2022-06-06T21:13:38,209 Created temporary directory: /tmp/pip-ephem-wheel-cache-c3nt2aya 2022-06-06T21:13:38,215 Created temporary directory: /tmp/pip-build-tracker-tk0tsczu 2022-06-06T21:13:38,216 Initialized build tracking at /tmp/pip-build-tracker-tk0tsczu 2022-06-06T21:13:38,217 Created build tracker: /tmp/pip-build-tracker-tk0tsczu 2022-06-06T21:13:38,217 Entered build tracker: /tmp/pip-build-tracker-tk0tsczu 2022-06-06T21:13:38,219 Created temporary directory: /tmp/pip-wheel-cvflz184 2022-06-06T21:13:38,292 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-06-06T21:13:38,301 2 location(s) to search for versions of pytrimal: 2022-06-06T21:13:38,301 * https://pypi.org/simple/pytrimal/ 2022-06-06T21:13:38,301 * https://www.piwheels.org/simple/pytrimal/ 2022-06-06T21:13:38,302 Fetching project page and analyzing links: https://pypi.org/simple/pytrimal/ 2022-06-06T21:13:38,304 Getting page https://pypi.org/simple/pytrimal/ 2022-06-06T21:13:38,308 Found 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https://files.pythonhosted.org/packages/d9/f8/113e5e8ffc20f0477eb2c20d59e0e64c6d5dda295af95eb6979bd2efee93/pytrimal-0.1.0-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=3e4c96d07fab29f287e898b702ff1504ce4e5cac9378d79d51967a021e46e050 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,507 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/cd/ca/e3bc1316c04c94ba11885b933473ce229863522b438a112c27b2fbfe080e/pytrimal-0.1.0-cp39-cp39-macosx_10_15_x86_64.whl#sha256=38d34b9f2e2afeccb4da9c7850260217e31062f0038f36978978bc90d9ffb3e1 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,507 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/7c/15/c057ace451e9ccc70f96639e56461ca403ba2c829af6c6bbf777d36494df/pytrimal-0.1.0-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=e9bc72bde38b3e4fd075f1f8f8f7d9d5a8d7c0f7bbd42f72688c74e527327a32 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,508 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/6c/78/0a693856b86c7e419cfebe567e5c8ceafe8339b5600762d8cd8566607de9/pytrimal-0.1.0-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=0e62099e372edbc13fd5b4175a65254bab26850dbec6807cba86135a67add2b5 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,508 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/2c/e4/b946aca9e551aa0dd6cd90705547b979e4834cb5a63834121f4f911461e3/pytrimal-0.1.0-pp36-pypy36_pp73-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=c8db855bc7409c535403bd81120fa8d623e52aeddb96d055e5fd826c8ee16dce (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,509 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/19/48/1283651eccc18b73c1f0c4af418db4a831d1ef949d9edbdbf8a47f40d2a8/pytrimal-0.1.0-pp37-pypy37_pp73-macosx_10_9_x86_64.whl#sha256=1fa01edbdce1d5bddbf98be5df21cd9dd59a703cf8365448ba5a634e7946bf1a (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,509 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/84/24/1bc90c83278945f66b31974a2aba5bf3e9d4b272d78790120748bf9485f5/pytrimal-0.1.0-pp37-pypy37_pp73-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=cb0ecf1eea08b25da60a2cbadc2015bd9393148d1c60918dd4e68f0ec84bfa39 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,510 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/b1/6d/7d46cda527909bd41ead416342e24999e8cc63c82560bfaf5918fd708af7/pytrimal-0.1.0-pp38-pypy38_pp73-macosx_10_9_x86_64.whl#sha256=f460c96c2a032554984102bb7e57c7d4cc61d1abf1069e1362747f65a49fdf96 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,510 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/6a/aa/bae9c9761abe07e00fa0dc292ef343354f2e508e9ce37f72f8754dfb7903/pytrimal-0.1.0-pp39-pypy39_pp73-macosx_10_9_x86_64.whl#sha256=30d6cf22157d9b29d5c3afb945f93f180c3c385e2b21ca688183d737ec7a48ff (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,512 Found link https://files.pythonhosted.org/packages/39/09/11aae9fa483929539f100beb384da40724188ff102ee94517b4a3ccba5c8/pytrimal-0.1.0.tar.gz#sha256=1af23728d26de53950644e1bdd1803a7fb8d9d6c6cb0c4aa38953c4fd0afe994 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5), version: 0.1.0 2022-06-06T21:13:38,513 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/cd/95/15ba2a87e8ef78e2362fb9fa9900f0cee75d4938f92d2d889b0e8cd09f71/pytrimal-0.1.1-cp310-cp310-macosx_10_15_x86_64.whl#sha256=cde8e4142c6ea1e5ebd35d81a4e93be816efb23a12c928d2522349577724a425 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,513 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/16/99/4b6ddc7537fa853cadf9d9ef81af95019c58003d5119febce6af8bddedcb/pytrimal-0.1.1-cp310-cp310-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=d037f9d14b4dec97c2fce851bad205c8c9ea46a3dde4a8fb7f0f39ed4a2d9e70 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,514 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/b5/c3/e1edfbe9450b0c2d23d36fa8e624dc28220d7f23ddaf3e46829c18c1725b/pytrimal-0.1.1-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=93b5ad25babcd407da31ff1dcea921de0dc18eafadbd17a9ab25e964a08d45df (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,514 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/9b/c9/655540ff5e71515c6a37a61e71b5dcc9b3c29515a7ed7601dd40f7e5e8ce/pytrimal-0.1.1-cp35-cp35m-macosx_10_14_x86_64.whl#sha256=5c7a6f54f525b5d8902660ad56ef89b460332c586a75fd1fd20efdc95cf22e97 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,515 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/1c/85/3880bc8ccfc099b68d8e18baf2aa194127082c0cdf274833c13e83cee1a9/pytrimal-0.1.1-cp35-cp35m-manylinux2010_x86_64.whl#sha256=9686c407bf596ef2a2d123d3b133cf1977562273c64a3b140a649403994ecb8d (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,515 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/61/43/dc432a69a7f2a59f4e5e509c206f1178d56b401206cc661957179c9ddeae/pytrimal-0.1.1-cp36-cp36m-macosx_10_14_x86_64.whl#sha256=2cbfd6359e677fad3885d99af6be30da10fe0d1e95cdbc65484b22ff3416fbc4 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,516 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/12/7a/53b39f4d3b3ae1da433bae3111d667d3d5813bece2a4b19bcc4a21fd11fa/pytrimal-0.1.1-cp36-cp36m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=19ad1b204530940193eca5cb407cbc5a9caf9217ef09d66380e0a61adc15e7dd (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,516 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/77/8b/87f775f8f50c6f3b32813d272f7534fa00372db8cdb41ceda4971662368f/pytrimal-0.1.1-cp36-cp36m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=25fe1d0d110d26bcbf2e1486c5df482e57eb04fb5afb2d846d87b3beed446822 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,517 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/e5/e5/9bd5e09db10f69b2d749e985a5da7b66e98688f285bddf7f5a666301aff3/pytrimal-0.1.1-cp37-cp37m-macosx_10_15_x86_64.whl#sha256=29a4451db228da9f40e3d63bfd5fe957884d728ba4ca8f4b7ca84844dd9e0f90 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,517 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/da/35/5ce9cbae068eb2d7fb9c03aa07281308751a38c3d6bdb521c69345fefbda/pytrimal-0.1.1-cp37-cp37m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=425f1f9bf612e91c1f74b42578ac6d570737c099c220aa9cbea6448ee6b5bf31 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,518 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/74/22/25d73231abb8d9553a4be31493a8034544d1c16ee60204ab408c7406973d/pytrimal-0.1.1-cp37-cp37m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=3750218a87c26619134a2e3b683dbb0e3ac4931e2a36fde4924483e052372ea4 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,519 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/72/34/deec927936c24cad8d5dd6b1d8e503e9087a9e08312ebe4cae88beb217ce/pytrimal-0.1.1-cp38-cp38-macosx_10_15_x86_64.whl#sha256=61f35b5ff95e57ae34eefff455903d142ce6483ea53dc119a46c183d97314899 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,519 Skipping link: No binaries permitted for pytrimal: 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https://files.pythonhosted.org/packages/c9/f7/fd0b169d7447de46c232e11e04a5b880448effa3e94e15121b5df4369106/pytrimal-0.1.2-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=a83f10fd025954186a33660ab431f784b0a7567121c1a4c646c81070a94fbb45 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,527 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/8a/ed/fc33fc64e959980eb54d0b506d8983b4a92999f5f8ecf21a504fd22b25b3/pytrimal-0.1.2-cp35-cp35m-macosx_10_14_x86_64.whl#sha256=6ef97f79d2d7b5da815943f9b543cbd052f97d4d9cf02e3dd3346c309cc6e069 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,528 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/d5/fd/b234fd262c716f2c9b201cabc7b26f2ccdb60e34c9695034ddfdda347d00/pytrimal-0.1.2-cp35-cp35m-manylinux2010_x86_64.whl#sha256=ac3df92814819af7081d24cd06435a90ac111fbdc5ee2791962e908a3e5eb670 (from 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https://files.pythonhosted.org/packages/80/55/ac4a531b5f9ab21dca1e4b21fd7a0ec1adf82e8f1062de13585589821bb0/pytrimal-0.1.2-cp36-cp36m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=241a9c1190cbccf97566cb6d4d5ab4eb6f2b2634ea3546ad4be074e8f08c0771 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,530 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/05/2e/4fc2d442e3005e34ba85f5123d19aa2792dba2c6af1eec5456baba1ef66b/pytrimal-0.1.2-cp37-cp37m-macosx_10_15_x86_64.whl#sha256=bacf1cdf963108ca2bf336938ef17b1e6f26afe39c5976eae6a838a7ee2b58c6 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,531 Skipping link: No binaries permitted for pytrimal: 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https://files.pythonhosted.org/packages/1e/25/a2bfe3b916c029ab201db9b77ab789e70591cf3f9f8c0fcd95ac78824c7e/pytrimal-0.1.2-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=059eb4da6d6158518abfc36a9ad048e3b3b7535a3eeb901a7d3f2ebf9f416cc7 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,534 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/ca/ca/6a8fb95c6d7d73a36e20283f12c13bb17ad1bfc71e7a58bbd5f546d2a720/pytrimal-0.1.2-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=bf27c551a443b583405b4a0736e522efa5fd8623584d43bc8d6103c3a9622221 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,535 Skipping link: No binaries permitted for pytrimal: 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2022-06-06T21:13:38,539 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/bf/7b/104aa07074f5806820ca3c2e113601e5a1835c465992cb184ce45afa58a2/pytrimal-0.2.0-cp310-cp310-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=1789f411e0d985cfc08db0e55a4e40e275cdde6f546ac34a91332c15dc2e6a60 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,540 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/56/57/c4ba8cc35ba9d797b6f084caae9cc85a6194359b195ba8cbd2e87a763eb9/pytrimal-0.2.0-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=0a0eb24d9184d0b7857332365a04f07faf823397474fc4ff8d750060a80fa9d3 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,540 Skipping link: No binaries permitted for pytrimal: 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https://files.pythonhosted.org/packages/4b/ba/df02c20b2298a9fafdc3cfca5cfe4f29e43e6442fd8d6575a593cc3add8c/pytrimal-0.2.0-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=be90b9682e5f40fd8fe5bd92ccd77d7b94a7f6ee0b091de4942459de7b9e7eb0 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,545 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/e1/95/27211ddd9fd79e30f4fe76635c26b20c651d1f5cc1cb9287cfdb55472c95/pytrimal-0.2.0-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=45a2a58e067441b460473466cfea08c436b3fc6897e9e6116b293921e692b725 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,546 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/6a/a6/a473f9d5f7bb2a019f33a9ba624d6f7991ea0e9d6c0bfc30b3ba0e0899ad/pytrimal-0.2.0-cp39-cp39-macosx_10_15_x86_64.whl#sha256=075b870fc1b0ddf215431dfa54592abddcb18777417194f5f2df97e31f5a7c19 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,546 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/15/e5/874093542f1d7a14d760c739034e3d22cc259fa77071fb98c95d5a01ab39/pytrimal-0.2.0-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=d04b808453673061fce5ce3312d671d48265071956619b12c7cda9f78d3683c5 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,547 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/ee/87/c2ffbd4e8dee903a30963368be4a235f88bf95b59a2adc2e5526ff52368b/pytrimal-0.2.0-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=bbce5e52c0153977dcada8c4cb254b9315445ea60eded235213869515a9b058a (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,547 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/d3/a5/1bb5b37e2ae6fe57e7a5cf42d7639ef7d8b065a5bba77ff34ce4bcc15a46/pytrimal-0.2.0-pp36-pypy36_pp73-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=338b9fc1939415524baf3a63de8c88fd62319649a63e0343ea112de5cf0268ee (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,548 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/fe/84/89fae956a9e9fd58eaaafde8b141d31c6f83ecf24ac3cc3eac84ba0a8bb8/pytrimal-0.2.0-pp37-pypy37_pp73-macosx_10_9_x86_64.whl#sha256=a472eadc50d1fc6bad17c452031c4c76a6265b80567a58783aa22baf1e4ab114 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,549 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/79/c8/10e1f96fb3d717376b82174d22ab290e94cd3c341f1de584a9b16c108efe/pytrimal-0.2.0-pp37-pypy37_pp73-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=48ef7ba796007c26214efea0419e5d80935f09d790c590fedb122fab20e0ebbb (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,549 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/73/ec/02d057c82444dd419679c88912041f7202635d49e1f620f28ac2dba6cfd9/pytrimal-0.2.0-pp38-pypy38_pp73-macosx_10_9_x86_64.whl#sha256=c3fd18c9e95ac2f4aa20e1b61c00c0d13aa1c423aab15ffe47be5847e66880a1 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,550 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/a3/a4/df4748e403eedb360ed770e226179f6a96da6d80a49ed0b8765b45550d2c/pytrimal-0.2.0-pp39-pypy39_pp73-macosx_10_9_x86_64.whl#sha256=a92c7686d9488b470690a8aa26aa3dc0c2a6e70ee8bb833a2b0a0418c75ff675 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,551 Found link https://files.pythonhosted.org/packages/25/e1/7e8730c04a44f986c1236c4e28c41f49c4e1ccee98d36992eb591209ced9/pytrimal-0.2.0.tar.gz#sha256=432e7d01cbcc5dcc268cd9728154c364fb783e4530aa64fe3e37651d7cd3627b (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5), version: 0.2.0 2022-06-06T21:13:38,552 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/35/61/29eb762ed875976801f4940c25f04e77a7ed57e2e06477442034821781d7/pytrimal-0.2.1-cp310-cp310-macosx_10_15_x86_64.whl#sha256=1844be7a72c9c963cc7838860a2b821c6d5ca1322daee57b2a79b41253e2cfd1 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,552 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/3b/71/3745678ec0e25feddfd10e79f1f16da5216f2b3e4e6152b2d34adfa8e4de/pytrimal-0.2.1-cp310-cp310-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=ff065817485e962e7104b68274f8ac0a971de69aadaf44b354a77017885f683a (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,553 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/7e/fa/37040e7f4d9f1f0004c47604a72071ff99f9f149d853fffe4e1c0d499751/pytrimal-0.2.1-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=67def4df6831dba0d859f5ff9eaca1c0fd842303d33f0320f7433670d7ddc374 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,553 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/df/d3/f43a6d630f9d36f71940d4767e492714f7d8782eb6d8634b9f694ea101bb/pytrimal-0.2.1-cp35-cp35m-macosx_10_14_x86_64.whl#sha256=eefcf1f20bd6e9eea21a04289e7b6cd83f81c5f64e54adbbff32be9028b9c191 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,554 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/17/b8/fe7fe54ed4882702009751ad38d9a2c17c69afd4722c95c2c155d178e3e1/pytrimal-0.2.1-cp35-cp35m-manylinux2010_x86_64.whl#sha256=8844458503b8443f8bb873e195cbbd382b94cfe88b3143007fb34acddd53bb32 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,554 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/51/a4/145dbdb73aa907c957c12c1b981994ce9413179bcdf3ec969acdd490e424/pytrimal-0.2.1-cp36-cp36m-macosx_10_14_x86_64.whl#sha256=212101ba209057ab967e7dca454d9a45b6d3011ca38e20dab595c6bef1312a0c (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,555 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/17/26/6d438c8680c12faca6b07111f143df2d1e89b066c2b4c2437341e832a521/pytrimal-0.2.1-cp36-cp36m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=caa883c89215d98fa15c1b3856b754ae932b7e97f167313a232308942f1a4852 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,555 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/39/4b/373dfe85cdfb663a70278682f985b50c59521069da9d07b53d407ce1672c/pytrimal-0.2.1-cp36-cp36m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=d0aa7b4b83423bdf22e5dd2852d9e5c0caa1364a3b624e01d6a95b906d06b6a7 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,556 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/24/29/35cee9a1180ff075af80ccc87b5566a2092c9c12a71173c6bb6a34993a08/pytrimal-0.2.1-cp37-cp37m-macosx_10_15_x86_64.whl#sha256=f6e58c0f398fa6c3493239741f43be0973cc6a6014d148689502777c481d5b56 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,556 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/61/70/6e96281ab73892aedba753a6b002b10600665d8877b6f0bed26b5825d1c7/pytrimal-0.2.1-cp37-cp37m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=0ff4ae1c42e534432a300ee33be8e655c56737837d86ef58c8db2e911910f35f (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,557 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/f2/90/09ac93f0ef94860d8348d6713b1125136cf511bf1f0eccdc6b4c8448f85b/pytrimal-0.2.1-cp37-cp37m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=0460455f29db67aa545a28efb769c6027b0e8cac5eceb66e1d4670dc3bb76cb7 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,557 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/26/22/7b1cb4208a62c68c9f503841c7cbb4e3f9ecf8ba995b8714e9ab2addc61a/pytrimal-0.2.1-cp38-cp38-macosx_10_15_x86_64.whl#sha256=8d5b3889f201ae00e92724c5170074c05098b904f8c84a3c2acdc77ad161d8c3 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,558 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/38/01/2ba077aa3edddca7810cbba1838adb1e0de28e2e6a2742818e37de43bb55/pytrimal-0.2.1-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=5bb0d31d144f87649f76bbbdf08ef5aba9027436e4254cb979de292060d8c7eb (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,558 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/f4/27/ef47bc5946f3e2dc523383f805cd8e5acbc3cb41c7ff2cbe96dab590de1f/pytrimal-0.2.1-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=dd12b98de476b3e92d638bb3378083394e57e42d23685adfca471d63cec49ab3 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,559 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/46/45/0136189c7ed0487d6e61b45b001f6c9f1bb4456d0fce2e12f790c29e9298/pytrimal-0.2.1-cp39-cp39-macosx_10_15_x86_64.whl#sha256=c0f0a0dc00734947d97442fc270ecaf54c1dbfe290c2b3bbe9dd3e089a959924 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,559 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/d1/e8/cadbd7414cfa12ee340aa1048ad6a3928431c7fa1b1ade8b866d2a06a74c/pytrimal-0.2.1-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=96320c370700feadc6a92640cd6bb4c074f6736d2d5a0076ff46e9671479a07f (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,560 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/e6/53/b9e84bb5b7aa4af5af7977aae62839dcd87549253168f295613b8caa2a20/pytrimal-0.2.1-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl#sha256=2b8f70a3ee5f76bebf0ed8e8c45b50c272160d06deb2d67b24f10333be7a6fff (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,560 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/f8/8f/da2c069808c8ac3a52e23248716af2ac7d221f449322a58ed978059bc51e/pytrimal-0.2.1-pp36-pypy36_pp73-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=1a6c9c136b8282bde274650e61ce69380abffa6cad76c07413b5f4146de4db2d (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,561 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/19/04/5fff514d00b012b87d723695919f5c3375a69d3e10a610bbd884f154bf27/pytrimal-0.2.1-pp37-pypy37_pp73-macosx_10_9_x86_64.whl#sha256=4c94916a9976247cf19a501d58ed3a21bb39705d0d13da87397fd9eff0e1fefe (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,561 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/21/2b/687aad68b1cb2c436540c189074ba26ca8b27e8f48231cf74e7958b62e8a/pytrimal-0.2.1-pp37-pypy37_pp73-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=1d2bbfb8c4867cd955aaea8bebb8ffd7aa5539f105c5db60bf20ea9a1b42ef3c (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,562 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/c5/25/cbfc32713c552cb27f13f34c40f09b4cdfb3c9886882eb9ea79a2ddfd646/pytrimal-0.2.1-pp38-pypy38_pp73-macosx_10_9_x86_64.whl#sha256=df2a16ab6a6434a0ab2ef41cf9b1cad246da15b4977cec58bb31d0e9e56091ad (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,562 Skipping link: No binaries permitted for pytrimal: https://files.pythonhosted.org/packages/83/69/35f87665fe8d6a64d3c51597e3f6d9d6d03bd5735bfd8786e32805c72c06/pytrimal-0.2.1-pp39-pypy39_pp73-macosx_10_9_x86_64.whl#sha256=d904306c59c4b3c97915bf39006531a142fd1a0b0b0c5e4df859c811fc977e88 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,564 Found link https://files.pythonhosted.org/packages/d6/57/5cdff589abe04954e0174231eafb1dfa0bfe9c1916cf073bbe8f763df0af/pytrimal-0.2.1.tar.gz#sha256=0a3c5e510d699deef49d27110ed25ba353f44b511ae1af0d7ed2d2bbd8a96957 (from https://pypi.org/simple/pytrimal/) (requires-python:>=3.5), version: 0.2.1 2022-06-06T21:13:38,565 Fetching project page and analyzing links: https://www.piwheels.org/simple/pytrimal/ 2022-06-06T21:13:38,565 Getting page https://www.piwheels.org/simple/pytrimal/ 2022-06-06T21:13:38,567 Found index url https://www.piwheels.org/simple 2022-06-06T21:13:38,812 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.1-cp37-cp37m-linux_armv7l.whl#sha256=87c41102be591a5dcb6efdf6807ea38a522ec3cc653f29af275f01d2b4e8d4fc (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,813 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.1-cp37-cp37m-linux_armv6l.whl#sha256=87c41102be591a5dcb6efdf6807ea38a522ec3cc653f29af275f01d2b4e8d4fc (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,813 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.1-cp35-cp35m-linux_armv7l.whl#sha256=7719393288e4b7d58df66be1b835f01bc962a0a64b61adab766ce32ffa6a3f0e (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,814 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.1-cp35-cp35m-linux_armv6l.whl#sha256=7719393288e4b7d58df66be1b835f01bc962a0a64b61adab766ce32ffa6a3f0e (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,814 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.0-cp39-cp39-linux_armv7l.whl#sha256=f5b150f17ead1887b6682721c33fa5cd7a8ab0d03d55d68176e11f3d0e17db43 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,815 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.0-cp39-cp39-linux_armv6l.whl#sha256=f5b150f17ead1887b6682721c33fa5cd7a8ab0d03d55d68176e11f3d0e17db43 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,815 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.0-cp37-cp37m-linux_armv7l.whl#sha256=b22cc6f8f6e39214cc9d6ef2778b8811ddb859aeca9ad030b64d78cc83816438 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,816 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.0-cp37-cp37m-linux_armv6l.whl#sha256=b22cc6f8f6e39214cc9d6ef2778b8811ddb859aeca9ad030b64d78cc83816438 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,816 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.0-cp35-cp35m-linux_armv7l.whl#sha256=c2e192c5e15e398eb8fcf987e378ac23645cf88ae7b43798f959edf36711e847 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,817 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.2.0-cp35-cp35m-linux_armv6l.whl#sha256=c2e192c5e15e398eb8fcf987e378ac23645cf88ae7b43798f959edf36711e847 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,817 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.2-cp39-cp39-linux_armv7l.whl#sha256=8335602183caad582c8928ea691b7be0671b701f02fd9489681d90efd6708863 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,818 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.2-cp39-cp39-linux_armv6l.whl#sha256=8335602183caad582c8928ea691b7be0671b701f02fd9489681d90efd6708863 (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,818 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.2-cp37-cp37m-linux_armv7l.whl#sha256=37809e659b1a6d0ae65708c8315d044d8b3ed5fa169c916d23a800715869074c (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,819 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.2-cp37-cp37m-linux_armv6l.whl#sha256=37809e659b1a6d0ae65708c8315d044d8b3ed5fa169c916d23a800715869074c (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,819 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.2-cp35-cp35m-linux_armv7l.whl#sha256=4a3dcfa05641310e339af037687c7171ffa116dab65617ebd2d9661d937375ee (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,820 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.2-cp35-cp35m-linux_armv6l.whl#sha256=4a3dcfa05641310e339af037687c7171ffa116dab65617ebd2d9661d937375ee (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,820 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.1-cp39-cp39-linux_armv7l.whl#sha256=c54c9649d97022e8ce47cce412b180621f9a77399bf9c58ef855e08f913a237f (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,821 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.1-cp39-cp39-linux_armv6l.whl#sha256=c54c9649d97022e8ce47cce412b180621f9a77399bf9c58ef855e08f913a237f (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,821 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.1-cp37-cp37m-linux_armv7l.whl#sha256=37299a0c9633838823df1040fad4ea675ea5d693df9331240e4dc04f1797003c (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,822 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.1-cp37-cp37m-linux_armv6l.whl#sha256=37299a0c9633838823df1040fad4ea675ea5d693df9331240e4dc04f1797003c (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,822 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.1-cp35-cp35m-linux_armv7l.whl#sha256=ed62deb3aed080a21ff74516c43aecc431d77412aff60dbbc4ba6282beee2b7d (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,823 Skipping link: No binaries permitted for pytrimal: https://www.piwheels.org/simple/pytrimal/pytrimal-0.1.1-cp35-cp35m-linux_armv6l.whl#sha256=ed62deb3aed080a21ff74516c43aecc431d77412aff60dbbc4ba6282beee2b7d (from https://www.piwheels.org/simple/pytrimal/) (requires-python:>=3.5) 2022-06-06T21:13:38,823 Skipping link: not a file: https://www.piwheels.org/simple/pytrimal/ 2022-06-06T21:13:38,824 Skipping link: not a file: https://pypi.org/simple/pytrimal/ 2022-06-06T21:13:38,870 Given no hashes to check 1 links for project 'pytrimal': discarding no candidates 2022-06-06T21:13:38,913 Collecting pytrimal==0.2.1 2022-06-06T21:13:38,917 Created temporary directory: /tmp/pip-unpack-r19550z5 2022-06-06T21:13:39,010 Downloading pytrimal-0.2.1.tar.gz (8.6 MB) 2022-06-06T21:13:47,955 Added pytrimal==0.2.1 from https://files.pythonhosted.org/packages/d6/57/5cdff589abe04954e0174231eafb1dfa0bfe9c1916cf073bbe8f763df0af/pytrimal-0.2.1.tar.gz#sha256=0a3c5e510d699deef49d27110ed25ba353f44b511ae1af0d7ed2d2bbd8a96957 to build tracker '/tmp/pip-build-tracker-tk0tsczu' 2022-06-06T21:13:47,965 Created temporary directory: /tmp/pip-build-env-fjxrbtei 2022-06-06T21:13:47,985 Created temporary directory: /tmp/pip-standalone-pip-pksaesei 2022-06-06T21:13:50,359 Installing build dependencies: started 2022-06-06T21:13:50,361 Running command pip subprocess to install build dependencies 2022-06-06T21:14:01,808 Using pip 22.1 from /tmp/pip-standalone-pip-pksaesei/__env_pip__.zip/pip (python 3.9) 2022-06-06T21:14:03,409 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-06-06T21:14:07,298 Collecting setuptools>=46.4 2022-06-06T21:14:07,578 Using cached https://www.piwheels.org/simple/setuptools/setuptools-62.3.2-py3-none-any.whl (1.2 MB) 2022-06-06T21:14:11,314 Collecting cython~=0.29.16 2022-06-06T21:14:12,300 Using cached https://www.piwheels.org/simple/cython/Cython-0.29.30-cp39-cp39-linux_armv7l.whl (5.0 MB) 2022-06-06T21:14:17,735 Installing collected packages: setuptools, cython 2022-06-06T21:14:29,257 Creating /tmp/pip-build-env-fjxrbtei/overlay/bin 2022-06-06T21:14:29,262 changing mode of /tmp/pip-build-env-fjxrbtei/overlay/bin/cygdb to 755 2022-06-06T21:14:29,267 changing mode of /tmp/pip-build-env-fjxrbtei/overlay/bin/cython to 755 2022-06-06T21:14:29,272 changing mode of /tmp/pip-build-env-fjxrbtei/overlay/bin/cythonize to 755 2022-06-06T21:14:29,320 Successfully installed cython-0.29.30 setuptools-62.3.2 2022-06-06T21:14:29,513 WARNING: There was an error checking the latest version of pip. 2022-06-06T21:14:30,078 Installing build dependencies: finished with status 'done' 2022-06-06T21:14:30,107 Getting requirements to build wheel: started 2022-06-06T21:14:30,109 Running command Getting requirements to build wheel 2022-06-06T21:14:32,892 Getting requirements to build wheel: finished with status 'done' 2022-06-06T21:14:32,930 Created temporary directory: /tmp/pip-standalone-pip-ds3fcdaj 2022-06-06T21:14:35,188 Installing backend dependencies: started 2022-06-06T21:14:35,190 Running command pip subprocess to install backend dependencies 2022-06-06T21:14:46,760 Using pip 22.1 from /tmp/pip-standalone-pip-ds3fcdaj/__env_pip__.zip/pip (python 3.9) 2022-06-06T21:14:48,341 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-06-06T21:14:49,225 Collecting wheel 2022-06-06T21:14:49,263 Using cached https://www.piwheels.org/simple/wheel/wheel-0.37.1-py2.py3-none-any.whl (35 kB) 2022-06-06T21:14:53,664 Installing collected packages: wheel 2022-06-06T21:14:53,953 Creating /tmp/pip-build-env-fjxrbtei/normal/bin 2022-06-06T21:14:53,957 changing mode of /tmp/pip-build-env-fjxrbtei/normal/bin/wheel to 755 2022-06-06T21:14:53,984 Successfully installed wheel-0.37.1 2022-06-06T21:14:54,173 WARNING: There was an error checking the latest version of pip. 2022-06-06T21:14:54,598 Installing backend dependencies: finished with status 'done' 2022-06-06T21:14:54,622 Created temporary directory: /tmp/pip-modern-metadata-jshh3h3o 2022-06-06T21:14:54,628 Preparing metadata (pyproject.toml): started 2022-06-06T21:14:54,630 Running command Preparing metadata (pyproject.toml) 2022-06-06T21:14:59,499 running dist_info 2022-06-06T21:15:00,106 creating /tmp/pip-modern-metadata-jshh3h3o/pytrimal.egg-info 2022-06-06T21:15:00,691 writing /tmp/pip-modern-metadata-jshh3h3o/pytrimal.egg-info/PKG-INFO 2022-06-06T21:15:01,249 writing dependency_links to /tmp/pip-modern-metadata-jshh3h3o/pytrimal.egg-info/dependency_links.txt 2022-06-06T21:15:04,557 writing top-level names to /tmp/pip-modern-metadata-jshh3h3o/pytrimal.egg-info/top_level.txt 2022-06-06T21:15:04,560 writing manifest file '/tmp/pip-modern-metadata-jshh3h3o/pytrimal.egg-info/SOURCES.txt' 2022-06-06T21:15:05,250 reading manifest file '/tmp/pip-modern-metadata-jshh3h3o/pytrimal.egg-info/SOURCES.txt' 2022-06-06T21:15:05,253 reading manifest template 'MANIFEST.in' 2022-06-06T21:15:06,223 warning: no previously-included files matching '*.html' found under directory 'pytrimal' 2022-06-06T21:15:06,231 warning: no files found matching '*.pxd' under directory 'pytrimal/patch' 2022-06-06T21:15:06,242 adding license file 'COPYING' 2022-06-06T21:15:06,273 writing manifest file '/tmp/pip-modern-metadata-jshh3h3o/pytrimal.egg-info/SOURCES.txt' 2022-06-06T21:15:06,277 creating '/tmp/pip-modern-metadata-jshh3h3o/pytrimal-0.2.1.dist-info' 2022-06-06T21:15:06,466 adding license file "COPYING" (matched pattern "COPYING*") 2022-06-06T21:15:06,715 Preparing metadata (pyproject.toml): finished with status 'done' 2022-06-06T21:15:06,732 Source in /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc has version 0.2.1, which satisfies requirement pytrimal==0.2.1 from https://files.pythonhosted.org/packages/d6/57/5cdff589abe04954e0174231eafb1dfa0bfe9c1916cf073bbe8f763df0af/pytrimal-0.2.1.tar.gz#sha256=0a3c5e510d699deef49d27110ed25ba353f44b511ae1af0d7ed2d2bbd8a96957 2022-06-06T21:15:06,734 Removed pytrimal==0.2.1 from https://files.pythonhosted.org/packages/d6/57/5cdff589abe04954e0174231eafb1dfa0bfe9c1916cf073bbe8f763df0af/pytrimal-0.2.1.tar.gz#sha256=0a3c5e510d699deef49d27110ed25ba353f44b511ae1af0d7ed2d2bbd8a96957 from build tracker '/tmp/pip-build-tracker-tk0tsczu' 2022-06-06T21:15:06,749 Created temporary directory: /tmp/pip-unpack-4_hvg1nj 2022-06-06T21:15:06,750 Building wheels for collected packages: pytrimal 2022-06-06T21:15:06,760 Created temporary directory: /tmp/pip-wheel-f28z52do 2022-06-06T21:15:06,760 Destination directory: /tmp/pip-wheel-f28z52do 2022-06-06T21:15:06,766 Building wheel for pytrimal (pyproject.toml): started 2022-06-06T21:15:06,767 Running command Building wheel for pytrimal (pyproject.toml) 2022-06-06T21:15:11,194 running bdist_wheel 2022-06-06T21:15:11,293 running build 2022-06-06T21:15:11,293 running build_py 2022-06-06T21:15:11,884 creating build 2022-06-06T21:15:11,884 creating build/lib.linux-armv7l-cpython-39 2022-06-06T21:15:11,885 creating build/lib.linux-armv7l-cpython-39/pytrimal 2022-06-06T21:15:11,887 copying pytrimal/__init__.py -> build/lib.linux-armv7l-cpython-39/pytrimal 2022-06-06T21:15:11,891 copying pytrimal/_version.py -> build/lib.linux-armv7l-cpython-39/pytrimal 2022-06-06T21:15:11,896 creating build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,897 copying pytrimal/tests/test_doctest.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,901 copying pytrimal/tests/test_manual_trimmer.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,905 copying pytrimal/tests/__main__.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,908 copying pytrimal/tests/test_similarity_matrix.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,912 copying pytrimal/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,915 copying pytrimal/tests/test_automatic_trimmer.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,919 copying pytrimal/tests/test_alignment.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,924 creating build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:11,925 copying pytrimal/tests/data/__init__.py -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:11,936 copying pytrimal/py.typed -> build/lib.linux-armv7l-cpython-39/pytrimal 2022-06-06T21:15:11,939 copying pytrimal/_trimal.pyi -> build/lib.linux-armv7l-cpython-39/pytrimal 2022-06-06T21:15:11,943 copying pytrimal/tests/requirements.txt -> build/lib.linux-armv7l-cpython-39/pytrimal/tests 2022-06-06T21:15:11,947 copying pytrimal/tests/data/ENOG411BWBU.id50.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:11,952 copying pytrimal/tests/data/ENOG411BWBU.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:11,972 copying pytrimal/tests/data/halorhodopsin.afa -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:11,983 copying pytrimal/tests/data/ENOG411BWBU.strict.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:11,994 copying pytrimal/tests/data/pam70.json -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:11,998 copying pytrimal/tests/data/ENOG411BWBU.noallgaps.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,018 copying pytrimal/tests/data/ENOG411BWBU.strictplus.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,031 copying pytrimal/tests/data/ENOG411BWBU.id70.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,040 copying pytrimal/tests/data/ENOG411BWBU.cons40.gt40.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,053 copying pytrimal/tests/data/example.001.AA.clw -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,056 copying pytrimal/tests/data/ENOG411BWBU.cons60.gt90.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,069 copying pytrimal/tests/data/ENOG411BWBU.gappyout.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,083 copying pytrimal/tests/data/ENOG411BWBU.automated1.fasta -> build/lib.linux-armv7l-cpython-39/pytrimal/tests/data 2022-06-06T21:15:12,099 running build_clib 2022-06-06T21:15:12,113 creating build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,114 generating build/temp.linux-armv7l-cpython-39/libcpu_features.a from vendor/cpu_features/src/impl_arm_linux_or_android.c, vendor/cpu_features/src/filesystem.c, vendor/cpu_features/src/stack_line_reader.c, vendor/cpu_features/src/string_view.c, vendor/cpu_features/src/copy.inl, vendor/cpu_features/src/define_introspection.inl, vendor/cpu_features/src/define_introspection_and_hwcaps.inl, vendor/cpu_features/src/equals.inl, vendor/cpu_features/src/impl_x86__base_implementation.inl 2022-06-06T21:15:12,115 building cpu_features with unix compiler 2022-06-06T21:15:12,115 generating build/temp.linux-armv7l-cpython-39/impl_arm_linux_or_android.c from vendor/cpu_features/src/impl_arm_linux_or_android.c 2022-06-06T21:15:12,116 copying vendor/cpu_features/src/impl_arm_linux_or_android.c -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,121 generating build/temp.linux-armv7l-cpython-39/filesystem.c from vendor/cpu_features/src/filesystem.c 2022-06-06T21:15:12,122 copying vendor/cpu_features/src/filesystem.c -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,125 generating build/temp.linux-armv7l-cpython-39/stack_line_reader.c from vendor/cpu_features/src/stack_line_reader.c 2022-06-06T21:15:12,125 copying vendor/cpu_features/src/stack_line_reader.c -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,129 generating build/temp.linux-armv7l-cpython-39/string_view.c from vendor/cpu_features/src/string_view.c 2022-06-06T21:15:12,130 copying vendor/cpu_features/src/string_view.c -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,134 generating build/temp.linux-armv7l-cpython-39/copy.inl from vendor/cpu_features/src/copy.inl 2022-06-06T21:15:12,135 copying vendor/cpu_features/src/copy.inl -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,138 generating build/temp.linux-armv7l-cpython-39/define_introspection.inl from vendor/cpu_features/src/define_introspection.inl 2022-06-06T21:15:12,138 copying vendor/cpu_features/src/define_introspection.inl -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,142 generating build/temp.linux-armv7l-cpython-39/define_introspection_and_hwcaps.inl from vendor/cpu_features/src/define_introspection_and_hwcaps.inl 