2023-11-25T13:54:32,660 Created temporary directory: /tmp/pip-build-tracker-urutemq_ 2023-11-25T13:54:32,661 Initialized build tracking at /tmp/pip-build-tracker-urutemq_ 2023-11-25T13:54:32,662 Created build tracker: /tmp/pip-build-tracker-urutemq_ 2023-11-25T13:54:32,662 Entered build tracker: /tmp/pip-build-tracker-urutemq_ 2023-11-25T13:54:32,663 Created temporary directory: /tmp/pip-wheel-pkorf5l_ 2023-11-25T13:54:32,666 Created temporary directory: /tmp/pip-ephem-wheel-cache-yp_6pmrn 2023-11-25T13:54:32,688 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-11-25T13:54:32,692 2 location(s) to search for versions of singlem: 2023-11-25T13:54:32,692 * https://pypi.org/simple/singlem/ 2023-11-25T13:54:32,692 * https://www.piwheels.org/simple/singlem/ 2023-11-25T13:54:32,693 Fetching project page and analyzing links: https://pypi.org/simple/singlem/ 2023-11-25T13:54:32,693 Getting page https://pypi.org/simple/singlem/ 2023-11-25T13:54:32,695 Found index url https://pypi.org/simple/ 2023-11-25T13:54:33,102 Fetched page https://pypi.org/simple/singlem/ as application/vnd.pypi.simple.v1+json 2023-11-25T13:54:33,107 Found link https://files.pythonhosted.org/packages/35/55/72780c79146b2ccd465016b28eccbe6c326493f5a8db3c489eda3382fbb1/singlem-0.7.1.tar.gz (from https://pypi.org/simple/singlem/), version: 0.7.1 2023-11-25T13:54:33,108 Found link https://files.pythonhosted.org/packages/17/8b/f553c11bbb3e950516589aa26299b85098d0ac78405a4ebacefa023de306/singlem-0.8.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.8.0 2023-11-25T13:54:33,109 Found link https://files.pythonhosted.org/packages/b6/f9/9538a096be3c2cc820642d87a626e45ce03f55716175025605b2d33f5e39/singlem-0.8.1.tar.gz (from https://pypi.org/simple/singlem/), version: 0.8.1 2023-11-25T13:54:33,109 Found link https://files.pythonhosted.org/packages/ca/c5/95b117cf1ebc381cf922280dd0aaaf9967777c903c8a079330728a278709/singlem-0.8.2.tar.gz (from https://pypi.org/simple/singlem/), version: 0.8.2 2023-11-25T13:54:33,110 Found link https://files.pythonhosted.org/packages/9d/8d/156892825f51ea215336c9171ba98ddd3003bc72538232c3e5cc20840b9c/singlem-0.9.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.9.0 2023-11-25T13:54:33,110 Found link https://files.pythonhosted.org/packages/9c/7c/bdc416d19613e03f631006b9e63355480dfd5438007172002652014dccd5/singlem-0.11.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.11.0 2023-11-25T13:54:33,111 Found link https://files.pythonhosted.org/packages/a3/67/58f5f073fa50c02cf0ccbade3bc0823976f29d12545e48a0b2f2c45288f9/singlem-0.12.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.12.0 2023-11-25T13:54:33,112 Found link https://files.pythonhosted.org/packages/68/8c/8bd9277ff17836d14658186469cb05376569f052f90cb3a82a449ac7eea4/singlem-0.12.1.tar.gz (from https://pypi.org/simple/singlem/), version: 0.12.1 2023-11-25T13:54:33,112 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/17/71/31b5c5d9541c9104d713a0eced18a124a696ee81f9f9dddd578e02b4380f/singlem-0.13.0-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,113 Found link https://files.pythonhosted.org/packages/db/0b/e73e8b154bbca8f6fb81337791f7420b54b128f3682f9b394843c6559bbc/singlem-0.13.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.13.0 2023-11-25T13:54:33,113 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/9c/c2/59c1904feff0407c2ca5f1ec0ae098f42415c722f36cf01836c400a0e6ec/singlem-0.13.1-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,114 Found link https://files.pythonhosted.org/packages/54/6a/d718c26f15b38a4b0e999f8246dcfcd5b7237c2298009031ebd18d7e2a7d/singlem-0.13.1.tar.gz (from https://pypi.org/simple/singlem/), version: 0.13.1 2023-11-25T13:54:33,115 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/aa/67/a4cf9b0c9f573201e887a91a98251ad31dace8433b735c7f698a9e94ebc0/singlem-0.13.2-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,115 Found link https://files.pythonhosted.org/packages/2a/bb/75b1c30a8c30835d277ce6cacbd827fde3f094648bf6c5d4fff5d922b2f7/singlem-0.13.2.tar.gz (from https://pypi.org/simple/singlem/), version: 0.13.2 2023-11-25T13:54:33,116 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/50/5a/f72ef558f096a3c9706e30c3bd0dab98c42539b6d507b8e8554c4433edda/singlem-0.14.0-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,116 Found link https://files.pythonhosted.org/packages/7c/7b/ca7227ef1d9151143a723d74b26bca4d18c6d60870348b4a4aee539ad343/singlem-0.14.