2023-09-09T17:41:07,348 Created temporary directory: /tmp/pip-build-tracker-l1a9v2vt 2023-09-09T17:41:07,350 Initialized build tracking at /tmp/pip-build-tracker-l1a9v2vt 2023-09-09T17:41:07,350 Created build tracker: /tmp/pip-build-tracker-l1a9v2vt 2023-09-09T17:41:07,351 Entered build tracker: /tmp/pip-build-tracker-l1a9v2vt 2023-09-09T17:41:07,352 Created temporary directory: /tmp/pip-wheel-cjcr5md5 2023-09-09T17:41:07,355 Created temporary directory: /tmp/pip-ephem-wheel-cache-rfh3yvau 2023-09-09T17:41:07,377 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-09T17:41:07,380 2 location(s) to search for versions of khmer: 2023-09-09T17:41:07,380 * https://pypi.org/simple/khmer/ 2023-09-09T17:41:07,380 * https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:07,381 Fetching project page and analyzing links: https://pypi.org/simple/khmer/ 2023-09-09T17:41:07,382 Getting page https://pypi.org/simple/khmer/ 2023-09-09T17:41:07,383 Found index url https://pypi.org/simple/ 2023-09-09T17:41:07,603 Fetched page https://pypi.org/simple/khmer/ as application/vnd.pypi.simple.v1+json 2023-09-09T17:41:07,610 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/) 2023-09-09T17:41:07,611 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/) 2023-09-09T17:41:07,612 Found link https://files.pythonhosted.org/packages/b9/d6/e343a534406110221eb690dc3ffa7548f03f2d51c4d9d407bf2e72278861/khmer-0.6.tar.gz (from https://pypi.org/simple/khmer/), version: 0.6 2023-09-09T17:41:07,612 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 2023-09-09T17:41:07,613 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/) 2023-09-09T17:41:07,614 Found link https://files.pythonhosted.org/packages/3a/bd/b1eb804f77e6ea99f9db02688c1474628d844e2f59a4f77d7bc00f8c990b/khmer-0.7.tar.gz (from https://pypi.org/simple/khmer/), version: 0.7 2023-09-09T17:41:07,614 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/) 2023-09-09T17:41:07,615 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 2023-09-09T17:41:07,615 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/) 2023-09-09T17:41:07,616 Found link https://files.pythonhosted.org/packages/31/8f/7063987e7713dfbcd05bc53e4778c2284e3ea905112fc97d83d03afa60d9/khmer-0.8.tar.gz (from https://pypi.org/simple/khmer/), version: 0.8 2023-09-09T17:41:07,617 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/) 2023-09-09T17:41:07,617 Found link https://files.pythonhosted.org/packages/67/d0/334f8bba7befb5d671bf5663d1073c73cba841f13088d6426b93dbb884ce/khmer-1.0.tar.gz (from https://pypi.org/simple/khmer/), version: 1.0 2023-09-09T17:41:07,618 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/) 2023-09-09T17:41:07,618 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 2023-09-09T17:41:07,619 Found link https://files.pythonhosted.org/packages/df/66/250be153108b73fa745d22b0e141d6d922cd011b6cda2233d46d34bcc596/khmer-1.1.tar.gz (from https://pypi.org/simple/khmer/), version: 1.1 2023-09-09T17:41:07,620 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/) 2023-09-09T17:41:07,620 Found link https://files.pythonhosted.org/packages/b8/b5/8143587dd5eba9204dea9eab50b990656b70e03538a44af56eec11a28f02/khmer-1.2.tar.gz (from https://pypi.org/simple/khmer/), version: 1.2 2023-09-09T17:41:07,621 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/) 2023-09-09T17:41:07,621 Found link https://files.pythonhosted.org/packages/6c/cf/37bd5901fe1322b59cd2cece9c53661944e18dddba3e8ebf2aa2d7834113/khmer-1.3.tar.gz (from https://pypi.org/simple/khmer/), version: 1.3 2023-09-09T17:41:07,622 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/) 2023-09-09T17:41:07,622 Found link https://files.pythonhosted.org/packages/5a/91/eb0c9a5fdab42699c56b8c60d0d02e806f4d4d42f809061eb9a1a9a59dfa/khmer-1.4.tar.gz (from https://pypi.org/simple/khmer/), version: 1.4 2023-09-09T17:41:07,623 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/) 2023-09-09T17:41:07,623 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/) 2023-09-09T17:41:07,624 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 2023-09-09T17:41:07,624 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/) 2023-09-09T17:41:07,625 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/) 2023-09-09T17:41:07,625 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/) 2023-09-09T17:41:07,626 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/) 2023-09-09T17:41:07,626 Found link https://files.pythonhosted.org/packages/52/3b/2c52a13937197391775f274ed75b4a33b2d7767a904faaf4032e14e10a55/khmer-2.0.tar.gz (from https://pypi.org/simple/khmer/), version: 2.0 2023-09-09T17:41:07,627 Found link https://files.pythonhosted.org/packages/57/17/a1f05b13895e02cadeac06d61f7ea63e8c32eda38312d57e9ba218d0ca9b/khmer-2.1rc3.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1rc3 2023-09-09T17:41:07,628 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/) 2023-09-09T17:41:07,628 Found link https://files.pythonhosted.org/packages/3e/e5/b3190cb9def69d665b42cd91ea27712f1d7de643f4b9c66ef2e5f1ab29c6/khmer-2.1.