-data/single-read.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,605 copying tests/test-data/test-abund-read-2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,608 copying tests/test-data/test-abund-read-2.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,610 copying tests/test-data/test-abund-read-2.fa.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,612 copying tests/test-data/test-abund-read-2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,615 copying tests/test-data/test-abund-read-2.paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,617 copying tests/test-data/test-abund-read-2.paired2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,619 copying tests/test-data/test-abund-read-3.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,621 copying tests/test-data/test-abund-read-impaired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,623 copying tests/test-data/test-abund-read-paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,625 copying tests/test-data/test-abund-read-paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,627 copying tests/test-data/test-abund-read.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,629 copying tests/test-data/test-empty.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,630 copying tests/test-data/test-empty.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,632 copying tests/test-data/test-error-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,634 copying tests/test-data/test-fastq-n-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,637 copying tests/test-data/test-fastq-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,639 copying tests/test-data/test-fastq-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,642 copying tests/test-data/test-filter-abund-Ns.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,644 copying tests/test-data/test-graph.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,646 copying tests/test-data/test-graph2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,648 copying tests/test-data/test-graph5.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,650 copying tests/test-data/test-labels.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,652 copying tests/test-data/test-large.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,827 copying tests/test-data/test-multi.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,829 copying tests/test-data/test-output-partitions.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,831 copying tests/test-data/test-overlap1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,854 copying tests/test-data/test-overlap2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,883 copying tests/test-data/test-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,923 copying tests/test-data/test-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,937 copying tests/test-data/test-reads.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,952 copying tests/test-data/test-short.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,954 copying tests/test-data/test-sweep-contigs.fp -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,956 copying tests/test-data/test-sweep-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,958 copying tests/test-data/test-sweep-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,960 copying tests/test-data/test-transcript.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,962 copying tests/test-data/truncated.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,964 copying tests/test-data/unclean-reads.fastq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,965 copying tests/test-data/valid-read-testing.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:44:33,970 UPDATING build/lib.linux-armv7l-cpython-311/khmer/_version.py 2023-09-09T17:44:33,971 set build/lib.linux-armv7l-cpython-311/khmer/_version.py to '2.1.1' 2023-09-09T17:44:33,971 running build_ext 2023-09-09T17:44:33,972 error: ['khmer', 'khmer.tests', 'oxli'] require 64-bit operating system 2023-09-09T17:44:34,087 ERROR: [present-rich] python setup.py bdist_wheel exited with 1 2023-09-09T17:44:34,101 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2023-09-09T17:44:34,101 exec(compile('"'"''"'"''"'"' 2023-09-09T17:44:34,101 # This is -- a caller that pip uses to run setup.py 2023-09-09T17:44:34,101 # 2023-09-09T17:44:34,101 # - It imports setuptools before invoking setup.py, to enable projects that directly 2023-09-09T17:44:34,101 # import from `distutils.core` to work with newer packaging standards. 2023-09-09T17:44:34,101 # - It provides a clear error message when setuptools is not installed. 2023-09-09T17:44:34,101 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2023-09-09T17:44:34,101 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2023-09-09T17:44:34,101 # manifest_maker: standard file '"'"'-c'"'"' not found". 2023-09-09T17:44:34,101 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2023-09-09T17:44:34,101 import os, sys, tokenize 2023-09-09T17:44:34,101 2023-09-09T17:44:34,101 try: 2023-09-09T17:44:34,101 import setuptools 2023-09-09T17:44:34,101 except ImportError as error: 2023-09-09T17:44:34,101 print( 2023-09-09T17:44:34,101 "ERROR: Can not execute `setup.py` since setuptools is not available in " 2023-09-09T17:44:34,101 "the build environment.", 2023-09-09T17:44:34,101 file=sys.stderr, 2023-09-09T17:44:34,101 ) 2023-09-09T17:44:34,101 sys.exit(1) 2023-09-09T17:44:34,101 2023-09-09T17:44:34,101 __file__ = %r 2023-09-09T17:44:34,101 sys.argv[0] = __file__ 2023-09-09T17:44:34,101 2023-09-09T17:44:34,101 if os.path.exists(__file__): 2023-09-09T17:44:34,101 filename = __file__ 2023-09-09T17:44:34,101 with tokenize.open(__file__) as f: 2023-09-09T17:44:34,101 setup_py_code = f.read() 2023-09-09T17:44:34,101 else: 2023-09-09T17:44:34,101 filename = "" 2023-09-09T17:44:34,101 setup_py_code = "from setuptools import setup; setup()" 2023-09-09T17:44:34,101 2023-09-09T17:44:34,101 exec(compile(setup_py_code, filename, "exec")) 2023-09-09T17:44:34,101 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-hkgwrsa0/khmer_0051827eaacd4efcb70ec73d86879f04/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-x84d7_p6[/] 2023-09-09T17:44:34,101 [bold magenta]cwd[/]: /tmp/pip-wheel-hkgwrsa0/khmer_0051827eaacd4efcb70ec73d86879f04/ 2023-09-09T17:44:34,102 Building wheel for khmer (setup.py): finished with status 'error' 2023-09-09T17:44:34,103 ERROR: Failed building wheel for khmer 2023-09-09T17:44:34,104 Running setup.py clean for khmer 2023-09-09T17:44:34,105 Running command python setup.py clean 2023-09-09T17:44:35,179 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:44:35,179 !! 2023-09-09T17:44:35,180 ******************************************************************************** 2023-09-09T17:44:35,181 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:44:35,181 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:44:35,183 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:44:35,183 or your builds will no longer be supported. 2023-09-09T17:44:35,184 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:44:35,184 ******************************************************************************** 2023-09-09T17:44:35,185 !! 2023-09-09T17:44:35,186 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:44:35,219 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:44:35,220 !! 2023-09-09T17:44:35,221 ******************************************************************************** 2023-09-09T17:44:35,221 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:44:35,222 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:44:35,222 ******************************************************************************** 2023-09-09T17:44:35,223 !! 2023-09-09T17:44:35,223 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:44:35,596 running clean 2023-09-09T17:44:35,646 removing 'build/lib.linux-armv7l-cpython-311' (and everything under it) 2023-09-09T17:44:35,693 'build/bdist.linux-armv7l' does not exist -- can't clean it 2023-09-09T17:44:35,694 'build/scripts-3.11' does not exist -- can't clean it 2023-09-09T17:44:35,694 removing 'build' 2023-09-09T17:44:35,809 Failed to build khmer 2023-09-09T17:44:35,810 ERROR: Failed to build one or more wheels 2023-09-09T17:44:35,811 Exception information: 2023-09-09T17:44:35,811 Traceback (most recent call last): 2023-09-09T17:44:35,811 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 180, in exc_logging_wrapper 2023-09-09T17:44:35,811 status = run_func(*args) 2023-09-09T17:44:35,811 ^^^^^^^^^^^^^^^ 2023-09-09T17:44:35,811 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 248, in wrapper 2023-09-09T17:44:35,811 return func(self, options, args) 2023-09-09T17:44:35,811 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-09T17:44:35,811 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 181, in run 2023-09-09T17:44:35,811 raise CommandError("Failed to build one or more wheels") 2023-09-09T17:44:35,811 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2023-09-09T17:44:35,814 Removed build tracker: '/tmp/pip-build-tracker-_u16rgoe'