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.14.0 2023-11-25T13:54:33,117 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/4c/a3/98cd7cfaef694f36655d9c8d193774e7d94fd9e0f6fc9d92f402fc88b898/singlem-0.15.0-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,117 Found link https://files.pythonhosted.org/packages/b1/7c/e32b071b5a3f79fb69c39f9a172a179a3c5071e5344fc52387b561fbf38e/singlem-0.15.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.15.0 2023-11-25T13:54:33,118 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/fc/16/ea6f071e069d735d896eec440e65fdeaf88d69123893b1e7198bde08ba5e/singlem-0.15.1-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,118 Found link https://files.pythonhosted.org/packages/ed/e7/34484f28ce4bb10dc929264cea43d5683c213858b91520243c197eba77b0/singlem-0.15.1.tar.gz (from https://pypi.org/simple/singlem/), version: 0.15.1 2023-11-25T13:54:33,119 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/22/91/db397eac675c00346bf5cd791b7bf0e7ce239b22ae55f255af6f35e34d7e/singlem-0.16.0-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,119 Found link https://files.pythonhosted.org/packages/04/5a/0eb1e0bcf0d3fdeb87d543d86ef1c5cba4e5dedb4165a06f21b84e80f744/singlem-0.16.0.tar.gz (from https://pypi.org/simple/singlem/), version: 0.16.0 2023-11-25T13:54:33,120 Skipping link: No binaries permitted for singlem: https://files.pythonhosted.org/packages/84/1a/8a17c9c2a441e8ec94ac79f90d63cb2dfd994594fc9b0ac177dd4d511a78/singlem-1.0.0b8-py3-none-any.whl (from https://pypi.org/simple/singlem/) 2023-11-25T13:54:33,120 Found link https://files.pythonhosted.org/packages/3e/08/4fe229183f8c2c33255bcf7148fa79b6dd1d65453bcb99d37f82600441b7/singlem-1.0.0b8.tar.gz (from https://pypi.org/simple/singlem/), version: 1.0.0b8 2023-11-25T13:54:33,121 Fetching project page and analyzing links: https://www.piwheels.org/simple/singlem/ 2023-11-25T13:54:33,122 Getting page https://www.piwheels.org/simple/singlem/ 2023-11-25T13:54:33,123 Found index url https://www.piwheels.org/simple/ 2023-11-25T13:54:33,288 Fetched page https://www.piwheels.org/simple/singlem/ as text/html 2023-11-25T13:54:33,292 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-1.0.0b8-py3-none-any.whl#sha256=3365626c8cb55d23a5197a42572fbbb259c9dbc65b14a97f8e800c940b9a362c (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,292 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.15.1-py3-none-any.whl#sha256=4cc1d3a1e437383de7a99970d08e9abdd2633314cf3a06760f8822d81533f512 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,293 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.15.0-py3-none-any.whl#sha256=51ac005a1c09c7004e5639c3045e1313d39f7d8d4d77c417b63c8f4e243cec51 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,293 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.14.0-py3-none-any.whl#sha256=184ece47180c793b14866826b9436d33ec0fd1d3c5e2cf5bf0c7625520509208 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,294 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.13.2-py3-none-any.whl#sha256=0b410717882ab1cf12894ff799a530aaacb1eb2b69ad778355384c3ec5316bbb (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,294 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.13.1-py3-none-any.whl#sha256=950f2fc4d7e4eee5e75cc2bb2a5b7119aaa39590ee8c5fe9086ae0425a268fa3 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,295 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.13.0-py3-none-any.whl#sha256=5f5cb853b85d738f19c8d06c769e4c1f5ae107ae7a2489c75185a7eeb3f0a9e6 