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1 2023-09-09T17:41:07,629 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/) 2023-09-09T17:41:07,629 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/) 2023-09-09T17:41:07,630 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/) 2023-09-09T17:41:07,630 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/) 2023-09-09T17:41:07,631 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/) 2023-09-09T17:41:07,631 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 2023-09-09T17:41:07,632 Fetching project page and analyzing links: https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:07,633 Getting page https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:07,634 Found index url https://www.piwheels.org/simple/ 2023-09-09T17:41:07,907 Fetched page https://www.piwheels.org/simple/khmer/ as text/html 2023-09-09T17:41:07,908 Skipping link: not a file: https://www.piwheels.org/simple/khmer/ 2023-09-09T17:41:07,909 Skipping link: not a file: https://pypi.org/simple/khmer/ 2023-09-09T17:41:07,929 Given no hashes to check 1 links for project 'khmer': discarding no candidates 2023-09-09T17:41:07,947 Collecting khmer==2.1rc3 2023-09-09T17:41:07,950 Created temporary directory: /tmp/pip-unpack-fovkjbrk 2023-09-09T17:41:08,774 Downloading khmer-2.1rc3.tar.gz (8.6 MB) 2023-09-09T17:41:13,225 Added khmer==2.1rc3 from https://files.pythonhosted.org/packages/57/17/a1f05b13895e02cadeac06d61f7ea63e8c32eda38312d57e9ba218d0ca9b/khmer-2.1rc3.tar.gz to build tracker '/tmp/pip-build-tracker-l1a9v2vt' 2023-09-09T17:41:13,227 Running setup.py (path:/tmp/pip-wheel-cjcr5md5/khmer_da05925ba4714644a9063548a358ca9a/setup.py) egg_info for package khmer 2023-09-09T17:41:13,228 Created temporary directory: /tmp/pip-pip-egg-info-wts1paz7 2023-09-09T17:41:13,229 Preparing metadata (setup.py): started 2023-09-09T17:41:13,230 Running command python setup.py egg_info 2023-09-09T17:41:14,347 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:41:14,347 !! 2023-09-09T17:41:14,348 ******************************************************************************** 2023-09-09T17:41:14,349 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:41:14,349 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:41:14,350 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:41:14,351 or your builds will no longer be supported. 2023-09-09T17:41:14,352 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:41:14,352 ******************************************************************************** 2023-09-09T17:41:14,353 !! 2023-09-09T17:41:14,354 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:41:14,390 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:41:14,390 !! 2023-09-09T17:41:14,391 ******************************************************************************** 2023-09-09T17:41:14,392 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:41:14,392 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:41:14,393 ******************************************************************************** 2023-09-09T17:41:14,394 !! 2023-09-09T17:41:14,394 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:41:17,076 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:320: InformationOnly: Normalizing '2.1-rc3' to '2.1rc3' 2023-09-09T17:41:17,077 self.metadata.version = self._normalize_version( 2023-09-09T17:41:17,137 running egg_info 2023-09-09T17:41:17,138 creating /tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info 2023-09-09T17:41:17,169 writing /tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info/PKG-INFO 2023-09-09T17:41:17,176 writing dependency_links to /tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info/dependency_links.txt 2023-09-09T17:41:17,180 writing requirements to /tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info/requires.txt 2023-09-09T17:41:17,181 writing top-level names to /tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info/top_level.txt 2023-09-09T17:41:17,183 writing manifest file '/tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:17,294 reading manifest file '/tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:17,296 reading manifest template 'MANIFEST.in' 2023-09-09T17:41:17,297 warning: no files found matching 'ChangeLog' 2023-09-09T17:41:17,298 warning: no files found matching 'IDEAS' 2023-09-09T17:41:17,298 warning: no files found matching 'README.md' 2023-09-09T17:41:17,299 warning: no files found matching 'CONTRIBUTING.md' 2023-09-09T17:41:17,300 warning: no files found matching 'TODO' 2023-09-09T17:41:17,344 warning: no files found matching 'get_version.py' under directory 'lib' 2023-09-09T17:41:20,637 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-09T17:41:20,639 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-09T17:41:20,647 warning: no files found matching 'README.txt' under directory 'scripts' 2023-09-09T17:41:20,666 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-09T17:41:20,671 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-09T17:41:20,672 adding license file 'LICENSE' 2023-09-09T17:41:20,710 writing manifest file '/tmp/pip-pip-egg-info-wts1paz7/khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:20,825 Preparing metadata (setup.py): finished with status 'done' 2023-09-09T17:41:20,828 Source in /tmp/pip-wheel-cjcr5md5/khmer_da05925ba4714644a9063548a358ca9a