2022-06-06T21:15:12,142 copying vendor/cpu_features/src/define_introspection_and_hwcaps.inl -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,145 generating build/temp.linux-armv7l-cpython-39/equals.inl from vendor/cpu_features/src/equals.inl 2022-06-06T21:15:12,146 copying vendor/cpu_features/src/equals.inl -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,150 generating build/temp.linux-armv7l-cpython-39/impl_x86__base_implementation.inl from vendor/cpu_features/src/impl_x86__base_implementation.inl 2022-06-06T21:15:12,150 copying vendor/cpu_features/src/impl_x86__base_implementation.inl -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:12,159 generating build/temp.linux-armv7l-cpython-39/impl_arm_linux_or_android.o from build/temp.linux-armv7l-cpython-39/impl_arm_linux_or_android.c 2022-06-06T21:15:12,160 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DSTACK_LINE_READER_BUFFER_SIZE=1024 -Ivendor/cpu_features/include -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/impl_arm_linux_or_android.c -o build/temp.linux-armv7l-cpython-39/impl_arm_linux_or_android.o 2022-06-06T21:15:13,434 generating build/temp.linux-armv7l-cpython-39/filesystem.o from build/temp.linux-armv7l-cpython-39/filesystem.c 2022-06-06T21:15:13,436 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DSTACK_LINE_READER_BUFFER_SIZE=1024 -Ivendor/cpu_features/include -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/filesystem.c -o build/temp.linux-armv7l-cpython-39/filesystem.o 2022-06-06T21:15:13,821 generating build/temp.linux-armv7l-cpython-39/stack_line_reader.o from build/temp.linux-armv7l-cpython-39/stack_line_reader.c 2022-06-06T21:15:13,823 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DSTACK_LINE_READER_BUFFER_SIZE=1024 -Ivendor/cpu_features/include -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/stack_line_reader.c -o build/temp.linux-armv7l-cpython-39/stack_line_reader.o 2022-06-06T21:15:14,260 generating build/temp.linux-armv7l-cpython-39/string_view.o from build/temp.linux-armv7l-cpython-39/string_view.c 2022-06-06T21:15:14,262 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DSTACK_LINE_READER_BUFFER_SIZE=1024 -Ivendor/cpu_features/include -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/string_view.c -o build/temp.linux-armv7l-cpython-39/string_view.o 2022-06-06T21:15:15,139 generating build/temp.linux-armv7l-cpython-39/libcpu_features.a from build/temp.linux-armv7l-cpython-39/impl_arm_linux_or_android.o, build/temp.linux-armv7l-cpython-39/filesystem.o, build/temp.linux-armv7l-cpython-39/stack_line_reader.o, build/temp.linux-armv7l-cpython-39/string_view.o, build/temp.linux-armv7l-cpython-39/copy.inl, build/temp.linux-armv7l-cpython-39/define_introspection.inl, build/temp.linux-armv7l-cpython-39/define_introspection_and_hwcaps.inl, build/temp.linux-armv7l-cpython-39/equals.inl, build/temp.linux-armv7l-cpython-39/impl_x86__base_implementation.inl 2022-06-06T21:15:15,141 arm-linux-gnueabihf-gcc-ar rcs build/temp.linux-armv7l-cpython-39/libcpu_features.a build/temp.linux-armv7l-cpython-39/impl_arm_linux_or_android.o build/temp.linux-armv7l-cpython-39/filesystem.o build/temp.linux-armv7l-cpython-39/stack_line_reader.o build/temp.linux-armv7l-cpython-39/string_view.o build/temp.linux-armv7l-cpython-39/copy.inl build/temp.linux-armv7l-cpython-39/define_introspection.inl build/temp.linux-armv7l-cpython-39/define_introspection_and_hwcaps.inl build/temp.linux-armv7l-cpython-39/equals.inl build/temp.linux-armv7l-cpython-39/impl_x86__base_implementation.inl 2022-06-06T21:15:15,211 generating build/temp.linux-armv7l-cpython-39/libtrimal.a from vendor/trimal/source/Cleaner.cpp, vendor/trimal/source/Alignment/Alignment.cpp, vendor/trimal/source/Alignment/sequencesMatrix.cpp, vendor/trimal/source/Statistics/similarityMatrix.cpp, vendor/trimal/source/Statistics/Mold.cpp, vendor/trimal/source/Statistics/Gaps.cpp, vendor/trimal/source/Statistics/Manager.cpp, vendor/trimal/source/Statistics/Similarity.cpp, vendor/trimal/source/Statistics/Consistency.cpp, vendor/trimal/source/reportMessages/errorMessages.cpp, vendor/trimal/source/reportMessages/infoMessages.cpp, vendor/trimal/source/reportMessages/warningMessages.cpp, vendor/trimal/source/FormatHandling/phylip_paml_m10_state.cpp, vendor/trimal/source/FormatHandling/nexus_state.cpp, vendor/trimal/source/FormatHandling/mega_sequential_state.cpp, vendor/trimal/source/FormatHandling/mega_interleaved_state.cpp, vendor/trimal/source/FormatHandling/nexus_m10_state.cpp, vendor/trimal/source/FormatHandling/fasta_state.cpp, vendor/trimal/source/FormatHandling/clustal_state.cpp, vendor/trimal/source/FormatHandling/htmlreport_state.cpp, vendor/trimal/source/FormatHandling/fasta_m10_state.cpp, vendor/trimal/source/FormatHandling/phylip32_state.cpp, vendor/trimal/source/FormatHandling/pir_state.cpp, vendor/trimal/source/FormatHandling/phylip40_state.cpp, vendor/trimal/source/FormatHandling/phylip_paml_state.cpp, vendor/trimal/source/FormatHandling/phylip32_m10_state.cpp, vendor/trimal/source/FormatHandling/phylip40_m10_state.cpp, vendor/trimal/source/FormatHandling/BaseFormatHandler.cpp, vendor/trimal/source/utils.cpp, vendor/trimal/source/InternalBenchmarker.cpp, vendor/trimal/source/trimalManager.cpp, vendor/trimal/source/VCFHandler.cpp 2022-06-06T21:15:15,211 building trimal with unix compiler 2022-06-06T21:15:15,212 generating build/temp.linux-armv7l-cpython-39/InternalBenchmarker.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/InternalBenchmarker.h 2022-06-06T21:15:15,220 generating build/temp.linux-armv7l-cpython-39/Cleaner.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Cleaner.h 2022-06-06T21:15:15,232 generating build/temp.linux-armv7l-cpython-39/defines.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/defines.h 2022-06-06T21:15:15,236 generating build/temp.linux-armv7l-cpython-39/trimalManager.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/trimalManager.h 2022-06-06T21:15:15,246 generating build/temp.linux-armv7l-cpython-39/utils.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/utils.h 2022-06-06T21:15:15,257 generating build/temp.linux-armv7l-cpython-39/reportsystem.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/reportsystem.h 2022-06-06T21:15:15,269 generating build/temp.linux-armv7l-cpython-39/values.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/values.h 2022-06-06T21:15:15,275 generating build/temp.linux-armv7l-cpython-39/VCFHandler.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/VCFHandler.h 2022-06-06T21:15:15,282 creating build/temp.linux-armv7l-cpython-39/Statistics 2022-06-06T21:15:15,284 generating build/temp.linux-armv7l-cpython-39/Statistics/Similarity.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Statistics/Similarity.h 2022-06-06T21:15:15,290 generating build/temp.linux-armv7l-cpython-39/Statistics/Mold.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Statistics/Mold.h 2022-06-06T21:15:15,294 generating build/temp.linux-armv7l-cpython-39/Statistics/Consistency.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Statistics/Consistency.h 2022-06-06T21:15:15,300 generating build/temp.linux-armv7l-cpython-39/Statistics/Manager.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Statistics/Manager.h 2022-06-06T21:15:15,305 generating build/temp.linux-armv7l-cpython-39/Statistics/Gaps.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Statistics/Gaps.h 2022-06-06T21:15:15,310 generating build/temp.linux-armv7l-cpython-39/Statistics/similarityMatrix.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Statistics/similarityMatrix.h 2022-06-06T21:15:15,315 creating build/temp.linux-armv7l-cpython-39/FormatHandling 2022-06-06T21:15:15,316 generating build/temp.linux-armv7l-cpython-39/FormatHandling/FormatManager.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/FormatManager.h 2022-06-06T21:15:15,324 generating build/temp.linux-armv7l-cpython-39/FormatHandling/mega_interleaved_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/mega_interleaved_state.h 2022-06-06T21:15:15,327 generating build/temp.linux-armv7l-cpython-39/FormatHandling/formats_header.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/formats_header.h 2022-06-06T21:15:15,331 generating build/temp.linux-armv7l-cpython-39/FormatHandling/fasta_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/fasta_state.h 2022-06-06T21:15:15,334 generating build/temp.linux-armv7l-cpython-39/FormatHandling/nexus_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/nexus_state.h 2022-06-06T21:15:15,338 generating build/temp.linux-armv7l-cpython-39/FormatHandling/nexus_m10_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/nexus_m10_state.h 2022-06-06T21:15:15,341 generating build/temp.linux-armv7l-cpython-39/FormatHandling/phylip_paml_m10_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/phylip_paml_m10_state.h 2022-06-06T21:15:15,345 generating build/temp.linux-armv7l-cpython-39/FormatHandling/phylip_paml_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/phylip_paml_state.h 2022-06-06T21:15:15,348 generating build/temp.linux-armv7l-cpython-39/FormatHandling/mega_sequential_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/mega_sequential_state.h 2022-06-06T21:15:15,352 generating build/temp.linux-armv7l-cpython-39/FormatHandling/BaseFormatHandler.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/BaseFormatHandler.h 2022-06-06T21:15:15,357 generating build/temp.linux-armv7l-cpython-39/FormatHandling/fasta_m10_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/fasta_m10_state.h 2022-06-06T21:15:15,361 generating build/temp.linux-armv7l-cpython-39/FormatHandling/phylip40_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/phylip40_state.h 2022-06-06T21:15:15,364 generating build/temp.linux-armv7l-cpython-39/FormatHandling/phylip32_m10_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/phylip32_m10_state.h 2022-06-06T21:15:15,368 generating build/temp.linux-armv7l-cpython-39/FormatHandling/phylip32_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/phylip32_state.h 2022-06-06T21:15:15,371 generating build/temp.linux-armv7l-cpython-39/FormatHandling/phylip40_m10_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/phylip40_m10_state.h 2022-06-06T21:15:15,375 generating build/temp.linux-armv7l-cpython-39/FormatHandling/pir_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/pir_state.h 2022-06-06T21:15:15,378 generating build/temp.linux-armv7l-cpython-39/FormatHandling/htmlreport_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/htmlreport_state.h 2022-06-06T21:15:15,382 generating build/temp.linux-armv7l-cpython-39/FormatHandling/clustal_state.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/FormatHandling/clustal_state.h 2022-06-06T21:15:15,386 creating build/temp.linux-armv7l-cpython-39/Alignment 2022-06-06T21:15:15,387 generating build/temp.linux-armv7l-cpython-39/Alignment/Alignment.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Alignment/Alignment.h 2022-06-06T21:15:15,392 generating build/temp.linux-armv7l-cpython-39/Alignment/sequencesMatrix.h from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/Alignment/sequencesMatrix.h 2022-06-06T21:15:15,398 creating build/temp.linux-armv7l-cpython-39/RawText 2022-06-06T21:15:15,399 generating build/temp.linux-armv7l-cpython-39/RawText/examples.txt from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/RawText/examples.txt 2022-06-06T21:15:15,403 generating build/temp.linux-armv7l-cpython-39/RawText/legacyMenu.txt from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/RawText/legacyMenu.txt 2022-06-06T21:15:15,410 generating build/temp.linux-armv7l-cpython-39/RawText/menu.txt from /tmp/pip-wheel-cvflz184/pytrimal_ca11779c583f4c2bb94f18ae83ccecbc/vendor/trimal/include/RawText/menu.txt 2022-06-06T21:15:15,420 generating build/temp.linux-armv7l-cpython-39/Cleaner.cpp from vendor/trimal/source/Cleaner.cpp 2022-06-06T21:15:15,420 copying vendor/trimal/source/Cleaner.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,428 generating build/temp.linux-armv7l-cpython-39/Alignment.cpp from vendor/trimal/source/Alignment/Alignment.cpp 2022-06-06T21:15:15,429 copying vendor/trimal/source/Alignment/Alignment.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,439 generating build/temp.linux-armv7l-cpython-39/sequencesMatrix.cpp from vendor/trimal/source/Alignment/sequencesMatrix.cpp 2022-06-06T21:15:15,440 copying vendor/trimal/source/Alignment/sequencesMatrix.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,444 generating build/temp.linux-armv7l-cpython-39/similarityMatrix.cpp from vendor/trimal/source/Statistics/similarityMatrix.cpp 2022-06-06T21:15:15,444 copying vendor/trimal/source/Statistics/similarityMatrix.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,449 generating build/temp.linux-armv7l-cpython-39/Mold.cpp from vendor/trimal/source/Statistics/Mold.cpp 2022-06-06T21:15:15,450 copying vendor/trimal/source/Statistics/Mold.