2023-12-28T06:06:02,005 Created temporary directory: /tmp/pip-build-tracker-u5j_0evh 2023-12-28T06:06:02,006 Initialized build tracking at /tmp/pip-build-tracker-u5j_0evh 2023-12-28T06:06:02,007 Created build tracker: /tmp/pip-build-tracker-u5j_0evh 2023-12-28T06:06:02,007 Entered build tracker: /tmp/pip-build-tracker-u5j_0evh 2023-12-28T06:06:02,008 Created temporary directory: /tmp/pip-wheel-3cht4zgn 2023-12-28T06:06:02,011 Created temporary directory: /tmp/pip-ephem-wheel-cache-dr68w1o3 2023-12-28T06:06:02,033 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-12-28T06:06:02,037 2 location(s) to search for versions of mitos: 2023-12-28T06:06:02,037 * https://pypi.org/simple/mitos/ 2023-12-28T06:06:02,037 * https://www.piwheels.org/simple/mitos/ 2023-12-28T06:06:02,037 Fetching project page and analyzing links: https://pypi.org/simple/mitos/ 2023-12-28T06:06:02,038 Getting page https://pypi.org/simple/mitos/ 2023-12-28T06:06:02,039 Found index url https://pypi.org/simple/ 2023-12-28T06:06:02,180 Fetched page https://pypi.org/simple/mitos/ as application/vnd.pypi.simple.v1+json 2023-12-28T06:06:02,185 Skipping link: No binaries permitted for mitos: https://files.pythonhosted.org/packages/ae/2d/5f1e66a046e59cf6088f44d4a02cae66d498e226365af5fd42e2d660a814/mitos-1.0-py2-none-any.whl (from https://pypi.org/simple/mitos/) 2023-12-28T06:06:02,186 Found link https://files.pythonhosted.org/packages/c5/6e/e1aae4079b0ebbce64897f54f5cd4a3953a0cb741026d16e14e7ae272a48/mitos-1.0.tar.gz (from https://pypi.org/simple/mitos/), version: 1.0 2023-12-28T06:06:02,187 Found link https://files.pythonhosted.org/packages/d7/19/816780e09ecc6a783f146d80bcde73eb7940d074f4feea137ec954bfd437/mitos-1.0.1.tar.gz (from https://pypi.org/simple/mitos/), version: 1.0.1 2023-12-28T06:06:02,187 Found link https://files.pythonhosted.org/packages/38/c7/3dd90bcf0d61c69226ef1632baa3ad0e96d798de36053b4b56ed7660dfdb/mitos-1.0.2.tar.gz (from https://pypi.org/simple/mitos/), version: 1.0.2 2023-12-28T06:06:02,188 Found link https://files.pythonhosted.org/packages/e2/d4/864af2605cc1f45cc78cfed740bbdfba1da59ea9a42c24ef5077c9218501/mitos-1.0.3.tar.gz (from https://pypi.org/simple/mitos/), version: 1.0.3 2023-12-28T06:06:02,189 Found link https://files.pythonhosted.org/packages/8d/32/1aa5eb88f964c3cf5441622648cc4ae30f115db32bdd5dc5bf194a3c112c/mitos-1.0.4.tar.gz (from https://pypi.org/simple/mitos/), version: 1.0.4 2023-12-28T06:06:02,190 Found link https://files.pythonhosted.org/packages/ff/49/f4c711126604aa86abeeda44378786a0903bc53970acf4afa5feb68f72b8/mitos-1.0.5.tar.gz (from https://pypi.org/simple/mitos/), version: 1.0.5 2023-12-28T06:06:02,190 Skipping link: No binaries permitted for mitos: https://files.pythonhosted.org/packages/c3/cd/96e0e1ad1551b8fff56ab89e61231809494dec3ee80f51117b4f5d432452/mitos-1.1.0-py3-none-any.whl (from https://pypi.org/simple/mitos/) 2023-12-28T06:06:02,191 Found link https://files.pythonhosted.org/packages/ce/33/46fd40fd9f4c11f5bf296c2c092f59e36dee233d71a0f032b34c2a64c7ba/mitos-1.1.0.tar.gz (from https://pypi.org/simple/mitos/), version: 1.1.0 2023-12-28T06:06:02,192 Found link https://files.pythonhosted.org/packages/b3/a0/5268d8fec841240195c19e704b552a8b3060768c6710c67c67350ea60f13/mitos-1.1.1.tar.gz (from https://pypi.org/simple/mitos/), version: 1.1.1 2023-12-28T06:06:02,193 Found link https://files.pythonhosted.org/packages/7c/38/4431d42c178a65b3710531867f10ae50c5a49408ccab6c058af277e83e5d/mitos-1.1.2.tar.gz (from https://pypi.org/simple/mitos/), version: 1.1.2 2023-12-28T06:06:02,193 Found link https://files.pythonhosted.org/packages/76/40/e0db56e8dfc65a2a13c8f613c4b5839247b918a1cd5d83b384a6c957928e/mitos-1.1.3.tar.gz (from https://pypi.org/simple/mitos/), version: 1.1.3 2023-12-28T06:06:02,194 Found link https://files.pythonhosted.org/packages/f3/fa/7e2b9cef0d99e7792077a4c1116dc9bbe4c085e7b89ea79b74474c00b2b1/mitos-2.0.1.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.1 2023-12-28T06:06:02,195 Found link https://files.pythonhosted.org/packages/d7/53/5d215fe8689055dd329a27202f9dc7f66e23548f3d2ad3fa55d98dc56988/mitos-2.0.2.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.2 2023-12-28T06:06:02,195 Found link https://files.pythonhosted.org/packages/cd/97/a8bf95d5e26b51071d9f342dc475891425b223b6add347a6dbf9412937f1/mitos-2.0.3.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.3 2023-12-28T06:06:02,196 Found link https://files.pythonhosted.org/packages/39/9f/6cdac19a8d50915e2e5285b447077459af9c6524f980ded6657dc205593d/mitos-2.0.4.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.4 2023-12-28T06:06:02,197 Found link https://files.pythonhosted.org/packages/d0/16/8040a37887377e3992b0874ab441af54e16030fd23eb844bbf5293597c99/mitos-2.0.5.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.5 2023-12-28T06:06:02,198 Found link https://files.pythonhosted.org/packages/40/ef/5a93579c1ebc63ca8fe71cfe541bca389a0f9410b9a2c1ceff148f83af79/mitos-2.0.6.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.6 2023-12-28T06:06:02,198 Found link https://files.pythonhosted.org/packages/1f/a2/32eb96227aae3a719794cc922d839b8c38ee5c315087bf095792c48f996d/mitos-2.0.7.