has version 2.1rc3, which satisfies requirement khmer==2.1rc3 from https://files.pythonhosted.org/packages/57/17/a1f05b13895e02cadeac06d61f7ea63e8c32eda38312d57e9ba218d0ca9b/khmer-2.1rc3.tar.gz 2023-09-09T17:41:20,830 Removed khmer==2.1rc3 from https://files.pythonhosted.org/packages/57/17/a1f05b13895e02cadeac06d61f7ea63e8c32eda38312d57e9ba218d0ca9b/khmer-2.1rc3.tar.gz from build tracker '/tmp/pip-build-tracker-l1a9v2vt' 2023-09-09T17:41:20,834 Created temporary directory: /tmp/pip-unpack-q_oen9ig 2023-09-09T17:41:20,835 Created temporary directory: /tmp/pip-unpack-4v3jnpbb 2023-09-09T17:41:20,855 Building wheels for collected packages: khmer 2023-09-09T17:41:20,859 Created temporary directory: /tmp/pip-wheel-nat10cm1 2023-09-09T17:41:20,860 Building wheel for khmer (setup.py): started 2023-09-09T17:41:20,861 Destination directory: /tmp/pip-wheel-nat10cm1 2023-09-09T17:41:20,861 Running command python setup.py bdist_wheel 2023-09-09T17:41:21,949 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:41:21,949 !! 2023-09-09T17:41:21,950 ******************************************************************************** 2023-09-09T17:41:21,950 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:41:21,951 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:41:21,952 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:41:21,952 or your builds will no longer be supported. 2023-09-09T17:41:21,953 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:41:21,954 ******************************************************************************** 2023-09-09T17:41:21,955 !! 2023-09-09T17:41:21,955 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:41:21,990 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:41:21,990 !! 2023-09-09T17:41:21,991 ******************************************************************************** 2023-09-09T17:41:21,992 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:41:21,992 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:41:21,993 ******************************************************************************** 2023-09-09T17:41:21,994 !! 2023-09-09T17:41:21,994 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:41:22,299 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:320: InformationOnly: Normalizing '2.1-rc3' to '2.1rc3' 2023-09-09T17:41:22,300 self.metadata.version = self._normalize_version( 2023-09-09T17:41:22,360 running bdist_wheel 2023-09-09T17:41:22,436 running build 2023-09-09T17:41:22,437 running build_py 2023-09-09T17:41:22,442 creating build 2023-09-09T17:41:22,443 creating build/lib.linux-armv7l-cpython-311 2023-09-09T17:41:22,443 creating build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,445 copying khmer/khmer_args.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,448 copying khmer/kfile.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,450 copying khmer/_version.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,452 copying khmer/khmer_logger.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,454 copying khmer/trimming.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,455 copying khmer/utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,458 copying khmer/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,460 copying khmer/thread_utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:22,464 creating build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,465 copying tests/test_hashset.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,467 copying tests/test_hll.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,470 copying tests/test_counttable.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,472 copying tests/test_subset_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,474 copying tests/test_normalize_by_median.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,477 copying tests/test_sandbox_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,480 copying tests/test_oxli_functions.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,482 copying tests/test_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,484 copying tests/test_version.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,486 copying tests/test_script_arguments.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,488 copying tests/khmer_tst_utils.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,490 copying tests/test_nodegraph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,493 copying tests/test_script_output.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,495 copying tests/test_labelhash.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,498 copying tests/test_cpython_hierarchy.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,500 copying tests/test_read_parsers.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,502 copying tests/test_functions.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,505 copying tests/test_threaded_sequence_processor.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,507 copying tests/test_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,514 copying tests/test_lump.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,517 copying tests/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,518 copying tests/test_tabletype.