2023-12-07T10:09:54,998 Created temporary directory: /tmp/pip-build-tracker-2i2ha2h4 2023-12-07T10:09:54,999 Initialized build tracking at /tmp/pip-build-tracker-2i2ha2h4 2023-12-07T10:09:54,999 Created build tracker: /tmp/pip-build-tracker-2i2ha2h4 2023-12-07T10:09:55,000 Entered build tracker: /tmp/pip-build-tracker-2i2ha2h4 2023-12-07T10:09:55,001 Created temporary directory: /tmp/pip-wheel-agi8hc6w 2023-12-07T10:09:55,004 Created temporary directory: /tmp/pip-ephem-wheel-cache-c_65bke3 2023-12-07T10:09:55,026 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-12-07T10:09:55,030 2 location(s) to search for versions of kage-genotyper: 2023-12-07T10:09:55,030 * https://pypi.org/simple/kage-genotyper/ 2023-12-07T10:09:55,030 * https://www.piwheels.org/simple/kage-genotyper/ 2023-12-07T10:09:55,031 Fetching project page and analyzing links: https://pypi.org/simple/kage-genotyper/ 2023-12-07T10:09:55,031 Getting page https://pypi.org/simple/kage-genotyper/ 2023-12-07T10:09:55,033 Found index url https://pypi.org/simple/ 2023-12-07T10:09:55,187 Fetched page https://pypi.org/simple/kage-genotyper/ as application/vnd.pypi.simple.v1+json 2023-12-07T10:09:55,196 Found link https://files.pythonhosted.org/packages/e7/66/016860668992a70bab9c872c5032fbc34e2f9ecc6936b95b4e9a0b0c812b/kage-genotyper-0.0.2.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.0.2 2023-12-07T10:09:55,197 Found link https://files.pythonhosted.org/packages/80/ee/e08c95ccb0c401cfb2049e7271acdcb455196900f035e0700f6229d6c25d/kage-genotyper-0.0.3.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.0.3 2023-12-07T10:09:55,198 Found link https://files.pythonhosted.org/packages/47/5d/a155072db4e4e73f1a7b0f115f4641172458ef39411234990de2601e453a/kage-genotyper-0.0.4.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.0.4 2023-12-07T10:09:55,200 Found link 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https://files.pythonhosted.org/packages/a0/05/f5534cac773ba893d3c93012a0150dbf9f8cb535a3b33f1f03957d3dbd69/kage-genotyper-0.1.3.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.3 2023-12-07T10:09:55,219 Found link https://files.pythonhosted.org/packages/82/aa/9aced1ac4cc86f4bee19188f607e13563fb10b00353cf2dd43468ecf53b8/kage-genotyper-0.1.4.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.4 2023-12-07T10:09:55,219 Found link https://files.pythonhosted.org/packages/c7/e3/b7c4d3b74ba8925070ce4a3bf43649f3c2307e16f410784948827d60121a/kage-genotyper-0.1.5.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.5 2023-12-07T10:09:55,220 Found link https://files.pythonhosted.org/packages/03/2a/60bf909f494aa560ab360d944e5a8d50fb3c49e0b8234c66a8707450c700/kage-genotyper-0.1.6.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.6 2023-12-07T10:09:55,220 Found link https://files.pythonhosted.org/packages/92/a7/16ea375bfd0cedabe9ff3e3de05dac0200e29b8e10da32ca14fa2a08618a/kage-genotyper-0.1.7.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.7 2023-12-07T10:09:55,221 Found link https://files.pythonhosted.org/packages/38/17/f0baef7183ba4438de06bc31f1b8f2c0ff2d74d4c4722c3eb03b6775a1db/kage-genotyper-0.1.9.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.9 2023-12-07T10:09:55,222 Found link https://files.pythonhosted.org/packages/ea/65/6603d0188274d337bf016d69e92d70c0346b18cf82aee13e9636fb8a98ea/kage-genotyper-0.1.11.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.11 2023-12-07T10:09:55,222 Found link https://files.pythonhosted.org/packages/83/51/4614c411c210988f58596f9dd2074d917ba9e5434f0da4887dd7c1df7737/kage-genotyper-0.1.12.