2022-03-11T12:27:27,278 Created temporary directory: /tmp/pip-ephem-wheel-cache-jdffd6f0 2022-03-11T12:27:27,284 Created temporary directory: /tmp/pip-req-tracker-v72yhflk 2022-03-11T12:27:27,284 Initialized build tracking at /tmp/pip-req-tracker-v72yhflk 2022-03-11T12:27:27,285 Created build tracker: /tmp/pip-req-tracker-v72yhflk 2022-03-11T12:27:27,285 Entered build tracker: /tmp/pip-req-tracker-v72yhflk 2022-03-11T12:27:27,286 Created temporary directory: /tmp/pip-wheel-22a2z6_x 2022-03-11T12:27:27,358 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-03-11T12:27:27,367 2 location(s) to search for versions of whatshap: 2022-03-11T12:27:27,367 * https://pypi.org/simple/whatshap/ 2022-03-11T12:27:27,367 * https://www.piwheels.org/simple/whatshap/ 2022-03-11T12:27:27,368 Fetching project page and analyzing links: https://pypi.org/simple/whatshap/ 2022-03-11T12:27:27,369 Getting page https://pypi.org/simple/whatshap/ 2022-03-11T12:27:27,372 Found index url https://pypi.org/simple 2022-03-11T12:27:27,510 Found link https://files.pythonhosted.org/packages/35/95/43ff2304cd59ade39e64aadaeaec48e8c12bbe6262bcbbbd7b7d89487757/whatshap-0.9.tar.gz#sha256=beaadbc79e4d463b5e441b8e9a13b5345c07db3d91fb093cee1bfebfebae4442 (from https://pypi.org/simple/whatshap/), version: 0.9 2022-03-11T12:27:27,511 Found link https://files.pythonhosted.org/packages/f0/4b/f2b882803ac66b969414d8427ee8b4ca2c29b17cfead0fd85f349dc66983/whatshap-0.10.tar.gz#sha256=864d4ecfc33eac7265452f5a2f468a830779afc53e723119ecac5ecf73255acc (from https://pypi.org/simple/whatshap/), version: 0.10 2022-03-11T12:27:27,512 Found link https://files.pythonhosted.org/packages/fc/dc/30559c28fb54985773fb242f5768fc206e054e44e45962a32cf4fd29a794/whatshap-0.11.tar.gz#sha256=d0367a4dd0adf288d30a9a87b565e4f141745bec3ea825cb85ac3409a593bde9 (from https://pypi.org/simple/whatshap/), version: 0.11 2022-03-11T12:27:27,513 Found link https://files.pythonhosted.org/packages/01/84/31a5ea338647d0256a4a5c57e98d7a563f387e6a47f1e26299b89e3f2da1/whatshap-0.12.tar.gz#sha256=c65060155dc901e4d4bd48077706660e5b214540d4dc20575a8b2146fb6a11f9 (from https://pypi.org/simple/whatshap/), version: 0.12 2022-03-11T12:27:27,514 Found link https://files.pythonhosted.org/packages/e2/f3/c71cb4bc3ba3b1234ee0c5fe729c60440164e07437695ca09c61750e0e11/whatshap-0.13.tar.gz#sha256=529646db74b2cac9f12ebd530bd7bb40cb073c367894bf66c5994c1d7f32b56a (from https://pypi.org/simple/whatshap/), version: 0.13 2022-03-11T12:27:27,514 Found link https://files.pythonhosted.org/packages/cd/d3/a63285d15b0da196a259197e46d9f61a852d1b3c94800f4a82ca4e31e307/whatshap-0.14.tar.gz#sha256=dd6076e67c5a4ce75d2510b3dbdd3c1e524124be62655f06c82f7d9fce4c5643 (from https://pypi.org/simple/whatshap/), version: 0.14 2022-03-11T12:27:27,515 Found link https://files.pythonhosted.org/packages/ec/d4/d6c19b716926895ee3def919ab23194212172ed5cf89ccb91c2949fb258d/whatshap-0.14.1.tar.gz#sha256=7b5781f1138b1830c4627451d1d5c77e7f2a3c5403510d9ab2a63f545911415b (from https://pypi.org/simple/whatshap/), version: 0.14.1 2022-03-11T12:27:27,516 Found link https://files.pythonhosted.org/packages/ca/13/6454e5e8f6c858a203378b3e22f13518f092ba85aa6d7a9a9796d22c28e0/whatshap-0.15.tar.gz#sha256=2dc9d89d71cf99e10c71b6138edd456bfcf0d7355794bc3491078654df85bc38 (from https://pypi.org/simple/whatshap/), version: 0.15 2022-03-11T12:27:27,516 Found link https://files.pythonhosted.org/packages/3d/cb/55730a8713ecba10f6d987dbd935ba31ded92f9af1ddd250896f3c1cfc3b/whatshap-0.16.tar.gz#sha256=1df54d8705fb0451cc0a640918842481087f7b741778dfb4100cc1f4f60f48fe (from https://pypi.org/simple/whatshap/), version: 0.16 2022-03-11T12:27:27,517 Found link https://files.pythonhosted.org/packages/79/11/79da12b8c23f43b00fab8a6206f75cc1cc8c1902ff30eca53c17abe2f633/whatshap-0.17.tar.gz#sha256=8ad1c66789fe5fe957b3695902dae3c3fd4e67f79b9e349b92b532e9ff618933 (from https://pypi.org/simple/whatshap/), version: 0.17 2022-03-11T12:27:27,518 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/97/19/5758de9357d2639e81f774dffd5227278df2df7f56e81f080098f00c8d5a/whatshap-0.18-cp34-cp34m-manylinux1_x86_64.whl#sha256=4a09adc24c6db3bd525667ac2559181dc94ee203a64f488dfce1ac38cbf44ba5 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,518 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/d0/72/94dc654f66164a351a1a9540e28b4bdf34a81046fbf26b5955725bea2f64/whatshap-0.18-cp35-cp35m-manylinux1_x86_64.whl#sha256=1c99980629655e58a34496b0e1b1c9123dddd0797a13cf681dcf83f92a6f33e0 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,519 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/0a/50/c9c89e7f3a59251a91e618165ccc2586b626643a4c59dfd8d1b32f9b6bbb/whatshap-0.18-cp36-cp36m-manylinux1_x86_64.whl#sha256=fdadadbed86cc7a7abd8f9ef3d55fe280eda957473db03dc30ad06ace6b877bd (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,519 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/32/77/e9e6f3e15a89ea87b0a3ed50e99af2a375a897707eb8b4c81209af918ff0/whatshap-0.18-cp37-cp37m-manylinux1_x86_64.whl#sha256=2e189cb51c2527444dada90f8fd2355ddfe8d9d35aca386330e63bc46c2d2699 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,521 Found link https://files.pythonhosted.org/packages/f0/e4/4392c2f1320ea8d4b79a76e3a6dcb9bd7bf6ed70e11499c9acf2db2d42ef/whatshap-0.18.tar.gz#sha256=c566130eca57fe9e34f5193390856dc44171c397f9708c49fcbf204e575b6695 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4), version: 0.18 2022-03-11T12:27:27,521 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/0f/f5/78e5fa758144941f08b1de923889c7123e4d20368837904fc004592b6ec9/whatshap-1.0-cp36-cp36m-manylinux2010_x86_64.whl#sha256=ff945c6a0406f328771dbbc86970bd48a0327833ca8e96ad836a55ab32ae99d4 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,522 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/42/cb/53a1a2a160846a225c6184da26e8f6d6577f5af378e3a90aab728bb5b504/whatshap-1.0-cp37-cp37m-manylinux2010_x86_64.whl#sha256=78bacd81697878129a6ff39f9474792f85b95e6fde7bfa30371b87a24d5e9d3a (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,522 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/63/91/5aaa2ec02a362e784d7be43f43b1e243fa9153ef5d9ab3ada91759638444/whatshap-1.0-cp38-cp38-manylinux2010_x86_64.whl#sha256=62318377e996d1f3040cbfdb3462a3140dbdfd4113584c9000b530ca70bbf223 