2023-09-08T15:49:29,086 Created temporary directory: /tmp/pip-build-tracker-k87rplwf 2023-09-08T15:49:29,087 Initialized build tracking at /tmp/pip-build-tracker-k87rplwf 2023-09-08T15:49:29,087 Created build tracker: /tmp/pip-build-tracker-k87rplwf 2023-09-08T15:49:29,088 Entered build tracker: /tmp/pip-build-tracker-k87rplwf 2023-09-08T15:49:29,089 Created temporary directory: /tmp/pip-wheel-dc3ah0ir 2023-09-08T15:49:29,092 Created temporary directory: /tmp/pip-ephem-wheel-cache-9842tfaf 2023-09-08T15:49:29,113 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-08T15:49:29,117 2 location(s) to search for versions of khmer: 2023-09-08T15:49:29,117 * https://pypi.org/simple/khmer/ 2023-09-08T15:49:29,117 * https://www.piwheels.org/simple/khmer/ 2023-09-08T15:49:29,118 Fetching project page and analyzing links: https://pypi.org/simple/khmer/ 2023-09-08T15:49:29,118 Getting page https://pypi.org/simple/khmer/ 2023-09-08T15:49:29,120 Found index url https://pypi.org/simple/ 2023-09-08T15:49:29,259 Fetched page https://pypi.org/simple/khmer/ as application/vnd.pypi.simple.v1+json 2023-09-08T15:49:29,267 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/) 2023-09-08T15:49:29,267 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/) 2023-09-08T15:49:29,268 Found link https://files.pythonhosted.org/packages/b9/d6/e343a534406110221eb690dc3ffa7548f03f2d51c4d9d407bf2e72278861/khmer-0.6.tar.gz (from https://pypi.org/simple/khmer/), version: 0.6 2023-09-08T15:49:29,268 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 2023-09-08T15:49:29,269 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/) 2023-09-08T15:49:29,270 Found link https://files.pythonhosted.org/packages/3a/bd/b1eb804f77e6ea99f9db02688c1474628d844e2f59a4f77d7bc00f8c990b/khmer-0.7.tar.gz (from https://pypi.org/simple/khmer/), version: 0.7 2023-09-08T15:49:29,270 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/) 2023-09-08T15:49:29,271 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 2023-09-08T15:49:29,272 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/) 2023-09-08T15:49:29,273 Found link https://files.pythonhosted.org/packages/31/8f/7063987e7713dfbcd05bc53e4778c2284e3ea905112fc97d83d03afa60d9/khmer-0.8.tar.gz (from https://pypi.org/simple/khmer/), version: 0.8 2023-09-08T15:49:29,273 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/) 2023-09-08T15:49:29,274 Found link https://files.pythonhosted.org/packages/67/d0/334f8bba7befb5d671bf5663d1073c73cba841f13088d6426b93dbb884ce/khmer-1.0.tar.gz (from https://pypi.org/simple/khmer/), version: 1.0 2023-09-08T15:49:29,274 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/) 2023-09-08T15:49:29,275 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 2023-09-08T15:49:29,276 Found link https://files.pythonhosted.org/packages/df/66/250be153108b73fa745d22b0e141d6d922cd011b6cda2233d46d34bcc596/khmer-1.1.tar.gz (from https://pypi.org/simple/khmer/), version: 1.1 2023-09-08T15:49:29,277 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/) 2023-09-08T15:49:29,277 Found link https://files.pythonhosted.org/packages/b8/b5/8143587dd5eba9204dea9eab50b990656b70e03538a44af56eec11a28f02/khmer-1.2.tar.gz (from https://pypi.org/simple/khmer/), version: 1.2 2023-09-08T15:49:29,278 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/) 2023-09-08T15:49:29,278 Found link https://files.pythonhosted.org/packages/6c/cf/37bd5901fe1322b59cd2cece9c53661944e18dddba3e8ebf2aa2d7834113/khmer-1.3.tar.gz (from https://pypi.org/simple/khmer/), version: 1.3 2023-09-08T15:49:29,279 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/) 2023-09-08T15:49:29,279 Found link https://files.pythonhosted.org/packages/5a/91/eb0c9a5fdab42699c56b8c60d0d02e806f4d4d42f809061eb9a1a9a59dfa/khmer-1.4.tar.gz (from https://pypi.org/simple/khmer/), version: 1.4 2023-09-08T15:49:29,280 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/) 2023-09-08T15:49:29,280 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/) 2023-09-08T15:49:29,281 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 2023-09-08T15:49:29,282 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/) 2023-09-08T15:49:29,282 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/) 2023-09-08T15:49:29,283 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/) 2023-09-08T15:49:29,284 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/) 2023-09-08T15:49:29,284 Found link https://files.pythonhosted.org/packages/52/3b/2c52a13937197391775f274ed75b4a33b2d7767a904faaf4032e14e10a55/khmer-2.0.tar.gz (from https://pypi.org/simple/khmer/), version: 2.0 2023-09-08T15:49:29,285 Found link https://files.pythonhosted.org/packages/57/17/a1f05b13895e02cadeac06d61f7ea63e8c32eda38312d57e9ba218d0ca9b/khmer-2.1rc3.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1rc3 2023-09-08T15:49:29,286 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/) 2023-09-08T15:49:29,286 Found link https://files.pythonhosted.org/packages/3e/e5/b3190cb9def69d665b42cd91ea27712f1d7de643f4b9c66ef2e5f1ab29c6/khmer-2.1.tar.gz (from https://pypi.org/simple/khmer/), version: 2.1 2023-09-08T15:49:29,287 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/) 2023-09-08T15:49:29,287 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/) 2023-09-08T15:49:29,288 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/) 2023-09-08T15:49:29,288 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/) 2023-09-08T15:49:29,289 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/) 2023-09-08T15:49:29,289 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 2023-09-08T15:49:29,290 Fetching project page and analyzing links: https://www.piwheels.org/simple/khmer/ 2023-09-08T15:49:29,291 Getting page https://www.piwheels.org/simple/khmer/ 2023-09-08T15:49:29,292 Found index url https://www.piwheels.org/simple/ 2023-09-08T15:49:29,977 Fetched page https://www.piwheels.org/simple/khmer/ as text/html 2023-09-08T15:49:29,979 Skipping link: not a file: https://www.piwheels.org/simple/khmer/ 2023-09-08T15:49:29,980 Skipping link: not a file: https://pypi.org/simple/khmer/ 2023-09-08T15:49:30,016 Given no hashes to check 1 links for project 'khmer': discarding no candidates 2023-09-08T15:49:30,048 Collecting khmer==1.1 2023-09-08T15:49:30,052 Created temporary directory: /tmp/pip-unpack-0wrs8djm 2023-09-08T15:49:31,027 Downloading khmer-1.1.tar.gz (3.6 MB) 2023-09-08T15:49:33,124 Added khmer==1.1 from https://files.pythonhosted.org/packages/df/66/250be153108b73fa745d22b0e141d6d922cd011b6cda2233d46d34bcc596/khmer-1.1.tar.gz to build tracker '/tmp/pip-build-tracker-k87rplwf' 2023-09-08T15:49:33,125 Running setup.py (path:/tmp/pip-wheel-dc3ah0ir/khmer_a843df5bef7742288a619fbba2e9ead3/setup.py) egg_info for package khmer 2023-09-08T15:49:33,126 Created temporary directory: /tmp/pip-pip-egg-info-or3lt5it 2023-09-08T15:49:33,127 Preparing metadata (setup.py): started 2023-09-08T15:49:33,128 Running command python setup.py egg_info 2023-09-08T15:49:34,026 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-08T15:49:34,026 !! 2023-09-08T15:49:34,027 ******************************************************************************** 2023-09-08T15:49:34,028 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-08T15:49:34,028 versions. Please use the underscore name 'include_dirs' instead. 2023-09-08T15:49:34,030 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-08T15:49:34,030 or your builds will no longer be supported. 2023-09-08T15:49:34,032 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-08T15:49:34,032 ******************************************************************************** 2023-09-08T15:49:34,033 !! 2023-09-08T15:49:34,033 opt = self.warn_dash_deprecation(opt, section) 2023-09-08T15:49:34,212 running egg_info 2023-09-08T15:49:34,213 creating /tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info 2023-09-08T15:49:34,239 writing /tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info/PKG-INFO 2023-09-08T15:49:34,244 writing dependency_links to /tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info/dependency_links.txt 2023-09-08T15:49:34,246 writing requirements to /tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info/requires.txt 2023-09-08T15:49:34,247 writing top-level names to /tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info/top_level.txt 2023-09-08T15:49:34,248 writing manifest file '/tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info/SOURCES.txt' 2023-09-08T15:49:34,281 dependency third-party/zlib/adler32.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,281 dependency third-party/zlib/compress.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,282 dependency third-party/zlib/crc32.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,283 dependency third-party/zlib/deflate.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,283 dependency third-party/zlib/gzclose.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,284 dependency third-party/zlib/gzlib.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,284 dependency third-party/zlib/gzread.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,285 dependency third-party/zlib/gzwrite.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,285 dependency third-party/zlib/infback.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,286 dependency third-party/zlib/inffast.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,286 dependency third-party/zlib/inflate.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,287 dependency third-party/zlib/inftrees.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,287 dependency third-party/zlib/trees.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,288 dependency third-party/zlib/uncompr.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,289 dependency third-party/zlib/zutil.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,289 dependency third-party/bzip2/blocksort.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,290 dependency third-party/bzip2/huffman.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,290 dependency third-party/bzip2/crctable.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,291 dependency third-party/bzip2/randtable.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,291 dependency third-party/bzip2/compress.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,292 dependency third-party/bzip2/decompress.