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.7 2023-12-28T06:06:02,199 Found link https://files.pythonhosted.org/packages/d5/7f/b3e5c5c83352beb13677186899379de3c50a2222dc8faac16632f600d4b6/mitos-2.0.8.tar.gz (from https://pypi.org/simple/mitos/), version: 2.0.8 2023-12-28T06:06:02,199 Skipping link: No binaries permitted for mitos: https://files.pythonhosted.org/packages/9d/93/5f2a1097bfa507acbf7dd6ac677f6df14df61692cccb42d28c34edb7ca5b/mitos-2.1.0-py3-none-any.whl (from https://pypi.org/simple/mitos/) 2023-12-28T06:06:02,200 Found link https://files.pythonhosted.org/packages/f8/f4/2950dea175f0bda896b88ac2ac13007a1d007252a583ddd328b176fb54a5/mitos-2.1.0.tar.gz (from https://pypi.org/simple/mitos/), version: 2.1.0 2023-12-28T06:06:02,200 Found link https://files.pythonhosted.org/packages/57/78/2fde036a6c767aa5fb8c1102526af749ee13ad426b295289265c548384f9/mitos-2.1.1.tar.gz (from https://pypi.org/simple/mitos/), version: 2.1.1 2023-12-28T06:06:02,201 Found link https://files.pythonhosted.org/packages/74/63/f90f359df86c01e68f5c678eef30d929b9311e7bb80f16071a1532515a0a/mitos-2.1.2.tar.gz (from https://pypi.org/simple/mitos/), version: 2.1.2 2023-12-28T06:06:02,202 Found link https://files.pythonhosted.org/packages/d6/1f/b6dbc4704555e91e3efa3184fc90b04e901dc6e787c37091d445dd50bd4b/mitos-2.1.3.tar.gz (from https://pypi.org/simple/mitos/), version: 2.1.3 2023-12-28T06:06:02,202 Found link https://files.pythonhosted.org/packages/ff/1f/af7beaaaa133f2f55cdbfbf5430c0e9a3102b101dd0a8d2c6f22376af56b/mitos-2.1.4.tar.gz (from https://pypi.org/simple/mitos/), version: 2.1.4 2023-12-28T06:06:02,203 Found link https://files.pythonhosted.org/packages/c9/6d/853d05a3ec8c81c73bb23ba0862ded05aa4c2fdc74cdc796c982c6896476/mitos-2.1.5.tar.gz (from https://pypi.org/simple/mitos/), version: 2.1.5 2023-12-28T06:06:02,204 Fetching project page and analyzing links: https://www.piwheels.org/simple/mitos/ 2023-12-28T06:06:02,205 Getting page https://www.piwheels.org/simple/mitos/ 2023-12-28T06:06:02,206 Found index url https://www.piwheels.org/simple/ 2023-12-28T06:06:02,358 Fetched page https://www.piwheels.org/simple/mitos/ as text/html 2023-12-28T06:06:02,364 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.1.4-py3-none-any.whl#sha256=249c87e42350fbefa1e3281d0e81f795c7710a95303b226bdc818b51615162e0 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,365 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.1.3-py3-none-any.whl#sha256=dd19f4a9b02b695465d7d7861d7f611d1c73f231e6205b881d1617cd733bdd87 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,366 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.1.2-py3-none-any.whl#sha256=c98234624cb7939861858030fbac10b88073159ea24b334b42e1cfd70254088d (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,366 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.1.1-py3-none-any.whl#sha256=698670abccda0918af0b490888cb195f86172e217766c9672bfedae33666ac82 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,367 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.1.0-py3-none-any.whl#sha256=d4b006045b98620155cbed38de6ecf0d0ffb030cebc4d6e6e947cb015b8ce746 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,368 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.8-py3-none-any.whl#sha256=5e88aa49c5bba746d511e0e619295e3c59916c71ba94246f984e44dcfef6a06c (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,368 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.7-py3-none-any.whl#sha256=97e98856e946735f44b3df83d67645e0dac8b411edb7774df74c00a44832e1d6 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,368 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.6-py3-none-any.whl#sha256=8fba2e7cf9c22c6a728a1f8141764a77a6a4a27d7f7e50106b6e43832857b149 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,369 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.5-py3-none-any.whl#sha256=ed4998969ebae7bf1688b78cdac8f19ca359f123ea79c2acd2654dd454a53f22 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,369 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.4-py3-none-any.whl#sha256=71ac10ffdc0a236d68e4fd82a700ae35a92f0b23a09242c8b99485ccbadb10cc (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,370 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.3-py3-none-any.whl#sha256=4da7d3530901e0732adc63ab4afa0c5d9a40558469b2ccee71ea4fbad466603b (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,370 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.2-py3-none-any.whl#sha256=0cd775b72e2dca4acf2f9c6f4d591abaeb00b983e4882fcf536d934a8263d342 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,371 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-2.0.1-py3-none-any.whl#sha256=307713427f698c0f3449d782d86287f1494fd2ff773a9fc407fbd29a0de53aed (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,371 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.1.2-py3-none-any.whl#sha256=b237b128b553848c12c5d387b10a20bbcb734b8672b3bf56fb2f3995e169c03d (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,372 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.1.1-py3-none-any.whl#sha256=f0970e0e530a2a7759daafc81f1c79460dc85d15c1f34551d8394dce187dfe1c (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,373 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.1.0-py3-none-any.whl#sha256=424b5172258baf2837d8a45e89224c12fdc3cc2a8f4ba0894e5c74111e754e5d (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,373 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.0.5-py3-none-any.whl#sha256=f27a041efc520420cbffbb63a6c428a2ace092d6ffdc47942d6b9c434a281629 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,374 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.0.4-py3-none-any.whl#sha256=4c35b6595c7a62189502f6becaed4b2fe147f7ed6c6ee8d6b69fb4fda5e2139a (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,374 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.0.3-py3-none-any.whl#sha256=7b62f2fcef8414d2a429f2f3c033e85c9377805612113e7103fa6793aa083cbc (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,375 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.0.2-py3-none-any.whl#sha256=ba6a5f7a1d3a0a95106d401e13f7639c5ed2ecb367ab7899e2204b14aa9930a1 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,376 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.0.1-py3-none-any.whl#sha256=d216729f10eb3463d947658451c8f70fd97a9b2ca94cea55221f7a50f85749e2 