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,524 Found link https://files.pythonhosted.org/packages/c0/c8/98036e04fb95249128d6b49ca61691e1d8eea484dd94611f90efb5857174/whatshap-1.0.tar.gz#sha256=fcf0495793998da94054bdc4c6d6f3f6b145a7befa07ac96275e5e2272979aa2 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6), version: 1.0 2022-03-11T12:27:27,524 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/8a/fb/dfaa97a9ec1fe333dcd730498376d33bc21de017760b633d8dd84f9cd9f6/whatshap-1.1-cp36-cp36m-manylinux2010_x86_64.whl#sha256=93af99ab08fac60bb3e46cde68978619f095e1b47490f59e4085f338ad715b46 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,525 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/37/4e/a06bd339ea7179e750d49fec27caba7a6b364f608b5126105770333a6dfa/whatshap-1.1-cp37-cp37m-manylinux2010_x86_64.whl#sha256=94c04469069a87636c8aaf88d9f3e33022864de633327fedfdedd8da2bc4c6aa (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,526 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/2b/61/3000e39650a20faf011d74e41c3a6e3eea11195b1dad6cc8398665539363/whatshap-1.1-cp38-cp38-manylinux2010_x86_64.whl#sha256=7821711be901f898437a6be4993a15e77edbb59683ffa76d3dc9bc1bf855769a (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,526 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/37/1a/f9708037de73715099098762c13e8e0681129041d41fb0ab508004ed2aa7/whatshap-1.1-cp39-cp39-manylinux2010_x86_64.whl#sha256=9e3a3169de452412c4e5cfe3220c0d51178d4811f33183e53069c57de49253ae (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,527 Found link https://files.pythonhosted.org/packages/94/69/20b124a032b37c73ac56708744cbf2542cbc3e31390f261853ca5a6f62fe/whatshap-1.1.tar.gz#sha256=4e6486e6ce2babf55a225dd9e0030df6fcc27629d34803428cbe88a79137bb6f (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6), version: 1.1 2022-03-11T12:27:27,528 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/ce/5e/0c32569323ea5e7c036cd9344aa669d92e4a30bbcd4a00dda5483dad67a4/whatshap-1.2-cp36-cp36m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=cb4a11ab89e8b71ad557dd404bb80e41a9990812190d42a2d6389f1b0157d8af (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,529 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/c0/b0/0055bf0099361e24f02851b3df68d75e1165a7e13d8b6c4a5bbf1215f924/whatshap-1.2-cp37-cp37m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=ebea3b0418f817764f171cd151586fedcde6d43cf9c8b8ad744b9f209aabb775 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,529 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/43/09/3fe5c7130f5356b2b7b911539b52c090e2ee6532c14fc3f29fdbf6c2b569/whatshap-1.2-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=29058e18ef6916b4a0285691617e41b1246b61460c8962fd578a2de17009834b (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,530 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/d1/af/55a5fe140b3a0491c7a19b961b8b6275573194827fb52c17908b2e2699b5/whatshap-1.2-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=363927b1d9eb491bd80db6e917dc9b5926e2886f041126a0157c1f852d8ec766 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,531 Found link https://files.pythonhosted.org/packages/24/ba/a6b7ded0e342f0cdeb268e0e92b1c0812ca9c0804e11efc8c4e7e5cb6be9/whatshap-1.2.tar.gz#sha256=e8d55c5c9a3e0c681f0d4dccdaa9096cbfffc440d9ea9ec6be51918bdaaa87c5 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6), version: 1.2 2022-03-11T12:27:27,531 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/19/36/1423d4adb6f4d7e58f5fdf8c59aaa8b5cec9d73bb5b2450f17f4089e8438/whatshap-1.2.1-cp36-cp36m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=11a7b10eef76a40dabb98226c774d048c62140d033da474aebb9a5e27b300fb3 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,532 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/3f/9c/52ce1b726a9b98f628c468b30877edc720c6c8022ae0d13fee6088f894b6/whatshap-1.2.1-cp37-cp37m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=b53bb0c0b4298622256ca8b32d0c16108f99e7fa8bbf50bab109b6359685e538 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,533 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/22/c1/d7295d4b3732dc286990b85348401b3bf932bdcb196162f14100472683f3/whatshap-1.2.1-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=08e79b8e86c9b8d47e5a0dac79bac3c66f984d6eb93b9649901b67b1a0545af5 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,533 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/ff/36/181d416f2c1557879d2647e73964bd0d5d2fd3b79376ec3463435d2363ba/whatshap-1.2.1-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl#sha256=f152af4c4dc555820596121472bf44f5554370e641d70c332d3de6e624bf5e27 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,534 Found link https://files.pythonhosted.org/packages/e1/e3/84376a94a15622efc336fe72ffb37d448b91abfe5fa21421684495e30eb9/whatshap-1.2.1.tar.gz#sha256=123a3282fc5e1eacd7fe1bf953735ddc3f0cedacb469f05c3a90233b76ef3cb8 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6), version: 1.2.1 2022-03-11T12:27:27,535 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/34/c8/7365412dc082fc9b1a0415cde547086f44e0196148ec60ffdd49afc8ecf5/whatshap-1.3-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl#sha256=3b9b9435649bd3bca482b3080373e4bac506c9aa66bfaf12b97c87b7a814db94 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,536 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/76/52/dca5eac4abe3642ccf23b7dbbf4283589e4065c13f5bd9240e84c3227b4e/whatshap-1.3-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl#sha256=74f46a5449e3945c1c31cf23fe11416bea2db78d12139a74f8f4508e83040b70 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,536 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/08/df/825622346a1833f3b1fc5b89f613b711eb1003cb2a04986ad3016b22bae3/whatshap-1.3-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl#sha256=df881237e1682bcc605d058e8f7fcaa513b65a83538bb19983e67b9aab02e8df (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,537 Skipping link: No binaries permitted for whatshap: https://files.pythonhosted.org/packages/36/4a/c1dc0eb7ebde0b5e5ad75d202f1c994399ca25bab7a31fe56da18185865f/whatshap-1.