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.12 2023-12-07T10:09:55,223 Found link https://files.pythonhosted.org/packages/39/09/58efe36d13073b7e4e1d0a34ac7d4e5a30c05c6fb99a2e0723b4c7882285/kage-genotyper-0.1.13.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.13 2023-12-07T10:09:55,223 Found link https://files.pythonhosted.org/packages/77/c4/2bc34acb31ab5175cdb7a195a9fe1f59c7795cc859f869c5d5efd5dad759/kage-genotyper-0.1.14.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.1.14 2023-12-07T10:09:55,224 Found link https://files.pythonhosted.org/packages/77/e5/892007364823bbc1ff487614d77afcd1b738dadf40009ee9a7c4baf3dc41/kage-genotyper-0.2.0.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.2.0 2023-12-07T10:09:55,225 Found link https://files.pythonhosted.org/packages/c0/22/2af38d12dc8622e10ea42e304ba06fe3655398885f043098ff22a0725652/kage-genotyper-0.2.1.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.2.1 2023-12-07T10:09:55,225 Found link https://files.pythonhosted.org/packages/bd/65/426b8d4ed8b16fa400bd19959a26592979c02947830463d8da779476a20c/kage-genotyper-0.2.2.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.2.2 2023-12-07T10:09:55,226 Found link https://files.pythonhosted.org/packages/c3/8f/95df6d19af07be70be24557f51402a59aa7ce7e2e6ffa6fb041070c41582/kage-genotyper-0.2.3.tar.gz (from https://pypi.org/simple/kage-genotyper/), version: 0.2.3 2023-12-07T10:09:55,227 Fetching project page and analyzing links: https://www.piwheels.org/simple/kage-genotyper/ 2023-12-07T10:09:55,227 Getting page https://www.piwheels.org/simple/kage-genotyper/ 2023-12-07T10:09:55,229 Found index url https://www.piwheels.org/simple/ 2023-12-07T10:09:55,392 Fetched page https://www.piwheels.org/simple/kage-genotyper/ as text/html 2023-12-07T10:09:55,403 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.2.1-py3-none-any.whl#sha256=787bcfd15fdadab85ee28dd29967a3f92c4302cb16549911d93f7b95ac14c50d (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,404 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.2.0-py3-none-any.whl#sha256=c6f295d7ee07f206eb458327d59668b39e20994daa63a92c41f5eea2b751c768 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,405 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.14-py3-none-any.whl#sha256=89aa46552e9ebf050aee9b3e46e89416d8f1aea98bd1b612338c3fda037644ac (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,405 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.13-py3-none-any.whl#sha256=9bab52d5e6efcb201a0c5e79e1e7137c1edb5fbe54012b27da2e1ecec3430b40 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,406 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.12-py3-none-any.whl#sha256=cd646570f0e14c8ab99fcc6d060f5fd865d19cf26c182b9496dbd5036ef8474f (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,406 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.11-py3-none-any.whl#sha256=712cbb5cdf0871b3e86a1bfe294160b9dd2f5e975cbeb0b069608b05e61c2e63 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,406 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.9-py3-none-any.whl#sha256=abd4c09ec1c0e4e768343edc00f128ef5051e536f64ea1cf8574bc4189560df4 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,407 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.7-py3-none-any.whl#sha256=8f43fee2c6e410f98da126e538c321be6635f13c4117ae655b5903f85ba61a37 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,407 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.6-py3-none-any.whl#sha256=9a7614ebd0f8fbe1f2ffd60e6026cca8df99304e7df1a63f9a12e083dd8783c9 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,408 