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,293 dependency third-party/bzip2/bzlib.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:34,342 reading manifest file '/tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info/SOURCES.txt' 2023-09-08T15:49:34,343 reading manifest template 'MANIFEST.in' 2023-09-08T15:49:35,602 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-08T15:49:35,603 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-08T15:49:35,631 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-08T15:49:35,633 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-08T15:49:35,633 adding license file 'LICENSE' 2023-09-08T15:49:35,651 writing manifest file '/tmp/pip-pip-egg-info-or3lt5it/khmer.egg-info/SOURCES.txt' 2023-09-08T15:49:35,773 Preparing metadata (setup.py): finished with status 'done' 2023-09-08T15:49:35,777 Source in /tmp/pip-wheel-dc3ah0ir/khmer_a843df5bef7742288a619fbba2e9ead3 has version 1.1, which satisfies requirement khmer==1.1 from https://files.pythonhosted.org/packages/df/66/250be153108b73fa745d22b0e141d6d922cd011b6cda2233d46d34bcc596/khmer-1.1.tar.gz 2023-09-08T15:49:35,778 Removed khmer==1.1 from https://files.pythonhosted.org/packages/df/66/250be153108b73fa745d22b0e141d6d922cd011b6cda2233d46d34bcc596/khmer-1.1.tar.gz from build tracker '/tmp/pip-build-tracker-k87rplwf' 2023-09-08T15:49:35,782 Created temporary directory: /tmp/pip-unpack-mmtxtj90 2023-09-08T15:49:35,783 Created temporary directory: /tmp/pip-unpack-iohukg_f 2023-09-08T15:49:35,796 Building wheels for collected packages: khmer 2023-09-08T15:49:35,800 Created temporary directory: /tmp/pip-wheel-5soc4ysh 2023-09-08T15:49:35,800 Building wheel for khmer (setup.py): started 2023-09-08T15:49:35,801 Destination directory: /tmp/pip-wheel-5soc4ysh 2023-09-08T15:49:35,802 Running command python setup.py bdist_wheel 2023-09-08T15:49:36,654 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-08T15:49:36,655 !! 2023-09-08T15:49:36,656 ******************************************************************************** 2023-09-08T15:49:36,656 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-08T15:49:36,657 versions. Please use the underscore name 'include_dirs' instead. 2023-09-08T15:49:36,658 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-08T15:49:36,659 or your builds will no longer be supported. 2023-09-08T15:49:36,660 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-08T15:49:36,660 ******************************************************************************** 2023-09-08T15:49:36,662 !! 2023-09-08T15:49:36,662 opt = self.warn_dash_deprecation(opt, section) 2023-09-08T15:49:36,836 running bdist_wheel 2023-09-08T15:49:36,883 running build 2023-09-08T15:49:36,884 got version from file /tmp/pip-wheel-dc3ah0ir/khmer_a843df5bef7742288a619fbba2e9ead3/khmer/_version.py {'version': '1.1', 'full': '1fe98c92b5a9b3f46a5f4f05cd35d3229ce2ff0a'} 2023-09-08T15:49:36,885 running build_py 2023-09-08T15:49:36,911 creating build 2023-09-08T15:49:36,912 creating build/lib.linux-armv7l-cpython-311 2023-09-08T15:49:36,913 creating build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,915 copying khmer/load_pe.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,917 copying khmer/khmer_args.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,919 copying khmer/utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,921 copying khmer/_version.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,922 copying khmer/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,925 copying khmer/threading_args.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,926 copying khmer/thread_utils.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,928 copying khmer/file.py -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:36,931 creating build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,932 copying tests/test_script_arguments.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,934 copying tests/test_functions.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,935 copying tests/test_counting_single.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,937 copying tests/test_hashbits.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,940 copying tests/test_threaded_sequence_processor.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,942 copying tests/test_khmer_config.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,943 copying tests/test_sandbox_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,945 copying tests/test_scripts.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,948 copying tests/test_c_wrapper.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,950 copying tests/test_hashbits_obj.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,952 copying tests/test_filter.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,954 copying tests/__init__.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,955 copying tests/test_read_parsers.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,957 copying tests/test_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,959 copying tests/test_subset_graph.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,962 copying tests/test_counting_hash.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,964 copying tests/khmer_tst_utils.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,966 copying tests/test_lump.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,968 copying tests/test_align.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,969 copying tests/test_labelhash.py -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:36,971 running egg_info 2023-09-08T15:49:37,005 creating khmer.egg-info 2023-09-08T15:49:37,030 writing khmer.egg-info/PKG-INFO 2023-09-08T15:49:37,034 writing dependency_links to khmer.egg-info/dependency_links.txt 2023-09-08T15:49:37,036 writing requirements to khmer.egg-info/requires.txt 2023-09-08T15:49:37,037 writing top-level names to khmer.egg-info/top_level.txt 2023-09-08T15:49:37,039 writing manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-08T15:49:37,044 dependency third-party/zlib/adler32.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,044 dependency third-party/zlib/compress.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,045 dependency third-party/zlib/crc32.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,046 dependency third-party/zlib/deflate.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,046 dependency third-party/zlib/gzclose.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,047 dependency third-party/zlib/gzlib.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,047 dependency third-party/zlib/gzread.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,048 dependency third-party/zlib/gzwrite.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,049 dependency third-party/zlib/infback.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,049 dependency third-party/zlib/inffast.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,050 dependency third-party/zlib/inflate.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,051 dependency third-party/zlib/inftrees.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,051 dependency third-party/zlib/trees.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,052 dependency third-party/zlib/uncompr.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,052 dependency third-party/zlib/zutil.lo won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,052 dependency third-party/bzip2/blocksort.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,053 dependency third-party/bzip2/huffman.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,053 dependency third-party/bzip2/crctable.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,054 dependency third-party/bzip2/randtable.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,054 dependency third-party/bzip2/compress.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,055 dependency third-party/bzip2/decompress.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,055 dependency third-party/bzip2/bzlib.o won't be automatically included in the manifest: the path doesn't exist 2023-09-08T15:49:37,075 reading manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-08T15:49:37,077 reading manifest template 'MANIFEST.in' 2023-09-08T15:49:38,329 warning: no previously-included files found matching 'third-party/zlib/Makefile' 2023-09-08T15:49:38,330 warning: no previously-included files found matching 'third-party/zlib/zconf.h' 2023-09-08T15:49:38,349 warning: no previously-included files matching '*.orig' found anywhere in distribution 2023-09-08T15:49:38,350 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2023-09-08T15:49:38,351 adding license file 'LICENSE' 2023-09-08T15:49:38,363 writing manifest file 'khmer.egg-info/SOURCES.txt' 2023-09-08T15:49:38,379 copying khmer/_khmermodule.cc -> build/lib.linux-armv7l-cpython-311/khmer 2023-09-08T15:49:38,384 copying tests/.gitignore -> build/lib.linux-armv7l-cpython-311/khmer/tests 2023-09-08T15:49:38,385 creating build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,386 copying tests/test-data/100-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,389 copying tests/test-data/100-reads.fq.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,391 copying tests/test-data/all-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,393 copying tests/test-data/badversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,395 copying tests/test-data/badversion-k12.kh -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,397 copying tests/test-data/badversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,399 copying tests/test-data/badversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,401 copying tests/test-data/biglump-random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,403 copying tests/test-data/combine_parts_1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,405 copying tests/test-data/empty-file -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,407 copying tests/test-data/fakelump.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,410 copying tests/test-data/fakelump.fa.stoptags.txt -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,412 copying tests/test-data/filter-test-A.