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,521 copying tests/test_assembly.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,523 copying tests/test_read_aligner.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,526 copying tests/test_countgraph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,529 copying tests/test_sequence_validation.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,531 copying tests/test_counting_single.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,534 copying tests/test_streaming_io.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,536 copying tests/test_nibblestorage.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,538 copying tests/test_filter_abund.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,541 copying tests/test_read_handling.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:22,544 creating build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:22,545 copying oxli/partition.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:22,547 copying oxli/__init__.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:22,549 copying oxli/functions.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:22,551 copying oxli/build_graph.py -> build/lib.linux-armv7l-cpython-311/oxli 2023-09-09T17:41:22,553 running egg_info 2023-09-09T17:41:22,604 writing khmer.egg-info/PKG-INFO 2023-09-09T17:41:22,610 writing dependency_links to khmer.egg-info/dependency_links.txt 2023-09-09T17:41:22,613 writing requirements to khmer.egg-info/requires.txt 2023-09-09T17:41:22,614 writing top-level names to khmer.egg-info/top_level.txt 2023-09-09T17:41:22,651 reading manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:22,668 reading manifest template 'MANIFEST.in' 2023-09-09T17:41:22,669 warning: no files found matching 'ChangeLog' 2023-09-09T17:41:22,669 warning: no files found matching 'IDEAS' 2023-09-09T17:41:22,670 warning: no files found matching 'README.md' 2023-09-09T17:41:22,670 warning: no files found matching 'CONTRIBUTING.md' 2023-09-09T17:41:22,671 warning: no files found matching 'TODO' 2023-09-09T17:41:22,710 warning: no files found matching 'get_version.py' under directory 'lib' 2023-09-09T17:41:25,629 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-09T17:41:25,630 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-09T17:41:25,635 warning: no files found matching 'README.txt' under directory 'scripts' 2023-09-09T17:41:25,645 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-09T17:41:25,648 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-09T17:41:25,649 adding license file 'LICENSE' 2023-09-09T17:41:25,680 writing manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-09T17:41:25,716 copying khmer/_cpy_counttable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:25,718 copying khmer/_cpy_hashgraph.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:25,721 copying khmer/_cpy_nodetable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:25,724 copying khmer/_cpy_smallcountgraph.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:25,726 copying khmer/_cpy_smallcounttable.hh -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:25,728 copying khmer/_khmer.cc -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-09T17:41:25,734 copying tests/.gitignore -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-09T17:41:25,736 creating build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,737 copying tests/test-data/100-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,740 copying tests/test-data/100-reads.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,742 copying tests/test-data/100-reads.fq.truncated.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,745 copying tests/test-data/100-reads.fq.truncated.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,747 copying tests/test-data/README.rst -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,749 copying tests/test-data/all-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,751 copying tests/test-data/badversion-k12.ct -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,753 copying tests/test-data/badversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,755 copying tests/test-data/badversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,757 copying tests/test-data/badversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,759 copying tests/test-data/biglump-random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,761 copying tests/test-data/casava_18-pe.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,763 copying tests/test-data/combine_parts_1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,765 copying tests/test-data/dn-test-all-paired-all-keep.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,767 copying tests/test-data/dn-test-none-paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,769 copying tests/test-data/dn-test-some-paired-all-keep.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,771 copying tests/test-data/empty-file -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,773 copying tests/test-data/empty-file.