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl#sha256=a4da008e198eb88ef04457f2b8496df897ade042112513dbc67d9420fe85b6bb (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2022-03-11T12:27:27,538 Found link https://files.pythonhosted.org/packages/14/ad/1e00006ef2a451b8487b267a6e6261472c3730ee9fbf9bf88ab3e33cdb3e/whatshap-1.3.tar.gz#sha256=09545e491f2f1972d6b2b93300a568c904c3f44e564e238245f95b27ef06464c (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6), version: 1.3 2022-03-11T12:27:27,539 Fetching project page and analyzing links: https://www.piwheels.org/simple/whatshap/ 2022-03-11T12:27:27,539 Getting page https://www.piwheels.org/simple/whatshap/ 2022-03-11T12:27:27,542 Found index url https://www.piwheels.org/simple 2022-03-11T12:27:27,774 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.10-cp34-cp34m-linux_armv6l.whl#sha256=4833edfe84ef3c9eeb5c68262dad5be3a637379d59eae98ed10774ee66a5a925 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,775 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.10-cp34-cp34m-linux_armv7l.whl#sha256=4833edfe84ef3c9eeb5c68262dad5be3a637379d59eae98ed10774ee66a5a925 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,776 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.11-cp34-cp34m-linux_armv6l.whl#sha256=528f0411be5d1bd6559dd1531b52beb67ca918a09fd418fd2921199f88ff71ef (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,776 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.11-cp34-cp34m-linux_armv7l.whl#sha256=528f0411be5d1bd6559dd1531b52beb67ca918a09fd418fd2921199f88ff71ef (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,777 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.11-cp35-cp35m-linux_armv6l.whl#sha256=48a0027e08f6762e26e61673a253a95ecda25e8f32a31a8cbd3655365c25c051 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,777 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.11-cp35-cp35m-linux_armv7l.whl#sha256=48a0027e08f6762e26e61673a253a95ecda25e8f32a31a8cbd3655365c25c051 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,778 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.12-cp34-cp34m-linux_armv6l.whl#sha256=61ca54a67abc75d161b394f41a6a10efa1b7e25ce94a20fb5e17bf768fbcc153 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,778 Skipping link: No binaries permitted for whatshap: 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https://www.piwheels.org/simple/whatshap/whatshap-0.14-cp34-cp34m-linux_armv6l.whl#sha256=3ddde88fb4fed1664ec3d46039aca72142fa5dcde177a40f49c2cec09b407f9f (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,782 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.14-cp34-cp34m-linux_armv7l.whl#sha256=3ddde88fb4fed1664ec3d46039aca72142fa5dcde177a40f49c2cec09b407f9f (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,783 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.14-cp35-cp35m-linux_armv6l.whl#sha256=e0ac1dca2abae0b88b1fa764b4d4ca853bb6bc4b02de20b09e8d51448b20aafc (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,783 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.14-cp35-cp35m-linux_armv7l.whl#sha256=e0ac1dca2abae0b88b1fa764b4d4ca853bb6bc4b02de20b09e8d51448b20aafc (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,784 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.14.1-cp34-cp34m-linux_armv6l.whl#sha256=22ddc6e868a47bcdfd91808303be8ad0d952e65ae74767ea3d49bdd16cdfb4f2 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,784 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.14.1-cp34-cp34m-linux_armv7l.whl#sha256=22ddc6e868a47bcdfd91808303be8ad0d952e65ae74767ea3d49bdd16cdfb4f2 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,785 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.14.1-cp35-cp35m-linux_armv6l.whl#sha256=d814d13967bc9b15f994573546cdeed83bac50694e44fb4105c3ae83bbfd97b7 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,785 Skipping link: No binaries permitted for whatshap: 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https://www.piwheels.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,794 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.18-cp34-cp34m-linux_armv7l.whl#sha256=226c2159db0239fcad3b0d9731ae11ad7f161e18a0f51b5d76fbb7aa02bc5b12 (from https://www.piwheels.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,794 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.18-cp35-cp35m-linux_armv6l.whl#sha256=a01e2ba831e1062cac18678005ed864422821a147a90381d1d561db6daaa240b (from https://www.piwheels.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,795 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.18-cp35-cp35m-linux_armv7l.whl#sha256=a01e2ba831e1062cac18678005ed864422821a147a90381d1d561db6daaa240b (from https://www.piwheels.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,795 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.18-cp37-cp37m-linux_armv6l.whl#sha256=b81040280694883d7079a4b3e449bba14fc4d30f293e9a1d76a1e0578ac01cba (from https://www.piwheels.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,796 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.18-cp37-cp37m-linux_armv7l.whl#sha256=b81040280694883d7079a4b3e449bba14fc4d30f293e9a1d76a1e0578ac01cba (from https://www.piwheels.org/simple/whatshap/) (requires-python:>=3.4) 2022-03-11T12:27:27,796 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.9-cp34-cp34m-linux_armv6l.whl#sha256=78adbda77e2ec4fe0f66ea86826ad8d025f743ba6bbf39d050783ec1cb07c83a (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,797 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.9-cp34-cp34m-linux_armv7l.whl#sha256=78adbda77e2ec4fe0f66ea86826ad8d025f743ba6bbf39d050783ec1cb07c83a (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,797 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.9-cp35-cp35m-linux_armv6l.whl#sha256=d3ebf8ce2fc15a5397ece9beb236c6e54c2653d414d727f48aae8e025b674a14 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,798 Skipping link: No binaries permitted for whatshap: https://www.piwheels.org/simple/whatshap/whatshap-0.9-cp35-cp35m-linux_armv7l.whl#sha256=d3ebf8ce2fc15a5397ece9beb236c6e54c2653d414d727f48aae8e025b674a14 (from https://www.piwheels.org/simple/whatshap/) 2022-03-11T12:27:27,798 Skipping link: not a file: https://www.piwheels.org/simple/whatshap/ 2022-03-11T12:27:27,799 Skipping link: not a file: https://pypi.org/simple/whatshap/ 2022-03-11T12:27:27,848 Given no hashes to check 1 links for project 'whatshap': discarding no candidates 2022-03-11T12:27:27,890 Collecting whatshap==1.3 2022-03-11T12:27:27,894 Created temporary directory: /tmp/pip-unpack-s2zgax_u 2022-03-11T12:27:27,996 Downloading whatshap-1.3.tar.gz (5.1 MB) 2022-03-11T12:27:31,095 Added whatshap==1.3 from https://files.pythonhosted.org/packages/14/ad/1e00006ef2a451b8487b267a6e6261472c3730ee9fbf9bf88ab3e33cdb3e/whatshap-1.3.tar.gz#sha256=09545e491f2f1972d6b2b93300a568c904c3f44e564e238245f95b27ef06464c to build tracker '/tmp/pip-req-tracker-v72yhflk' 2022-03-11T12:27:31,108 Created temporary directory: /tmp/pip-build-env-7kzwanip 2022-03-11T12:27:31,130 Created temporary directory: /tmp/pip-standalone-pip-f9km7a9r 2022-03-11T12:27:33,385 Installing build dependencies: started 2022-03-11T12:27:33,388 Running command pip subprocess to install build dependencies 2022-03-11T12:27:45,026 Using pip 22.0.3 from /tmp/pip-standalone-pip-f9km7a9r/__env_pip__.zip/pip (python 3.9) 2022-03-11T12:27:46,484 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-03-11T12:27:50,345 Collecting setuptools>=43 2022-03-11T12:27:50,583 Using cached https://www.piwheels.org/simple/setuptools/setuptools-60.9.3-py3-none-any.whl (1.1 MB) 2022-03-11T12:27:51,219 Collecting wheel 2022-03-11T12:27:51,253 Using cached https://www.piwheels.org/simple/wheel/wheel-0.37.1-py2.py3-none-any.whl (35 kB) 2022-03-11T12:27:52,254 Collecting setuptools_scm 2022-03-11T12:27:52,306 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-6.4.2-py3-none-any.whl (37 kB) 2022-03-11T12:27:55,685 Collecting cython~=0.29.20 2022-03-11T12:27:58,032 Using cached https://www.piwheels.org/simple/cython/Cython-0.29.28-cp39-cp39-linux_armv7l.whl (5.0 MB) 2022-03-11T12:27:58,772 Collecting tomli>=1.0.0 2022-03-11T12:27:58,815 Using cached https://www.piwheels.org/simple/tomli/tomli-2.0.1-py3-none-any.whl (12 kB) 2022-03-11T12:27:59,261 Collecting packaging>=20.0 2022-03-11T12:27:59,301 Using cached https://www.piwheels.org/simple/packaging/packaging-21.3-py3-none-any.whl (40 kB) 2022-03-11T12:28:00,000 Collecting pyparsing!=3.0.5,>=2.0.2 2022-03-11T12:28:00,069 Using cached https://www.piwheels.org/simple/pyparsing/pyparsing-3.0.7-py3-none-any.whl (98 kB) 2022-03-11T12:28:03,795 Installing collected packages: wheel, tomli, setuptools, pyparsing, cython, packaging, setuptools_scm 2022-03-11T12:28:04,083 Creating /tmp/pip-build-env-7kzwanip/overlay/bin 2022-03-11T12:28:04,087 changing mode of /tmp/pip-build-env-7kzwanip/overlay/bin/wheel to 755 2022-03-11T12:28:15,008 changing mode of /tmp/pip-build-env-7kzwanip/overlay/bin/cygdb to 755 2022-03-11T12:28:15,013 changing mode of /tmp/pip-build-env-7kzwanip/overlay/bin/cython to 755 2022-03-11T12:28:15,018 changing mode of /tmp/pip-build-env-7kzwanip/overlay/bin/cythonize to 755 2022-03-11T12:28:15,833 Successfully installed cython-0.29.28 packaging-21.3 pyparsing-3.0.7 setuptools-60.9.3 setuptools_scm-6.4.2 tomli-2.0.1 wheel-0.37.1 2022-03-11T12:28:16,017 WARNING: You are using pip version 22.0.3; however, version 22.0.4 is available. 2022-03-11T12:28:16,017 You should consider upgrading via the '/usr/bin/python3 -m pip install --upgrade pip' command. 2022-03-11T12:28:16,597 Installing build dependencies: finished with status 'done' 2022-03-11T12:28:16,622 Getting requirements to build wheel: started 2022-03-11T12:28:16,624 Running command Getting requirements to build wheel 2022-03-11T12:28:21,029 running egg_info 2022-03-11T12:28:21,220 listing git files failed - pretending there aren't any 2022-03-11T12:28:21,414 writing manifest file 'whatshap.egg-info/SOURCES.txt' 2022-03-11T12:28:21,653 Getting requirements to build wheel: finished with status 'done' 2022-03-11T12:28:21,679 Created temporary directory: /tmp/pip-modern-metadata-pbrgc_iz 2022-03-11T12:28:21,685 Preparing metadata (pyproject.toml): started 2022-03-11T12:28:21,687 Running command Preparing metadata (pyproject.toml) 2022-03-11T12:28:25,547 running dist_info 2022-03-11T12:28:25,575 creating /tmp/pip-modern-metadata-pbrgc_iz/whatshap.egg-info 2022-03-11T12:28:25,590 writing manifest file '/tmp/pip-modern-metadata-pbrgc_iz/whatshap.egg-info/SOURCES.txt' 2022-03-11T12:28:25,746 listing git files failed - pretending there aren't any 2022-03-11T12:28:25,807 writing manifest file '/tmp/pip-modern-metadata-pbrgc_iz/whatshap.egg-info/SOURCES.txt' 2022-03-11T12:28:26,186 Preparing metadata (pyproject.toml): finished with status 'done' 2022-03-11T12:28:26,201 Source in /tmp/pip-wheel-22a2z6_x/whatshap_2214ea2319bd4433bd3a1daaca137241 has version 1.3, which satisfies requirement whatshap==1.3 from https://files.pythonhosted.org/packages/14/ad/1e00006ef2a451b8487b267a6e6261472c3730ee9fbf9bf88ab3e33cdb3e/whatshap-1.3.tar.gz#sha256=09545e491f2f1972d6b2b93300a568c904c3f44e564e238245f95b27ef06464c 2022-03-11T12:28:26,203 Removed whatshap==1.3 from https://files.pythonhosted.org/packages/14/ad/1e00006ef2a451b8487b267a6e6261472c3730ee9fbf9bf88ab3e33cdb3e/whatshap-1.3.tar.gz#sha256=09545e491f2f1972d6b2b93300a568c904c3f44e564e238245f95b27ef06464c from build tracker '/tmp/pip-req-tracker-v72yhflk' 2022-03-11T12:28:26,216 Created temporary directory: /tmp/pip-unpack-nqf3nkwp 2022-03-11T12:28:26,217 Building wheels for collected packages: whatshap 2022-03-11T12:28:26,227 Created temporary directory: /tmp/pip-wheel-didkpo3_ 2022-03-11T12:28:26,227 Destination directory: /tmp/pip-wheel-didkpo3_ 2022-03-11T12:28:26,232 Building wheel for whatshap (pyproject.toml): started 2022-03-11T12:28:26,234 Running command Building wheel for whatshap (pyproject.toml) 2022-03-11T12:28:30,152 running bdist_wheel 2022-03-11T12:28:30,160 running build 2022-03-11T12:28:30,160 running build_py 2022-03-11T12:28:30,170 creating build 2022-03-11T12:28:30,170 creating build/lib.linux-armv7l-3.9 2022-03-11T12:28:30,171 creating build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,174 copying whatshap/_version.