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,414 copying tests/test-data/filter-test-B.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,416 copying tests/test-data/goodversion-k12.ht -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,418 copying tests/test-data/goodversion-k12.ht.gz -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,420 copying tests/test-data/goodversion-k32.stoptags -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,422 copying tests/test-data/goodversion-k32.tagset -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,424 copying tests/test-data/overlap.curve -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,426 copying tests/test-data/overlap.out -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,427 copying tests/test-data/paired-mixed.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,430 copying tests/test-data/paired-mixed.fa.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,432 copying tests/test-data/paired-mixed.fa.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,433 copying tests/test-data/paired-mixed.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,435 copying tests/test-data/paired-mixed.fq.pe -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,437 copying tests/test-data/paired-mixed.fq.se -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,439 copying tests/test-data/paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,441 copying tests/test-data/paired.fa.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,443 copying tests/test-data/paired.fa.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,445 copying tests/test-data/paired.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,447 copying tests/test-data/paired.fq.1 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,449 copying tests/test-data/paired.fq.2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,451 copying tests/test-data/random-20-X2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,454 copying tests/test-data/random-20-a.even.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,456 copying tests/test-data/random-20-a.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,459 copying tests/test-data/random-20-a.fa.part -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,461 copying tests/test-data/random-20-a.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,464 copying tests/test-data/random-20-a.odd.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,466 copying tests/test-data/random-20-b.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,468 copying tests/test-data/random-31-c.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,472 copying tests/test-data/real-partition-small.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,474 copying tests/test-data/real-partition-tiny.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,476 copying tests/test-data/simple_1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,478 copying tests/test-data/simple_2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,480 copying tests/test-data/simple_3.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,482 copying tests/test-data/single-read.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,483 copying tests/test-data/test-abund-read-2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,486 copying tests/test-data/test-abund-read-2.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,489 copying tests/test-data/test-abund-read-3.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,491 copying tests/test-data/test-abund-read-impaired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,493 copying tests/test-data/test-abund-read-paired.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,495 copying tests/test-data/test-abund-read.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,497 copying tests/test-data/test-colors.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,498 copying tests/test-data/test-empty.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,500 copying tests/test-data/test-empty.fa.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,502 copying tests/test-data/test-error-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,504 copying tests/test-data/test-est.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,506 copying tests/test-data/test-fastq-n-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,509 copying tests/test-data/test-fastq-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,511 copying tests/test-data/test-graph.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,513 copying tests/test-data/test-graph2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,515 copying tests/test-data/test-graph3.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,517 copying tests/test-data/test-graph4.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,519 copying tests/test-data/test-graph5.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,521 copying tests/test-data/test-graph6.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,523 copying tests/test-data/test-labels.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,525 copying tests/test-data/test-output-partitions.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,527 copying tests/test-data/test-overlap1.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,549 copying tests/test-data/test-overlap2.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,574 copying tests/test-data/test-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,613 copying tests/test-data/test-reads.fq.bz2 -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,627 copying tests/test-data/test-short.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,629 copying tests/test-data/test-sweep-contigs.fp -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,631 copying tests/test-data/test-sweep-reads.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,633 copying tests/test-data/test-sweep-reads.fq -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,635 copying tests/test-data/test-transcript.fa -> build/lib.linux-armv7l-cpython-311/khmer/tests/test-data 2023-09-08T15:49:38,639 running build_ext 2023-09-08T15:49:38,639 bash -c "cd third-party/zlib && ( test Makefile -nt configure || bash ./configure --static ) && make -f Makefile.pic PIC" 2023-09-08T15:49:38,742 Checking for gcc... 2023-09-08T15:49:38,972 Building static library libz.a version 1.2.8 with gcc. 2023-09-08T15:49:39,062 Checking for off64_t... Yes. 2023-09-08T15:49:39,069 Checking for fseeko... Yes. 2023-09-08T15:49:39,269 Checking for strerror... Yes. 2023-09-08T15:49:39,435 Checking for unistd.h... Yes. 2023-09-08T15:49:39,541 Checking for stdarg.h... Yes. 2023-09-08T15:49:39,673 Checking whether to use vs[n]printf() or s[n]printf()... using vs[n]printf(). 2023-09-08T15:49:39,884 Checking for vsnprintf() in stdio.h... Yes. 2023-09-08T15:49:39,996 Checking for return value of vsnprintf()... Yes. 2023-09-08T15:49:40,085 Checking for attribute(visibility) support... Yes. 2023-09-08T15:49:40,167 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/adler32.o adler32.c 2023-09-08T15:49:40,553 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/crc32.o crc32.c 2023-09-08T15:49:41,001 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/deflate.o deflate.c 2023-09-08T15:49:43,011 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/infback.o infback.c 2023-09-08T15:49:43,856 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/inffast.o inffast.c 2023-09-08T15:49:44,312 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/inflate.o inflate.c 2023-09-08T15:49:46,205 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/inftrees.o inftrees.c 2023-09-08T15:49:46,725 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/trees.o trees.c 2023-09-08T15:49:48,135 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/zutil.o zutil.c 2023-09-08T15:49:48,317 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/compress.o compress.c 2023-09-08T15:49:48,462 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/uncompr.o uncompr.c 2023-09-08T15:49:48,595 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/gzclose.o gzclose.c 2023-09-08T15:49:48,752 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/gzlib.o gzlib.c 2023-09-08T15:49:49,223 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/gzread.o gzread.c 2023-09-08T15:49:49,798 gcc -O3 -fPIC -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DPIC -c -o objs/gzwrite.o gzwrite.c 2023-09-08T15:49:50,407 bash -c "cd third-party/bzip2 && make -f Makefile-libbz2_so all" 2023-09-08T15:49:50,421 gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -c blocksort.c 2023-09-08T15:49:51,311 In function ‘mainSimpleSort’, 2023-09-08T15:49:51,312 inlined from ‘mainQSort3’ at blocksort.c:651:10, 2023-09-08T15:49:51,313 inlined from ‘mainSort’ at blocksort.c:897:19: 2023-09-08T15:49:51,313 blocksort.c:347:6: warning: inlining failed in call to ‘mainGtU’: --param max-inline-insns-single limit reached [-Winline] 2023-09-08T15:49:51,314 347 | Bool mainGtU ( UInt32 i1, 2023-09-08T15:49:51,315 | ^~~~~~~ 2023-09-08T15:49:51,315 blocksort.c:514:18: note: called from here 2023-09-08T15:49:51,316 514 | while ( mainGtU ( 2023-09-08T15:49:51,317 | ^~~~~~~~~ 2023-09-08T15:49:51,317 515 | ptr[j-h]+d, v+d, block, quadrant, nblock, budget 2023-09-08T15:49:51,318 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:49:51,319 516 | ) ) { 2023-09-08T15:49:51,319 | ~ 2023-09-08T15:49:51,320 blocksort.c:347:6: warning: inlining failed in call to ‘mainGtU’: --param max-inline-insns-single limit reached [-Winline] 2023-09-08T15:49:51,321 347 | Bool mainGtU ( UInt32 i1, 2023-09-08T15:49:51,322 | ^~~~~~~ 2023-09-08T15:49:51,323 blocksort.c:528:18: note: called from here 2023-09-08T15:49:51,323 528 | while ( mainGtU ( 2023-09-08T15:49:51,323 | ^~~~~~~~~ 2023-09-08T15:49:51,324 529 | ptr[j-h]+d, v+d, block, quadrant, nblock, budget 2023-09-08T15:49:51,324 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:49:51,325 530 | ) ) { 2023-09-08T15:49:51,325 | ~ 2023-09-08T15:49:51,326 blocksort.c:347:6: warning: inlining failed in call to ‘mainGtU’: --param max-inline-insns-single limit reached [-Winline] 2023-09-08T15:49:51,326 347 | Bool mainGtU ( UInt32 i1, 2023-09-08T15:49:51,327 | ^~~~~~~ 2023-09-08T15:49:51,327 