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,296 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.12.0-py3-none-any.whl#sha256=044eb417530be9293ed3640ebb56b5a2f8cfb34d2f8dab45e96556494cf0c2d5 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,296 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.11.0-py3-none-any.whl#sha256=83c2697c65261566314896fee814840e77012597bb29405182cf4a3063711651 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,296 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.9.0-py3-none-any.whl#sha256=bfb2dc9633dea53293af0244d04cb1bd0e981c01cfe3dce8cc5b7cd4cf9d7eb9 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,297 Skipping link: No binaries permitted for singlem: https://www.piwheels.org/simple/singlem/singlem-0.8.2-py3-none-any.whl#sha256=9f7f2cf19f5d8b565a8641eed3e9925ee9112647c245999a6f685af7bfa1c001 (from https://www.piwheels.org/simple/singlem/) 2023-11-25T13:54:33,297 Skipping link: not a file: https://www.piwheels.org/simple/singlem/ 2023-11-25T13:54:33,298 Skipping link: not a file: https://pypi.org/simple/singlem/ 2023-11-25T13:54:33,318 Given no hashes to check 1 links for project 'singlem': discarding no candidates 2023-11-25T13:54:33,336 Collecting singlem==0.16.0 2023-11-25T13:54:33,338 Created temporary directory: /tmp/pip-unpack-fgjb2p3b 2023-11-25T13:54:33,553 Downloading singlem-0.16.0.tar.gz (173 kB) 2023-11-25T13:54:33,786 Added singlem==0.16.0 from https://files.pythonhosted.org/packages/04/5a/0eb1e0bcf0d3fdeb87d543d86ef1c5cba4e5dedb4165a06f21b84e80f744/singlem-0.16.0.tar.gz to build tracker '/tmp/pip-build-tracker-urutemq_' 2023-11-25T13:54:33,788 Running setup.py (path:/tmp/pip-wheel-pkorf5l_/singlem_4346f5e175754139a6934271b20dc165/setup.py) egg_info for package singlem 2023-11-25T13:54:33,789 Created temporary directory: /tmp/pip-pip-egg-info-dlu6xye5 2023-11-25T13:54:33,789 Preparing metadata (setup.py): started 2023-11-25T13:54:33,791 Running command python setup.py egg_info 2023-11-25T13:54:34,793 running egg_info 2023-11-25T13:54:34,794 creating /tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info 2023-11-25T13:54:34,818 writing /tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info/PKG-INFO 2023-11-25T13:54:34,821 writing dependency_links to /tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info/dependency_links.txt 2023-11-25T13:54:34,823 writing requirements to /tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info/requires.txt 2023-11-25T13:54:34,824 writing top-level names to /tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info/top_level.txt 2023-11-25T13:54:34,825 writing manifest file '/tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info/SOURCES.txt' 2023-11-25T13:54:34,928 reading manifest file '/tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info/SOURCES.txt' 2023-11-25T13:54:34,929 reading manifest template 'MANIFEST.in' 2023-11-25T13:54:34,931 warning: no files found matching 'LICENSE' 2023-11-25T13:54:34,932 warning: no previously-included files matching '*' found under directory 'test' 2023-11-25T13:54:34,932 adding license file 'LICENCE.txt' 2023-11-25T13:54:34,935 writing manifest file '/tmp/pip-pip-egg-info-dlu6xye5/singlem.egg-info/SOURCES.txt' 2023-11-25T13:54:35,042 Preparing metadata (setup.py): finished with status 'done' 2023-11-25T13:54:35,046 Source in /tmp/pip-wheel-pkorf5l_/singlem_4346f5e175754139a6934271b20dc165 has version 0.16.0, which satisfies requirement singlem==0.16.0 from https://files.pythonhosted.org/packages/04/5a/0eb1e0bcf0d3fdeb87d543d86ef1c5cba4e5dedb4165a06f21b84e80f744/singlem-0.16.0.tar.gz 2023-11-25T13:54:35,047 Removed singlem==0.16.0 from https://files.pythonhosted.org/packages/04/5a/0eb1e0bcf0d3fdeb87d543d86ef1c5cba4e5dedb4165a06f21b84e80f744/singlem-0.16.0.tar.gz from build tracker '/tmp/pip-build-tracker-urutemq_' 2023-11-25T13:54:35,052 Created temporary directory: /tmp/pip-unpack-vd1n_ur8 