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.5-py3-none-any.whl#sha256=863ff32767fc3a5a4edf2d12a875bdb5282e1d7585f5cccadd07e34291bace14 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,408 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.4-py3-none-any.whl#sha256=1e408f1ed6d4777d59ddd7a160fb14c4c1f41d5c812a10b71d15c6691a376ba9 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,409 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.1.3-py3-none-any.whl#sha256=019dc5797ec7e2f674c903aec8ffec4e6144d072983bc357b84210d089c2aa00 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,409 Skipping link: No binaries permitted for kage-genotyper: 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https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.0.5-py3-none-any.whl#sha256=dbca21ae8964d1bf38306442e517c6b17b688a29519f7675082be82135c4c98f (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,424 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.0.4-py3-none-any.whl#sha256=a279c71d67ea133f1cf0818eb5c559c97e5f2460cc45aba044dd17abf30d6446 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,425 Skipping link: No binaries permitted for kage-genotyper: https://www.piwheels.org/simple/kage-genotyper/kage_genotyper-0.0.3-py3-none-any.whl#sha256=7d52b7bdc251d8fa41b2627126137f9c9d6b34e76dcc9d8c85de8d0d42f6bf33 (from https://www.piwheels.org/simple/kage-genotyper/) 2023-12-07T10:09:55,425 Skipping link: not a file: https://www.piwheels.org/simple/kage-genotyper/ 2023-12-07T10:09:55,426 Skipping link: not a file: https://pypi.org/simple/kage-genotyper/ 2023-12-07T10:09:55,449 Given no hashes to check 1 links for project 'kage-genotyper': discarding no candidates 2023-12-07T10:09:55,467 Collecting kage-genotyper==0.2.3 2023-12-07T10:09:55,470 Created temporary directory: /tmp/pip-unpack-h0snxlkj 2023-12-07T10:09:55,687 Downloading kage-genotyper-0.2.3.tar.gz (12.8 MB) 2023-12-07T10:09:58,399 Added kage-genotyper==0.2.3 from https://files.pythonhosted.org/packages/c3/8f/95df6d19af07be70be24557f51402a59aa7ce7e2e6ffa6fb041070c41582/kage-genotyper-0.2.3.tar.gz to build tracker '/tmp/pip-build-tracker-2i2ha2h4' 2023-12-07T10:09:58,402 Running setup.py (path:/tmp/pip-wheel-agi8hc6w/kage-genotyper_084bb985f8154e2482eb29e84ec4176a/setup.py) egg_info for package kage-genotyper 2023-12-07T10:09:58,402 Created temporary directory: /tmp/pip-pip-egg-info-t2enfa3x 2023-12-07T10:09:58,403 Preparing metadata (setup.py): started 2023-12-07T10:09:58,404 Running command python setup.py egg_info 2023-12-07T10:09:59,449 running egg_info 2023-12-07T10:09:59,450 creating /tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info 2023-12-07T10:09:59,474 writing /tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/PKG-INFO 2023-12-07T10:09:59,478 writing dependency_links to /tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/dependency_links.txt 2023-12-07T10:09:59,479 writing entry points to /tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/entry_points.txt 2023-12-07T10:09:59,481 writing requirements to /tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/requires.txt 2023-12-07T10:09:59,482 writing top-level names to /tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/top_level.txt 2023-12-07T10:09:59,483 writing manifest file '/tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/SOURCES.txt' 2023-12-07T10:09:59,569 reading manifest file '/tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/SOURCES.txt' 2023-12-07T10:09:59,571 adding license file 'LICENSE' 2023-12-07T10:09:59,574 writing