blocksort.c:542:18: note: called from here 2023-09-08T15:49:51,328 542 | while ( mainGtU ( 2023-09-08T15:49:51,328 | ^~~~~~~~~ 2023-09-08T15:49:51,329 543 | ptr[j-h]+d, v+d, block, quadrant, nblock, budget 2023-09-08T15:49:51,329 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:49:51,330 544 | ) ) { 2023-09-08T15:49:51,330 | ~ 2023-09-08T15:49:52,118 gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -c huffman.c 2023-09-08T15:49:52,580 gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -c crctable.c 2023-09-08T15:49:52,693 gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -c randtable.c 2023-09-08T15:49:52,807 gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -c compress.c 2023-09-08T15:49:57,355 gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -c decompress.c 2023-09-08T15:49:59,911 gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -c bzlib.c 2023-09-08T15:50:01,846 #gcc -shared -Wl,-soname -Wl,libbz2.so.1.0 -o libbz2.so.1.0.6 blocksort.o huffman.o crctable.o randtable.o compress.o decompress.o bzlib.o 2023-09-08T15:50:01,848 #gcc -fpic -fPIC -Wall -Winline -O2 -g -D_FILE_OFFSET_BITS=64 -o bzip2-shared bzip2.c libbz2.so.1.0.6 2023-09-08T15:50:01,851 #rm -f libbz2.so.1.0 2023-09-08T15:50:01,853 #ln -s libbz2.so.1.0.6 libbz2.so.1.0 2023-09-08T15:50:02,364 building 'khmer._khmermodule' extension 2023-09-08T15:50:02,365 creating build/temp.linux-armv7l-cpython-311 2023-09-08T15:50:02,365 creating build/temp.linux-armv7l-cpython-311/khmer 2023-09-08T15:50:02,367 creating build/temp.linux-armv7l-cpython-311/lib 2023-09-08T15:50:02,367 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DVERSION=1.1 -UNO_UNIQUE_RC -Ilib -Ithird-party/zlib -Ithird-party/bzip2 -I/usr/include/python3.11 -c khmer/_khmermodule.cc -o build/temp.linux-armv7l-cpython-311/khmer/_khmermodule.o -O3 2023-09-08T15:50:05,284 khmer/_khmermodule.cc: In function ‘void khmer::python::_common_init_Type(PyTypeObject&, const char*, const char*)’: 2023-09-08T15:50:05,285 khmer/_khmermodule.cc:79:10: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘ob_size’ 2023-09-08T15:50:05,286 79 | tobj.ob_size = 0; 2023-09-08T15:50:05,286 | ^~~~~~~ 2023-09-08T15:50:05,287 khmer/_khmermodule.cc:80:10: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘ob_type’ 2023-09-08T15:50:05,288 80 | tobj.ob_type = &PyType_Type; 2023-09-08T15:50:05,288 | ^~~~~~~ 2023-09-08T15:50:05,291 khmer/_khmermodule.cc: At global scope: 2023-09-08T15:50:05,292 khmer/_khmermodule.cc:200:5: error: invalid conversion from ‘const char*’ to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:05,293 200 | "Config", sizeof(khmer_ConfigObject), 2023-09-08T15:50:05,293 | ^~~~~~~~ 2023-09-08T15:50:05,294 | | 2023-09-08T15:50:05,295 | const char* 2023-09-08T15:50:05,296 khmer/_khmermodule.cc:202:5: error: invalid conversion from ‘void (*)(PyObject*)’ {aka ‘void (*)(_object*)’} to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:05,296 202 | khmer_config_dealloc, /*tp_dealloc*/ 2023-09-08T15:50:05,297 | ^~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,297 | | 2023-09-08T15:50:05,298 | void (*)(PyObject*) {aka void (*)(_object*)} 2023-09-08T15:50:05,298 khmer/_khmermodule.cc:204:5: error: invalid conversion from ‘PyObject* (*)(PyObject*, char*)’ {aka ‘_object* (*)(_object*, char*)’} to ‘setattrfunc’ {aka ‘int (*)(_object*, char*, _object*)’} [-fpermissive] 2023-09-08T15:50:05,299 204 | khmer_config_getattr, /*tp_getattr*/ 2023-09-08T15:50:05,300 | ^~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,300 | | 2023-09-08T15:50:05,301 | PyObject* (*)(PyObject*, char*) {aka _object* (*)(_object*, char*)} 2023-09-08T15:50:05,301 In file included from /usr/include/python3.11/Python.h:44, 2023-09-08T15:50:05,302 from khmer/_khmermodule.cc:13: 2023-09-08T15:50:05,302 /usr/include/python3.11/object.h:423:54: error: invalid conversion from ‘int’ to ‘const char*’ [-fpermissive] 2023-09-08T15:50:05,303 422 | #define Py_TPFLAGS_DEFAULT ( \ 2023-09-08T15:50:05,303 | ~~~ 2023-09-08T15:50:05,304 423 | Py_TPFLAGS_HAVE_STACKLESS_EXTENSION | \ 2023-09-08T15:50:05,304 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ 2023-09-08T15:50:05,305 | | 2023-09-08T15:50:05,306 | int 2023-09-08T15:50:05,306 424 | 0) 2023-09-08T15:50:05,307 | ~~ 2023-09-08T15:50:05,307 khmer/_khmermodule.cc:217:5: note: in expansion of macro ‘Py_TPFLAGS_DEFAULT’ 2023-09-08T15:50:05,308 217 | Py_TPFLAGS_DEFAULT, /*tp_flags*/ 2023-09-08T15:50:05,309 | ^~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,309 khmer/_khmermodule.cc:218:5: error: cannot convert ‘const char*’ to ‘traverseproc’ {aka ‘int (*)(_object*, int (*)(_object*, void*), void*)’} in initialization 2023-09-08T15:50:05,310 218 | "config object", /* tp_doc */ 2023-09-08T15:50:05,310 | ^~~~~~~~~~~~~~~ 2023-09-08T15:50:05,311 | | 2023-09-08T15:50:05,311 | const char* 2023-09-08T15:50:05,319 khmer/_khmermodule.cc: In function ‘PyObject* config_get_number_of_threads(PyObject*, PyObject*)’: 2023-09-08T15:50:05,320 khmer/_khmermodule.cc:306:12: error: ‘PyInt_FromSize_t’ was not declared in this scope; did you mean ‘PyLong_FromSize_t’? 2023-09-08T15:50:05,320 306 | return PyInt_FromSize_t( (size_t)config->get_number_of_threads( ) ); 2023-09-08T15:50:05,321 | ^~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,322 | PyLong_FromSize_t 2023-09-08T15:50:05,344 khmer/_khmermodule.cc: In function ‘PyObject* config_get_input_buffer_trace_level(PyObject*, PyObject*)’: 2023-09-08T15:50:05,345 khmer/_khmermodule.cc:364:12: error: ‘PyInt_FromSize_t’ was not declared in this scope; did you mean ‘PyLong_FromSize_t’? 2023-09-08T15:50:05,345 364 | return PyInt_FromSize_t( (size_t)config->get_input_buffer_trace_level( ) ); 2023-09-08T15:50:05,346 | ^~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,347 | PyLong_FromSize_t 2023-09-08T15:50:05,368 khmer/_khmermodule.cc: In function ‘PyObject* config_get_reads_parser_trace_level(PyObject*, PyObject*)’: 2023-09-08T15:50:05,368 khmer/_khmermodule.cc:393:12: error: ‘PyInt_FromSize_t’ was not declared in this scope; did you mean ‘PyLong_FromSize_t’? 2023-09-08T15:50:05,369 393 | return PyInt_FromSize_t( (size_t)config->get_reads_parser_trace_level( ) ); 2023-09-08T15:50:05,370 | ^~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,371 | PyLong_FromSize_t 2023-09-08T15:50:05,392 khmer/_khmermodule.cc: In function ‘PyObject* khmer_config_getattr(PyObject*, char*)’: 2023-09-08T15:50:05,393 khmer/_khmermodule.cc:460:12: error: ‘Py_FindMethod’ was not declared in this scope; did you mean ‘PyCMethod’? 2023-09-08T15:50:05,393 460 | return Py_FindMethod(khmer_config_methods, obj, name); 2023-09-08T15:50:05,394 | ^~~~~~~~~~~~~ 2023-09-08T15:50:05,395 | PyCMethod 2023-09-08T15:50:05,419 khmer/_khmermodule.cc: In function ‘PyObject* khmer::python::Read_get_name(PyObject*, void*)’: 2023-09-08T15:50:05,420 khmer/_khmermodule.cc:498:5: error: ‘PyString_FromString’ was not declared in this scope; did you mean ‘PyLong_FromString’? 2023-09-08T15:50:05,421 498 | PyString_FromString( \ 2023-09-08T15:50:05,421 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,422 khmer/_khmermodule.cc:507:12: note: in expansion of macro ‘KHMER_READ_STRING_GETTER’ 2023-09-08T15:50:05,422 507 | return KHMER_READ_STRING_GETTER( self, name ); 2023-09-08T15:50:05,423 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,446 khmer/_khmermodule.cc: In function ‘PyObject* khmer::python::Read_get_sequence(PyObject*, void*)’: 2023-09-08T15:50:05,447 khmer/_khmermodule.cc:498:5: error: ‘PyString_FromString’ was not declared in this scope; did you mean ‘PyLong_FromString’? 2023-09-08T15:50:05,448 498 | PyString_FromString( \ 2023-09-08T15:50:05,448 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,449 khmer/_khmermodule.cc:515:12: note: in expansion of macro ‘KHMER_READ_STRING_GETTER’ 2023-09-08T15:50:05,449 515 | return KHMER_READ_STRING_GETTER( self, sequence ); 2023-09-08T15:50:05,450 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,473 khmer/_khmermodule.cc: In function ‘PyObject* khmer::python::Read_get_accuracy(PyObject*, void*)’: 2023-09-08T15:50:05,473 khmer/_khmermodule.cc:498:5: error: ‘PyString_FromString’ was not declared in this scope; did you mean ‘PyLong_FromString’? 2023-09-08T15:50:05,474 498 | PyString_FromString( \ 2023-09-08T15:50:05,475 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,476 khmer/_khmermodule.cc:523:12: note: in expansion of macro ‘KHMER_READ_STRING_GETTER’ 2023-09-08T15:50:05,476 523 | return KHMER_READ_STRING_GETTER( self, accuracy ); 2023-09-08T15:50:05,477 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,499 khmer/_khmermodule.cc: In function ‘PyObject* khmer::python::Read_get_annotations(PyObject*, void*)’: 2023-09-08T15:50:05,500 khmer/_khmermodule.cc:498:5: error: ‘PyString_FromString’ was not declared in this scope; did you mean ‘PyLong_FromString’? 