2023-11-25T13:54:35,052 Created temporary directory: /tmp/pip-unpack-m_h55l99 2023-11-25T13:54:35,069 Building wheels for collected packages: singlem 2023-11-25T13:54:35,073 Created temporary directory: /tmp/pip-wheel-cho4y98m 2023-11-25T13:54:35,073 Building wheel for singlem (setup.py): started 2023-11-25T13:54:35,074 Destination directory: /tmp/pip-wheel-cho4y98m 2023-11-25T13:54:35,075 Running command python setup.py bdist_wheel 2023-11-25T13:54:36,036 running bdist_wheel 2023-11-25T13:54:36,128 running build 2023-11-25T13:54:36,129 running build_py 2023-11-25T13:54:36,156 creating build 2023-11-25T13:54:36,156 creating build/lib 2023-11-25T13:54:36,157 creating build/lib/singlem 2023-11-25T13:54:36,158 copying singlem/metapackage_read_name_store.py -> build/lib/singlem 2023-11-25T13:54:36,160 copying singlem/rarefier.py -> build/lib/singlem 2023-11-25T13:54:36,162 copying singlem/condense.py -> build/lib/singlem 2023-11-25T13:54:36,166 copying singlem/appraisal_result.py -> build/lib/singlem 2023-11-25T13:54:36,169 copying singlem/taxonomy_bihash.py -> build/lib/singlem 2023-11-25T13:54:36,171 copying singlem/kingfisher_sra.py -> build/lib/singlem 2023-11-25T13:54:36,173 copying singlem/strain_summariser.py -> build/lib/singlem 2023-11-25T13:54:36,175 copying singlem/metapackage.py -> build/lib/singlem 2023-11-25T13:54:36,177 copying singlem/genome_size.py -> build/lib/singlem 2023-11-25T13:54:36,179 copying singlem/singlem.py -> build/lib/singlem 2023-11-25T13:54:36,180 copying singlem/streaming_hmm_search_result.py -> build/lib/singlem 2023-11-25T13:54:36,182 copying singlem/query_formatters.py -> build/lib/singlem 2023-11-25T13:54:36,184 copying singlem/otu_table_collection.py -> build/lib/singlem 2023-11-25T13:54:36,186 copying singlem/metagenome_otu_finder.py -> build/lib/singlem 2023-11-25T13:54:36,188 copying singlem/dereplicator.py -> build/lib/singlem 2023-11-25T13:54:36,190 copying singlem/graftm_result.py -> build/lib/singlem 2023-11-25T13:54:36,191 copying singlem/sequence_extractor.py -> build/lib/singlem 2023-11-25T13:54:36,193 copying singlem/version.py -> build/lib/singlem 2023-11-25T13:54:36,194 copying singlem/singlem_database_models.py -> build/lib/singlem 2023-11-25T13:54:36,196 copying singlem/singlem_package.py -> build/lib/singlem 2023-11-25T13:54:36,199 copying singlem/checkm2.py -> build/lib/singlem 2023-11-25T13:54:36,201 copying singlem/pipe_taxonomy_assigner_by_query.py -> build/lib/singlem 2023-11-25T13:54:36,203 copying singlem/sequence_database.py -> build/lib/singlem 2023-11-25T13:54:36,206 copying singlem/trim_package_hmms.py -> build/lib/singlem 2023-11-25T13:54:36,208 copying singlem/clusterer.py -> build/lib/singlem 2023-11-25T13:54:36,210 copying singlem/chainsaw.py -> build/lib/singlem 2023-11-25T13:54:36,212 copying singlem/ordered_set.py -> build/lib/singlem 2023-11-25T13:54:36,214 copying singlem/regenerator.py -> build/lib/singlem 2023-11-25T13:54:36,216 copying singlem/appraiser.py -> build/lib/singlem 2023-11-25T13:54:36,219 copying singlem/taxonomy.py -> build/lib/singlem 2023-11-25T13:54:36,222 copying singlem/summariser.py -> build/lib/singlem 2023-11-25T13:54:36,227 copying singlem/querier.py -> build/lib/singlem 2023-11-25T13:54:36,446 copying singlem/diamond_spkg_searcher.py -> build/lib/singlem 2023-11-25T13:54:36,448 copying singlem/supplement.py -> build/lib/singlem 2023-11-25T13:54:36,451 copying singlem/orf_length_checker.py -> build/lib/singlem 2023-11-25T13:54:36,453 copying singlem/placement_parser.py -> build/lib/singlem 2023-11-25T13:54:36,455 copying singlem/renew.py -> build/lib/singlem 2023-11-25T13:54:36,457 copying singlem/package_creator.py -> build/lib/singlem 2023-11-25T13:54:36,459 copying singlem/archive_otu_table.py -> build/lib/singlem 2023-11-25T13:54:36,461 copying singlem/__init__.py -> build/lib/singlem 2023-11-25T13:54:36,463 copying singlem/pipe_sequence_extractor.py -> build/lib/singlem 2023-11-25T13:54:36,465 