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,376 Skipping link: No binaries permitted for mitos: https://www.piwheels.org/simple/mitos/mitos-1.0-py3-none-any.whl#sha256=4f914c63f700f85163b395353782bcb87e49392f63c151f387dd4514694d0ac1 (from https://www.piwheels.org/simple/mitos/) 2023-12-28T06:06:02,377 Skipping link: not a file: https://www.piwheels.org/simple/mitos/ 2023-12-28T06:06:02,377 Skipping link: not a file: https://pypi.org/simple/mitos/ 2023-12-28T06:06:02,399 Given no hashes to check 1 links for project 'mitos': discarding no candidates 2023-12-28T06:06:02,416 Collecting mitos==2.1.5 2023-12-28T06:06:02,419 Created temporary directory: /tmp/pip-unpack-ma5mnxz_ 2023-12-28T06:06:02,750 Downloading mitos-2.1.5.tar.gz (277 kB) 2023-12-28T06:06:03,016 Added mitos==2.1.5 from https://files.pythonhosted.org/packages/c9/6d/853d05a3ec8c81c73bb23ba0862ded05aa4c2fdc74cdc796c982c6896476/mitos-2.1.5.tar.gz to build tracker '/tmp/pip-build-tracker-u5j_0evh' 2023-12-28T06:06:03,018 Running setup.py (path:/tmp/pip-wheel-3cht4zgn/mitos_af757a931dc6420da168aa82c1a6bced/setup.py) egg_info for package mitos 2023-12-28T06:06:03,019 Created temporary directory: /tmp/pip-pip-egg-info-9y7ghbpr 2023-12-28T06:06:03,019 Preparing metadata (setup.py): started 2023-12-28T06:06:03,021 Running command python setup.py egg_info 2023-12-28T06:06:04,084 running egg_info 2023-12-28T06:06:04,085 creating /tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info 2023-12-28T06:06:04,109 writing /tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info/PKG-INFO 2023-12-28T06:06:04,112 writing dependency_links to /tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info/dependency_links.txt 2023-12-28T06:06:04,114 writing requirements to /tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info/requires.txt 2023-12-28T06:06:04,115 writing top-level names to /tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info/top_level.txt 2023-12-28T06:06:04,117 writing manifest file '/tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info/SOURCES.txt' 2023-12-28T06:06:04,236 reading manifest file '/tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info/SOURCES.txt' 2023-12-28T06:06:04,237 reading manifest template 'MANIFEST.in' 2023-12-28T06:06:04,238 warning: no files found matching 'mitos/codons/gc.prt' 2023-12-28T06:06:04,240 adding license file 'LICENSE' 2023-12-28T06:06:04,244 writing manifest file '/tmp/pip-pip-egg-info-9y7ghbpr/mitos.egg-info/SOURCES.txt' 2023-12-28T06:06:04,355 Preparing metadata (setup.py): finished with status 'done' 2023-12-28T06:06:04,359 Source in /tmp/pip-wheel-3cht4zgn/mitos_af757a931dc6420da168aa82c1a6bced has version 2.1.5, which satisfies requirement mitos==2.1.5 from https://files.pythonhosted.org/packages/c9/6d/853d05a3ec8c81c73bb23ba0862ded05aa4c2fdc74cdc796c982c6896476/mitos-2.1.5.tar.gz 2023-12-28T06:06:04,360 Removed mitos==2.1.5 from https://files.pythonhosted.org/packages/c9/6d/853d05a3ec8c81c73bb23ba0862ded05aa4c2fdc74cdc796c982c6896476/mitos-2.1.5.tar.gz from build tracker '/tmp/pip-build-tracker-u5j_0evh' 2023-12-28T06:06:04,365 Created temporary directory: /tmp/pip-unpack-m9nys88g 2023-12-28T06:06:04,366 Created temporary directory: /tmp/pip-unpack-dpt1boxi 2023-12-28T06:06:04,371 Building wheels for collected packages: mitos 2023-12-28T06:06:04,375 Created temporary directory: /tmp/pip-wheel-r6splvpm 2023-12-28T06:06:04,376 Building wheel for mitos (setup.py): started 2023-12-28T06:06:04,377 Destination directory: /tmp/pip-wheel-r6splvpm 2023-12-28T06:06:04,378 Running command python setup.py bdist_wheel 2023-12-28T06:06:05,390 running bdist_wheel 2023-12-28T06:06:05,485 running build 2023-12-28T06:06:05,485 running build_py 2023-12-28T06:06:05,515 creating build 2023-12-28T06:06:05,516 creating build/lib 2023-12-28T06:06:05,517 creating build/lib/mitos 2023-12-28T06:06:05,518 copying mitos/mitos-extension.py -> build/lib/mitos 2023-12-28T06:06:05,521 copying mitos/update-mitolog.py -> build/lib/mitos 2023-12-28T06:06:05,523 copying mitos/codoncount.py -> build/lib/mitos 2023-12-28T06:06:05,525 copying mitos/cmsearch_parse_separate.py -> build/lib/mitos 2023-12-28T06:06:05,527 copying mitos/trnascan_parse_separate.py -> build/lib/mitos 2023-12-28T06:06:05,529 copying mitos/inihit.py -> build/lib/mitos 2023-12-28T06:06:05,531 copying mitos/convert_tree.py -> build/lib/mitos 2023-12-28T06:06:05,534 copying mitos/names.py -> build/lib/mitos 2023-12-28T06:06:05,535 copying mitos/prepareFiles.py -> build/lib/mitos 2023-12-28T06:06:05,537 copying mitos/trna-cm.py -> build/lib/mitos 2023-12-28T06:06:05,542 copying mitos/booreparser.py -> build/lib/mitos 2023-12-28T06:06:05,544 copying mitos/skew.py -> build/lib/mitos 2023-12-28T06:06:05,546 copying mitos/mitoch_revisions.py -> build/lib/mitos 2023-12-28T06:06:05,549 copying mitos/__init__.py -> build/lib/mitos 2023-12-28T06:06:05,551 copying mitos/create_prot_fasta.py -> build/lib/mitos 2023-12-28T06:06:05,553 copying mitos/mitos-extension2.py -> build/lib/mitos 2023-12-28T06:06:05,556 copying mitos/mumcmp.py -> build/lib/mitos 2023-12-28T06:06:05,557 copying mitos/merge_results.py -> build/lib/mitos 2023-12-28T06:06:05,560 copying mitos/ogre-geneorder.py -> build/lib/mitos 2023-12-28T06:06:05,562 copying mitos/CONFIG.py -> build/lib/mitos 2023-12-28T06:06:05,564 copying mitos/trnadist.py -> build/lib/mitos 2023-12-28T06:06:05,566 copying mitos/mitoloc.py -> build/lib/mitos 2023-12-28T06:06:05,568 copying mitos/get-wancy.py -> build/lib/mitos 2023-12-28T06:06:05,570 copying mitos/removegene.py -> build/lib/mitos 2023-12-28T06:06:05,573 creating build/lib/mitos/tbl 2023-12-28T06:06:05,574 copying mitos/tbl/__init__.py -> build/lib/mitos/tbl 2023-12-28T06:06:05,576 creating build/lib/mitos/blast 