manifest file '/tmp/pip-pip-egg-info-t2enfa3x/kage_genotyper.egg-info/SOURCES.txt' 2023-12-07T10:09:59,681 Preparing metadata (setup.py): finished with status 'done' 2023-12-07T10:09:59,685 Source in /tmp/pip-wheel-agi8hc6w/kage-genotyper_084bb985f8154e2482eb29e84ec4176a has version 0.2.3, which satisfies requirement kage-genotyper==0.2.3 from https://files.pythonhosted.org/packages/c3/8f/95df6d19af07be70be24557f51402a59aa7ce7e2e6ffa6fb041070c41582/kage-genotyper-0.2.3.tar.gz 2023-12-07T10:09:59,686 Removed kage-genotyper==0.2.3 from https://files.pythonhosted.org/packages/c3/8f/95df6d19af07be70be24557f51402a59aa7ce7e2e6ffa6fb041070c41582/kage-genotyper-0.2.3.tar.gz from build tracker '/tmp/pip-build-tracker-2i2ha2h4' 2023-12-07T10:09:59,691 Created temporary directory: /tmp/pip-unpack-0f9omuxo 2023-12-07T10:09:59,692 Created temporary directory: /tmp/pip-unpack-n9noa0c0 2023-12-07T10:09:59,713 Building wheels for collected packages: kage-genotyper 2023-12-07T10:09:59,717 Created temporary directory: /tmp/pip-wheel-6qirzff1 2023-12-07T10:09:59,718 Building wheel for kage-genotyper (setup.py): started 2023-12-07T10:09:59,719 Destination directory: /tmp/pip-wheel-6qirzff1 2023-12-07T10:09:59,720 Running command python setup.py bdist_wheel 2023-12-07T10:10:00,693 running bdist_wheel 2023-12-07T10:10:00,785 running build 2023-12-07T10:10:00,786 running build_py 2023-12-07T10:10:00,812 creating build 2023-12-07T10:10:00,813 creating build/lib 2023-12-07T10:10:00,814 creating build/lib/kage 2023-12-07T10:10:00,815 copying kage/variant_filtering.py -> build/lib/kage 2023-12-07T10:10:00,817 copying kage/configuration.py -> build/lib/kage 2023-12-07T10:10:00,819 copying kage/__init__.py -> build/lib/kage 2023-12-07T10:10:00,821 copying kage/io.py -> build/lib/kage 2023-12-07T10:10:00,823 copying kage/command_line_interface.py -> build/lib/kage 2023-12-07T10:10:00,825 copying kage/node_counts.py -> build/lib/kage 2023-12-07T10:10:00,827 copying kage/util.py -> build/lib/kage 2023-12-07T10:10:00,830 creating build/lib/kage/benchmarking 2023-12-07T10:10:00,830 copying kage/benchmarking/__init__.py -> build/lib/kage/benchmarking 2023-12-07T10:10:00,832 copying kage/benchmarking/vcf_preprocessing.py -> build/lib/kage/benchmarking 2023-12-07T10:10:00,835 creating build/lib/kage/preprocessing 2023-12-07T10:10:00,835 copying kage/preprocessing/__init__.py -> build/lib/kage/preprocessing 2023-12-07T10:10:00,837 copying kage/preprocessing/variants.py -> build/lib/kage/preprocessing 2023-12-07T10:10:00,840 creating build/lib/kage/simulation 2023-12-07T10:10:00,841 copying kage/simulation/simulation.py -> build/lib/kage/simulation 2023-12-07T10:10:00,843 copying kage/simulation/__init__.py -> build/lib/kage/simulation 2023-12-07T10:10:00,845 copying kage/simulation/read_simulation.py -> build/lib/kage/simulation 2023-12-07T10:10:00,847 creating build/lib/kage/genotyping 2023-12-07T10:10:00,848 copying kage/genotyping/combination_model_genotyper.py -> build/lib/kage/genotyping 2023-12-07T10:10:00,850 copying kage/genotyping/multiallelic.py -> build/lib/kage/genotyping 2023-12-07T10:10:00,852 copying kage/genotyping/__init__.py -> build/lib/kage/genotyping 2023-12-07T10:10:00,854 creating build/lib/kage/glimpse 2023-12-07T10:10:00,855 copying kage/glimpse/glimpse_wrapper.py -> build/lib/kage/glimpse 2023-12-07T10:10:00,857 copying kage/glimpse/__init__.py -> build/lib/kage/glimpse 2023-12-07T10:10:00,859 creating build/lib/kage/analysis 2023-12-07T10:10:00,860 copying kage/analysis/analysis.py -> build/lib/kage/analysis 2023-12-07T10:10:00,862 