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,177 copying whatshap/vcf.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,184 copying whatshap/coverage.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,188 copying whatshap/pedigree.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,192 copying whatshap/variants.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,198 copying whatshap/verification.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,201 copying whatshap/testhelpers.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,206 copying whatshap/graph.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,209 copying whatshap/bam.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,214 copying whatshap/utils.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,218 copying whatshap/__main__.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,221 copying whatshap/threading.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,227 copying whatshap/variant.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,230 copying whatshap/__init__.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,233 copying whatshap/merge.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,238 copying whatshap/polyphaseplots.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,243 copying whatshap/timer.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,246 copying whatshap/args.py -> build/lib.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,252 creating build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,253 copying whatshap/cli/hapcut2vcf.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,258 copying whatshap/cli/haplotag.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,264 copying whatshap/cli/polyphase.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,270 copying whatshap/cli/find_snv_candidates.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,274 copying whatshap/cli/stats.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,279 copying whatshap/cli/genotype.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,285 copying whatshap/cli/unphase.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,288 copying whatshap/cli/split.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,293 copying whatshap/cli/phase.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,300 copying whatshap/cli/__init__.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,305 copying whatshap/cli/compare.py -> build/lib.linux-armv7l-3.9/whatshap/cli 2022-03-11T12:28:30,315 running build_ext 2022-03-11T12:28:30,328 creating build/temp.linux-armv7l-3.9 2022-03-11T12:28:30,328 creating build/temp.linux-armv7l-3.9/src 2022-03-11T12:28:30,331 creating build/temp.linux-armv7l-3.9/src/hapchat 2022-03-11T12:28:30,334 creating build/temp.linux-armv7l-3.9/src/polyphase 2022-03-11T12:28:30,336 creating build/temp.linux-armv7l-3.9/whatshap 2022-03-11T12:28:30,337 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 -UNDEBUG -I/usr/include/python3.9 -c src/backwardcolumniterator.cpp -o build/temp.linux-armv7l-3.9/src/backwardcolumniterator.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:28:34,045 In file included from /usr/include/c++/10/cassert:44, 2022-03-11T12:28:34,045 from src/backwardcolumniterator.cpp:1: 2022-03-11T12:28:34,045 src/backwardcolumniterator.cpp: In member function ‘void BackwardColumnIterator::jump_to_column(int)’: 2022-03-11T12:28:34,046 src/backwardcolumniterator.cpp:121:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-03-11T12:28:34,046 121 | assert(k < positions->size()); 2022-03-11T12:28:34,046 | ~~^~~~~~~~~~~~~~~~~~~ 2022-03-11T12:28:34,049 src/backwardcolumniterator.cpp:140:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-03-11T12:28:34,050 140 | assert(active_entry < read->getVariantCount()); 2022-03-11T12:28:34,050 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-11T12:28:37,664 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 -UNDEBUG -I/usr/include/python3.9 -c src/binomial.cpp -o build/temp.linux-armv7l-3.9/src/binomial.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:28:37,900 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 -UNDEBUG -I/usr/include/python3.9 -c src/columnindexingiterator.cpp -o build/temp.linux-armv7l-3.9/src/columnindexingiterator.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:28:40,369 src/columnindexingiterator.cpp: In member function ‘unsigned int ColumnIndexingIterator::index_forward_projection(unsigned int)’: 2022-03-11T12:28:40,369 src/columnindexingiterator.cpp:90:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-03-11T12:28:40,370 90 | for(int j=0; j< parent->read_ids.size(); ++j) { 2022-03-11T12:28:40,370 | ~^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-11T12:28:40,371 src/columnindexingiterator.cpp:92:8: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:28:40,371 92 | if(m != -1) { 2022-03-11T12:28:40,371 | ~~^~~~~ 2022-03-11T12:28:40,372 src/columnindexingiterator.cpp:89:15: warning: unused variable ‘s’ [-Wunused-variable] 2022-03-11T12:28:40,372 89 | unsigned int s = 1; 2022-03-11T12:28:40,372 | ^ 2022-03-11T12:28:41,012 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 -UNDEBUG -I/usr/include/python3.9 -c src/columnindexingscheme.cpp -o build/temp.linux-armv7l-3.9/src/columnindexingscheme.