2023-12-28T06:06:05,577 copying mitos/blast/__init__.py -> build/lib/mitos/blast 2023-12-28T06:06:05,582 creating build/lib/mitos/rna 2023-12-28T06:06:05,583 copying mitos/rna/vienna.py -> build/lib/mitos/rna 2023-12-28T06:06:05,586 copying mitos/rna/forester.py -> build/lib/mitos/rna 2023-12-28T06:06:05,588 copying mitos/rna/__init__.py -> build/lib/mitos/rna 2023-12-28T06:06:05,590 creating build/lib/mitos/webserver 2023-12-28T06:06:05,591 copying mitos/webserver/__init__.py -> build/lib/mitos/webserver 2023-12-28T06:06:05,594 creating build/lib/mitos/mergefeature 2023-12-28T06:06:05,595 copying mitos/mergefeature/__init__.py -> build/lib/mitos/mergefeature 2023-12-28T06:06:05,599 creating build/lib/mitos/protfeat 2023-12-28T06:06:05,599 copying mitos/protfeat/__init__.py -> build/lib/mitos/protfeat 2023-12-28T06:06:05,603 creating build/lib/mitos/update 2023-12-28T06:06:05,604 copying mitos/update/__init__.py -> build/lib/mitos/update 2023-12-28T06:06:05,607 creating build/lib/mitos/mito 2023-12-28T06:06:05,608 copying mitos/mito/__init__.py -> build/lib/mitos/mito 2023-12-28T06:06:05,611 creating build/lib/mitos/draw 2023-12-28T06:06:05,612 copying mitos/draw/__init__.py -> build/lib/mitos/draw 2023-12-28T06:06:05,615 creating build/lib/mitos/sequin 2023-12-28T06:06:05,616 copying mitos/sequin/__init__.py -> build/lib/mitos/sequin 2023-12-28T06:06:05,618 creating build/lib/mitos/bedfile 2023-12-28T06:06:05,619 copying mitos/bedfile/__init__.py -> build/lib/mitos/bedfile 2023-12-28T06:06:05,621 creating build/lib/mitos/mitofile 2023-12-28T06:06:05,622 copying mitos/mitofile/__init__.py -> build/lib/mitos/mitofile 2023-12-28T06:06:05,625 creating build/lib/mitos/trna 2023-12-28T06:06:05,626 copying mitos/trna/trnascan.py -> build/lib/mitos/trna 2023-12-28T06:06:05,628 copying mitos/trna/__init__.py -> build/lib/mitos/trna 2023-12-28T06:06:05,631 copying mitos/trna/arwenscan.py -> build/lib/mitos/trna 2023-12-28T06:06:05,634 creating build/lib/mitos/gfffile 2023-12-28T06:06:05,634 copying mitos/gfffile/__init__.py -> build/lib/mitos/gfffile 2023-12-28T06:06:05,637 creating build/lib/mitos/gb 2023-12-28T06:06:05,638 copying mitos/gb/__init__.py -> build/lib/mitos/gb 2023-12-28T06:06:05,641 copying mitos/gb/unify.py -> build/lib/mitos/gb 2023-12-28T06:06:05,644 creating build/lib/mitos/extprog 2023-12-28T06:06:05,645 copying mitos/extprog/__init__.py -> build/lib/mitos/extprog 2023-12-28T06:06:05,647 creating build/lib/mitos/feature 2023-12-28T06:06:05,648 copying mitos/feature/__init__.py -> build/lib/mitos/feature 2023-12-28T06:06:05,652 creating build/lib/mitos/mitfi 2023-12-28T06:06:05,653 copying mitos/mitfi/__init__.py -> build/lib/mitos/mitfi 2023-12-28T06:06:05,656 creating build/lib/mitos/sequence 2023-12-28T06:06:05,657 copying mitos/sequence/__init__.py -> build/lib/mitos/sequence 2023-12-28T06:06:05,660 copying mitos/sequence/degenerate.py -> build/lib/mitos/sequence 2023-12-28T06:06:05,662 creating build/lib/mitos/util 2023-12-28T06:06:05,663 copying mitos/util/__init__.py -> build/lib/mitos/util 2023-12-28T06:06:05,665 creating build/lib/mitos/tax 2023-12-28T06:06:05,666 copying mitos/tax/__init__.py -> build/lib/mitos/tax 2023-12-28T06:06:05,668 running egg_info 2023-12-28T06:06:05,724 writing mitos.egg-info/PKG-INFO 2023-12-28T06:06:05,728 writing dependency_links to mitos.egg-info/dependency_links.txt 2023-12-28T06:06:05,729 writing requirements to mitos.egg-info/requires.txt 2023-12-28T06:06:05,730 writing top-level names to mitos.egg-info/top_level.txt 2023-12-28T06:06:05,770 reading manifest file 'mitos.egg-info/SOURCES.txt' 2023-12-28T06:06:05,774 reading manifest template 'MANIFEST.in' 2023-12-28T06:06:05,774 warning: no files found matching 'mitos/codons/gc.prt' 2023-12-28T06:06:05,776 adding license file 'LICENSE' 2023-12-28T06:06:05,781 writing manifest file 'mitos.egg-info/SOURCES.txt' 2023-12-28T06:06:05,784 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'mitos.mitfi.parser' is absent from the `packages` configuration. 2023-12-28T06:06:05,785 !! 2023-12-28T06:06:05,786 ******************************************************************************** 2023-12-28T06:06:05,786 ############################ 2023-12-28T06:06:05,787 # Package would be ignored # 2023-12-28T06:06:05,787 ############################ 2023-12-28T06:06:05,788 Python recognizes 'mitos.mitfi.parser' as an importable package[^1], 2023-12-28T06:06:05,789 but it is absent from setuptools' `packages` configuration. 2023-12-28T06:06:05,790 This leads to an ambiguous overall configuration. If you want to distribute this 2023-12-28T06:06:05,790 package, please make sure that 'mitos.mitfi.parser' is explicitly added 2023-12-28T06:06:05,791 to the `packages` configuration field. 2023-12-28T06:06:05,792 Alternatively, you can also rely on setuptools' discovery methods 2023-12-28T06:06:05,793 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-12-28T06:06:05,793 instead of `find_packages(...)`/`find:`). 2023-12-28T06:06:05,794 You can read more about "package discovery" on setuptools documentation page: 2023-12-28T06:06:05,795 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-12-28T06:06:05,796 If you don't want 'mitos.mitfi.parser' to be distributed and are 2023-12-28T06:06:05,797 already explicitly excluding 'mitos.mitfi.parser' via 2023-12-28T06:06:05,798 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-12-28T06:06:05,798 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-12-28T06:06:05,799 combination with a more fine grained `package-data` configuration. 2023-12-28T06:06:05,800 You can read more about "package data files" on setuptools documentation page: 2023-12-28T06:06:05,801 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-12-28T06:06:05,802 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-12-28T06:06:05,803 even if it does not contain any `.py` files. 