copying kage/analysis/__init__.py -> build/lib/kage/analysis 2023-12-07T10:10:00,864 copying kage/analysis/debugging.py -> build/lib/kage/analysis 2023-12-07T10:10:00,866 copying kage/analysis/variant_kmer_analyser.py -> build/lib/kage/analysis 2023-12-07T10:10:00,867 copying kage/analysis/genotype_accuracy.py -> build/lib/kage/analysis 2023-12-07T10:10:00,871 creating build/lib/kage/modles 2023-12-07T10:10:00,871 copying kage/modles/__init__.py -> build/lib/kage/modles 2023-12-07T10:10:00,873 creating build/lib/kage/models 2023-12-07T10:10:00,875 copying kage/models/helper_index_using_duplicate_counts.py -> build/lib/kage/models 2023-12-07T10:10:00,876 copying kage/models/mapping_model.py -> build/lib/kage/models 2023-12-07T10:10:00,879 copying kage/models/joint_distribution.py -> build/lib/kage/models 2023-12-07T10:10:00,880 copying kage/models/models.py -> build/lib/kage/models 2023-12-07T10:10:00,882 copying kage/models/helper_index.py -> build/lib/kage/models 2023-12-07T10:10:00,884 copying kage/models/__init__.py -> build/lib/kage/models 2023-12-07T10:10:00,886 copying kage/models/helper_model.py -> build/lib/kage/models 2023-12-07T10:10:00,888 copying kage/models/sampling_combo_model.py -> build/lib/kage/models 2023-12-07T10:10:00,891 creating build/lib/kage/indexing 2023-12-07T10:10:00,892 copying kage/indexing/index_bundle.py -> build/lib/kage/indexing 2023-12-07T10:10:00,894 copying kage/indexing/path_variant_indexing.py -> build/lib/kage/indexing 2023-12-07T10:10:00,897 copying kage/indexing/kmer_scoring.py -> build/lib/kage/indexing 2023-12-07T10:10:00,899 copying kage/indexing/paths.py -> build/lib/kage/indexing 2023-12-07T10:10:00,902 copying kage/indexing/modulo_filter.py -> build/lib/kage/indexing 2023-12-07T10:10:00,904 copying kage/indexing/path_based_count_model.py -> build/lib/kage/indexing 2023-12-07T10:10:00,906 copying kage/indexing/signatures.py -> build/lib/kage/indexing 2023-12-07T10:10:00,909 copying kage/indexing/graph.py -> build/lib/kage/indexing 2023-12-07T10:10:00,912 copying kage/indexing/__init__.py -> build/lib/kage/indexing 2023-12-07T10:10:00,913 copying kage/indexing/main.py -> build/lib/kage/indexing 2023-12-07T10:10:00,916 copying kage/indexing/div.py -> build/lib/kage/indexing 2023-12-07T10:10:00,918 copying kage/indexing/sparse_haplotype_matrix.py -> build/lib/kage/indexing 2023-12-07T10:10:00,920 copying kage/indexing/tricky_variants.py -> build/lib/kage/indexing 2023-12-07T10:10:00,954 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-12-07T10:10:00,954 !! 2023-12-07T10:10:00,955 ******************************************************************************** 2023-12-07T10:10:00,956 Please avoid running ``setup.py`` directly. 2023-12-07T10:10:00,956 Instead, use pypa/build, pypa/installer or other 2023-12-07T10:10:00,957 standards-based tools. 2023-12-07T10:10:00,958 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-12-07T10:10:00,958 ******************************************************************************** 2023-12-07T10:10:00,959 !! 2023-12-07T10:10:00,960 self.initialize_options() 2023-12-07T10:10:00,978 installing to build/bdist.linux-armv7l/wheel 2023-12-07T10:10:00,979 running install 2023-12-07T10:10:01,002 running install_lib 2023-12-07T10:10:01,026 creating build/bdist.linux-armv7l 2023-12-07T10:10:01,026 creating build/bdist.linux-armv7l/wheel 2023-12-07T10:10:01,028 creating build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,029 creating build/bdist.linux-armv7l/wheel/kage/benchmarking 2023-12-07T10:10:01,030 copying build/lib/kage/benchmarking/__init__.py -> build/bdist.linux-armv7l/wheel/kage/benchmarking 2023-12-07T10:10:01,031 copying build/lib/kage/benchmarking/vcf_preprocessing.py -> build/bdist.linux-armv7l/wheel/kage/benchmarking 2023-12-07T10:10:01,034 copying build/lib/kage/variant_filtering.py -> build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,035 copying build/lib/kage/configuration.py -> build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,037 creating build/bdist.linux-armv7l/wheel/kage/preprocessing 2023-12-07T10:10:01,038 copying build/lib/kage/preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/kage/preprocessing 2023-12-07T10:10:01,040 copying build/lib/kage/preprocessing/variants.py -> build/bdist.linux-armv7l/wheel/kage/preprocessing 2023-12-07T10:10:01,043 creating build/bdist.linux-armv7l/wheel/kage/simulation 2023-12-07T10:10:01,043 copying build/lib/kage/simulation/simulation.py -> build/bdist.linux-armv7l/wheel/kage/simulation 2023-12-07T10:10:01,046 copying build/lib/kage/simulation/__init__.py -> build/bdist.linux-armv7l/wheel/kage/simulation 2023-12-07T10:10:01,047 copying build/lib/kage/simulation/read_simulation.py -> build/bdist.linux-armv7l/wheel/kage/simulation 2023-12-07T10:10:01,049 copying build/lib/kage/__init__.py -> build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,051 copying build/lib/kage/io.py -> build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,053 creating build/bdist.linux-armv7l/wheel/kage/genotyping 2023-12-07T10:10:01,054 copying build/lib/kage/genotyping/combination_model_genotyper.py -> build/bdist.linux-armv7l/wheel/kage/genotyping 2023-12-07T10:10:01,056 copying build/lib/kage/genotyping/multiallelic.py -> build/bdist.linux-armv7l/wheel/kage/genotyping 2023-12-07T10:10:01,058 copying build/lib/kage/genotyping/__init__.py -> build/bdist.linux-armv7l/wheel/kage/genotyping 2023-12-07T10:10:01,060 creating build/bdist.linux-armv7l/wheel/kage/glimpse 2023-12-07T10:10:01,061 copying build/lib/kage/glimpse/glimpse_wrapper.py -> build/bdist.linux-armv7l/wheel/kage/glimpse 2023-12-07T10:10:01,063 copying build/lib/kage/glimpse/__init__.py -> build/bdist.linux-armv7l/wheel/kage/glimpse 2023-12-07T10:10:01,065 copying build/lib/kage/command_line_interface.py -> build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,068 creating build/bdist.linux-armv7l/wheel/kage/analysis 2023-12-07T10:10:01,069 copying build/lib/kage/analysis/analysis.py -> build/bdist.linux-armv7l/wheel/kage/analysis 2023-12-07T10:10:01,071 copying build/lib/kage/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/kage/analysis 2023-12-07T10:10:01,073 copying build/lib/kage/analysis/debugging.py -> build/bdist.linux-armv7l/wheel/kage/analysis 2023-12-07T10:10:01,075 copying build/lib/kage/analysis/variant_kmer_analyser.py -> build/bdist.linux-armv7l/wheel/kage/analysis 2023-12-07T10:10:01,077 copying build/lib/kage/analysis/genotype_accuracy.py -> build/bdist.linux-armv7l/wheel/kage/analysis 2023-12-07T10:10:01,079 creating build/bdist.linux-armv7l/wheel/kage/modles 2023-12-07T10:10:01,080 copying build/lib/kage/modles/__init__.py -> build/bdist.linux-armv7l/wheel/kage/modles 2023-12-07T10:10:01,082 creating build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,083 copying build/lib/kage/models/helper_index_using_duplicate_counts.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,085 copying build/lib/kage/models/mapping_model.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,087 copying build/lib/kage/models/joint_distribution.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,089 copying build/lib/kage/models/models.