2023-09-08T15:50:05,501 498 | PyString_FromString( \ 2023-09-08T15:50:05,501 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,502 khmer/_khmermodule.cc:531:12: note: in expansion of macro ‘KHMER_READ_STRING_GETTER’ 2023-09-08T15:50:05,503 531 | return KHMER_READ_STRING_GETTER( self, annotations ); 2023-09-08T15:50:05,503 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,546 khmer/_khmermodule.cc: In function ‘void khmer::python::_init_ReadParser_Type()’: 2023-09-08T15:50:05,547 khmer/_khmermodule.cc:871:24: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,548 871 | PyObject * value = PyInt_FromLong( IParser:: PAIR_MODE_ALLOW_UNPAIRED ); 2023-09-08T15:50:05,548 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,549 | PyLong_FromLong 2023-09-08T15:50:05,550 khmer/_khmermodule.cc: At global scope: 2023-09-08T15:50:05,551 khmer/_khmermodule.cc:983:5: error: invalid conversion from ‘const char*’ to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:05,552 983 | "KSubset", sizeof(khmer_KSubsetPartitionObject), 2023-09-08T15:50:05,553 | ^~~~~~~~~ 2023-09-08T15:50:05,554 | | 2023-09-08T15:50:05,554 | const char* 2023-09-08T15:50:05,555 khmer/_khmermodule.cc:985:5: error: invalid conversion from ‘void (*)(PyObject*)’ {aka ‘void (*)(_object*)’} to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:05,555 985 | khmer_subset_dealloc, /*tp_dealloc*/ 2023-09-08T15:50:05,556 | ^~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,557 | | 2023-09-08T15:50:05,557 | void (*)(PyObject*) {aka void (*)(_object*)} 2023-09-08T15:50:05,558 khmer/_khmermodule.cc:987:5: error: invalid conversion from ‘PyObject* (*)(PyObject*, char*)’ {aka ‘_object* (*)(_object*, char*)’} to ‘setattrfunc’ {aka ‘int (*)(_object*, char*, _object*)’} [-fpermissive] 2023-09-08T15:50:05,558 987 | khmer_subset_getattr, /*tp_getattr*/ 2023-09-08T15:50:05,559 | ^~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,560 | | 2023-09-08T15:50:05,560 | PyObject* (*)(PyObject*, char*) {aka _object* (*)(_object*, char*)} 2023-09-08T15:50:05,561 /usr/include/python3.11/object.h:423:54: error: invalid conversion from ‘int’ to ‘const char*’ [-fpermissive] 2023-09-08T15:50:05,561 422 | #define Py_TPFLAGS_DEFAULT ( \ 2023-09-08T15:50:05,562 | ~~~ 2023-09-08T15:50:05,562 423 | Py_TPFLAGS_HAVE_STACKLESS_EXTENSION | \ 2023-09-08T15:50:05,563 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ 2023-09-08T15:50:05,563 | | 2023-09-08T15:50:05,564 | int 2023-09-08T15:50:05,565 424 | 0) 2023-09-08T15:50:05,565 | ~~ 2023-09-08T15:50:05,565 khmer/_khmermodule.cc:1000:5: note: in expansion of macro ‘Py_TPFLAGS_DEFAULT’ 2023-09-08T15:50:05,566 1000 | Py_TPFLAGS_DEFAULT, /*tp_flags*/ 2023-09-08T15:50:05,567 | ^~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,567 khmer/_khmermodule.cc:1001:5: error: cannot convert ‘const char*’ to ‘traverseproc’ {aka ‘int (*)(_object*, int (*)(_object*, void*), void*)’} in initialization 2023-09-08T15:50:05,567 1001 | "subset object", /* tp_doc */ 2023-09-08T15:50:05,568 | ^~~~~~~~~~~~~~~ 2023-09-08T15:50:05,568 | | 2023-09-08T15:50:05,569 | const char* 2023-09-08T15:50:05,579 khmer/_khmermodule.cc: In function ‘PyObject* hash_count(PyObject*, PyObject*)’: 2023-09-08T15:50:05,579 khmer/_khmermodule.cc:1099:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,580 1099 | return PyInt_FromLong(1); 2023-09-08T15:50:05,581 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,582 | PyLong_FromLong 2023-09-08T15:50:05,601 khmer/_khmermodule.cc: In function ‘PyObject* hash_output_fasta_kmer_pos_freq(PyObject*, PyObject*)’: 2023-09-08T15:50:05,602 khmer/_khmermodule.cc:1116:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,603 1116 | return PyInt_FromLong(0); 2023-09-08T15:50:05,603 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,604 | PyLong_FromLong 2023-09-08T15:50:05,628 khmer/_khmermodule.cc: In function ‘PyObject* hash_consume(PyObject*, PyObject*)’: 2023-09-08T15:50:05,628 khmer/_khmermodule.cc:1214:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,629 1214 | return PyInt_FromLong(n_consumed); 2023-09-08T15:50:05,630 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,631 | PyLong_FromLong 2023-09-08T15:50:05,651 khmer/_khmermodule.cc: In function ‘PyObject* hash_consume_high_abund_kmers(PyObject*, PyObject*)’: 2023-09-08T15:50:05,652 khmer/_khmermodule.cc:1246:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,653 1246 | return PyInt_FromLong(n_consumed); 2023-09-08T15:50:05,653 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,654 | PyLong_FromLong 2023-09-08T15:50:05,674 khmer/_khmermodule.cc: In function ‘PyObject* hash_get_min_count(PyObject*, PyObject*)’: 2023-09-08T15:50:05,674 khmer/_khmermodule.cc:1269:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,675 1269 | return PyInt_FromLong(N); 2023-09-08T15:50:05,676 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,676 | PyLong_FromLong 2023-09-08T15:50:05,697 khmer/_khmermodule.cc: In function ‘PyObject* hash_get_max_count(PyObject*, PyObject*)’: 2023-09-08T15:50:05,698 khmer/_khmermodule.cc:1292:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,698 1292 | return PyInt_FromLong(N); 2023-09-08T15:50:05,699 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,699 | PyLong_FromLong 2023-09-08T15:50:05,717 khmer/_khmermodule.cc: In function ‘PyObject* hash_get(PyObject*, PyObject*)’: 2023-09-08T15:50:05,718 khmer/_khmermodule.cc:1358:9: error: ‘PyInt_Check’ was not declared in this scope; did you mean ‘PySet_Check’? 2023-09-08T15:50:05,719 1358 | if (PyInt_Check(arg)) { 2023-09-08T15:50:05,719 | ^~~~~~~~~~~ 2023-09-08T15:50:05,720 | PySet_Check 2023-09-08T15:50:05,737 khmer/_khmermodule.cc:1359:20: error: ‘PyInt_AsLong’ was not declared in this scope; did you mean ‘PyLong_AsLong’? 2023-09-08T15:50:05,738 1359 | long pos = PyInt_AsLong(arg); 2023-09-08T15:50:05,739 | ^~~~~~~~~~~~ 2023-09-08T15:50:05,739 | PyLong_AsLong 2023-09-08T15:50:05,760 khmer/_khmermodule.cc:1361:16: error: ‘PyString_Check’ was not declared in this scope; did you mean ‘PyMapping_Check’? 2023-09-08T15:50:05,761 1361 | } else if (PyString_Check(arg)) { 2023-09-08T15:50:05,761 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,762 | PyMapping_Check 2023-09-08T15:50:05,787 khmer/_khmermodule.cc:1362:25: error: ‘PyString_AsString’ was not declared in this scope 2023-09-08T15:50:05,788 1362 | std::string s = PyString_AsString(arg); 2023-09-08T15:50:05,788 | ^~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,808 khmer/_khmermodule.cc:1366:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,809 1366 | return PyInt_FromLong(count); 2023-09-08T15:50:05,810 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,811 | PyLong_FromLong 2023-09-08T15:50:05,837 khmer/_khmermodule.cc: In function ‘PyObject* count_trim_on_abundance(PyObject*, PyObject*)’: 2023-09-08T15:50:05,837 khmer/_khmermodule.cc:1390:27: error: ‘PyString_FromStringAndSize’ was not declared in this scope; did you mean ‘PyBytes_FromStringAndSize’? 2023-09-08T15:50:05,838 1390 | PyObject * trim_seq = PyString_FromStringAndSize(seq, trim_at); 2023-09-08T15:50:05,839 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,840 | PyBytes_FromStringAndSize 2023-09-08T15:50:05,865 khmer/_khmermodule.cc: In function ‘PyObject* count_trim_below_abundance(PyObject*, PyObject*)’: 2023-09-08T15:50:05,866 khmer/_khmermodule.cc:1417:27: error: ‘PyString_FromStringAndSize’ was not declared in this scope; did you mean ‘PyBytes_FromStringAndSize’? 2023-09-08T15:50:05,867 1417 | PyObject * trim_seq = PyString_FromStringAndSize(seq, trim_at); 2023-09-08T15:50:05,867 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,868 | PyBytes_FromStringAndSize 2023-09-08T15:50:05,896 khmer/_khmermodule.cc: In function ‘PyObject* hash_get_ksize(PyObject*, PyObject*)’: 2023-09-08T15:50:05,896 khmer/_khmermodule.cc:1577:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:05,897 1577 | return PyInt_FromLong(k); 2023-09-08T15:50:05,897 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:05,898 | PyLong_FromLong 2023-09-08T15:50:05,930 khmer/_khmermodule.cc: In function ‘PyObject* hash_find_all_tags_truncate_on_abundance(PyObject*, PyObject*)’: 2023-09-08T15:50:05,931 khmer/_khmermodule.cc:1691:12: error: ‘PyCObject_FromVoidPtr’ was not declared in this scope; did you mean ‘PyLong_FromVoidPtr’? 2023-09-08T15:50:05,931 1691 | return PyCObject_FromVoidPtr(ppi, free_pre_partition_info); 2023-09-08T15:50:05,932 | ^~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,933 | PyLong_FromVoidPtr 2023-09-08T15:50:05,958 khmer/_khmermodule.cc: In function ‘PyObject* khmer_counting_getattr(PyObject*, char*)’: 2023-09-08T15:50:05,958 khmer/_khmermodule.cc:1794:12: error: ‘Py_FindMethod’ was not declared in this scope; did you mean ‘PyCMethod’? 2023-09-08T15:50:05,959 1794 | return Py_FindMethod(khmer_counting_methods, obj, name); 2023-09-08T15:50:05,960 | ^~~~~~~~~~~~~ 2023-09-08T15:50:05,960 | PyCMethod 2023-09-08T15:50:05,961 khmer/_khmermodule.cc: At global scope: 2023-09-08T15:50:05,962 khmer/_khmermodule.cc:1804:5: error: invalid conversion from ‘const char*’ to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:05,962 1804 | "KCountingHash", sizeof(khmer_KCountingHashObject), 2023-09-08T15:50:05,963 | ^~~~~~~~~~~~~~~ 2023-09-08T15:50:05,964 | | 2023-09-08T15:50:05,965 | const char* 2023-09-08T15:50:05,965 khmer/_khmermodule.cc:1806:5: error: invalid conversion from ‘void (*)(PyObject*)’ {aka ‘void (*)(_object*)’} to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:05,966 1806 | khmer_counting_dealloc, /*tp_dealloc*/ 2023-09-08T15:50:05,967 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,968 | | 2023-09-08T15:50:05,969 | void (*)(PyObject*) {aka void (*)(_object*)} 2023-09-08T15:50:05,969 khmer/_khmermodule.cc:1808:5: error: invalid conversion from ‘PyObject* (*)(PyObject*, char*)’ {aka ‘_object* (*)(_object*, char*)’} to ‘setattrfunc’ {aka ‘int (*)(_object*, char*, _object*)’} [-fpermissive] 2023-09-08T15:50:05,970 1808 | khmer_counting_getattr, /*tp_getattr*/ 2023-09-08T15:50:05,971 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,971 | | 2023-09-08T15:50:05,972 | PyObject* (*)(PyObject*, char*) {aka _object* (*)(_object*, char*)} 2023-09-08T15:50:05,972 /usr/include/python3.11/object.h:423:54: error: invalid conversion from ‘int’ to ‘const char*’ [-fpermissive] 2023-09-08T15:50:05,973 422 | #define Py_TPFLAGS_DEFAULT ( \ 2023-09-08T15:50:05,974 | ~~~ 2023-09-08T15:50:05,974 423 | Py_TPFLAGS_HAVE_STACKLESS_EXTENSION | \ 2023-09-08T15:50:05,975 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ 2023-09-08T15:50:05,975 | | 2023-09-08T15:50:05,976 | int 2023-09-08T15:50:05,976 424 | 0) 2023-09-08T15:50:05,977 | ~~ 2023-09-08T15:50:05,978 khmer/_khmermodule.cc:1821:5: note: in expansion of macro ‘Py_TPFLAGS_DEFAULT’ 2023-09-08T15:50:05,978 1821 | Py_TPFLAGS_DEFAULT, /*tp_flags*/ 2023-09-08T15:50:05,979 | ^~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,980 khmer/_khmermodule.cc:1822:5: error: cannot convert ‘const char*’ to ‘traverseproc’ {aka ‘int (*)(_object*, int (*)(_object*, void*), void*)’} in initialization 2023-09-08T15:50:05,980 1822 | "counting hash object", /* tp_doc */ 2023-09-08T15:50:05,981 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:05,982 | | 2023-09-08T15:50:05,982 | const char* 2023-09-08T15:50:05,983 khmer/_khmermodule.cc: In function ‘PyObject* _new_counting_hash(PyObject*, PyObject*)’: 2023-09-08T15:50:05,984 khmer/_khmermodule.cc:1873:13: error: ‘PyInt_Check’ was not declared in this scope; did you mean ‘PySet_Check’? 2023-09-08T15:50:05,984 1873 | if (PyInt_Check(size_o)) { 2023-09-08T15:50:05,985 | ^~~~~~~~~~~ 2023-09-08T15:50:05,985 | PySet_Check 2023-09-08T15:50:06,001 khmer/_khmermodule.cc:1874:44: error: ‘PyInt_AsLong’ was not declared in this scope; did you mean ‘PyLong_AsLong’? 