copying singlem/otu_table_entry.py -> build/lib/singlem 2023-11-25T13:54:36,466 copying singlem/otu_table.py -> build/lib/singlem 2023-11-25T13:54:36,468 copying singlem/run_via_os_system.py -> build/lib/singlem 2023-11-25T13:54:36,470 copying singlem/pipe.py -> build/lib/singlem 2023-11-25T13:54:36,474 copying singlem/sequence_classes.py -> build/lib/singlem 2023-11-25T13:54:36,476 copying singlem/diamond_parser.py -> build/lib/singlem 2023-11-25T13:54:36,477 copying singlem/known_otu_table.py -> build/lib/singlem 2023-11-25T13:54:36,479 copying singlem/read_fraction.py -> build/lib/singlem 2023-11-25T13:54:36,482 creating build/lib/singlem/biolib_lite 2023-11-25T13:54:36,483 copying singlem/biolib_lite/logger.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,485 copying singlem/biolib_lite/newick.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,487 copying singlem/biolib_lite/common.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,489 copying singlem/biolib_lite/custom_help_formatter.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,491 copying singlem/biolib_lite/taxonomy.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,493 copying singlem/biolib_lite/__init__.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,495 copying singlem/biolib_lite/prodigal_biolib.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,497 copying singlem/biolib_lite/seq_io.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,500 copying singlem/biolib_lite/execute.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,502 copying singlem/biolib_lite/exceptions.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,504 copying singlem/biolib_lite/parallel.py -> build/lib/singlem/biolib_lite 2023-11-25T13:54:36,505 running egg_info 2023-11-25T13:54:36,559 writing singlem.egg-info/PKG-INFO 2023-11-25T13:54:36,562 writing dependency_links to singlem.egg-info/dependency_links.txt 2023-11-25T13:54:36,564 writing requirements to singlem.egg-info/requires.txt 2023-11-25T13:54:36,565 writing top-level names to singlem.egg-info/top_level.txt 2023-11-25T13:54:36,594 reading manifest file 'singlem.egg-info/SOURCES.txt' 2023-11-25T13:54:36,597 reading manifest template 'MANIFEST.in' 2023-11-25T13:54:36,598 warning: no files found matching 'LICENSE' 2023-11-25T13:54:36,599 warning: no previously-included files matching '*' found under directory 'test' 2023-11-25T13:54:36,600 adding license file 'LICENCE.txt' 2023-11-25T13:54:36,603 writing manifest file 'singlem.egg-info/SOURCES.txt' 2023-11-25T13:54:36,608 running build_scripts 2023-11-25T13:54:36,609 creating build/scripts-3.11 2023-11-25T13:54:36,610 copying and adjusting bin/singlem -> build/scripts-3.11 2023-11-25T13:54:36,614 changing mode of build/scripts-3.11/singlem from 644 to 755 2023-11-25T13:54:36,638 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-11-25T13:54:36,639 !! 2023-11-25T13:54:36,640 ******************************************************************************** 2023-11-25T13:54:36,641 Please avoid running ``setup.py`` directly. 2023-11-25T13:54:36,641 Instead, use pypa/build, pypa/installer or other 2023-11-25T13:54:36,642 standards-based tools. 2023-11-25T13:54:36,643 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-11-25T13:54:36,643 ******************************************************************************** 2023-11-25T13:54:36,644 !! 2023-11-25T13:54:36,644 self.initialize_options() 2023-11-25T13:54:36,664 installing to build/bdist.linux-armv7l/wheel 2023-11-25T13:54:36,665 running install 2023-11-25T13:54:36,688 running install_lib 2023-11-25T13:54:36,713 creating build/bdist.linux-armv7l 2023-11-25T13:54:36,714 creating build/bdist.linux-armv7l/wheel 2023-11-25T13:54:36,716 creating build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,717 copying build/lib/singlem/metapackage_read_name_store.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,719 copying build/lib/singlem/rarefier.