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,091 copying build/lib/kage/models/helper_index.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,093 copying build/lib/kage/models/__init__.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,094 copying build/lib/kage/models/helper_model.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,096 copying build/lib/kage/models/sampling_combo_model.py -> build/bdist.linux-armv7l/wheel/kage/models 2023-12-07T10:10:01,099 creating build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,100 copying build/lib/kage/indexing/index_bundle.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,102 copying build/lib/kage/indexing/path_variant_indexing.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,104 copying build/lib/kage/indexing/kmer_scoring.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,106 copying build/lib/kage/indexing/paths.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,109 copying build/lib/kage/indexing/modulo_filter.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,111 copying build/lib/kage/indexing/path_based_count_model.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,113 copying build/lib/kage/indexing/signatures.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,116 copying build/lib/kage/indexing/graph.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,118 copying build/lib/kage/indexing/__init__.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,120 copying build/lib/kage/indexing/main.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,122 copying build/lib/kage/indexing/div.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,124 copying build/lib/kage/indexing/sparse_haplotype_matrix.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,126 copying build/lib/kage/indexing/tricky_variants.py -> build/bdist.linux-armv7l/wheel/kage/indexing 2023-12-07T10:10:01,129 copying build/lib/kage/node_counts.py -> build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,130 copying build/lib/kage/util.py -> build/bdist.linux-armv7l/wheel/kage 2023-12-07T10:10:01,132 running install_egg_info 2023-12-07T10:10:01,191 running egg_info 2023-12-07T10:10:01,215 writing kage_genotyper.egg-info/PKG-INFO 2023-12-07T10:10:01,218 writing dependency_links to kage_genotyper.egg-info/dependency_links.txt 2023-12-07T10:10:01,219 writing entry points to kage_genotyper.egg-info/entry_points.txt 2023-12-07T10:10:01,221 writing requirements to kage_genotyper.egg-info/requires.txt 2023-12-07T10:10:01,222 writing top-level names to kage_genotyper.egg-info/top_level.txt 2023-12-07T10:10:01,256 reading manifest file 'kage_genotyper.egg-info/SOURCES.txt' 2023-12-07T10:10:01,262 adding license file 'LICENSE' 2023-12-07T10:10:01,267 writing manifest file 'kage_genotyper.egg-info/SOURCES.txt' 2023-12-07T10:10:01,269 Copying kage_genotyper.egg-info to build/bdist.linux-armv7l/wheel/kage_genotyper-0.2.3-py3.11.egg-info 2023-12-07T10:10:01,281 running install_scripts 2023-12-07T10:10:01,299 creating build/bdist.linux-armv7l/wheel/kage_genotyper-0.2.3.dist-info/WHEEL 2023-12-07T10:10:01,301 creating '/tmp/pip-wheel-6qirzff1/kage_genotyper-0.2.3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-12-07T10:10:01,303 adding 'kage/__init__.py' 2023-12-07T10:10:01,306 adding 'kage/command_line_interface.py' 2023-12-07T10:10:01,307 adding 'kage/configuration.py' 2023-12-07T10:10:01,309 adding 'kage/io.py' 2023-12-07T10:10:01,310 adding 'kage/node_counts.py' 2023-12-07T10:10:01,315 adding 'kage/util.py' 2023-12-07T10:10:01,316 adding 