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,455 generating build/temp.linux-armv7l-cpython-39/Gaps.cpp from vendor/trimal/source/Statistics/Gaps.cpp 2022-06-06T21:15:15,456 copying vendor/trimal/source/Statistics/Gaps.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,461 generating build/temp.linux-armv7l-cpython-39/Manager.cpp from vendor/trimal/source/Statistics/Manager.cpp 2022-06-06T21:15:15,462 copying vendor/trimal/source/Statistics/Manager.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,467 generating build/temp.linux-armv7l-cpython-39/Similarity.cpp from vendor/trimal/source/Statistics/Similarity.cpp 2022-06-06T21:15:15,468 copying vendor/trimal/source/Statistics/Similarity.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,473 generating build/temp.linux-armv7l-cpython-39/Consistency.cpp from vendor/trimal/source/Statistics/Consistency.cpp 2022-06-06T21:15:15,474 copying vendor/trimal/source/Statistics/Consistency.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,481 generating build/temp.linux-armv7l-cpython-39/errorMessages.cpp from vendor/trimal/source/reportMessages/errorMessages.cpp 2022-06-06T21:15:15,482 copying vendor/trimal/source/reportMessages/errorMessages.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,487 generating build/temp.linux-armv7l-cpython-39/infoMessages.cpp from vendor/trimal/source/reportMessages/infoMessages.cpp 2022-06-06T21:15:15,488 copying vendor/trimal/source/reportMessages/infoMessages.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,491 generating build/temp.linux-armv7l-cpython-39/warningMessages.cpp from vendor/trimal/source/reportMessages/warningMessages.cpp 2022-06-06T21:15:15,492 copying vendor/trimal/source/reportMessages/warningMessages.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,495 generating build/temp.linux-armv7l-cpython-39/phylip_paml_m10_state.cpp from vendor/trimal/source/FormatHandling/phylip_paml_m10_state.cpp 2022-06-06T21:15:15,495 copying vendor/trimal/source/FormatHandling/phylip_paml_m10_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,499 generating build/temp.linux-armv7l-cpython-39/nexus_state.cpp from vendor/trimal/source/FormatHandling/nexus_state.cpp 2022-06-06T21:15:15,499 copying vendor/trimal/source/FormatHandling/nexus_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,504 generating build/temp.linux-armv7l-cpython-39/mega_sequential_state.cpp from vendor/trimal/source/FormatHandling/mega_sequential_state.cpp 2022-06-06T21:15:15,504 copying vendor/trimal/source/FormatHandling/mega_sequential_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,509 generating build/temp.linux-armv7l-cpython-39/mega_interleaved_state.cpp from vendor/trimal/source/FormatHandling/mega_interleaved_state.cpp 2022-06-06T21:15:15,510 copying vendor/trimal/source/FormatHandling/mega_interleaved_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,514 generating build/temp.linux-armv7l-cpython-39/nexus_m10_state.cpp from vendor/trimal/source/FormatHandling/nexus_m10_state.cpp 2022-06-06T21:15:15,514 copying vendor/trimal/source/FormatHandling/nexus_m10_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,518 generating build/temp.linux-armv7l-cpython-39/fasta_state.cpp from vendor/trimal/source/FormatHandling/fasta_state.cpp 2022-06-06T21:15:15,519 copying vendor/trimal/source/FormatHandling/fasta_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,522 generating build/temp.linux-armv7l-cpython-39/clustal_state.cpp from vendor/trimal/source/FormatHandling/clustal_state.cpp 2022-06-06T21:15:15,523 copying vendor/trimal/source/FormatHandling/clustal_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,527 generating build/temp.linux-armv7l-cpython-39/htmlreport_state.cpp from vendor/trimal/source/FormatHandling/htmlreport_state.cpp 2022-06-06T21:15:15,527 copying vendor/trimal/source/FormatHandling/htmlreport_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,531 generating build/temp.linux-armv7l-cpython-39/fasta_m10_state.cpp from vendor/trimal/source/FormatHandling/fasta_m10_state.cpp 2022-06-06T21:15:15,531 copying vendor/trimal/source/FormatHandling/fasta_m10_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,535 generating build/temp.linux-armv7l-cpython-39/phylip32_state.cpp from vendor/trimal/source/FormatHandling/phylip32_state.cpp 2022-06-06T21:15:15,535 copying vendor/trimal/source/FormatHandling/phylip32_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,539 generating build/temp.linux-armv7l-cpython-39/pir_state.cpp from vendor/trimal/source/FormatHandling/pir_state.cpp 2022-06-06T21:15:15,540 copying vendor/trimal/source/FormatHandling/pir_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,543 generating build/temp.linux-armv7l-cpython-39/phylip40_state.cpp from vendor/trimal/source/FormatHandling/phylip40_state.cpp 2022-06-06T21:15:15,544 copying vendor/trimal/source/FormatHandling/phylip40_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,548 generating build/temp.linux-armv7l-cpython-39/phylip_paml_state.cpp from vendor/trimal/source/FormatHandling/phylip_paml_state.cpp 2022-06-06T21:15:15,548 copying vendor/trimal/source/FormatHandling/phylip_paml_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,551 generating build/temp.linux-armv7l-cpython-39/phylip32_m10_state.cpp from vendor/trimal/source/FormatHandling/phylip32_m10_state.cpp 2022-06-06T21:15:15,552 copying vendor/trimal/source/FormatHandling/phylip32_m10_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,555 generating build/temp.linux-armv7l-cpython-39/phylip40_m10_state.cpp from vendor/trimal/source/FormatHandling/phylip40_m10_state.cpp 2022-06-06T21:15:15,556 copying vendor/trimal/source/FormatHandling/phylip40_m10_state.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,559 generating build/temp.linux-armv7l-cpython-39/BaseFormatHandler.cpp from vendor/trimal/source/FormatHandling/BaseFormatHandler.cpp 2022-06-06T21:15:15,560 copying vendor/trimal/source/FormatHandling/BaseFormatHandler.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,564 generating build/temp.linux-armv7l-cpython-39/utils.cpp from vendor/trimal/source/utils.cpp 2022-06-06T21:15:15,564 copying vendor/trimal/source/utils.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,570 generating build/temp.linux-armv7l-cpython-39/InternalBenchmarker.cpp from vendor/trimal/source/InternalBenchmarker.cpp 2022-06-06T21:15:15,571 copying vendor/trimal/source/InternalBenchmarker.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,575 generating build/temp.linux-armv7l-cpython-39/trimalManager.cpp from vendor/trimal/source/trimalManager.cpp 2022-06-06T21:15:15,576 copying vendor/trimal/source/trimalManager.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,584 generating build/temp.linux-armv7l-cpython-39/VCFHandler.cpp from vendor/trimal/source/VCFHandler.cpp 2022-06-06T21:15:15,585 copying vendor/trimal/source/VCFHandler.cpp -> build/temp.linux-armv7l-cpython-39 2022-06-06T21:15:15,592 generating build/temp.linux-armv7l-cpython-39/Cleaner.o from build/temp.linux-armv7l-cpython-39/Cleaner.cpp 2022-06-06T21:15:15,593 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/Cleaner.cpp -o build/temp.linux-armv7l-cpython-39/Cleaner.o 2022-06-06T21:15:16,735 build/temp.linux-armv7l-cpython-39/Cleaner.cpp:1449: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 2022-06-06T21:15:16,736 1449 | #pragma omp parallel for num_threads(NUMTHREADS) if(alig->originalNumberOfSequences>MINPARALLELSIZE) 2022-06-06T21:15:16,736 | 2022-06-06T21:15:16,737 build/temp.linux-armv7l-cpython-39/Cleaner.cpp:1457: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 2022-06-06T21:15:16,737 1457 | #pragma omp parallel for num_threads(NUMTHREADS) private(j, k, hit, dst) if(alig->originalNumberOfSequences>MINPARALLELSIZE) 2022-06-06T21:15:16,737 | 2022-06-06T21:15:19,926 build/temp.linux-armv7l-cpython-39/Cleaner.cpp: In member function ‘Alignment* Cleaner::cleanStrict(int, const int*, float, const float*, bool, bool)’: 2022-06-06T21:15:19,926 build/temp.linux-armv7l-cpython-39/Cleaner.cpp:519:12: warning: unused variable ‘x’ [-Wunused-variable] 2022-06-06T21:15:19,927 519 | int i, x, pos, counter, lenBlock; 2022-06-06T21:15:19,927 | ^ 2022-06-06T21:15:19,965 build/temp.linux-armv7l-cpython-39/Cleaner.cpp: In member function ‘Alignment* Cleaner::getClustering(float)’: 2022-06-06T21:15:19,966 build/temp.linux-armv7l-cpython-39/Cleaner.cpp:1217:12: warning: unused variable ‘j’ [-Wunused-variable] 2022-06-06T21:15:19,966 1217 | int i, j, *clustering; 2022-06-06T21:15:19,966 | ^ 2022-06-06T21:15:19,980 build/temp.linux-armv7l-cpython-39/Cleaner.cpp: In member function ‘void Cleaner::removeAllGapsSeqsAndCols(bool, bool)’: 2022-06-06T21:15:19,981 build/temp.linux-armv7l-cpython-39/Cleaner.cpp:1382:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:15:19,981 1382 | for (j = 0; j < alig->sequences[i].length(); j++) { 2022-06-06T21:15:19,982 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:15:19,983 build/temp.linux-armv7l-cpython-39/Cleaner.cpp:1393:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:15:19,983 1393 | if (j == alig->sequences[i].length()) { 2022-06-06T21:15:19,984 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:15:28,638 generating build/temp.linux-armv7l-cpython-39/Alignment.o from build/temp.linux-armv7l-cpython-39/Alignment.cpp 2022-06-06T21:15:28,639 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/Alignment.cpp -o build/temp.linux-armv7l-cpython-39/Alignment.o 2022-06-06T21:15:29,542 build/temp.linux-armv7l-cpython-39/Alignment.cpp:395: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 2022-06-06T21:15:29,542 395 | #pragma omp parallel for num_threads(NUMTHREADS) if(numberOfSequences>MINPARALLELSIZE) 2022-06-06T21:15:29,542 | 2022-06-06T21:15:29,543 build/temp.linux-armv7l-cpython-39/Alignment.cpp:398: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 2022-06-06T21:15:29,543 398 | #pragma omp parallel for num_threads(NUMTHREADS) collapse(2) private(k, shared, referenceLength) if(numberOfSequences>MINPARALLELSIZE) 2022-06-06T21:15:29,543 | 2022-06-06T21:15:29,544 build/temp.linux-armv7l-cpython-39/Alignment.cpp:930: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 2022-06-06T21:15:29,545 930 | #pragma omp parallel for private(k, mx, avg, pos) reduction(+: avgSeq, maxAvgSeq) num_threads(NUMTHREADS) if(originalNumberOfSequences>MINPARALLELSIZE) 2022-06-06T21:15:29,545 | 2022-06-06T21:15:32,685 build/temp.linux-armv7l-cpython-39/Alignment.cpp: In member function ‘Alignment* Alignment::getTranslationCDS(Alignment*)’: 2022-06-06T21:15:32,687 build/temp.linux-armv7l-cpython-39/Alignment.cpp:204:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,687 204 | for (y = 0, counter = 0; y < ProtAlig->sequences[x].size(); y++) { 2022-06-06T21:15:32,687 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:15:32,714 build/temp.linux-armv7l-cpython-39/Alignment.cpp: In member function ‘bool Alignment::prepareCodingSequence(bool, bool, Alignment*)’: 2022-06-06T21:15:32,714 build/temp.linux-armv7l-cpython-39/Alignment.cpp:614:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const size_type’ {aka ‘const unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,714 614 | if ((found != string::npos) && (((int) found % 3) == 0)) { 2022-06-06T21:15:32,715 | ~~~~~~^~~~~~~~~~~~~~~ 2022-06-06T21:15:32,721 build/temp.linux-armv7l-cpython-39/Alignment.cpp:641:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const size_type’ {aka ‘const unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,721 641 | } while (found != string::npos); 2022-06-06T21:15:32,722 | ~~~~~~^~~~~~~~~~~~~~~ 2022-06-06T21:15:32,722 build/temp.linux-armv7l-cpython-39/Alignment.cpp:651:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const size_type’ {aka ‘const unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,722 651 | if ((found != string::npos) && (((int) found % 3) == 0)) { 2022-06-06T21:15:32,723 | ~~~~~~^~~~~~~~~~~~~~~ 2022-06-06T21:15:32,729 build/temp.linux-armv7l-cpython-39/Alignment.cpp:676:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const size_type’ {aka ‘const unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,729 676 | } while (found != string::npos); 2022-06-06T21:15:32,729 | ~~~~~~^~~~~~~~~~~~~~~ 2022-06-06T21:15:32,730 build/temp.linux-armv7l-cpython-39/Alignment.cpp:685:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const size_type’ {aka ‘const unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,730 685 | if ((found != string::npos) && (((int) found % 3) == 0)) { 2022-06-06T21:15:32,731 | ~~~~~~^~~~~~~~~~~~~~~ 2022-06-06T21:15:32,736 build/temp.linux-armv7l-cpython-39/Alignment.cpp:711:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const