2023-12-28T06:06:05,803 On the other hand, currently there is no concept of package data 2023-12-28T06:06:05,804 directory, all directories are treated like packages. 2023-12-28T06:06:05,804 ******************************************************************************** 2023-12-28T06:06:05,805 !! 2023-12-28T06:06:05,806 check.warn(importable) 2023-12-28T06:06:05,806 copying mitos/plotprot.R -> build/lib/mitos 2023-12-28T06:06:05,807 copying mitos/plotrna.R -> build/lib/mitos 2023-12-28T06:06:05,808 copying mitos/plotstst.R -> build/lib/mitos 2023-12-28T06:06:05,808 copying mitos/webserver/help.txt -> build/lib/mitos/webserver 2023-12-28T06:06:05,809 copying mitos/webserver/history.txt -> build/lib/mitos/webserver 2023-12-28T06:06:05,811 copying mitos/webserver/index.txt -> build/lib/mitos/webserver 2023-12-28T06:06:05,814 copying mitos/webserver/news.txt -> build/lib/mitos/webserver 2023-12-28T06:06:05,816 copying mitos/webserver/upload.txt -> build/lib/mitos/webserver 2023-12-28T06:06:05,818 copying mitos/webserver/wait.txt -> build/lib/mitos/webserver 2023-12-28T06:06:05,820 creating build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,821 copying mitos/mitfi/parser/improve_infernal_structure.jar -> build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,823 copying mitos/mitfi/parser/mitfiGeneticCodes -> build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,826 copying mitos/mitfi/parser/mitfi_import-1.1.jar -> build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,829 copying mitos/mitfi/parser/mitfi_import-1.1.jar.old -> build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,833 copying mitos/mitfi/parser/mitfi_import-1.1.jar.org -> build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,836 copying mitos/mitfi/parser/mitfi_import-1.1.jar.org.pre-circ -> build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,838 copying mitos/mitfi/parser/mitfi_import.jar -> build/lib/mitos/mitfi/parser 2023-12-28T06:06:05,850 running build_scripts 2023-12-28T06:06:05,851 creating build/scripts-3.11 2023-12-28T06:06:05,851 copying and adjusting runmitos.py -> build/scripts-3.11 2023-12-28T06:06:05,855 copying and adjusting drawmitos.py -> build/scripts-3.11 2023-12-28T06:06:05,856 copying and adjusting analyse.py -> build/scripts-3.11 2023-12-28T06:06:05,859 copying and adjusting gcpp.py -> build/scripts-3.11 2023-12-28T06:06:05,861 copying and adjusting geneorder.py -> build/scripts-3.11 2023-12-28T06:06:05,864 copying and adjusting getfeatures.py -> build/scripts-3.11 2023-12-28T06:06:05,866 copying and adjusting getinfo.py -> build/scripts-3.11 2023-12-28T06:06:05,868 copying and adjusting refseqsplit.py -> build/scripts-3.11 2023-12-28T06:06:05,869 copying and adjusting subseq.py -> build/scripts-3.11 2023-12-28T06:06:05,872 copying and adjusting taxtree.py -> build/scripts-3.11 2023-12-28T06:06:05,874 copying update-blastdb.py -> build/scripts-3.11 2023-12-28T06:06:05,877 copying mitos/plotprot.R -> build/scripts-3.11 2023-12-28T06:06:05,879 copying mitos/plotstst.R -> build/scripts-3.11 2023-12-28T06:06:05,881 copying mitos/plotrna.R -> build/scripts-3.11 2023-12-28T06:06:05,882 changing mode of build/scripts-3.11/runmitos.py from 644 to 755 2023-12-28T06:06:05,883 changing mode of build/scripts-3.11/drawmitos.py from 644 to 755 2023-12-28T06:06:05,884 changing mode of build/scripts-3.11/analyse.py from 644 to 755 2023-12-28T06:06:05,884 changing mode of build/scripts-3.11/gcpp.py from 644 to 755 2023-12-28T06:06:05,885 changing mode of build/scripts-3.11/geneorder.py from 644 to 755 2023-12-28T06:06:05,886 changing mode of build/scripts-3.11/getfeatures.py from 644 to 755 2023-12-28T06:06:05,886 changing mode of build/scripts-3.11/getinfo.py from 644 to 755 2023-12-28T06:06:05,887 changing mode of build/scripts-3.11/refseqsplit.py from 644 to 755 2023-12-28T06:06:05,887 changing mode of build/scripts-3.11/subseq.py from 644 to 755 2023-12-28T06:06:05,888 changing mode of build/scripts-3.11/taxtree.py from 644 to 755 2023-12-28T06:06:05,888 changing mode of build/scripts-3.11/update-blastdb.py from 644 to 755 2023-12-28T06:06:05,911 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-12-28T06:06:05,912 !! 2023-12-28T06:06:05,913 ******************************************************************************** 2023-12-28T06:06:05,913 Please avoid running ``setup.py`` directly. 2023-12-28T06:06:05,914 Instead, use pypa/build, pypa/installer or other 2023-12-28T06:06:05,914 standards-based tools. 2023-12-28T06:06:05,915 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-12-28T06:06:05,916 ******************************************************************************** 2023-12-28T06:06:05,918 !! 2023-12-28T06:06:05,919 self.initialize_options() 2023-12-28T06:06:05,946 installing to build/bdist.linux-armv7l/wheel 2023-12-28T06:06:05,946 running install 2023-12-28T06:06:05,973 running install_lib 2023-12-28T06:06:05,997 creating build/bdist.linux-armv7l 2023-12-28T06:06:05,998 creating build/bdist.linux-armv7l/wheel 2023-12-28T06:06:06,001 creating build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,003 creating build/bdist.linux-armv7l/wheel/mitos/tbl 2023-12-28T06:06:06,004 copying build/lib/mitos/tbl/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/tbl 2023-12-28T06:06:06,007 creating build/bdist.linux-armv7l/wheel/mitos/blast 2023-12-28T06:06:06,008 copying build/lib/mitos/blast/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/blast 2023-12-28T06:06:06,013 copying build/lib/mitos/mitos-extension.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,016 copying build/lib/mitos/update-mitolog.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,019 copying build/lib/mitos/codoncount.