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:28:43,464 src/columnindexingscheme.cpp: In constructor ‘ColumnIndexingScheme::ColumnIndexingScheme(const ColumnIndexingScheme*, const std::vector&)’: 2022-03-11T12:28:43,464 src/columnindexingscheme.cpp:22:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-03-11T12:28:43,464 22 | while ((iread_ids.size()) && (j::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-03-11T12:28:43,466 22 | while ((iread_ids.size()) && (j::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-03-11T12:28:43,471 71 | while ((iread_ids.size()) && (j::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-03-11T12:28:43,472 71 | while ((iread_ids.size()) && (j > ColumnIterator::get_next()’: 2022-03-11T12:28:48,195 src/columniterator.cpp:105:33: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-03-11T12:28:48,195 105 | assert(list_it->active_entry < read->getVariantCount()); 2022-03-11T12:28:48,196 | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-11T12:28:48,234 src/columniterator.cpp: In member function ‘void ColumnIterator::jump_to_column(size_t)’: 2022-03-11T12:28:48,235 src/columniterator.cpp:161:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-03-11T12:28:48,235 161 | assert(active_entry < read->getVariantCount()); 2022-03-11T12:28:48,236 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-11T12:28:51,995 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 -UNDEBUG -I/usr/include/python3.9 -c src/entry.cpp -o build/temp.linux-armv7l-3.9/src/entry.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:28:54,199 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 -UNDEBUG -I/usr/include/python3.9 -c src/genotype.cpp -o build/temp.linux-armv7l-3.9/src/genotype.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:28:59,627 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 -UNDEBUG -I/usr/include/python3.9 -c src/genotypecolumncostcomputer.cpp -o build/temp.linux-armv7l-3.9/src/genotypecolumncostcomputer.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:05,855 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 -UNDEBUG -I/usr/include/python3.9 -c src/genotypedistribution.cpp -o build/temp.linux-armv7l-3.9/src/genotypedistribution.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:08,543 src/genotypedistribution.cpp: In member function ‘double GenotypeDistribution::errorProbability() const’: 2022-03-11T12:29:08,543 src/genotypedistribution.cpp:55:9: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-03-11T12:29:08,544 55 | if (i == best_index) continue; 2022-03-11T12:29:08,544 | ~~^~~~~~~~~~~~~ 2022-03-11T12:29:09,615 In file included from /usr/include/c++/10/vector:72, 2022-03-11T12:29:09,615 from src/genotypedistribution.h:4, 2022-03-11T12:29:09,616 from src/genotypedistribution.cpp:5: 2022-03-11T12:29:09,616 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2022-03-11T12:29:09,616 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-03-11T12:29:09,617 426 | vector<_Tp, _Alloc>:: 2022-03-11T12:29:09,617 | ^~~~~~~~~~~~~~~~~~~ 2022-03-11T12:29:09,698 In file included from /usr/include/c++/10/vector:67, 2022-03-11T12:29:09,698 from src/genotypedistribution.h:4, 2022-03-11T12:29:09,699 from src/genotypedistribution.cpp:5: 2022-03-11T12:29:09,699 /usr/include/c++/10/bits/stl_vector.h: In constructor ‘GenotypeDistribution::GenotypeDistribution(double, double, double)’: 2022-03-11T12:29:09,699 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-03-11T12:29:09,700 1198 | _M_realloc_insert(end(), __x); 2022-03-11T12:29:09,700 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-03-11T12:29:09,700 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-03-11T12:29:09,701 1198 | _M_realloc_insert(end(), __x); 2022-03-11T12:29:09,701 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-03-11T12:29:09,701 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-03-11T12:29:09,702 1198 | _M_realloc_insert(end(), __x); 2022-03-11T12:29:09,702 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-03-11T12:29:10,123 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 -UNDEBUG -I/usr/include/python3.9 -c src/genotypedptable.cpp -o build/temp.linux-armv7l-3.9/src/genotypedptable.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:14,917 src/genotypedptable.cpp: In member function ‘void GenotypeDPTable::clear_forward_table()’: 2022-03-11T12:29:14,917 src/genotypedptable.cpp:61:12: warning: unused variable ‘column_count’ [-Wunused-variable] 2022-03-11T12:29:14,917 61 | size_t column_count = input_column_iterator.get_column_count(); 2022-03-11T12:29:14,918 | ^~~~~~~~~~~~ 2022-03-11T12:29:15,054 src/genotypedptable.cpp: In member function ‘void GenotypeDPTable::compute_index()’: 2022-03-11T12:29:15,054 src/genotypedptable.cpp:91:18: warning: unused variable ‘transmission_configurations’ [-Wunused-variable] 2022-03-11T12:29:15,055 91 | unsigned int transmission_configurations = pow(4, pedigree->triple_count()); 2022-03-11T12:29:15,055 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-11T12:29:15,062 src/genotypedptable.cpp: In member function ‘void GenotypeDPTable::compute_backward_prob()’: 2022-03-11T12:29:15,063 src/genotypedptable.cpp:152:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-11T12:29:15,063 152 | if ((k>1) && (column_index < column_count-1) && (((column_index+1)%k) != 0)) { 2022-03-11T12:29:15,064 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ 2022-03-11T12:29:15,070 src/genotypedptable.cpp: In member function ‘void GenotypeDPTable::compute_forward_prob()’: 2022-03-11T12:29:15,071 src/genotypedptable.cpp:178:12: warning: unused variable ‘k’ [-Wunused-variable] 2022-03-11T12:29:15,071 178 | size_t k = (size_t)sqrt(input_column_iterator.get_column_count()); 2022-03-11T12:29:15,072 | ^ 2022-03-11T12:29:23,780 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 -UNDEBUG -I/usr/include/python3.9 -c src/genotyper.cpp -o build/temp.linux-armv7l-3.9/src/genotyper.