2023-09-08T15:50:06,001 1874 | sizes.push_back((HashIntoType) PyInt_AsLong(size_o)); 2023-09-08T15:50:06,002 | ^~~~~~~~~~~~ 2023-09-08T15:50:06,002 | PyLong_AsLong 2023-09-08T15:50:06,003 khmer/_khmermodule.cc: At global scope: 2023-09-08T15:50:06,004 khmer/_khmermodule.cc:1912:5: error: invalid conversion from ‘const char*’ to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:06,004 1912 | "Hashbits", sizeof(khmer_KHashbitsObject), 2023-09-08T15:50:06,005 | ^~~~~~~~~~ 2023-09-08T15:50:06,005 | | 2023-09-08T15:50:06,006 | const char* 2023-09-08T15:50:06,007 khmer/_khmermodule.cc:1914:5: error: invalid conversion from ‘void (*)(PyObject*)’ {aka ‘void (*)(_object*)’} to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:06,007 1914 | (destructor)khmer_hashbits_dealloc, /*tp_dealloc*/ 2023-09-08T15:50:06,008 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,008 | | 2023-09-08T15:50:06,009 | void (*)(PyObject*) {aka void (*)(_object*)} 2023-09-08T15:50:06,010 khmer/_khmermodule.cc:1916:5: error: invalid conversion from ‘PyObject* (*)(PyObject*, char*)’ {aka ‘_object* (*)(_object*, char*)’} to ‘setattrfunc’ {aka ‘int (*)(_object*, char*, _object*)’} [-fpermissive] 2023-09-08T15:50:06,011 1916 | khmer_hashbits_getattr, /*tp_getattr*/ 2023-09-08T15:50:06,011 | ^~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,012 | | 2023-09-08T15:50:06,013 | PyObject* (*)(PyObject*, char*) {aka _object* (*)(_object*, char*)} 2023-09-08T15:50:06,014 khmer/_khmermodule.cc:1929:24: error: invalid conversion from ‘long unsigned int’ to ‘const char*’ [-fpermissive] 2023-09-08T15:50:06,014 1929 | Py_TPFLAGS_DEFAULT | Py_TPFLAGS_BASETYPE, /*tp_flags*/ 2023-09-08T15:50:06,015 khmer/_khmermodule.cc:1930:5: error: cannot convert ‘const char*’ to ‘traverseproc’ {aka ‘int (*)(_object*, int (*)(_object*, void*), void*)’} in initialization 2023-09-08T15:50:06,016 1930 | "hashbits object", /* tp_doc */ 2023-09-08T15:50:06,017 | ^~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,017 | | 2023-09-08T15:50:06,018 | const char* 2023-09-08T15:50:06,037 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_n_tags(PyObject*, PyObject*)’: 2023-09-08T15:50:06,038 khmer/_khmermodule.cc:2116:12: error: ‘PyInt_FromSize_t’ was not declared in this scope; did you mean ‘PyLong_FromSize_t’? 2023-09-08T15:50:06,039 2116 | return PyInt_FromSize_t(hashbits->n_tags()); 2023-09-08T15:50:06,040 | ^~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,041 | PyLong_FromSize_t 2023-09-08T15:50:06,060 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_count(PyObject*, PyObject*)’: 2023-09-08T15:50:06,061 khmer/_khmermodule.cc:2138:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,062 2138 | return PyInt_FromLong(1); 2023-09-08T15:50:06,063 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,063 | PyLong_FromLong 2023-09-08T15:50:06,083 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_consume(PyObject*, PyObject*)’: 2023-09-08T15:50:06,084 khmer/_khmermodule.cc:2161:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,084 2161 | return PyInt_FromLong(n_consumed); 2023-09-08T15:50:06,085 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,086 | PyLong_FromLong 2023-09-08T15:50:06,117 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_repartition_largest_partition(PyObject*, PyObject*)’: 2023-09-08T15:50:06,118 khmer/_khmermodule.cc:2275:40: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope; did you mean ‘PyLong_AsVoidPtr’? 2023-09-08T15:50:06,119 2275 | subset_p = (SubsetPartition *) PyCObject_AsVoidPtr(subset_o); 2023-09-08T15:50:06,119 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,120 | PyLong_AsVoidPtr 2023-09-08T15:50:06,140 khmer/_khmermodule.cc:2285:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,140 2285 | return PyInt_FromLong(next_largest); 2023-09-08T15:50:06,141 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,142 | PyLong_FromLong 2023-09-08T15:50:06,158 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_get(PyObject*, PyObject*)’: 2023-09-08T15:50:06,158 khmer/_khmermodule.cc:2301:9: error: ‘PyInt_Check’ was not declared in this scope; did you mean ‘PySet_Check’? 2023-09-08T15:50:06,159 2301 | if (PyInt_Check(arg)) { 2023-09-08T15:50:06,160 | ^~~~~~~~~~~ 2023-09-08T15:50:06,161 | PySet_Check 2023-09-08T15:50:06,177 khmer/_khmermodule.cc:2302:20: error: ‘PyInt_AsLong’ was not declared in this scope; did you mean ‘PyLong_AsLong’? 2023-09-08T15:50:06,178 2302 | long pos = PyInt_AsLong(arg); 2023-09-08T15:50:06,179 | ^~~~~~~~~~~~ 2023-09-08T15:50:06,180 | PyLong_AsLong 2023-09-08T15:50:06,201 khmer/_khmermodule.cc:2304:16: error: ‘PyString_Check’ was not declared in this scope; did you mean ‘PyMapping_Check’? 2023-09-08T15:50:06,201 2304 | } else if (PyString_Check(arg)) { 2023-09-08T15:50:06,202 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,203 | PyMapping_Check 2023-09-08T15:50:06,228 khmer/_khmermodule.cc:2305:25: error: ‘PyString_AsString’ was not declared in this scope 2023-09-08T15:50:06,228 2305 | std::string s = PyString_AsString(arg); 2023-09-08T15:50:06,229 | ^~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,250 khmer/_khmermodule.cc:2312:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,250 2312 | return PyInt_FromLong(count); 2023-09-08T15:50:06,251 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,252 | PyLong_FromLong 2023-09-08T15:50:06,274 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_kmer_degree(PyObject*, PyObject*)’: 2023-09-08T15:50:06,274 khmer/_khmermodule.cc:2354:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,275 2354 | return PyInt_FromLong(hashbits->kmer_degree(kmer_s)); 2023-09-08T15:50:06,276 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,277 | PyLong_FromLong 2023-09-08T15:50:06,302 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_trim_on_stoptags(PyObject*, PyObject*)’: 2023-09-08T15:50:06,303 khmer/_khmermodule.cc:2375:27: error: ‘PyString_FromStringAndSize’ was not declared in this scope; did you mean ‘PyBytes_FromStringAndSize’? 2023-09-08T15:50:06,304 2375 | PyObject * trim_seq = PyString_FromStringAndSize(seq, trim_at); 2023-09-08T15:50:06,305 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,305 | PyBytes_FromStringAndSize 2023-09-08T15:50:06,346 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_do_subset_partition(PyObject*, PyObject*)’: 2023-09-08T15:50:06,346 khmer/_khmermodule.cc:2450:12: error: ‘PyCObject_FromVoidPtr’ was not declared in this scope; did you mean ‘PyLong_FromVoidPtr’? 2023-09-08T15:50:06,347 2450 | return PyCObject_FromVoidPtr(subset_p, free_subset_partition_info); 2023-09-08T15:50:06,347 | ^~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,348 | PyLong_FromVoidPtr 2023-09-08T15:50:06,372 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_merge_subset(PyObject*, PyObject*)’: 2023-09-08T15:50:06,373 khmer/_khmermodule.cc:2478:10: error: ‘PyCObject_Check’ was not declared in this scope; did you mean ‘PyODict_Check’? 2023-09-08T15:50:06,373 2478 | if (!PyCObject_Check(subset_obj)) { 2023-09-08T15:50:06,374 | ^~~~~~~~~~~~~~~ 2023-09-08T15:50:06,375 | PyODict_Check 2023-09-08T15:50:06,401 khmer/_khmermodule.cc:2484:36: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope; did you mean ‘PyLong_AsVoidPtr’? 2023-09-08T15:50:06,402 2484 | subset_p = (SubsetPartition *) PyCObject_AsVoidPtr(subset_obj); 2023-09-08T15:50:06,402 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,403 | PyLong_AsVoidPtr 2023-09-08T15:50:06,446 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_find_all_tags(PyObject*, PyObject*)’: 2023-09-08T15:50:06,447 khmer/_khmermodule.cc:2776:12: error: ‘PyCObject_FromVoidPtr’ was not declared in this scope; did you mean ‘PyLong_FromVoidPtr’? 2023-09-08T15:50:06,448 2776 | return PyCObject_FromVoidPtr(ppi, free_pre_partition_info); 2023-09-08T15:50:06,448 | ^~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,449 | PyLong_FromVoidPtr 2023-09-08T15:50:06,472 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_assign_partition_id(PyObject*, PyObject*)’: 2023-09-08T15:50:06,472 khmer/_khmermodule.cc:2789:10: error: ‘PyCObject_Check’ was not declared in this scope; did you mean ‘PyODict_Check’? 2023-09-08T15:50:06,473 2789 | if (!PyCObject_Check(ppi_obj)) { 2023-09-08T15:50:06,474 | ^~~~~~~~~~~~~~~ 2023-09-08T15:50:06,475 | PyODict_Check 2023-09-08T15:50:06,501 khmer/_khmermodule.cc:2795:35: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope; did you mean ‘PyLong_AsVoidPtr’? 2023-09-08T15:50:06,502 2795 | ppi = (_pre_partition_info *) PyCObject_AsVoidPtr(ppi_obj); 2023-09-08T15:50:06,503 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,503 | PyLong_AsVoidPtr 2023-09-08T15:50:06,523 khmer/_khmermodule.cc:2801:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,524 2801 | return PyInt_FromLong(p); 2023-09-08T15:50:06,525 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,526 | PyLong_FromLong 2023-09-08T15:50:06,552 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_output_partitions(PyObject*, PyObject*)’: 2023-09-08T15:50:06,553 khmer/_khmermodule.cc:2920:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,554 2920 | return PyInt_FromLong(n_partitions); 2023-09-08T15:50:06,554 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,555 | PyLong_FromLong 2023-09-08T15:50:06,576 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_find_unpart(PyObject*, PyObject*)’: 2023-09-08T15:50:06,576 khmer/_khmermodule.cc:2951:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,577 2951 | return PyInt_FromLong(n_singletons); 2023-09-08T15:50:06,578 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,578 | PyLong_FromLong 2023-09-08T15:50:06,610 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_subset_count_partitions(PyObject*, PyObject*)’: 2023-09-08T15:50:06,610 khmer/_khmermodule.cc:3051:36: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope; did you mean ‘PyLong_AsVoidPtr’? 2023-09-08T15:50:06,611 3051 | subset_p = (SubsetPartition *) PyCObject_AsVoidPtr(subset_obj); 2023-09-08T15:50:06,612 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,612 | PyLong_AsVoidPtr 2023-09-08T15:50:06,639 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_subset_partition_size_distribution(PyObject*, PyObject*)’: 2023-09-08T15:50:06,640 khmer/_khmermodule.cc:3069:36: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope; did you mean ‘PyLong_AsVoidPtr’? 