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,775 copying tests/test-data/empty-file.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,777 copying tests/test-data/fakelump.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,779 copying tests/test-data/fakelump.fa.stoptags.txt -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,782 copying tests/test-data/filter-test-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,784 copying tests/test-data/filter-test-B.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,786 copying tests/test-data/goodversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,788 copying tests/test-data/goodversion-k12.ht.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,790 copying tests/test-data/goodversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,791 copying tests/test-data/goodversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,793 copying tests/test-data/multi-output.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,795 copying tests/test-data/normC20k20.ct -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,858 copying tests/test-data/old-style-format-w-comments.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,860 copying tests/test-data/paired-broken.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,862 copying tests/test-data/paired-broken.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,863 copying tests/test-data/paired-broken.fq.badleft -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,865 copying tests/test-data/paired-broken.fq.badright -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,867 copying tests/test-data/paired-broken.fq.paired_bad -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,869 copying tests/test-data/paired-broken2.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,871 copying tests/test-data/paired-broken2.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,872 copying tests/test-data/paired-broken3.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,874 copying tests/test-data/paired-broken3.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,876 copying tests/test-data/paired-broken4.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,878 copying tests/test-data/paired-broken4.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,880 copying tests/test-data/paired-mixed-2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,882 copying tests/test-data/paired-mixed-broken.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,884 copying tests/test-data/paired-mixed-witherror.fa.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,886 copying tests/test-data/paired-mixed.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,888 copying tests/test-data/paired-mixed.fa.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,890 copying tests/test-data/paired-mixed.fa.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,892 copying tests/test-data/paired-mixed.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,894 copying tests/test-data/paired-mixed.fq.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,896 copying tests/test-data/paired-mixed.fq.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,898 copying tests/test-data/paired-slash1.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,900 copying tests/test-data/paired-slash1.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,901 copying tests/test-data/paired-slash1.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,903 copying tests/test-data/paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,905 copying tests/test-data/paired.fa.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,907 copying tests/test-data/paired.fa.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,909 copying tests/test-data/paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,910 copying tests/test-data/paired.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,912 copying tests/test-data/paired.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,914 copying tests/test-data/paired.malformat.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,916 copying tests/test-data/paired.malformat.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,918 copying tests/test-data/paired_one.base.dif.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,920 copying tests/test-data/random-20-X2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,923 copying tests/test-data/random-20-a.even.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,925 copying tests/test-data/random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,927 copying tests/test-data/random-20-a.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,929 copying tests/test-data/random-20-a.fa.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,931 copying tests/test-data/random-20-a.fa.part -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,933 copying tests/test-data/random-20-a.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,936 copying tests/test-data/random-20-a.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,938 copying tests/test-data/random-20-a.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,940 copying tests/test-data/random-20-a.odd.