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:29,255 In file included from /usr/include/c++/10/vector:72, 2022-03-11T12:29:29,255 from src/columniterator.h:4, 2022-03-11T12:29:29,256 from src/genotyper.cpp:6: 2022-03-11T12:29:29,256 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const Genotype&}; _Tp = Genotype; _Alloc = std::allocator]’: 2022-03-11T12:29:29,256 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-03-11T12:29:29,257 426 | vector<_Tp, _Alloc>:: 2022-03-11T12:29:29,257 | ^~~~~~~~~~~~~~~~~~~ 2022-03-11T12:29:29,710 In file included from /usr/include/c++/10/vector:67, 2022-03-11T12:29:29,711 from src/columniterator.h:4, 2022-03-11T12:29:29,711 from src/genotyper.cpp:6: 2022-03-11T12:29:29,711 /usr/include/c++/10/bits/stl_vector.h: In function ‘void compute_genotypes(const ReadSet&, std::vector*, std::vector*, std::vector*)’: 2022-03-11T12:29:29,712 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-03-11T12:29:29,712 1198 | _M_realloc_insert(end(), __x); 2022-03-11T12:29:29,713 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-03-11T12:29:30,112 In file included from /usr/include/c++/10/vector:72, 2022-03-11T12:29:30,112 from src/columniterator.h:4, 2022-03-11T12:29:30,113 from src/genotyper.cpp:6: 2022-03-11T12:29:30,113 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {Genotype}; _Tp = Genotype; _Alloc = std::allocator]’: 2022-03-11T12:29:30,114 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-03-11T12:29:30,114 426 | vector<_Tp, _Alloc>:: 2022-03-11T12:29:30,114 | ^~~~~~~~~~~~~~~~~~~ 2022-03-11T12:29:30,382 /usr/include/c++/10/bits/vector.tcc: In function ‘void compute_polyploid_genotypes(const ReadSet&, size_t, std::vector*, std::vector*)’: 2022-03-11T12:29:30,382 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-03-11T12:29:30,383 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2022-03-11T12:29:30,383 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-11T12:29:30,384 In file included from /usr/include/c++/10/vector:67, 2022-03-11T12:29:30,385 from src/columniterator.h:4, 2022-03-11T12:29:30,385 from src/genotyper.cpp:6: 2022-03-11T12:29:30,385 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-03-11T12:29:30,386 1198 | _M_realloc_insert(end(), __x); 2022-03-11T12:29:30,386 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-03-11T12:29:31,316 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 -UNDEBUG -I/usr/include/python3.9 -c src/graycodes.cpp -o build/temp.linux-armv7l-3.9/src/graycodes.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:33,631 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 -UNDEBUG -I/usr/include/python3.9 -c src/hapchat/balancedcombinations.cpp -o build/temp.linux-armv7l-3.9/src/hapchat/balancedcombinations.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:41,993 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 -UNDEBUG -I/usr/include/python3.9 -c src/hapchat/basictypes.cpp -o build/temp.linux-armv7l-3.9/src/hapchat/basictypes.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:45,657 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 -UNDEBUG -I/usr/include/python3.9 -c src/hapchat/binomialcoefficient.cpp -o build/temp.linux-armv7l-3.9/src/hapchat/binomialcoefficient.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:51,575 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 -UNDEBUG -I/usr/include/python3.9 -c src/hapchat/hapchatcolumniterator.cpp -o build/temp.linux-armv7l-3.9/src/hapchat/hapchatcolumniterator.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:29:56,723 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 -UNDEBUG -I/usr/include/python3.9 -c src/hapchat/hapchatcore.cpp -o build/temp.linux-armv7l-3.9/src/hapchat/hapchatcore.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:01,569 src/hapchat/hapchatcore.cpp: In member function ‘void HapChatCore::run_core()’: 2022-03-11T12:30:01,569 src/hapchat/hapchatcore.cpp:145:11: warning: variable ‘counter_columns’ set but not used [-Wunused-but-set-variable] 2022-03-11T12:30:01,570 145 | Counter counter_columns; 2022-03-11T12:30:01,570 | ^~~~~~~~~~~~~~~ 2022-03-11T12:30:01,594 src/hapchat/hapchatcore.cpp: In member function ‘bool HapChatCore::check_end(HapChatColumnIterator, const std::vector >&, const Pointer&, const bool&)’: 2022-03-11T12:30:01,594 src/hapchat/hapchatcore.cpp:208:74: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:01,594 208 | return (!re_run && (hap.is_ended() && (input[pointer][0].get_read_id() == -1))); 2022-03-11T12:30:01,595 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ 2022-03-11T12:30:01,927 src/hapchat/hapchatcore.cpp: In member function ‘void HapChatCore::dp(const constants_t&, std::vector&, std::vector&, Counter&, Cost&, Counter&, Counter&, Counter&, Counter&, HapChatColumnIterator)’: 2022-03-11T12:30:01,927 src/hapchat/hapchatcore.cpp:939:8: warning: unused variable ‘old_k’ [-Wunused-variable] 2022-03-11T12:30:01,927 939 | int old_k = k_j[input_pointer]; 2022-03-11T12:30:01,928 | ^~~~~ 2022-03-11T12:30:01,970 src/hapchat/hapchatcore.cpp: In member function ‘void HapChatCore::intersect(const Column&, const Column&, const Pointer&, std::vector >&, std::vector >&, std::vector >&, std::vector&, const bool&)’: 2022-03-11T12:30:01,970 src/hapchat/hapchatcore.cpp:1114:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:01,971 1114 | (colJ[j].get_read_id() != -1) && 2022-03-11T12:30:01,971 | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ 2022-03-11T12:30:01,972 src/hapchat/hapchatcore.cpp:1115:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:01,972 1115 | (colQ[i].get_read_id() != -1)) { 2022-03-11T12:30:01,973 | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ 2022-03-11T12:30:01,978 src/hapchat/hapchatcore.cpp: In member function ‘void HapChatCore::represent_column(const Column&, BitColumn&, Counter&, BitColumn&, Counter&)’: 2022-03-11T12:30:01,978 src/hapchat/hapchatcore.cpp:1159:58: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:01,979 1159 | while(cov < column.size() && column[cov].get_read_id() != -1) { 2022-03-11T12:30:01,979 | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ 2022-03-11T12:30:01,989 src/hapchat/hapchatcore.cpp: In member function ‘int HapChatCore::compute_active_common(const Column&, const Column&, unsigned int&)’: 2022-03-11T12:30:01,989 src/hapchat/hapchatcore.cpp:1294:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:01,990 1294 | (colJ[j].get_read_id() != -1) && 2022-03-11T12:30:01,990 | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ 2022-03-11T12:30:01,991 src/hapchat/hapchatcore.cpp:1295:33: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:01,991 1295 | (colQ[i].get_read_id() != -1)) { 2022-03-11T12:30:01,991 | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ 2022-03-11T12:30:01,997 src/hapchat/hapchatcore.cpp: In member function ‘void HapChatCore::insert_col_and_update(std::vector >&, std::vector&, std::vector&, std::vector&, const Pointer&, const Column&, std::vector&, const Counter&)’: 2022-03-11T12:30:01,997 src/hapchat/hapchatcore.cpp:1350:67: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:01,997 1350 | if(i < input[pointer].size() && input[pointer][i].get_read_id() != -1) 2022-03-11T12:30:01,998 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ 2022-03-11T12:30:04,261 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 -UNDEBUG -I/usr/include/python3.9 -c src/indexset.cpp -o build/temp.linux-armv7l-3.9/src/indexset.