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,721 copying build/lib/singlem/condense.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,724 copying build/lib/singlem/appraisal_result.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,727 copying build/lib/singlem/taxonomy_bihash.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,729 copying build/lib/singlem/kingfisher_sra.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,731 copying build/lib/singlem/strain_summariser.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,733 copying build/lib/singlem/metapackage.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,736 copying build/lib/singlem/genome_size.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,737 copying build/lib/singlem/singlem.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,739 copying build/lib/singlem/streaming_hmm_search_result.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,741 copying build/lib/singlem/query_formatters.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,743 copying build/lib/singlem/otu_table_collection.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,745 copying build/lib/singlem/metagenome_otu_finder.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,747 copying build/lib/singlem/dereplicator.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,749 copying build/lib/singlem/graftm_result.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,751 copying build/lib/singlem/sequence_extractor.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,753 copying build/lib/singlem/version.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,754 copying build/lib/singlem/singlem_database_models.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,757 copying build/lib/singlem/singlem_package.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,759 copying build/lib/singlem/checkm2.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,761 copying build/lib/singlem/pipe_taxonomy_assigner_by_query.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,763 copying build/lib/singlem/sequence_database.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,767 copying build/lib/singlem/trim_package_hmms.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,769 copying build/lib/singlem/clusterer.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,771 copying build/lib/singlem/chainsaw.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,773 copying build/lib/singlem/ordered_set.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,775 copying build/lib/singlem/regenerator.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,777 copying build/lib/singlem/appraiser.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,780 copying build/lib/singlem/taxonomy.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,781 copying build/lib/singlem/summariser.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,784 copying build/lib/singlem/querier.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,787 copying build/lib/singlem/diamond_spkg_searcher.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,789 copying build/lib/singlem/supplement.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,792 copying build/lib/singlem/orf_length_checker.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,794 creating build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,795 copying build/lib/singlem/biolib_lite/logger.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,797 copying build/lib/singlem/biolib_lite/newick.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,799 copying build/lib/singlem/biolib_lite/common.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,801 copying build/lib/singlem/biolib_lite/custom_help_formatter.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,803 copying build/lib/singlem/biolib_lite/taxonomy.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,806 copying build/lib/singlem/biolib_lite/__init__.