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,942 copying tests/test-data/random-20-b.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,945 copying tests/test-data/random-31-c.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,948 copying tests/test-data/readaligner-default.json -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,950 copying tests/test-data/readaligner-k12.json -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,952 copying tests/test-data/real-partition-small.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,954 copying tests/test-data/real-partition-tiny.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,956 copying tests/test-data/simple-genome-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,961 copying tests/test-data/simple-genome.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,963 copying tests/test-data/single-read.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,964 copying tests/test-data/single-read.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,966 copying tests/test-data/test-abund-read-2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,969 copying tests/test-data/test-abund-read-2.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,971 copying tests/test-data/test-abund-read-2.fa.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,973 copying tests/test-data/test-abund-read-2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,976 copying tests/test-data/test-abund-read-2.paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,978 copying tests/test-data/test-abund-read-2.paired2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,980 copying tests/test-data/test-abund-read-3.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,982 copying tests/test-data/test-abund-read-impaired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,984 copying tests/test-data/test-abund-read-paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,986 copying tests/test-data/test-abund-read-paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,987 copying tests/test-data/test-abund-read.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,989 copying tests/test-data/test-empty.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,991 copying tests/test-data/test-empty.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,992 copying tests/test-data/test-error-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,995 copying tests/test-data/test-fastq-n-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:25,997 copying tests/test-data/test-fastq-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,000 copying tests/test-data/test-fastq-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,003 copying tests/test-data/test-filter-abund-Ns.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,005 copying tests/test-data/test-graph.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,006 copying tests/test-data/test-graph2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,008 copying tests/test-data/test-graph5.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,010 copying tests/test-data/test-labels.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,012 copying tests/test-data/test-large.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,171 copying tests/test-data/test-multi.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,173 copying tests/test-data/test-output-partitions.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,175 copying tests/test-data/test-overlap1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,199 copying tests/test-data/test-overlap2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,226 copying tests/test-data/test-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,266 copying tests/test-data/test-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,277 copying tests/test-data/test-reads.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,292 copying tests/test-data/test-short.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,293 copying tests/test-data/test-sweep-contigs.fp -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,295 copying tests/test-data/test-sweep-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,297 copying tests/test-data/test-sweep-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,299 copying tests/test-data/test-transcript.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,301 copying tests/test-data/truncated.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,302 copying tests/test-data/unclean-reads.fastq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,304 copying tests/test-data/valid-read-testing.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-09T17:41:26,308 UPDATING build/lib.linux-armv7l-cpython-311/khmer/_version.py 2023-09-09T17:41:26,309 set build/lib.linux-armv7l-cpython-311/khmer/_version.py to '2.1-rc3' 2023-09-09T17:41:26,310 running build_ext 2023-09-09T17:41:26,311 error: ['khmer', 'khmer.tests', 'oxli'] require 64-bit operating system 2023-09-09T17:41:26,423 ERROR: [present-rich] python setup.py bdist_wheel exited with 1 2023-09-09T17:41:26,436 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2023-09-09T17:41:26,436 exec(compile('"'"''"'"''"'"' 2023-09-09T17:41:26,436 # This is -- a caller that pip uses to run setup.py 2023-09-09T17:41:26,436 # 2023-09-09T17:41:26,436 # - It imports setuptools before invoking setup.py, to enable projects that directly 2023-09-09T17:41:26,436 # import from `distutils.core` to work with newer packaging standards. 