2023-09-08T15:50:06,641 3069 | subset_p = (SubsetPartition *) PyCObject_AsVoidPtr(subset_obj); 2023-09-08T15:50:06,641 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,642 | PyLong_AsVoidPtr 2023-09-08T15:50:06,698 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_save_subset_partitionmap(PyObject*, PyObject*)’: 2023-09-08T15:50:06,699 khmer/_khmermodule.cc:3191:36: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope; did you mean ‘PyLong_AsVoidPtr’? 2023-09-08T15:50:06,700 3191 | subset_p = (SubsetPartition *) PyCObject_AsVoidPtr(subset_obj); 2023-09-08T15:50:06,700 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,701 | PyLong_AsVoidPtr 2023-09-08T15:50:06,730 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_load_subset_partitionmap(PyObject*, PyObject*)’: 2023-09-08T15:50:06,731 khmer/_khmermodule.cc:3235:16: error: ‘PyCObject_FromVoidPtr’ was not declared in this scope; did you mean ‘PyLong_FromVoidPtr’? 2023-09-08T15:50:06,732 3235 | return PyCObject_FromVoidPtr(subset_p, free_subset_partition_info); 2023-09-08T15:50:06,733 | ^~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,733 | PyLong_FromVoidPtr 2023-09-08T15:50:06,753 khmer/_khmermodule.cc: In function ‘PyObject* hashbits__get_tag_density(PyObject*, PyObject*)’: 2023-09-08T15:50:06,754 khmer/_khmermodule.cc:3265:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,755 3265 | return PyInt_FromLong(d); 2023-09-08T15:50:06,756 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,757 | PyLong_FromLong 2023-09-08T15:50:06,783 khmer/_khmermodule.cc: In function ‘PyObject* hashbits__validate_subset_partitionmap(PyObject*, PyObject*)’: 2023-09-08T15:50:06,784 khmer/_khmermodule.cc:3277:36: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope; did you mean ‘PyLong_AsVoidPtr’? 2023-09-08T15:50:06,785 3277 | subset_p = (SubsetPartition *) PyCObject_AsVoidPtr(subset_obj); 2023-09-08T15:50:06,785 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,786 | PyLong_AsVoidPtr 2023-09-08T15:50:06,807 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_join_partitions(PyObject*, PyObject*)’: 2023-09-08T15:50:06,808 khmer/_khmermodule.cc:3313:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,809 3313 | return PyInt_FromLong(p1); 2023-09-08T15:50:06,809 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,810 | PyLong_FromLong 2023-09-08T15:50:06,830 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_get_partition_id(PyObject*, PyObject*)’: 2023-09-08T15:50:06,831 khmer/_khmermodule.cc:3330:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,832 3330 | return PyInt_FromLong(partition_id); 2023-09-08T15:50:06,832 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,833 | PyLong_FromLong 2023-09-08T15:50:06,858 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_get_ksize(PyObject*, PyObject*)’: 2023-09-08T15:50:06,859 khmer/_khmermodule.cc:3472:12: error: ‘PyInt_FromLong’ was not declared in this scope; did you mean ‘PyLong_FromLong’? 2023-09-08T15:50:06,859 3472 | return PyInt_FromLong(k); 2023-09-08T15:50:06,860 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,861 | PyLong_FromLong 2023-09-08T15:50:06,899 In file included from /usr/include/python3.11/Python.h:38: 2023-09-08T15:50:06,899 khmer/_khmermodule.cc: In function ‘PyObject* hashbits_extract_unique_paths(PyObject*, PyObject*)’: 2023-09-08T15:50:06,900 khmer/_khmermodule.cc:3516:31: error: ‘PyString_FromString’ was not declared in this scope; did you mean ‘PyLong_FromString’? 2023-09-08T15:50:06,900 3516 | PyList_SET_ITEM(x, i, PyString_FromString(results[i].c_str())); 2023-09-08T15:50:06,901 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:06,901 /usr/include/python3.11/pyport.h:24:38: note: in definition of macro ‘_Py_CAST’ 2023-09-08T15:50:06,902 24 | #define _Py_CAST(type, expr) ((type)(expr)) 2023-09-08T15:50:06,902 | ^~~~ 2023-09-08T15:50:06,903 /usr/include/python3.11/cpython/listobject.h:50:48: note: in expansion of macro ‘_PyObject_CAST’ 2023-09-08T15:50:06,903 50 | PyList_SET_ITEM(_PyObject_CAST(op), index, _PyObject_CAST(value)) 2023-09-08T15:50:06,904 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:06,904 khmer/_khmermodule.cc:3516:9: note: in expansion of macro ‘PyList_SET_ITEM’ 2023-09-08T15:50:06,905 3516 | PyList_SET_ITEM(x, i, PyString_FromString(results[i].c_str())); 2023-09-08T15:50:06,906 | ^~~~~~~~~~~~~~~ 2023-09-08T15:50:06,928 khmer/_khmermodule.cc: In function ‘PyObject* khmer_hashbits_getattr(PyObject*, char*)’: 2023-09-08T15:50:06,928 khmer/_khmermodule.cc:3621:12: error: ‘Py_FindMethod’ was not declared in this scope; did you mean ‘PyCMethod’? 2023-09-08T15:50:06,929 3621 | return Py_FindMethod(khmer_hashbits_methods, obj, name); 2023-09-08T15:50:06,930 | ^~~~~~~~~~~~~ 2023-09-08T15:50:06,931 | PyCMethod 2023-09-08T15:50:06,947 khmer/_khmermodule.cc: In function ‘PyObject* khmer_hashbits_new(PyTypeObject*, PyObject*, PyObject*)’: 2023-09-08T15:50:06,947 khmer/_khmermodule.cc:3646:17: error: ‘PyInt_Check’ was not declared in this scope; did you mean ‘PySet_Check’? 2023-09-08T15:50:06,948 3646 | if (PyInt_Check(size_o)) { 2023-09-08T15:50:06,949 | ^~~~~~~~~~~ 2023-09-08T15:50:06,949 | PySet_Check 2023-09-08T15:50:06,967 khmer/_khmermodule.cc:3647:48: error: ‘PyInt_AsLong’ was not declared in this scope; did you mean ‘PyLong_AsLong’? 2023-09-08T15:50:06,967 3647 | sizes.push_back((HashIntoType) PyInt_AsLong(size_o)); 2023-09-08T15:50:06,968 | ^~~~~~~~~~~~ 2023-09-08T15:50:06,969 | PyLong_AsLong 2023-09-08T15:50:07,028 khmer/_khmermodule.cc: In function ‘PyObject* khmer_subset_getattr(PyObject*, char*)’: 2023-09-08T15:50:07,028 khmer/_khmermodule.cc:3860:12: error: ‘Py_FindMethod’ was not declared in this scope; did you mean ‘PyCMethod’? 2023-09-08T15:50:07,029 3860 | return Py_FindMethod(khmer_subset_methods, obj, name); 2023-09-08T15:50:07,030 | ^~~~~~~~~~~~~ 2023-09-08T15:50:07,031 | PyCMethod 2023-09-08T15:50:07,047 khmer/_khmermodule.cc: In function ‘PyObject* khmer_labelhash_new(PyTypeObject*, PyObject*, PyObject*)’: 2023-09-08T15:50:07,048 khmer/_khmermodule.cc:3916:17: error: ‘PyInt_Check’ was not declared in this scope; did you mean ‘PySet_Check’? 2023-09-08T15:50:07,048 3916 | if (PyInt_Check(size_o)) { 2023-09-08T15:50:07,049 | ^~~~~~~~~~~ 2023-09-08T15:50:07,050 | PySet_Check 2023-09-08T15:50:07,067 khmer/_khmermodule.cc:3917:48: error: ‘PyInt_AsLong’ was not declared in this scope; did you mean ‘PyLong_AsLong’? 2023-09-08T15:50:07,068 3917 | sizes.push_back((HashIntoType) PyInt_AsLong(size_o)); 2023-09-08T15:50:07,068 | ^~~~~~~~~~~~ 2023-09-08T15:50:07,069 | PyLong_AsLong 2023-09-08T15:50:07,115 khmer/_khmermodule.cc: In function ‘PyObject* labelhash_n_labels(PyObject*, PyObject*)’: 2023-09-08T15:50:07,115 khmer/_khmermodule.cc:4231:12: error: ‘PyInt_FromSize_t’ was not declared in this scope; did you mean ‘PyLong_FromSize_t’? 2023-09-08T15:50:07,116 4231 | return PyInt_FromSize_t(labelhash->n_labels()); 2023-09-08T15:50:07,116 | ^~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,117 | PyLong_FromSize_t 2023-09-08T15:50:07,117 khmer/_khmermodule.cc: At global scope: 2023-09-08T15:50:07,118 khmer/_khmermodule.cc:4250:5: error: invalid conversion from ‘const char*’ to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:07,119 4250 | "_LabelHash", /* tp_name */ 2023-09-08T15:50:07,119 | ^~~~~~~~~~~~ 2023-09-08T15:50:07,120 | | 2023-09-08T15:50:07,121 | const char* 2023-09-08T15:50:07,121 khmer/_khmermodule.cc:4253:5: error: invalid conversion from ‘void (*)(PyObject*)’ {aka ‘void (*)(_object*)’} to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:07,122 4253 | (destructor)khmer_labelhash_dealloc, /* tp_dealloc */ 2023-09-08T15:50:07,123 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,124 | | 2023-09-08T15:50:07,124 | void (*)(PyObject*) {aka void (*)(_object*)} 2023-09-08T15:50:07,125 khmer/_khmermodule.cc:4268:24: error: invalid conversion from ‘long unsigned int’ to ‘const char*’ [-fpermissive] 2023-09-08T15:50:07,126 4268 | Py_TPFLAGS_DEFAULT | Py_TPFLAGS_BASETYPE, /* tp_flags */ 2023-09-08T15:50:07,127 khmer/_khmermodule.cc:4276:5: error: cannot convert ‘PyMethodDef*’ to ‘PyMemberDef*’ in initialization 2023-09-08T15:50:07,128 4276 | khmer_labelhash_methods, /* tp_methods */ 2023-09-08T15:50:07,128 | ^~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,129 | | 2023-09-08T15:50:07,130 | PyMethodDef* 2023-09-08T15:50:07,149 khmer/_khmermodule.cc: In function ‘PyObject* khmer_readaligner_getattr(PyObject*, char*)’: 2023-09-08T15:50:07,150 khmer/_khmermodule.cc:4359:12: error: ‘Py_FindMethod’ was not declared in this scope; did you mean ‘PyCMethod’? 2023-09-08T15:50:07,150 4359 | return Py_FindMethod(khmer_ReadAligner_methods, obj, name); 2023-09-08T15:50:07,151 | ^~~~~~~~~~~~~ 2023-09-08T15:50:07,151 | PyCMethod 2023-09-08T15:50:07,152 khmer/_khmermodule.cc: At global scope: 2023-09-08T15:50:07,153 khmer/_khmermodule.cc:4377:5: error: invalid conversion from ‘const char*’ to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:07,153 4377 | "ReadAligner", sizeof(khmer_ReadAlignerObject), 2023-09-08T15:50:07,154 | ^~~~~~~~~~~~~ 2023-09-08T15:50:07,155 | | 2023-09-08T15:50:07,156 | const char* 2023-09-08T15:50:07,157 khmer/_khmermodule.cc:4379:5: error: invalid conversion from ‘void (*)(PyObject*)’ {aka ‘void (*)(_object*)’} to ‘Py_ssize_t’ {aka ‘int’} [-fpermissive] 2023-09-08T15:50:07,157 4379 | khmer_readaligner_dealloc, /*tp_dealloc*/ 2023-09-08T15:50:07,158 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,159 | | 2023-09-08T15:50:07,160 | void (*)(PyObject*) {aka void (*)(_object*)} 2023-09-08T15:50:07,160 khmer/_khmermodule.cc:4381:5: error: invalid conversion from ‘PyObject* (*)(PyObject*, char*)’ {aka ‘_object* (*)(_object*, char*)’} to ‘setattrfunc’ {aka ‘int (*)(_object*, char*, _object*)’} [-fpermissive] 2023-09-08T15:50:07,161 4381 | khmer_readaligner_getattr, /*tp_getattr*/ 2023-09-08T15:50:07,161 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,162 | | 2023-09-08T15:50:07,162 | PyObject* (*)(PyObject*, char*) {aka _object* (*)(_object*, char*)} 2023-09-08T15:50:07,163 /usr/include/python3.11/object.h:423:54: error: invalid conversion from ‘int’ to ‘const char*’ [-fpermissive] 2023-09-08T15:50:07,163 422 | #define Py_TPFLAGS_DEFAULT ( \ 2023-09-08T15:50:07,164 | ~~~ 2023-09-08T15:50:07,164 423 | Py_TPFLAGS_HAVE_STACKLESS_EXTENSION | \ 2023-09-08T15:50:07,165 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ 2023-09-08T15:50:07,165 | | 2023-09-08T15:50:07,165 | int 2023-09-08T15:50:07,166 424 | 0) 2023-09-08T15:50:07,166 | ~~ 2023-09-08T15:50:07,167 khmer/_khmermodule.cc:4394:5: note: in expansion of macro ‘Py_TPFLAGS_DEFAULT’ 2023-09-08T15:50:07,167 4394 | Py_TPFLAGS_DEFAULT, /*tp_flags*/ 2023-09-08T15:50:07,168 | ^~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,169 khmer/_khmermodule.cc:4395:5: error: cannot convert ‘const char*’ to ‘traverseproc’ {aka ‘int (*)(_object*, int (*)(_object*, void*), void*)’} in initialization 2023-09-08T15:50:07,170 4395 | "ReadAligner object", /* tp_doc */ 2023-09-08T15:50:07,170 | ^~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,171 | | 2023-09-08T15:50:07,171 | const char* 2023-09-08T15:50:07,173 khmer/_khmermodule.cc: In function ‘PyObject* _new_hashbits(PyObject*, PyObject*)’: 2023-09-08T15:50:07,174 khmer/_khmermodule.cc:4455:13: error: ‘PyInt_Check’ was not declared in this scope; did you mean ‘PySet_Check’? 