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,808 copying build/lib/singlem/biolib_lite/prodigal_biolib.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,810 copying build/lib/singlem/biolib_lite/seq_io.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,812 copying build/lib/singlem/biolib_lite/execute.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,814 copying build/lib/singlem/biolib_lite/exceptions.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,816 copying build/lib/singlem/biolib_lite/parallel.py -> build/bdist.linux-armv7l/wheel/singlem/biolib_lite 2023-11-25T13:54:36,819 copying build/lib/singlem/placement_parser.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,821 copying build/lib/singlem/renew.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,823 copying build/lib/singlem/package_creator.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,825 copying build/lib/singlem/archive_otu_table.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,827 copying build/lib/singlem/__init__.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,829 copying build/lib/singlem/pipe_sequence_extractor.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,831 copying build/lib/singlem/otu_table_entry.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,833 copying build/lib/singlem/otu_table.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,835 copying build/lib/singlem/run_via_os_system.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,837 copying build/lib/singlem/pipe.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,841 copying build/lib/singlem/sequence_classes.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,843 copying build/lib/singlem/diamond_parser.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,845 copying build/lib/singlem/known_otu_table.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,846 copying build/lib/singlem/read_fraction.py -> build/bdist.linux-armv7l/wheel/singlem 2023-11-25T13:54:36,848 running install_data 2023-11-25T13:54:36,873 creating build/bdist.linux-armv7l/wheel/singlem-0.16.0.data 2023-11-25T13:54:36,873 creating build/bdist.linux-armv7l/wheel/singlem-0.16.0.data/data 2023-11-25T13:54:36,874 copying README.md -> build/bdist.linux-armv7l/wheel/singlem-0.16.0.data/data/. 2023-11-25T13:54:36,876 copying LICENCE.txt -> build/bdist.linux-armv7l/wheel/singlem-0.16.0.data/data/. 2023-11-25T13:54:36,879 running install_egg_info 2023-11-25T13:54:36,909 Copying singlem.egg-info to build/bdist.linux-armv7l/wheel/singlem-0.16.0-py3.11.egg-info 2023-11-25T13:54:36,918 running install_scripts 2023-11-25T13:54:36,919 creating build/bdist.linux-armv7l/wheel/singlem-0.16.0.data/scripts 2023-11-25T13:54:36,920 copying build/scripts-3.11/singlem -> build/bdist.linux-armv7l/wheel/singlem-0.16.0.data/scripts 2023-11-25T13:54:36,923 changing mode of build/bdist.linux-armv7l/wheel/singlem-0.16.0.data/scripts/singlem to 755 2023-11-25T13:54:36,940 creating build/bdist.linux-armv7l/wheel/singlem-0.16.0.dist-info/WHEEL 2023-11-25T13:54:36,942 creating '/tmp/pip-wheel-cho4y98m/singlem-0.16.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-11-25T13:54:36,945 adding 'singlem/__init__.py' 2023-11-25T13:54:36,948 adding 'singlem/appraisal_result.py' 2023-11-25T13:54:36,951 adding 'singlem/appraiser.py' 2023-11-25T13:54:36,952 adding 'singlem/archive_otu_table.py' 2023-11-25T13:54:36,954 adding 'singlem/chainsaw.py' 2023-11-25T13:54:36,955 adding 'singlem/checkm2.py' 2023-11-25T13:54:36,957 adding 'singlem/clusterer.py' 2023-11-25T13:54:36,963 adding 'singlem/condense.py' 2023-11-25T13:54:36,964 adding 'singlem/dereplicator.py' 2023-11-25T13:54:36,965 adding 'singlem/diamond_parser.py' 2023-11-25T13:54:36,967 adding 'singlem/diamond_spkg_searcher.py' 2023-11-25T13:54:36,968 adding 'singlem/genome_size.py' 2023-11-25T13:54:36,970 adding 'singlem/graftm_result.py' 2023-11-25T13:54:36,971 adding 'singlem/kingfisher_sra.py' 2023-11-25T13:54:36,972 