size_type’ {aka ‘const unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,737 711 | } while (found != string::npos); 2022-06-06T21:15:32,737 | ~~~~~~^~~~~~~~~~~~~~~ 2022-06-06T21:15:32,757 build/temp.linux-armv7l-cpython-39/Alignment.cpp: In member function ‘bool Alignment::fillMatrices(bool, bool)’: 2022-06-06T21:15:32,758 build/temp.linux-armv7l-cpython-39/Alignment.cpp:810:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,758 810 | for (j = 0; j < sequences[i].length(); j++) 2022-06-06T21:15:32,758 | ~~^~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:15:32,762 build/temp.linux-armv7l-cpython-39/Alignment.cpp:837:35: warning: comparison of integer expressions of different signedness: ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-06-06T21:15:32,762 837 | if (sequences[i].length() != numberOfResidues) { 2022-06-06T21:15:32,763 | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ 2022-06-06T21:15:32,767 build/temp.linux-armv7l-cpython-39/Alignment.cpp: In member function ‘void Alignment::printAlignmentInfo(std::ostream&)’: 2022-06-06T21:15:32,768 build/temp.linux-armv7l-cpython-39/Alignment.cpp:889:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:15:32,768 889 | for (j = 0, valid_res = 0; j < sequences[i].length(); j++) 2022-06-06T21:15:32,769 | ~~^~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:15:59,780 generating build/temp.linux-armv7l-cpython-39/sequencesMatrix.o from build/temp.linux-armv7l-cpython-39/sequencesMatrix.cpp 2022-06-06T21:15:59,782 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/sequencesMatrix.cpp -o build/temp.linux-armv7l-cpython-39/sequencesMatrix.o 2022-06-06T21:16:04,637 generating build/temp.linux-armv7l-cpython-39/similarityMatrix.o from build/temp.linux-armv7l-cpython-39/similarityMatrix.cpp 2022-06-06T21:16:04,639 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/similarityMatrix.cpp -o build/temp.linux-armv7l-cpython-39/similarityMatrix.o 2022-06-06T21:16:10,195 generating build/temp.linux-armv7l-cpython-39/Mold.o from build/temp.linux-armv7l-cpython-39/Mold.cpp 2022-06-06T21:16:10,196 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/Mold.cpp -o build/temp.linux-armv7l-cpython-39/Mold.o 2022-06-06T21:16:18,166 generating build/temp.linux-armv7l-cpython-39/Gaps.o from build/temp.linux-armv7l-cpython-39/Gaps.cpp 2022-06-06T21:16:18,167 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/Gaps.cpp -o build/temp.linux-armv7l-cpython-39/Gaps.o 2022-06-06T21:16:26,836 generating build/temp.linux-armv7l-cpython-39/Manager.o from build/temp.linux-armv7l-cpython-39/Manager.cpp 2022-06-06T21:16:26,837 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/Manager.cpp -o build/temp.linux-armv7l-cpython-39/Manager.o 2022-06-06T21:16:30,466 build/temp.linux-armv7l-cpython-39/Manager.cpp: In destructor ‘statistics::Manager::~Manager()’: 2022-06-06T21:16:30,466 build/temp.linux-armv7l-cpython-39/Manager.cpp:219:9: warning: deleting object of polymorphic class type ‘statistics::Similarity’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 2022-06-06T21:16:30,467 219 | delete similarity; 2022-06-06T21:16:30,467 | ^~~~~~~~~~~~~~~~~ 2022-06-06T21:16:31,335 generating build/temp.linux-armv7l-cpython-39/Similarity.o from build/temp.linux-armv7l-cpython-39/Similarity.cpp 2022-06-06T21:16:31,336 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/Similarity.cpp -o build/temp.linux-armv7l-cpython-39/Similarity.o 2022-06-06T21:16:32,161 build/temp.linux-armv7l-cpython-39/Similarity.cpp:115: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 2022-06-06T21:16:32,162 115 | #pragma omp parallel for num_threads(NUMTHREADS) if(alig->originalNumberOfSequences>MINPARALLELSIZE) 2022-06-06T21:16:32,162 | 2022-06-06T21:16:32,163 build/temp.linux-armv7l-cpython-39/Similarity.cpp:124: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 2022-06-06T21:16:32,163 124 | #pragma omp parallel for num_threads(NUMTHREADS) private(j, k, sum, length) if(alig->originalNumberOfSequences>MINPARALLELSIZE) 2022-06-06T21:16:32,163 | 2022-06-06T21:16:40,396 generating build/temp.linux-armv7l-cpython-39/Consistency.o from build/temp.linux-armv7l-cpython-39/Consistency.cpp 2022-06-06T21:16:40,397 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/Consistency.cpp -o build/temp.linux-armv7l-cpython-39/Consistency.o 2022-06-06T21:16:53,062 generating build/temp.linux-armv7l-cpython-39/errorMessages.o from build/temp.linux-armv7l-cpython-39/errorMessages.cpp 2022-06-06T21:16:53,064 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/errorMessages.cpp -o build/temp.linux-armv7l-cpython-39/errorMessages.o 2022-06-06T21:16:57,832 generating build/temp.linux-armv7l-cpython-39/infoMessages.o from build/temp.linux-armv7l-cpython-39/infoMessages.cpp 2022-06-06T21:16:57,833 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/infoMessages.cpp -o build/temp.linux-armv7l-cpython-39/infoMessages.o 2022-06-06T21:17:01,889 generating build/temp.linux-armv7l-cpython-39/warningMessages.o from build/temp.linux-armv7l-cpython-39/warningMessages.cpp 2022-06-06T21:17:01,890 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/warningMessages.cpp -o build/temp.linux-armv7l-cpython-39/warningMessages.o 2022-06-06T21:17:05,846 generating build/temp.linux-armv7l-cpython-39/phylip_paml_m10_state.o from build/temp.linux-armv7l-cpython-39/phylip_paml_m10_state.cpp 2022-06-06T21:17:05,847 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/phylip_paml_m10_state.cpp -o build/temp.linux-armv7l-cpython-39/phylip_paml_m10_state.o 2022-06-06T21:17:10,968 generating build/temp.linux-armv7l-cpython-39/nexus_state.o from build/temp.linux-armv7l-cpython-39/nexus_state.cpp 2022-06-06T21:17:10,969 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/nexus_state.cpp -o build/temp.linux-armv7l-cpython-39/nexus_state.o 2022-06-06T21:17:18,088 generating build/temp.linux-armv7l-cpython-39/mega_sequential_state.o from build/temp.linux-armv7l-cpython-39/mega_sequential_state.cpp 2022-06-06T21:17:18,089 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/mega_sequential_state.cpp -o build/temp.linux-armv7l-cpython-39/mega_sequential_state.o 2022-06-06T21:17:21,847 build/temp.linux-armv7l-cpython-39/mega_sequential_state.cpp: In member function ‘virtual bool FormatHandling::mega_sequential_state::SaveAlignment(const Alignment&, std::ostream*)’: 2022-06-06T21:17:21,848 build/temp.linux-armv7l-cpython-39/mega_sequential_state.cpp:335:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:17:21,848 335 | for(j = 0, l = 0; j < alignment.sequences[i].length(); j ++) 2022-06-06T21:17:21,849 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:17:21,854 build/temp.linux-armv7l-cpython-39/mega_sequential_state.cpp:289:15: warning: unused variable ‘k’ [-Wunused-variable] 2022-06-06T21:17:21,855 289 | int i, j, k, l, m; 2022-06-06T21:17:21,855 | ^ 2022-06-06T21:17:21,856 build/temp.linux-armv7l-cpython-39/mega_sequential_state.cpp:289:21: warning: unused variable ‘m’ [-Wunused-variable] 2022-06-06T21:17:21,856 289 | int i, j, k, l, m; 2022-06-06T21:17:21,856 | ^ 2022-06-06T21:17:24,263 generating build/temp.linux-armv7l-cpython-39/mega_interleaved_state.o from build/temp.linux-armv7l-cpython-39/mega_interleaved_state.cpp 2022-06-06T21:17:24,263 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/mega_interleaved_state.cpp -o build/temp.linux-armv7l-cpython-39/mega_interleaved_state.o 2022-06-06T21:17:29,883 generating build/temp.linux-armv7l-cpython-39/nexus_m10_state.o from build/temp.linux-armv7l-cpython-39/nexus_m10_state.cpp 2022-06-06T21:17:29,884 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/nexus_m10_state.cpp -o build/temp.linux-armv7l-cpython-39/nexus_m10_state.o 2022-06-06T21:17:36,538 generating build/temp.linux-armv7l-cpython-39/fasta_state.o from build/temp.linux-armv7l-cpython-39/fasta_state.cpp 2022-06-06T21:17:36,539 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/fasta_state.cpp -o build/temp.linux-armv7l-cpython-39/fasta_state.o 2022-06-06T21:17:40,234 build/temp.linux-armv7l-cpython-39/fasta_state.cpp: In member function ‘virtual bool FormatHandling::fasta_state::SaveAlignment(const Alignment&, std::ostream*)’: 2022-06-06T21:17:40,235 build/temp.linux-armv7l-cpython-39/fasta_state.cpp:197:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:17:40,235 197 | for (j = 0, k = 0; j < alignment.sequences[i].length(); j++) 2022-06-06T21:17:40,235 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:17:40,237 build/temp.linux-armv7l-cpython-39/fasta_state.cpp:201:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:17:40,237 201 | if (!lastcharIsnewline && j == alignment.sequences[i].length() -1 ) 2022-06-06T21:17:40,237 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:17:40,241 build/temp.linux-armv7l-cpython-39/fasta_state.cpp:212:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:17:40,242 212 | if (k % 60 == 0 || j == alignment.sequences[i].length() -1 ) 2022-06-06T21:17:40,242 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:17:42,262 generating build/temp.linux-armv7l-cpython-39/clustal_state.o from build/temp.linux-armv7l-cpython-39/clustal_state.cpp 2022-06-06T21:17:42,264 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/clustal_state.cpp -o build/temp.linux-armv7l-cpython-39/clustal_state.o 2022-06-06T21:17:48,189 generating build/temp.linux-armv7l-cpython-39/htmlreport_state.o from build/temp.linux-armv7l-cpython-39/htmlreport_state.cpp 2022-06-06T21:17:48,189 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/htmlreport_state.cpp -o build/temp.linux-armv7l-cpython-39/htmlreport_state.o 2022-06-06T21:17:53,362 generating build/temp.linux-armv7l-cpython-39/fasta_m10_state.o from build/temp.linux-armv7l-cpython-39/fasta_m10_state.cpp 2022-06-06T21:17:53,364 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/fasta_m10_state.cpp -o build/temp.linux-armv7l-cpython-39/fasta_m10_state.o 2022-06-06T21:17:57,062 build/temp.linux-armv7l-cpython-39/fasta_m10_state.cpp: In member function ‘virtual bool FormatHandling::fasta_m10_state::SaveAlignment(const Alignment&, std::ostream*)’: 2022-06-06T21:17:57,062 build/temp.linux-armv7l-cpython-39/fasta_m10_state.cpp:95:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:17:57,063 95 | for (j = 0, k = 0; j < alignment.sequences[i].length(); j++) 2022-06-06T21:17:57,063 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:17:57,063 build/temp.linux-armv7l-cpython-39/fasta_m10_state.cpp:99:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:17:57,064 99 | if (!lastcharIsnewline && j == alignment.sequences[i].length() -1 ) 2022-06-06T21:17:57,064 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:17:57,066 build/temp.linux-armv7l-cpython-39/fasta_m10_state.cpp:110:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:17:57,066 110 | if ((k % 60 == 0 || j == alignment.sequences[i].length() - 1)) 2022-06-06T21:17:57,067 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:17:58,648 generating build/temp.linux-armv7l-cpython-39/phylip32_state.o from build/temp.linux-armv7l-cpython-39/phylip32_state.cpp 2022-06-06T21:17:58,651 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/phylip32_state.cpp -o build/temp.linux-armv7l-cpython-39/phylip32_state.o 2022-06-06T21:18:04,726 generating build/temp.linux-armv7l-cpython-39/pir_state.o from build/temp.linux-armv7l-cpython-39/pir_state.cpp 2022-06-06T21:18:04,728 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/pir_state.cpp -o build/temp.linux-armv7l-cpython-39/pir_state.o 2022-06-06T21:18:08,460 build/temp.linux-armv7l-cpython-39/pir_state.cpp: In member function ‘virtual bool FormatHandling::pir_state::SaveAlignment(const Alignment&, std::ostream*)’: 2022-06-06T21:18:08,460 build/temp.linux-armv7l-cpython-39/pir_state.cpp:223:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:18:08,461 223 | for (j = 0, k = 0, l = 0; j < alignment.sequences[i].length(); j++) { 2022-06-06T21:18:08,461 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:08,465 build/temp.linux-armv7l-cpython-39/pir_state.cpp:231:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:18:08,466 231 | if (j == alignment.sequences[i].length() - 1); 2022-06-06T21:18:08,466 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:08,471 build/temp.linux-armv7l-cpython-39/pir_state.cpp:184:18: warning: variable ‘l’ set but not used [-Wunused-but-set-variable] 2022-06-06T21:18:08,471 184 | int i, j, k, l; 2022-06-06T21:18:08,472 | ^ 2022-06-06T21:18:10,498 generating build/temp.linux-armv7l-cpython-39/phylip40_state.o from build/temp.linux-armv7l-cpython-39/phylip40_state.cpp 2022-06-06T21:18:10,506 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/phylip40_state.cpp -o build/temp.linux-armv7l-cpython-39/phylip40_state.o 2022-06-06T21:18:16,575 generating build/temp.linux-armv7l-cpython-39/phylip_paml_state.o