'kage/variant_filtering.py' 2023-12-07T10:10:01,318 adding 'kage/analysis/__init__.py' 2023-12-07T10:10:01,320 adding 'kage/analysis/analysis.py' 2023-12-07T10:10:01,322 adding 'kage/analysis/debugging.py' 2023-12-07T10:10:01,325 adding 'kage/analysis/genotype_accuracy.py' 2023-12-07T10:10:01,326 adding 'kage/analysis/variant_kmer_analyser.py' 2023-12-07T10:10:01,328 adding 'kage/benchmarking/__init__.py' 2023-12-07T10:10:01,330 adding 'kage/benchmarking/vcf_preprocessing.py' 2023-12-07T10:10:01,331 adding 'kage/genotyping/__init__.py' 2023-12-07T10:10:01,333 adding 'kage/genotyping/combination_model_genotyper.py' 2023-12-07T10:10:01,334 adding 'kage/genotyping/multiallelic.py' 2023-12-07T10:10:01,336 adding 'kage/glimpse/__init__.py' 2023-12-07T10:10:01,337 adding 'kage/glimpse/glimpse_wrapper.py' 2023-12-07T10:10:01,339 adding 'kage/indexing/__init__.py' 2023-12-07T10:10:01,340 adding 'kage/indexing/div.py' 2023-12-07T10:10:01,342 adding 'kage/indexing/graph.py' 2023-12-07T10:10:01,343 adding 'kage/indexing/index_bundle.py' 2023-12-07T10:10:01,345 adding 'kage/indexing/kmer_scoring.py' 2023-12-07T10:10:01,347 adding 'kage/indexing/main.py' 2023-12-07T10:10:01,349 adding 'kage/indexing/modulo_filter.py' 2023-12-07T10:10:01,351 adding 'kage/indexing/path_based_count_model.py' 2023-12-07T10:10:01,353 adding 'kage/indexing/path_variant_indexing.py' 2023-12-07T10:10:01,357 adding 'kage/indexing/paths.py' 2023-12-07T10:10:01,363 adding 'kage/indexing/signatures.py' 2023-12-07T10:10:01,365 adding 'kage/indexing/sparse_haplotype_matrix.py' 2023-12-07T10:10:01,366 adding 'kage/indexing/tricky_variants.py' 2023-12-07T10:10:01,368 adding 'kage/models/__init__.py' 2023-12-07T10:10:01,369 adding 'kage/models/helper_index.py' 2023-12-07T10:10:01,371 adding 'kage/models/helper_index_using_duplicate_counts.py' 2023-12-07T10:10:01,373 adding 'kage/models/helper_model.py' 2023-12-07T10:10:01,374 adding 'kage/models/joint_distribution.py' 2023-12-07T10:10:01,375 adding 'kage/models/mapping_model.py' 2023-12-07T10:10:01,377 adding 'kage/models/models.py' 2023-12-07T10:10:01,380 adding 'kage/models/sampling_combo_model.py' 2023-12-07T10:10:01,382 adding 'kage/modles/__init__.py' 2023-12-07T10:10:01,383 adding 'kage/preprocessing/__init__.py' 2023-12-07T10:10:01,388 adding 'kage/preprocessing/variants.py' 2023-12-07T10:10:01,389 adding 'kage/simulation/__init__.py' 2023-12-07T10:10:01,391 adding 'kage/simulation/read_simulation.py' 2023-12-07T10:10:01,393 adding 'kage/simulation/simulation.py' 2023-12-07T10:10:01,400 adding 'kage_genotyper-0.2.3.dist-info/LICENSE' 2023-12-07T10:10:01,401 adding 'kage_genotyper-0.2.3.dist-info/METADATA' 2023-12-07T10:10:01,402 adding 'kage_genotyper-0.2.3.dist-info/WHEEL' 2023-12-07T10:10:01,403 adding 'kage_genotyper-0.2.3.dist-info/entry_points.txt' 2023-12-07T10:10:01,403 adding 'kage_genotyper-0.2.3.dist-info/top_level.txt' 2023-12-07T10:10:01,405 adding 'kage_genotyper-0.2.3.dist-info/RECORD' 2023-12-07T10:10:01,408 removing build/bdist.linux-armv7l/wheel 2023-12-07T10:10:01,531 Building wheel for kage-genotyper (setup.py): finished with status 'done' 2023-12-07T10:10:01,535 Created wheel for kage-genotyper: filename=kage_genotyper-0.2.3-py3-none-any.whl size=119671 sha256=6964f2b2b0b90ba2e872e5f10f422b0b6f538318362a4307c4688b77d43805d2 2023-12-07T10:10:01,536 Stored in directory: /tmp/pip-ephem-wheel-cache-c_65bke3/wheels/ad/21/b4/7e5c5a91988467ad73a3393a6340977b151ab2e90bd2495bfb 2023-12-07T10:10:01,548 Successfully built kage-genotyper 2023-12-07T10:10:01,554 Removed build tracker: '/tmp/pip-build-tracker-2i2ha2h4'