adding 'singlem/known_otu_table.py' 2023-11-25T13:54:36,974 adding 'singlem/metagenome_otu_finder.py' 2023-11-25T13:54:36,977 adding 'singlem/metapackage.py' 2023-11-25T13:54:36,979 adding 'singlem/metapackage_read_name_store.py' 2023-11-25T13:54:36,980 adding 'singlem/ordered_set.py' 2023-11-25T13:54:36,981 adding 'singlem/orf_length_checker.py' 2023-11-25T13:54:36,983 adding 'singlem/otu_table.py' 2023-11-25T13:54:36,985 adding 'singlem/otu_table_collection.py' 2023-11-25T13:54:36,986 adding 'singlem/otu_table_entry.py' 2023-11-25T13:54:36,988 adding 'singlem/package_creator.py' 2023-11-25T13:54:36,997 adding 'singlem/pipe.py' 2023-11-25T13:54:37,001 adding 'singlem/pipe_sequence_extractor.py' 2023-11-25T13:54:37,003 adding 'singlem/pipe_taxonomy_assigner_by_query.py' 2023-11-25T13:54:37,004 adding 'singlem/placement_parser.py' 2023-11-25T13:54:37,008 adding 'singlem/querier.py' 2023-11-25T13:54:37,010 adding 'singlem/query_formatters.py' 2023-11-25T13:54:37,011 adding 'singlem/rarefier.py' 2023-11-25T13:54:37,013 adding 'singlem/read_fraction.py' 2023-11-25T13:54:37,015 adding 'singlem/regenerator.py' 2023-11-25T13:54:37,016 adding 'singlem/renew.py' 2023-11-25T13:54:37,018 adding 'singlem/run_via_os_system.py' 2023-11-25T13:54:37,019 adding 'singlem/sequence_classes.py' 2023-11-25T13:54:37,024 adding 'singlem/sequence_database.py' 2023-11-25T13:54:37,025 adding 'singlem/sequence_extractor.py' 2023-11-25T13:54:37,026 adding 'singlem/singlem.py' 2023-11-25T13:54:37,028 adding 'singlem/singlem_database_models.py' 2023-11-25T13:54:37,030 adding 'singlem/singlem_package.py' 2023-11-25T13:54:37,032 adding 'singlem/strain_summariser.py' 2023-11-25T13:54:37,033 adding 'singlem/streaming_hmm_search_result.py' 2023-11-25T13:54:37,036 adding 'singlem/summariser.py' 2023-11-25T13:54:37,041 adding 'singlem/supplement.py' 2023-11-25T13:54:37,042 adding 'singlem/taxonomy.py' 2023-11-25T13:54:37,043 adding 'singlem/taxonomy_bihash.py' 2023-11-25T13:54:37,045 adding 'singlem/trim_package_hmms.py' 2023-11-25T13:54:37,046 adding 'singlem/version.py' 2023-11-25T13:54:37,048 adding 'singlem/biolib_lite/__init__.py' 2023-11-25T13:54:37,049 adding 'singlem/biolib_lite/common.py' 2023-11-25T13:54:37,051 adding 'singlem/biolib_lite/custom_help_formatter.py' 2023-11-25T13:54:37,052 adding 'singlem/biolib_lite/exceptions.py' 2023-11-25T13:54:37,053 adding 'singlem/biolib_lite/execute.py' 2023-11-25T13:54:37,055 adding 'singlem/biolib_lite/logger.py' 2023-11-25T13:54:37,056 adding 'singlem/biolib_lite/newick.py' 2023-11-25T13:54:37,058 adding 'singlem/biolib_lite/parallel.py' 2023-11-25T13:54:37,060 adding 'singlem/biolib_lite/prodigal_biolib.py' 2023-11-25T13:54:37,062 adding 'singlem/biolib_lite/seq_io.py' 2023-11-25T13:54:37,065 adding 'singlem/biolib_lite/taxonomy.py' 2023-11-25T13:54:37,072 adding 'singlem-0.16.0.data/data/LICENCE.txt' 2023-11-25T13:54:37,073 adding 'singlem-0.16.0.data/data/README.md' 2023-11-25T13:54:37,083 adding 'singlem-0.16.0.data/scripts/singlem' 2023-11-25T13:54:37,090 adding 'singlem-0.16.0.dist-info/LICENCE.txt' 2023-11-25T13:54:37,091 adding 'singlem-0.16.0.dist-info/METADATA' 2023-11-25T13:54:37,092 adding 'singlem-0.16.0.dist-info/WHEEL' 2023-11-25T13:54:37,093 adding 'singlem-0.16.0.dist-info/top_level.txt' 2023-11-25T13:54:37,094 adding 'singlem-0.16.0.dist-info/RECORD' 2023-11-25T13:54:37,099 removing build/bdist.linux-armv7l/wheel 2023-11-25T13:54:37,224 Building wheel for singlem (setup.py): finished with status 'done' 2023-11-25T13:54:37,229 Created wheel for singlem: filename=singlem-0.16.0-py3-none-any.whl size=209225 sha256=899b9e72e567babdc8e689ef6c2676d7d7c58fecb2ebed82d413c75d17c4e410 2023-11-25T13:54:37,230 Stored in directory: /tmp/pip-ephem-wheel-cache-yp_6pmrn/wheels/b8/9b/15/4b886f068c184d314c8042c56a02a26fd06652c5fbd953a2b3 2023-11-25T13:54:37,242 Successfully built singlem 2023-11-25T13:54:37,250 Removed build tracker: '/tmp/pip-build-tracker-urutemq_'