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,021 copying build/lib/mitos/cmsearch_parse_separate.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,024 copying build/lib/mitos/trnascan_parse_separate.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,026 copying build/lib/mitos/inihit.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,029 copying build/lib/mitos/plotstst.R -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,031 copying build/lib/mitos/convert_tree.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,035 copying build/lib/mitos/names.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,037 creating build/bdist.linux-armv7l/wheel/mitos/rna 2023-12-28T06:06:06,039 copying build/lib/mitos/rna/vienna.py -> build/bdist.linux-armv7l/wheel/mitos/rna 2023-12-28T06:06:06,042 copying build/lib/mitos/rna/forester.py -> build/bdist.linux-armv7l/wheel/mitos/rna 2023-12-28T06:06:06,044 copying build/lib/mitos/rna/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/rna 2023-12-28T06:06:06,046 copying build/lib/mitos/prepareFiles.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,049 creating build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,050 copying build/lib/mitos/webserver/upload.txt -> build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,053 copying build/lib/mitos/webserver/help.txt -> build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,056 copying build/lib/mitos/webserver/news.txt -> build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,058 copying build/lib/mitos/webserver/index.txt -> build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,061 copying build/lib/mitos/webserver/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,064 copying build/lib/mitos/webserver/history.txt -> build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,066 copying build/lib/mitos/webserver/wait.txt -> build/bdist.linux-armv7l/wheel/mitos/webserver 2023-12-28T06:06:06,068 creating build/bdist.linux-armv7l/wheel/mitos/mergefeature 2023-12-28T06:06:06,070 copying build/lib/mitos/mergefeature/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/mergefeature 2023-12-28T06:06:06,073 creating build/bdist.linux-armv7l/wheel/mitos/protfeat 2023-12-28T06:06:06,075 copying build/lib/mitos/protfeat/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/protfeat 2023-12-28T06:06:06,078 copying build/lib/mitos/trna-cm.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,083 copying build/lib/mitos/booreparser.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,086 creating build/bdist.linux-armv7l/wheel/mitos/update 2023-12-28T06:06:06,087 copying build/lib/mitos/update/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/update 2023-12-28T06:06:06,090 copying build/lib/mitos/skew.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,093 creating build/bdist.linux-armv7l/wheel/mitos/mito 2023-12-28T06:06:06,095 copying build/lib/mitos/mito/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/mito 2023-12-28T06:06:06,098 copying build/lib/mitos/mitoch_revisions.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,101 copying build/lib/mitos/__init__.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,103 copying build/lib/mitos/create_prot_fasta.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,106 creating build/bdist.linux-armv7l/wheel/mitos/draw 2023-12-28T06:06:06,107 copying build/lib/mitos/draw/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/draw 2023-12-28T06:06:06,110 creating build/bdist.linux-armv7l/wheel/mitos/sequin 2023-12-28T06:06:06,112 copying build/lib/mitos/sequin/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/sequin 2023-12-28T06:06:06,114 copying build/lib/mitos/mitos-extension2.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,117 creating build/bdist.linux-armv7l/wheel/mitos/bedfile 2023-12-28T06:06:06,118 copying build/lib/mitos/bedfile/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/bedfile 2023-12-28T06:06:06,121 copying build/lib/mitos/mumcmp.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,123 creating build/bdist.linux-armv7l/wheel/mitos/mitofile 2023-12-28T06:06:06,125 copying build/lib/mitos/mitofile/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/mitofile 2023-12-28T06:06:06,128 creating build/bdist.linux-armv7l/wheel/mitos/trna 2023-12-28T06:06:06,129 copying build/lib/mitos/trna/trnascan.py -> build/bdist.linux-armv7l/wheel/mitos/trna 2023-12-28T06:06:06,132 copying build/lib/mitos/trna/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/trna 2023-12-28T06:06:06,134 copying build/lib/mitos/trna/arwenscan.py -> build/bdist.linux-armv7l/wheel/mitos/trna 2023-12-28T06:06:06,137 creating build/bdist.linux-armv7l/wheel/mitos/gfffile 2023-12-28T06:06:06,138 copying build/lib/mitos/gfffile/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/gfffile 2023-12-28T06:06:06,141 creating build/bdist.linux-armv7l/wheel/mitos/gb 2023-12-28T06:06:06,143 copying build/lib/mitos/gb/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/gb 2023-12-28T06:06:06,146 copying build/lib/mitos/gb/unify.py -> build/bdist.linux-armv7l/wheel/mitos/gb 2023-12-28T06:06:06,149 copying build/lib/mitos/merge_results.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,152 creating build/bdist.linux-armv7l/wheel/mitos/extprog 2023-12-28T06:06:06,153 copying build/lib/mitos/extprog/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/extprog 2023-12-28T06:06:06,156 copying build/lib/mitos/plotprot.R -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,159 creating build/bdist.linux-armv7l/wheel/mitos/feature 2023-12-28T06:06:06,160 copying build/lib/mitos/feature/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/feature 2023-12-28T06:06:06,163 copying build/lib/mitos/ogre-geneorder.