from build/temp.linux-armv7l-cpython-39/phylip_paml_state.cpp 2022-06-06T21:18:16,578 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/phylip_paml_state.cpp -o build/temp.linux-armv7l-cpython-39/phylip_paml_state.o 2022-06-06T21:18:21,648 generating build/temp.linux-armv7l-cpython-39/phylip32_m10_state.o from build/temp.linux-armv7l-cpython-39/phylip32_m10_state.cpp 2022-06-06T21:18:21,649 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/phylip32_m10_state.cpp -o build/temp.linux-armv7l-cpython-39/phylip32_m10_state.o 2022-06-06T21:18:26,958 generating build/temp.linux-armv7l-cpython-39/phylip40_m10_state.o from build/temp.linux-armv7l-cpython-39/phylip40_m10_state.cpp 2022-06-06T21:18:26,960 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/phylip40_m10_state.cpp -o build/temp.linux-armv7l-cpython-39/phylip40_m10_state.o 2022-06-06T21:18:31,575 build/temp.linux-armv7l-cpython-39/phylip40_m10_state.cpp: In member function ‘virtual bool FormatHandling::phylip40_m10_state::SaveAlignment(const Alignment&, std::ostream*)’: 2022-06-06T21:18:31,576 build/temp.linux-armv7l-cpython-39/phylip40_m10_state.cpp:104:19: warning: ‘k’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-06-06T21:18:31,576 104 | for (i = k; i < alignment.originalNumberOfResidues; i=k) 2022-06-06T21:18:31,576 | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:32,306 generating build/temp.linux-armv7l-cpython-39/BaseFormatHandler.o from build/temp.linux-armv7l-cpython-39/BaseFormatHandler.cpp 2022-06-06T21:18:32,308 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/BaseFormatHandler.cpp -o build/temp.linux-armv7l-cpython-39/BaseFormatHandler.o 2022-06-06T21:18:44,437 generating build/temp.linux-armv7l-cpython-39/utils.o from build/temp.linux-armv7l-cpython-39/utils.cpp 2022-06-06T21:18:44,440 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/utils.cpp -o build/temp.linux-armv7l-cpython-39/utils.o 2022-06-06T21:18:47,631 build/temp.linux-armv7l-cpython-39/utils.cpp: In function ‘std::string utils::removeCharacter(char, std::string)’: 2022-06-06T21:18:47,632 build/temp.linux-armv7l-cpython-39/utils.cpp:490:20: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-06-06T21:18:47,632 490 | while (pos != (int) std::string::npos) { 2022-06-06T21:18:47,633 | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:47,653 build/temp.linux-armv7l-cpython-39/utils.cpp: In function ‘int* utils::readNumbers(const string&)’: 2022-06-06T21:18:47,653 build/temp.linux-armv7l-cpython-39/utils.cpp:632:52: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-06-06T21:18:47,654 632 | while ((comma = line.find(',', comma + 1)) != (int) std::string::npos) 2022-06-06T21:18:47,654 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:47,655 build/temp.linux-armv7l-cpython-39/utils.cpp:646:44: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-06-06T21:18:47,655 646 | if (((separ < comma) || (comma == (int) std::string::npos)) && (separ != (int) std::string::npos)) { 2022-06-06T21:18:47,655 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:47,656 build/temp.linux-armv7l-cpython-39/utils.cpp:646:83: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-06-06T21:18:47,656 646 | if (((separ < comma) || (comma == (int) std::string::npos)) && (separ != (int) std::string::npos)) { 2022-06-06T21:18:47,656 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:47,657 build/temp.linux-armv7l-cpython-39/utils.cpp:650:50: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-06-06T21:18:47,657 650 | } else if ((separ > comma) || (separ == (int) std::string::npos)) { 2022-06-06T21:18:47,658 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:47,658 build/temp.linux-armv7l-cpython-39/utils.cpp:666:23: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-06-06T21:18:47,658 666 | if (comma == (int) std::string::npos) 2022-06-06T21:18:47,659 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:18:53,558 generating build/temp.linux-armv7l-cpython-39/InternalBenchmarker.o from build/temp.linux-armv7l-cpython-39/InternalBenchmarker.cpp 2022-06-06T21:18:53,559 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/InternalBenchmarker.cpp -o build/temp.linux-armv7l-cpython-39/InternalBenchmarker.o 2022-06-06T21:18:53,728 generating build/temp.linux-armv7l-cpython-39/trimalManager.o from build/temp.linux-armv7l-cpython-39/trimalManager.cpp 2022-06-06T21:18:53,729 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/trimalManager.cpp -o build/temp.linux-armv7l-cpython-39/trimalManager.o 2022-06-06T21:18:57,685 In file included from build/temp.linux-armv7l-cpython-39/trimalManager.cpp:42: 2022-06-06T21:18:57,686 build/temp.linux-armv7l-cpython-39/VCFHandler.h: In constructor ‘ngs::__internal::vcfFeature::vcfFeature()’: 2022-06-06T21:18:57,686 build/temp.linux-armv7l-cpython-39/VCFHandler.h:87:19: warning: ‘ngs::__internal::vcfFeature::quality’ will be initialized after [-Wreorder] 2022-06-06T21:18:57,686 87 | float quality; 2022-06-06T21:18:57,687 | ^~~~~~~ 2022-06-06T21:18:57,687 build/temp.linux-armv7l-cpython-39/VCFHandler.h:85:18: warning: ‘bool ngs::__internal::vcfFeature::filter’ [-Wreorder] 2022-06-06T21:18:57,688 85 | bool filter; 2022-06-06T21:18:57,688 | ^~~~~~ 2022-06-06T21:18:57,688 build/temp.linux-armv7l-cpython-39/VCFHandler.h:96:13: warning: when initialized here [-Wreorder] 2022-06-06T21:18:57,689 96 | vcfFeature() : position(0), quality(0.0F), filter(false), readDepthIndex(0) 2022-06-06T21:18:57,689 | ^~~~~~~~~~ 2022-06-06T21:18:58,037 build/temp.linux-armv7l-cpython-39/trimalManager.cpp: In member function ‘bool trimAlManager::check_outputs_coincidence()’: 2022-06-06T21:18:58,038 build/temp.linux-armv7l-cpython-39/trimalManager.cpp:1419:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::array::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:18:58,038 1419 | for (int i = 0, x = 0; i < outFiles.size(); i++) { 2022-06-06T21:18:58,039 | ~~^~~~~~~~~~~~~~~~~ 2022-06-06T21:18:58,039 build/temp.linux-armv7l-cpython-39/trimalManager.cpp:1421:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::array::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:18:58,040 1421 | for (x = i + 1; x < outFiles.size(); x++) { 2022-06-06T21:18:58,040 | ~~^~~~~~~~~~~~~~~~~ 2022-06-06T21:18:58,279 build/temp.linux-armv7l-cpython-39/trimalManager.cpp: In member function ‘void trimAlManager::CleanSequences()’: 2022-06-06T21:18:58,279 build/temp.linux-armv7l-cpython-39/trimalManager.cpp:2100:9: warning: deleting object of polymorphic class type ‘statistics::Similarity’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 2022-06-06T21:18:58,280 2100 | delete singleAlig->Statistics->similarity; 2022-06-06T21:18:58,280 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:19:19,820 generating build/temp.linux-armv7l-cpython-39/VCFHandler.o from build/temp.linux-armv7l-cpython-39/VCFHandler.cpp 2022-06-06T21:19:19,821 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -std=c++11 -Ipytrimal/patch -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -c build/temp.linux-armv7l-cpython-39/VCFHandler.cpp -o build/temp.linux-armv7l-cpython-39/VCFHandler.o 2022-06-06T21:19:23,400 In file included from build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:30: 2022-06-06T21:19:23,401 build/temp.linux-armv7l-cpython-39/VCFHandler.h: In constructor ‘ngs::__internal::vcfFeature::vcfFeature()’: 2022-06-06T21:19:23,401 build/temp.linux-armv7l-cpython-39/VCFHandler.h:87:19: warning: ‘ngs::__internal::vcfFeature::quality’ will be initialized after [-Wreorder] 2022-06-06T21:19:23,402 87 | float quality; 2022-06-06T21:19:23,402 | ^~~~~~~ 2022-06-06T21:19:23,402 build/temp.linux-armv7l-cpython-39/VCFHandler.h:85:18: warning: ‘bool ngs::__internal::vcfFeature::filter’ [-Wreorder] 2022-06-06T21:19:23,403 85 | bool filter; 2022-06-06T21:19:23,403 | ^~~~~~ 2022-06-06T21:19:23,403 build/temp.linux-armv7l-cpython-39/VCFHandler.h:96:13: warning: when initialized here [-Wreorder] 2022-06-06T21:19:23,404 96 | vcfFeature() : position(0), quality(0.0F), filter(false), readDepthIndex(0) 2022-06-06T21:19:23,404 | ^~~~~~~~~~ 2022-06-06T21:19:23,448 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp: In function ‘bool ngs::__internal::checkContigsWithReference(const AlignmentVector&, const StringVector&)’: 2022-06-06T21:19:23,449 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:153:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,449 153 | for (i = 0; i < sources.size(); i++) { 2022-06-06T21:19:23,450 | ~~^~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,450 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:162:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,451 162 | if (i == sources.size()) { 2022-06-06T21:19:23,451 | ~~^~~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,464 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp: In function ‘void ngs::__internal::increaseSequencesInAlignment(const AlignmentVector&, const StringVector&)’: 2022-06-06T21:19:23,464 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:198:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,465 198 | for (int i = 1; i < donors.size() + 1; i++) { 2022-06-06T21:19:23,465 | ~~^~~~~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,479 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp: In function ‘void ngs::__internal::applyVariantCallingFiles(const AlignmentVector&, const StringVector&, const StringVector&, const std::vector >&, float, float, bool, const char*)’: 2022-06-06T21:19:23,480 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:337:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,480 337 | for (int vcfIndex = 0; vcfIndex < filenames.size(); vcfIndex++) { 2022-06-06T21:19:23,480 | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,481 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:360:59: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,481 360 | for (contigIndex = 0; contigIndex < contigs.size(); contigIndex++) 2022-06-06T21:19:23,482 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,483 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:365:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,483 365 | if (contigIndex == contigs.size()) { 2022-06-06T21:19:23,483 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,487 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:394:51: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,488 394 | for (int donorID = 0; donorID < feature.donorsInfo.size(); donorID++) 2022-06-06T21:19:23,488 | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,535 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:397:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,536 397 | if (donorID >= donorsPositions[vcfIndex].size()) 2022-06-06T21:19:23,536 | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,560 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp: In function ‘void ngs::__internal::extractContigsFromLine(char*, ngs::StringVector&)’: 2022-06-06T21:19:23,561 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:528:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,561 528 | for (U = 0; U < contigs.size(); U++) 2022-06-06T21:19:23,562 | ~~^~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,562 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:533:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,562 533 | if (U == contigs.size()) 2022-06-06T21:19:23,563 | ~~^~~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,564 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp: In function ‘void ngs::__internal::extractDonorsFromLine(char*, std::vector&, ngs::StringVector&)’: 2022-06-06T21:19:23,565 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:557:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,565 557 | for (U = 0; U < donors.size(); U++) { 2022-06-06T21:19:23,566 | ~~^~~~~~~~~~~~~~~ 2022-06-06T21:19:23,566 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:564:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,566 564 | if (U == donors.size()) { 2022-06-06T21:19:23,567 | ~~^~~~~~~~~~~~~~~~ 2022-06-06T21:19:23,568 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp: In function ‘void ngs::__internal::obtainContigsAndDonors(const StringVector&, ngs::StringVector&, ngs::StringVector&, std::vector >&)’: 2022-06-06T21:19:23,569 build/temp.linux-armv7l-cpython-39/VCFHandler.cpp:591:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-06T21:19:23,569 591 | for (int C = 0; C < filenames.size(); C++) { 2022-06-06T21:19:23,569 | ~~^~~~~~~~~~~~~~~~~~ 2022-06-06T21:19:31,883 generating build/temp.linux-armv7l-cpython-39/libtrimal.a from