2023-09-08T15:50:07,175 4455 | if (PyInt_Check(size_o)) { 2023-09-08T15:50:07,176 | ^~~~~~~~~~~ 2023-09-08T15:50:07,177 | PySet_Check 2023-09-08T15:50:07,194 khmer/_khmermodule.cc:4456:44: error: ‘PyInt_AsLong’ was not declared in this scope; did you mean ‘PyLong_AsLong’? 2023-09-08T15:50:07,195 4456 | sizes.push_back((HashIntoType) PyInt_AsLong(size_o)); 2023-09-08T15:50:07,195 | ^~~~~~~~~~~~ 2023-09-08T15:50:07,196 | PyLong_AsLong 2023-09-08T15:50:07,201 khmer/_khmermodule.cc: In function ‘void khmer_hashbits_dealloc(PyObject*)’: 2023-09-08T15:50:07,202 khmer/_khmermodule.cc:4537:11: error: ‘struct khmer_KHashbitsObject’ has no member named ‘ob_type’ 2023-09-08T15:50:07,203 4537 | self->ob_type->tp_free((PyObject*)obj); 2023-09-08T15:50:07,203 | ^~~~~~~ 2023-09-08T15:50:07,230 khmer/_khmermodule.cc: In function ‘PyObject* reverse_hash(PyObject*, PyObject*)’: 2023-09-08T15:50:07,231 khmer/_khmermodule.cc:4612:12: error: ‘PyString_FromString’ was not declared in this scope; did you mean ‘PyLong_FromString’? 2023-09-08T15:50:07,232 4612 | return PyString_FromString(_revhash(val, ksize).c_str()); 2023-09-08T15:50:07,233 | ^~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:07,233 | PyLong_FromString 2023-09-08T15:50:07,234 khmer/_khmermodule.cc: At global scope: 2023-09-08T15:50:07,235 khmer/_khmermodule.cc:4688:1: error: conflicting declaration of C function ‘PyObject* init_khmer()’ 2023-09-08T15:50:07,236 4688 | init_khmer(void) 2023-09-08T15:50:07,236 | ^~~~~~~~~~ 2023-09-08T15:50:07,237 khmer/_khmermodule.cc:33:10: note: previous declaration ‘void init_khmer()’ 2023-09-08T15:50:07,238 33 | void init_khmer(); 2023-09-08T15:50:07,238 | ^~~~~~~~~~ 2023-09-08T15:50:07,239 khmer/_khmermodule.cc: In function ‘PyObject* init_khmer()’: 2023-09-08T15:50:07,239 khmer/_khmermodule.cc:4692:22: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘ob_type’ 2023-09-08T15:50:07,240 4692 | khmer_ConfigType.ob_type = &PyType_Type; 2023-09-08T15:50:07,240 | ^~~~~~~ 2023-09-08T15:50:07,241 khmer/_khmermodule.cc:4693:29: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘ob_type’ 2023-09-08T15:50:07,241 4693 | khmer_KCountingHashType.ob_type = &PyType_Type; 2023-09-08T15:50:07,242 | ^~~~~~~ 2023-09-08T15:50:07,243 khmer/_khmermodule.cc:4700:9: error: return-statement with no value, in function returning ‘PyObject*’ {aka ‘_object*’} [-fpermissive] 2023-09-08T15:50:07,243 4700 | return; 2023-09-08T15:50:07,244 | ^~~~~~ 2023-09-08T15:50:07,244 khmer/_khmermodule.cc:4707:9: error: return-statement with no value, in function returning ‘PyObject*’ {aka ‘_object*’} [-fpermissive] 2023-09-08T15:50:07,245 4707 | return; 2023-09-08T15:50:07,245 | ^~~~~~ 2023-09-08T15:50:07,260 khmer/_khmermodule.cc:4711:9: error: ‘Py_InitModule3’ was not declared in this scope 2023-09-08T15:50:07,261 4711 | m = Py_InitModule3( "_khmer", KhmerMethods, 2023-09-08T15:50:07,262 | ^~~~~~~~~~~~~~ 2023-09-08T15:50:07,263 khmer/_khmermodule.cc:4714:9: error: return-statement with no value, in function returning ‘PyObject*’ {aka ‘_object*’} [-fpermissive] 2023-09-08T15:50:07,263 4714 | return; 2023-09-08T15:50:07,264 | ^~~~~~ 2023-09-08T15:50:07,265 khmer/_khmermodule.cc:4719:9: error: return-statement with no value, in function returning ‘PyObject*’ {aka ‘_object*’} [-fpermissive] 2023-09-08T15:50:07,266 4719 | return; 2023-09-08T15:50:07,266 | ^~~~~~ 2023-09-08T15:50:07,267 khmer/_khmermodule.cc:4726:9: error: return-statement with no value, in function returning ‘PyObject*’ {aka ‘_object*’} [-fpermissive] 2023-09-08T15:50:07,268 4726 | return; 2023-09-08T15:50:07,269 | ^~~~~~ 2023-09-08T15:50:07,269 khmer/_khmermodule.cc:4732:9: error: return-statement with no value, in function returning ‘PyObject*’ {aka ‘_object*’} [-fpermissive] 2023-09-08T15:50:07,270 4732 | return; 2023-09-08T15:50:07,271 | ^~~~~~ 2023-09-08T15:50:07,271 khmer/_khmermodule.cc:4735:9: error: return-statement with no value, in function returning ‘PyObject*’ {aka ‘_object*’} [-fpermissive] 2023-09-08T15:50:07,272 4735 | return; 2023-09-08T15:50:07,273 | ^~~~~~ 2023-09-08T15:50:08,242 khmer/_khmermodule.cc:4745:23: warning: control reaches end of non-void function [-Wreturn-type] 2023-09-08T15:50:08,243 4745 | PyModule_AddObject(m, "_LabelHash", (PyObject *)&khmer_KLabelHashType); 2023-09-08T15:50:08,244 | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-08T15:50:08,343 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2023-09-08T15:50:08,493 ERROR: [present-rich] python setup.py bdist_wheel exited with 1 2023-09-08T15:50:08,506 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2023-09-08T15:50:08,506 exec(compile('"'"''"'"''"'"' 2023-09-08T15:50:08,506 # This is -- a caller that pip uses to run setup.py 2023-09-08T15:50:08,506 # 2023-09-08T15:50:08,506 # - It imports setuptools before invoking setup.py, to enable projects that directly 2023-09-08T15:50:08,506 # import from `distutils.core` to work with newer packaging standards. 2023-09-08T15:50:08,506 # - It provides a clear error message when setuptools is not installed. 2023-09-08T15:50:08,506 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2023-09-08T15:50:08,506 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2023-09-08T15:50:08,506 # manifest_maker: standard file '"'"'-c'"'"' not found". 2023-09-08T15:50:08,506 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2023-09-08T15:50:08,506 import os, sys, tokenize 2023-09-08T15:50:08,506 2023-09-08T15:50:08,506 try: 2023-09-08T15:50:08,506 import setuptools 2023-09-08T15:50:08,506 except ImportError as error: 2023-09-08T15:50:08,506 print( 2023-09-08T15:50:08,506 "ERROR: Can not execute `setup.py` since setuptools is not available in " 2023-09-08T15:50:08,506 "the build environment.", 2023-09-08T15:50:08,506 file=sys.stderr, 2023-09-08T15:50:08,506 ) 2023-09-08T15:50:08,506 sys.exit(1) 2023-09-08T15:50:08,506 2023-09-08T15:50:08,506 __file__ = %r 2023-09-08T15:50:08,506 sys.argv[0] = __file__ 2023-09-08T15:50:08,506 2023-09-08T15:50:08,506 if os.path.exists(__file__): 2023-09-08T15:50:08,506 filename = __file__ 2023-09-08T15:50:08,506 with tokenize.open(__file__) as f: 2023-09-08T15:50:08,506 setup_py_code = f.read() 2023-09-08T15:50:08,506 else: 2023-09-08T15:50:08,506 filename = "" 2023-09-08T15:50:08,506 setup_py_code = "from setuptools import setup; setup()" 2023-09-08T15:50:08,506 2023-09-08T15:50:08,506 exec(compile(setup_py_code, filename, "exec")) 2023-09-08T15:50:08,506 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-dc3ah0ir/khmer_a843df5bef7742288a619fbba2e9ead3/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-5soc4ysh[/] 2023-09-08T15:50:08,507 [bold magenta]cwd[/]: /tmp/pip-wheel-dc3ah0ir/khmer_a843df5bef7742288a619fbba2e9ead3/ 2023-09-08T15:50:08,508 Building wheel for khmer (setup.py): finished with status 'error' 2023-09-08T15:50:08,509 ERROR: Failed building wheel for khmer 2023-09-08T15:50:08,510 Running setup.py clean for khmer 2023-09-08T15:50:08,512 Running command python setup.py clean 2023-09-08T15:50:09,401 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:510: SetuptoolsDeprecationWarning: Invalid dash-separated options 2023-09-08T15:50:09,401 !! 2023-09-08T15:50:09,403 ******************************************************************************** 2023-09-08T15:50:09,403 Usage of dash-separated 'include-dirs' will not be supported in future 2023-09-08T15:50:09,404 versions. Please use the underscore name 'include_dirs' instead. 2023-09-08T15:50:09,405 By 2023-Sep-26, you need to update your project and remove deprecated calls 2023-09-08T15:50:09,405 or your builds will no longer be supported. 2023-09-08T15:50:09,407 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2023-09-08T15:50:09,407 ******************************************************************************** 2023-09-08T15:50:09,408 !! 2023-09-08T15:50:09,409 opt = self.warn_dash_deprecation(opt, section) 2023-09-08T15:50:09,587 running clean 2023-09-08T15:50:09,610 removing 'build/temp.linux-armv7l-cpython-311' (and everything under it) 2023-09-08T15:50:09,612 removing 'build/lib.linux-armv7l-cpython-311' (and everything under it) 2023-09-08T15:50:09,641 'build/bdist.linux-armv7l' does not exist -- can't clean it 2023-09-08T15:50:09,641 'build/scripts-3.11' does not exist -- can't clean it 2023-09-08T15:50:09,642 removing 'build' 2023-09-08T15:50:09,755 Failed to build khmer 2023-09-08T15:50:09,756 ERROR: Failed to build one or more wheels 2023-09-08T15:50:09,758 Exception information: 2023-09-08T15:50:09,758 Traceback (most recent call last): 2023-09-08T15:50:09,758 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 180, in exc_logging_wrapper 2023-09-08T15:50:09,758 status = run_func(*args) 2023-09-08T15:50:09,758 ^^^^^^^^^^^^^^^ 2023-09-08T15:50:09,758 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 248, in wrapper 2023-09-08T15:50:09,758 return func(self, options, args) 2023-09-08T15:50:09,758 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T15:50:09,758 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 181, in run 2023-09-08T15:50:09,758 raise CommandError("Failed to build one or more wheels") 2023-09-08T15:50:09,758 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2023-09-08T15:50:09,761 Removed build tracker: '/tmp/pip-build-tracker-k87rplwf'