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,165 copying build/lib/mitos/CONFIG.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,167 copying build/lib/mitos/trnadist.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,170 creating build/bdist.linux-armv7l/wheel/mitos/mitfi 2023-12-28T06:06:06,170 copying build/lib/mitos/mitfi/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/mitfi 2023-12-28T06:06:06,174 creating build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,174 copying build/lib/mitos/mitfi/parser/mitfi_import-1.1.jar.org.pre-circ -> build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,177 copying build/lib/mitos/mitfi/parser/mitfi_import-1.1.jar.old -> build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,180 copying build/lib/mitos/mitfi/parser/mitfi_import-1.1.jar -> build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,182 copying build/lib/mitos/mitfi/parser/mitfiGeneticCodes -> build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,184 copying build/lib/mitos/mitfi/parser/improve_infernal_structure.jar -> build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,187 copying build/lib/mitos/mitfi/parser/mitfi_import.jar -> build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,189 copying build/lib/mitos/mitfi/parser/mitfi_import-1.1.jar.org -> build/bdist.linux-armv7l/wheel/mitos/mitfi/parser 2023-12-28T06:06:06,192 creating build/bdist.linux-armv7l/wheel/mitos/sequence 2023-12-28T06:06:06,193 copying build/lib/mitos/sequence/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/sequence 2023-12-28T06:06:06,196 copying build/lib/mitos/sequence/degenerate.py -> build/bdist.linux-armv7l/wheel/mitos/sequence 2023-12-28T06:06:06,198 creating build/bdist.linux-armv7l/wheel/mitos/util 2023-12-28T06:06:06,199 copying build/lib/mitos/util/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/util 2023-12-28T06:06:06,201 copying build/lib/mitos/mitoloc.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,203 copying build/lib/mitos/get-wancy.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,205 copying build/lib/mitos/plotrna.R -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,207 copying build/lib/mitos/removegene.py -> build/bdist.linux-armv7l/wheel/mitos 2023-12-28T06:06:06,209 creating build/bdist.linux-armv7l/wheel/mitos/tax 2023-12-28T06:06:06,210 copying build/lib/mitos/tax/__init__.py -> build/bdist.linux-armv7l/wheel/mitos/tax 2023-12-28T06:06:06,212 running install_egg_info 2023-12-28T06:06:06,243 Copying mitos.egg-info to build/bdist.linux-armv7l/wheel/mitos-2.1.5-py3.11.egg-info 2023-12-28T06:06:06,252 running install_scripts 2023-12-28T06:06:06,253 creating build/bdist.linux-armv7l/wheel/mitos-2.1.5.data 2023-12-28T06:06:06,254 creating build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,254 copying build/scripts-3.11/refseqsplit.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,256 copying build/scripts-3.11/analyse.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,259 copying build/scripts-3.11/plotstst.R -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,261 copying build/scripts-3.11/runmitos.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,264 copying build/scripts-3.11/taxtree.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,266 copying build/scripts-3.11/gcpp.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,268 copying build/scripts-3.11/getfeatures.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,271 copying build/scripts-3.11/getinfo.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,273 copying build/scripts-3.11/plotprot.R -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,274 copying build/scripts-3.11/drawmitos.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,276 copying build/scripts-3.11/subseq.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,278 copying build/scripts-3.11/update-blastdb.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,280 copying build/scripts-3.11/plotrna.R -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,282 copying build/scripts-3.11/geneorder.py -> build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts 2023-12-28T06:06:06,284 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/refseqsplit.py to 755 2023-12-28T06:06:06,285 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/analyse.py to 755 2023-12-28T06:06:06,285 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/plotstst.R to 755 2023-12-28T06:06:06,286 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/runmitos.py to 755 2023-12-28T06:06:06,286 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/taxtree.py to 755 2023-12-28T06:06:06,286 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/gcpp.py to 755 2023-12-28T06:06:06,287 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/getfeatures.py to 755 2023-12-28T06:06:06,287 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/getinfo.py to 755 2023-12-28T06:06:06,288 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/plotprot.R to 755 2023-12-28T06:06:06,288 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/drawmitos.py to 755 2023-12-28T06:06:06,289 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/subseq.py to 755 2023-12-28T06:06:06,289 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/update-blastdb.py to 755 2023-12-28T06:06:06,290 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/plotrna.R to 755 2023-12-28T06:06:06,291 changing mode of build/bdist.linux-armv7l/wheel/mitos-2.1.5.data/scripts/geneorder.py to 755 2023-12-28T06:06:06,301 creating build/bdist.linux-armv7l/wheel/mitos-2.1.5.dist-info/WHEEL 2023-12-28T06:06:06,303 creating '/tmp/pip-wheel-r6splvpm/mitos-2.1.5-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-12-28T06:06:06,306 