build/temp.linux-armv7l-cpython-39/Cleaner.o, build/temp.linux-armv7l-cpython-39/Alignment.o, build/temp.linux-armv7l-cpython-39/sequencesMatrix.o, build/temp.linux-armv7l-cpython-39/similarityMatrix.o, build/temp.linux-armv7l-cpython-39/Mold.o, build/temp.linux-armv7l-cpython-39/Gaps.o, build/temp.linux-armv7l-cpython-39/Manager.o, build/temp.linux-armv7l-cpython-39/Similarity.o, build/temp.linux-armv7l-cpython-39/Consistency.o, build/temp.linux-armv7l-cpython-39/errorMessages.o, build/temp.linux-armv7l-cpython-39/infoMessages.o, build/temp.linux-armv7l-cpython-39/warningMessages.o, build/temp.linux-armv7l-cpython-39/phylip_paml_m10_state.o, build/temp.linux-armv7l-cpython-39/nexus_state.o, build/temp.linux-armv7l-cpython-39/mega_sequential_state.o, build/temp.linux-armv7l-cpython-39/mega_interleaved_state.o, build/temp.linux-armv7l-cpython-39/nexus_m10_state.o, build/temp.linux-armv7l-cpython-39/fasta_state.o, build/temp.linux-armv7l-cpython-39/clustal_state.o, build/temp.linux-armv7l-cpython-39/htmlreport_state.o, build/temp.linux-armv7l-cpython-39/fasta_m10_state.o, build/temp.linux-armv7l-cpython-39/phylip32_state.o, build/temp.linux-armv7l-cpython-39/pir_state.o, build/temp.linux-armv7l-cpython-39/phylip40_state.o, build/temp.linux-armv7l-cpython-39/phylip_paml_state.o, build/temp.linux-armv7l-cpython-39/phylip32_m10_state.o, build/temp.linux-armv7l-cpython-39/phylip40_m10_state.o, build/temp.linux-armv7l-cpython-39/BaseFormatHandler.o, build/temp.linux-armv7l-cpython-39/utils.o, build/temp.linux-armv7l-cpython-39/InternalBenchmarker.o, build/temp.linux-armv7l-cpython-39/trimalManager.o, build/temp.linux-armv7l-cpython-39/VCFHandler.o 2022-06-06T21:19:31,885 arm-linux-gnueabihf-gcc-ar rcs build/temp.linux-armv7l-cpython-39/libtrimal.a build/temp.linux-armv7l-cpython-39/Cleaner.o build/temp.linux-armv7l-cpython-39/Alignment.o build/temp.linux-armv7l-cpython-39/sequencesMatrix.o build/temp.linux-armv7l-cpython-39/similarityMatrix.o build/temp.linux-armv7l-cpython-39/Mold.o build/temp.linux-armv7l-cpython-39/Gaps.o build/temp.linux-armv7l-cpython-39/Manager.o build/temp.linux-armv7l-cpython-39/Similarity.o build/temp.linux-armv7l-cpython-39/Consistency.o build/temp.linux-armv7l-cpython-39/errorMessages.o build/temp.linux-armv7l-cpython-39/infoMessages.o build/temp.linux-armv7l-cpython-39/warningMessages.o build/temp.linux-armv7l-cpython-39/phylip_paml_m10_state.o build/temp.linux-armv7l-cpython-39/nexus_state.o build/temp.linux-armv7l-cpython-39/mega_sequential_state.o build/temp.linux-armv7l-cpython-39/mega_interleaved_state.o build/temp.linux-armv7l-cpython-39/nexus_m10_state.o build/temp.linux-armv7l-cpython-39/fasta_state.o build/temp.linux-armv7l-cpython-39/clustal_state.o build/temp.linux-armv7l-cpython-39/htmlreport_state.o build/temp.linux-armv7l-cpython-39/fasta_m10_state.o build/temp.linux-armv7l-cpython-39/phylip32_state.o build/temp.linux-armv7l-cpython-39/pir_state.o build/temp.linux-armv7l-cpython-39/phylip40_state.o build/temp.linux-armv7l-cpython-39/phylip_paml_state.o build/temp.linux-armv7l-cpython-39/phylip32_m10_state.o build/temp.linux-armv7l-cpython-39/phylip40_m10_state.o build/temp.linux-armv7l-cpython-39/BaseFormatHandler.o build/temp.linux-armv7l-cpython-39/utils.o build/temp.linux-armv7l-cpython-39/InternalBenchmarker.o build/temp.linux-armv7l-cpython-39/trimalManager.o build/temp.linux-armv7l-cpython-39/VCFHandler.o 2022-06-06T21:19:32,644 running build_ext 2022-06-06T21:19:40,944 Compiling pytrimal/_trimal.pyx because it changed. 2022-06-06T21:19:40,945 [1/1] Cythonizing pytrimal/_trimal.pyx 2022-06-06T21:19:40,945 building pytrimal._trimal with unix compiler 2022-06-06T21:19:40,947 building 'pytrimal._trimal' extension 2022-06-06T21:19:40,947 creating build/temp.linux-armv7l-cpython-39/pytrimal 2022-06-06T21:19:40,949 creating build/temp.linux-armv7l-cpython-39/pytrimal/patch 2022-06-06T21:19:40,951 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DCYTHON_WITHOUT_ASSERTIONS=1 -Ipytrimal/patch -Ipytrimal/impl -Ivendor/cpu_features/include -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -I/usr/include/python3.9 -c pytrimal/_trimal.cpp -o build/temp.linux-armv7l-cpython-39/pytrimal/_trimal.o -std=c++11 2022-06-06T21:20:24,162 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DCYTHON_WITHOUT_ASSERTIONS=1 -Ipytrimal/patch -Ipytrimal/impl -Ivendor/cpu_features/include -Ipytrimal -Iinclude -Ibuild/temp.linux-armv7l-cpython-39 -I/usr/include/python3.9 -c pytrimal/patch/reportsystem.cpp -o build/temp.linux-armv7l-cpython-39/pytrimal/patch/reportsystem.o -std=c++11 2022-06-06T21:20:31,426 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pytrimal/_trimal.o build/temp.linux-armv7l-cpython-39/pytrimal/patch/reportsystem.o build/temp.linux-armv7l-cpython-39/libcpu_features.a build/temp.linux-armv7l-cpython-39/libtrimal.a -L/usr/lib -Lbuild/temp.linux-armv7l-cpython-39 -lcpu_features -ltrimal -lcpu_features -ltrimal -o build/lib.linux-armv7l-cpython-39/pytrimal/_trimal.cpython-39-arm-linux-gnueabihf.so -Wno-alloc-size-larger-than 2022-06-06T21:20:35,262 installing to build/bdist.linux-armv7l/wheel 2022-06-06T21:20:35,263 running install 2022-06-06T21:20:35,327 running install_lib 2022-06-06T21:20:35,929 creating build/bdist.linux-armv7l 2022-06-06T21:20:35,930 creating build/bdist.linux-armv7l/wheel 2022-06-06T21:20:35,933 creating build/bdist.linux-armv7l/wheel/pytrimal 2022-06-06T21:20:35,935 copying build/lib.linux-armv7l-cpython-39/pytrimal/_trimal.pyi -> build/bdist.linux-armv7l/wheel/pytrimal 2022-06-06T21:20:35,939 copying build/lib.linux-armv7l-cpython-39/pytrimal/__init__.py -> build/bdist.linux-armv7l/wheel/pytrimal 2022-06-06T21:20:35,942 copying build/lib.linux-armv7l-cpython-39/pytrimal/_trimal.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pytrimal 2022-06-06T21:20:36,291 creating build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,292 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/test_doctest.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,296 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/test_manual_trimmer.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,300 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/__main__.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,303 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/test_similarity_matrix.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,306 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/__init__.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,309 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/test_automatic_trimmer.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,314 creating build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,315 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.id50.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,320 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,338 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/halorhodopsin.afa -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,350 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.strict.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,362 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/pam70.json -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,365 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.noallgaps.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,387 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.strictplus.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,397 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.id70.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,406 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.cons40.gt40.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,419 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/example.001.AA.clw -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,422 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.cons60.gt90.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,434 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.gappyout.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,447 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/__init__.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,449 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/data/ENOG411BWBU.automated1.fasta -> build/bdist.linux-armv7l/wheel/pytrimal/tests/data 2022-06-06T21:20:36,463 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/requirements.txt -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,466 copying build/lib.linux-armv7l-cpython-39/pytrimal/tests/test_alignment.py -> build/bdist.linux-armv7l/wheel/pytrimal/tests 2022-06-06T21:20:36,470 copying build/lib.linux-armv7l-cpython-39/pytrimal/_version.py -> build/bdist.linux-armv7l/wheel/pytrimal 2022-06-06T21:20:36,474 copying build/lib.linux-armv7l-cpython-39/pytrimal/py.typed -> build/bdist.linux-armv7l/wheel/pytrimal 2022-06-06T21:20:36,476 running install_egg_info 2022-06-06T21:20:37,692 running egg_info 2022-06-06T21:20:38,286 writing pytrimal.egg-info/PKG-INFO 2022-06-06T21:20:38,852 writing dependency_links to pytrimal.egg-info/dependency_links.txt 2022-06-06T21:20:42,218 writing top-level names to pytrimal.egg-info/top_level.txt 2022-06-06T21:20:42,292 reading manifest file 'pytrimal.egg-info/SOURCES.txt' 2022-06-06T21:20:42,366 reading manifest template 'MANIFEST.in' 2022-06-06T21:20:43,315 warning: no previously-included files matching '*.html' found under directory 'pytrimal' 2022-06-06T21:20:43,324 warning: no files found matching '*.pxd' under directory 'pytrimal/patch' 2022-06-06T21:20:43,336 adding license file 'COPYING' 2022-06-06T21:20:43,377 writing manifest file 'pytrimal.egg-info/SOURCES.txt' 2022-06-06T21:20:43,381 Copying pytrimal.egg-info to build/bdist.linux-armv7l/wheel/pytrimal-0.2.1-py3.9.egg-info 2022-06-06T21:20:43,402 running install_scripts 2022-06-06T21:20:43,533 adding license file "COPYING" (matched pattern "COPYING*") 2022-06-06T21:20:43,588 creating build/bdist.linux-armv7l/wheel/pytrimal-0.2.1.dist-info/WHEEL 2022-06-06T21:20:43,593 creating '/tmp/pip-wheel-f28z52do/tmpwnpjv264/pytrimal-0.2.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2022-06-06T21:20:43,597 adding 'pytrimal/__init__.py' 2022-06-06T21:20:47,002 adding 'pytrimal/_trimal.cpython-39-arm-linux-gnueabihf.so' 2022-06-06T21:20:47,153 adding 'pytrimal/_trimal.pyi' 2022-06-06T21:20:47,155 adding 'pytrimal/_version.py' 2022-06-06T21:20:47,157 adding 'pytrimal/py.typed' 2022-06-06T21:20:47,161 adding 'pytrimal/tests/__init__.py' 2022-06-06T21:20:47,163 adding 'pytrimal/tests/__main__.py' 2022-06-06T21:20:47,165 adding 'pytrimal/tests/requirements.txt' 2022-06-06T21:20:47,168 adding 'pytrimal/tests/test_alignment.py' 2022-06-06T21:20:47,170 adding 'pytrimal/tests/test_automatic_trimmer.py' 2022-06-06T21:20:47,173 adding 'pytrimal/tests/test_doctest.py' 2022-06-06T21:20:47,175 adding 'pytrimal/tests/test_manual_trimmer.py' 2022-06-06T21:20:47,178 adding 'pytrimal/tests/test_similarity_matrix.py' 2022-06-06T21:20:47,207 adding 'pytrimal/tests/data/ENOG411BWBU.automated1.fasta' 2022-06-06T21:20:47,239 adding 'pytrimal/tests/data/ENOG411BWBU.cons40.gt40.fasta' 2022-06-06T21:20:47,269 adding 'pytrimal/tests/data/ENOG411BWBU.cons60.gt90.fasta' 2022-06-06T21:20:47,306 adding 'pytrimal/tests/data/ENOG411BWBU.fasta' 2022-06-06T21:20:47,339 adding 'pytrimal/tests/data/ENOG411BWBU.gappyout.fasta' 2022-06-06T21:20:47,347 adding 'pytrimal/tests/data/ENOG411BWBU.id50.fasta' 2022-06-06T21:20:47,360 adding 'pytrimal/tests/data/ENOG411BWBU.id70.fasta' 2022-06-06T21:20:47,396 adding 'pytrimal/tests/data/ENOG411BWBU.noallgaps.fasta' 2022-06-06T21:20:47,423 adding 'pytrimal/tests/data/ENOG411BWBU.strict.fasta' 2022-06-06T21:20:47,445 adding 'pytrimal/tests/data/ENOG411BWBU.strictplus.fasta' 2022-06-06T21:20:47,450 adding 'pytrimal/tests/data/__init__.py' 2022-06-06T21:20:47,452 adding 'pytrimal/tests/data/example.001.AA.clw' 2022-06-06T21:20:47,468 adding 'pytrimal/tests/data/halorhodopsin.afa' 2022-06-06T21:20:47,473 adding 'pytrimal/tests/data/pam70.json' 2022-06-06T21:20:47,490 adding 'pytrimal-0.2.1.dist-info/COPYING' 2022-06-06T21:20:47,495 adding 'pytrimal-0.2.1.dist-info/METADATA' 2022-06-06T21:20:47,497 adding 'pytrimal-0.2.1.dist-info/WHEEL' 2022-06-06T21:20:47,499 adding 'pytrimal-0.2.1.dist-info/top_level.txt' 2022-06-06T21:20:47,501 adding 'pytrimal-0.2.1.dist-info/RECORD' 2022-06-06T21:20:47,598 removing build/bdist.linux-armv7l/wheel 2022-06-06T21:20:48,189 Building wheel for pytrimal (pyproject.toml): finished with status 'done' 2022-06-06T21:20:48,349 Created wheel for pytrimal: filename=pytrimal-0.2.1-cp39-cp39-linux_armv7l.whl size=2843687 sha256=06890ee257c9d009b402620382086847b440e92a339043e6b759dda8545f6ff6 2022-06-06T21:20:48,351 Stored in directory: /tmp/pip-ephem-wheel-cache-c3nt2aya/wheels/38/80/10/275bbf712febeb6467cb67d166d956eafff3cf3f318d7eb570 2022-06-06T21:20:48,383 Successfully built pytrimal 2022-06-06T21:20:48,584 Removed build tracker: '/tmp/pip-build-tracker-tk0tsczu'