2023-09-09T17:41:26,436 # - It provides a clear error message when setuptools is not installed. 2023-09-09T17:41:26,436 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2023-09-09T17:41:26,436 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2023-09-09T17:41:26,436 # manifest_maker: standard file '"'"'-c'"'"' not found". 2023-09-09T17:41:26,436 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2023-09-09T17:41:26,436 import os, sys, tokenize 2023-09-09T17:41:26,436 2023-09-09T17:41:26,436 try: 2023-09-09T17:41:26,436 import setuptools 2023-09-09T17:41:26,436 except ImportError as error: 2023-09-09T17:41:26,436 print( 2023-09-09T17:41:26,436 "ERROR: Can not execute `setup.py` since setuptools is not available in " 2023-09-09T17:41:26,436 "the build environment.", 2023-09-09T17:41:26,436 file=sys.stderr, 2023-09-09T17:41:26,436 ) 2023-09-09T17:41:26,436 sys.exit(1) 2023-09-09T17:41:26,436 2023-09-09T17:41:26,436 __file__ = %r 2023-09-09T17:41:26,436 sys.argv[0] = __file__ 2023-09-09T17:41:26,436 2023-09-09T17:41:26,436 if os.path.exists(__file__): 2023-09-09T17:41:26,436 filename = __file__ 2023-09-09T17:41:26,436 with tokenize.open(__file__) as f: 2023-09-09T17:41:26,436 setup_py_code = f.read() 2023-09-09T17:41:26,436 else: 2023-09-09T17:41:26,436 filename = "" 2023-09-09T17:41:26,436 setup_py_code = "from setuptools import setup; setup()" 2023-09-09T17:41:26,436 2023-09-09T17:41:26,436 exec(compile(setup_py_code, filename, "exec")) 2023-09-09T17:41:26,436 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-cjcr5md5/khmer_da05925ba4714644a9063548a358ca9a/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-nat10cm1[/] 2023-09-09T17:41:26,437 [bold magenta]cwd[/]: /tmp/pip-wheel-cjcr5md5/khmer_da05925ba4714644a9063548a358ca9a/ 2023-09-09T17:41:26,437 Building wheel for khmer (setup.py): finished with status 'error' 2023-09-09T17:41:26,439 ERROR: Failed building wheel for khmer 2023-09-09T17:41:26,440 Running setup.py clean for khmer 2023-09-09T17:41:26,441 Running command python setup.py clean 2023-09-09T17:41:27,536 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-09T17:41:27,536 !! 2023-09-09T17:41:27,538 ******************************************************************************** 2023-09-09T17:41:27,538 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-09T17:41:27,539 versions. Please use the underscore name 'include_dirs' instead. 2023-09-09T17:41:27,540 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-09T17:41:27,540 or your builds will no longer be supported. 2023-09-09T17:41:27,541 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-09T17:41:27,541 ******************************************************************************** 2023-09-09T17:41:27,542 !! 2023-09-09T17:41:27,543 opt = self.warn_dash_deprecation(opt, section) 2023-09-09T17:41:27,577 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-09-09T17:41:27,578 !! 2023-09-09T17:41:27,579 ******************************************************************************** 2023-09-09T17:41:27,579 Requirements should be satisfied by a PEP 517 installer. 2023-09-09T17:41:27,580 If you are using pip, you can try `pip install --use-pep517`. 2023-09-09T17:41:27,580 ******************************************************************************** 2023-09-09T17:41:27,581 !! 2023-09-09T17:41:27,581 dist.fetch_build_eggs(dist.setup_requires) 2023-09-09T17:41:27,886 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:320: InformationOnly: Normalizing '2.1-rc3' to '2.1rc3' 2023-09-09T17:41:27,886 self.metadata.version = self._normalize_version( 2023-09-09T17:41:27,947 running clean 2023-09-09T17:41:27,998 removing 'build/lib.linux-armv7l-cpython-311' (and everything under it) 2023-09-09T17:41:28,058 'build/bdist.linux-armv7l' does not exist -- can't clean it 2023-09-09T17:41:28,059 'build/scripts-3.11' does not exist -- can't clean it 2023-09-09T17:41:28,059 removing 'build' 2023-09-09T17:41:28,172 Failed to build khmer 2023-09-09T17:41:28,173 ERROR: Failed to build one or more wheels 2023-09-09T17:41:28,174 Exception information: 2023-09-09T17:41:28,174 Traceback (most recent call last): 2023-09-09T17:41:28,174 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 180, in exc_logging_wrapper 2023-09-09T17:41:28,174 status = run_func(*args) 2023-09-09T17:41:28,174 ^^^^^^^^^^^^^^^ 2023-09-09T17:41:28,174 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 248, in wrapper 2023-09-09T17:41:28,174 return func(self, options, args) 2023-09-09T17:41:28,174 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-09T17:41:28,174 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 181, in run 2023-09-09T17:41:28,174 raise CommandError("Failed to build one or more wheels") 2023-09-09T17:41:28,174 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2023-09-09T17:41:28,177 Removed build tracker: '/tmp/pip-build-tracker-l1a9v2vt'