adding 'mitos/CONFIG.py' 2023-12-28T06:06:06,307 adding 'mitos/__init__.py' 2023-12-28T06:06:06,309 adding 'mitos/booreparser.py' 2023-12-28T06:06:06,313 adding 'mitos/cmsearch_parse_separate.py' 2023-12-28T06:06:06,315 adding 'mitos/codoncount.py' 2023-12-28T06:06:06,319 adding 'mitos/convert_tree.py' 2023-12-28T06:06:06,323 adding 'mitos/create_prot_fasta.py' 2023-12-28T06:06:06,325 adding 'mitos/get-wancy.py' 2023-12-28T06:06:06,325 adding 'mitos/inihit.py' 2023-12-28T06:06:06,327 adding 'mitos/merge_results.py' 2023-12-28T06:06:06,332 adding 'mitos/mitoch_revisions.py' 2023-12-28T06:06:06,334 adding 'mitos/mitoloc.py' 2023-12-28T06:06:06,336 adding 'mitos/mitos-extension.py' 2023-12-28T06:06:06,338 adding 'mitos/mitos-extension2.py' 2023-12-28T06:06:06,340 adding 'mitos/mumcmp.py' 2023-12-28T06:06:06,341 adding 'mitos/names.py' 2023-12-28T06:06:06,342 adding 'mitos/ogre-geneorder.py' 2023-12-28T06:06:06,344 adding 'mitos/plotprot.R' 2023-12-28T06:06:06,345 adding 'mitos/plotrna.R' 2023-12-28T06:06:06,347 adding 'mitos/plotstst.R' 2023-12-28T06:06:06,348 adding 'mitos/prepareFiles.py' 2023-12-28T06:06:06,349 adding 'mitos/removegene.py' 2023-12-28T06:06:06,352 adding 'mitos/skew.py' 2023-12-28T06:06:06,367 adding 'mitos/trna-cm.py' 2023-12-28T06:06:06,375 adding 'mitos/trnadist.py' 2023-12-28T06:06:06,377 adding 'mitos/trnascan_parse_separate.py' 2023-12-28T06:06:06,378 adding 'mitos/update-mitolog.py' 2023-12-28T06:06:06,381 adding 'mitos/bedfile/__init__.py' 2023-12-28T06:06:06,392 adding 'mitos/blast/__init__.py' 2023-12-28T06:06:06,394 adding 'mitos/draw/__init__.py' 2023-12-28T06:06:06,397 adding 'mitos/extprog/__init__.py' 2023-12-28T06:06:06,403 adding 'mitos/feature/__init__.py' 2023-12-28T06:06:06,409 adding 'mitos/gb/__init__.py' 2023-12-28T06:06:06,411 adding 'mitos/gb/unify.py' 2023-12-28T06:06:06,413 adding 'mitos/gfffile/__init__.py' 2023-12-28T06:06:06,417 adding 'mitos/mergefeature/__init__.py' 2023-12-28T06:06:06,421 adding 'mitos/mitfi/__init__.py' 2023-12-28T06:06:06,423 adding 'mitos/mitfi/parser/improve_infernal_structure.jar' 2023-12-28T06:06:06,425 adding 'mitos/mitfi/parser/mitfiGeneticCodes' 2023-12-28T06:06:06,429 adding 'mitos/mitfi/parser/mitfi_import-1.1.jar' 2023-12-28T06:06:06,434 adding 'mitos/mitfi/parser/mitfi_import-1.1.jar.old' 2023-12-28T06:06:06,438 adding 'mitos/mitfi/parser/mitfi_import-1.1.jar.org' 2023-12-28T06:06:06,442 adding 'mitos/mitfi/parser/mitfi_import-1.1.jar.org.pre-circ' 2023-12-28T06:06:06,447 adding 'mitos/mitfi/parser/mitfi_import.jar' 2023-12-28T06:06:06,449 adding 'mitos/mito/__init__.py' 2023-12-28T06:06:06,451 adding 'mitos/mitofile/__init__.py' 2023-12-28T06:06:06,455 adding 'mitos/protfeat/__init__.py' 2023-12-28T06:06:06,457 adding 'mitos/rna/__init__.py' 2023-12-28T06:06:06,459 adding 'mitos/rna/forester.py' 2023-12-28T06:06:06,462 adding 'mitos/rna/vienna.py' 2023-12-28T06:06:06,465 adding 'mitos/sequence/__init__.py' 2023-12-28T06:06:06,467 adding 'mitos/sequence/degenerate.py' 2023-12-28T06:06:06,468 adding 'mitos/sequin/__init__.py' 2023-12-28T06:06:06,471 adding 'mitos/tax/__init__.py' 2023-12-28T06:06:06,473 adding 'mitos/tbl/__init__.py' 2023-12-28T06:06:06,475 adding 'mitos/trna/__init__.py' 2023-12-28T06:06:06,477 adding 'mitos/trna/arwenscan.py' 2023-12-28T06:06:06,480 adding 'mitos/trna/trnascan.py' 2023-12-28T06:06:06,484 adding 'mitos/update/__init__.py' 2023-12-28T06:06:06,486 adding 'mitos/util/__init__.py' 2023-12-28T06:06:06,489 adding 'mitos/webserver/__init__.py' 2023-12-28T06:06:06,493 adding 'mitos/webserver/help.txt' 2023-12-28T06:06:06,495 adding 'mitos/webserver/history.txt' 2023-12-28T06:06:06,497 adding 'mitos/webserver/index.txt' 2023-12-28T06:06:06,499 adding 'mitos/webserver/news.txt' 2023-12-28T06:06:06,500 adding 'mitos/webserver/upload.txt' 2023-12-28T06:06:06,502 adding 'mitos/webserver/wait.txt' 2023-12-28T06:06:06,505 adding 'mitos-2.1.5.data/scripts/analyse.py' 2023-12-28T06:06:06,507 adding 'mitos-2.1.5.data/scripts/drawmitos.py' 2023-12-28T06:06:06,509 adding 'mitos-2.1.5.data/scripts/gcpp.py' 2023-12-28T06:06:06,512 adding 'mitos-2.1.5.data/scripts/geneorder.py' 2023-12-28T06:06:06,514 adding 'mitos-2.1.5.data/scripts/getfeatures.py' 2023-12-28T06:06:06,516 adding 'mitos-2.1.5.data/scripts/getinfo.py' 2023-12-28T06:06:06,518 adding 'mitos-2.1.5.data/scripts/plotprot.R' 2023-12-28T06:06:06,519 adding 'mitos-2.1.5.data/scripts/plotrna.R' 2023-12-28T06:06:06,521 adding 'mitos-2.1.5.data/scripts/plotstst.R' 2023-12-28T06:06:06,523 adding 'mitos-2.1.5.data/scripts/refseqsplit.py' 2023-12-28T06:06:06,529 adding 'mitos-2.1.5.data/scripts/runmitos.py' 2023-12-28T06:06:06,531 adding 'mitos-2.1.5.data/scripts/subseq.py' 2023-12-28T06:06:06,533 adding 'mitos-2.1.5.data/scripts/taxtree.py' 2023-12-28T06:06:06,535 adding 'mitos-2.1.5.data/scripts/update-blastdb.py' 2023-12-28T06:06:06,537 adding 'mitos-2.1.5.dist-info/LICENSE' 2023-12-28T06:06:06,539 adding 'mitos-2.1.5.dist-info/METADATA' 2023-12-28T06:06:06,540 adding 'mitos-2.1.5.dist-info/WHEEL' 2023-12-28T06:06:06,542 adding 'mitos-2.1.5.dist-info/top_level.txt' 2023-12-28T06:06:06,544 adding 'mitos-2.1.5.dist-info/RECORD' 2023-12-28T06:06:06,550 removing build/bdist.linux-armv7l/wheel 2023-12-28T06:06:06,685 Building wheel for mitos (setup.py): finished with status 'done' 2023-12-28T06:06:06,691 Created wheel for mitos: filename=mitos-2.1.5-py3-none-any.whl size=337592 sha256=c404e62da7a2d919a7cf0999ba3ce479541d935e38999ed75c09dc9a38f6b6bd 2023-12-28T06:06:06,692 Stored in directory: /tmp/pip-ephem-wheel-cache-dr68w1o3/wheels/25/70/57/01285e949f177d1128bb71a331839be1fac88720eb72706f4b 2023-12-28T06:06:06,704 Successfully built mitos 2023-12-28T06:06:06,714 Removed build tracker: '/tmp/pip-build-tracker-u5j_0evh'