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:07,867 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 -UNDEBUG -I/usr/include/python3.9 -c src/pedigree.cpp -o build/temp.linux-armv7l-3.9/src/pedigree.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:11,006 In file included from /usr/include/c++/10/cassert:44, 2022-03-11T12:30:11,007 from src/pedigree.cpp:4: 2022-03-11T12:30:11,007 src/pedigree.cpp: In member function ‘void Pedigree::addIndividual(unsigned int, std::vector, std::vector)’: 2022-03-11T12:30:11,008 src/pedigree.cpp:32:26: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-03-11T12:30:11,008 32 | assert(genotypes.size() == variant_count); 2022-03-11T12:30:11,008 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ 2022-03-11T12:30:11,009 src/pedigree.cpp:33:37: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2022-03-11T12:30:11,009 33 | assert(genotype_likelihoods.size() == variant_count); 2022-03-11T12:30:11,009 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ 2022-03-11T12:30:11,029 src/pedigree.cpp: In member function ‘const Genotype* Pedigree::get_genotype_by_id(unsigned int, unsigned int) const’: 2022-03-11T12:30:11,030 src/pedigree.cpp:70:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 2022-03-11T12:30:11,030 70 | assert(variant_index < variant_count); 2022-03-11T12:30:11,031 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 2022-03-11T12:30:11,031 src/pedigree.cpp: In member function ‘const PhredGenotypeLikelihoods* Pedigree::get_genotype_likelihoods_by_id(unsigned int, unsigned int) const’: 2022-03-11T12:30:11,031 src/pedigree.cpp:81:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 2022-03-11T12:30:11,032 81 | assert(variant_index < variant_count); 2022-03-11T12:30:11,032 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 2022-03-11T12:30:11,059 src/pedigree.cpp: In member function ‘std::string Pedigree::toString() const’: 2022-03-11T12:30:11,059 src/pedigree.cpp:112:21: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘const int’ [-Wsign-compare] 2022-03-11T12:30:11,060 112 | for (size_t j=0; j&, size_t, const std::vector&, const Pedigree*, const PedigreePartitions&, bool)’: 2022-03-11T12:30:20,004 src/pedigreecolumncostcomputer.cpp:25:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-11T12:30:20,004 25 | for (unsigned int i = 0; i < (1< PedigreeColumnCostComputer::get_alleles()’: 2022-03-11T12:30:20,090 src/pedigreecolumncostcomputer.cpp:119:15: warning: unused variable ‘second_best_cost’ [-Wunused-variable] 2022-03-11T12:30:20,090 119 | unsigned int second_best_cost = numeric_limits < unsigned int >::max(); 2022-03-11T12:30:20,091 | ^~~~~~~~~~~~~~~~ 2022-03-11T12:30:22,676 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 -UNDEBUG -I/usr/include/python3.9 -c src/pedigreedptable.cpp -o build/temp.linux-armv7l-3.9/src/pedigreedptable.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:37,328 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 -UNDEBUG -I/usr/include/python3.9 -c src/pedigreepartitions.cpp -o build/temp.linux-armv7l-3.9/src/pedigreepartitions.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:41,684 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 -UNDEBUG -I/usr/include/python3.9 -c src/phredgenotypelikelihoods.cpp -o build/temp.linux-armv7l-3.9/src/phredgenotypelikelihoods.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:45,272 In file included from /usr/include/c++/10/vector:72, 2022-03-11T12:30:45,272 from src/genotype.h:4, 2022-03-11T12:30:45,273 from src/phredgenotypelikelihoods.h:5, 2022-03-11T12:30:45,273 from src/phredgenotypelikelihoods.cpp:4: 2022-03-11T12:30:45,274 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {Genotype}; _Tp = Genotype; _Alloc = std::allocator]’: 2022-03-11T12:30:45,274 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-03-11T12:30:45,274 426 | vector<_Tp, _Alloc>:: 2022-03-11T12:30:45,275 | ^~~~~~~~~~~~~~~~~~~ 2022-03-11T12:30:45,350 /usr/include/c++/10/bits/vector.tcc: In member function ‘void PhredGenotypeLikelihoods::get_genotypes(std::vector&) const’: 2022-03-11T12:30:45,351 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-03-11T12:30:45,351 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2022-03-11T12:30:45,351 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-11T12:30:45,658 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 -UNDEBUG -I/usr/include/python3.9 -c src/polyphase/clustereditingsolution.cpp -o build/temp.linux-armv7l-3.9/src/polyphase/clustereditingsolution.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:48,888 In file included from src/polyphase/clustereditingsolution.h:4, 2022-03-11T12:30:48,888 from src/polyphase/clustereditingsolution.cpp:1: 2022-03-11T12:30:48,888 src/polyphase/staticsparsegraph.h: In member function ‘std::string StaticSparseGraph::int2bin(uint64_t)’: 2022-03-11T12:30:48,889 src/polyphase/staticsparsegraph.h:225:30: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:30:48,889 225 | uint64_t mask = (1UL << 63); // fill in values right-to-left 2022-03-11T12:30:48,889 | ~~~~^~~~~ 2022-03-11T12:30:49,864 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 -UNDEBUG -I/usr/include/python3.9 -c src/polyphase/clustereditingsolver.cpp -o build/temp.linux-armv7l-3.9/src/polyphase/clustereditingsolver.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:53,178 In file included from src/polyphase/clustereditingsolution.h:4, 2022-03-11T12:30:53,179 from src/polyphase/clustereditingsolver.h:10, 2022-03-11T12:30:53,179 from src/polyphase/clustereditingsolver.cpp:1: 2022-03-11T12:30:53,180 src/polyphase/staticsparsegraph.h: In member function ‘std::string StaticSparseGraph::int2bin(uint64_t)’: 2022-03-11T12:30:53,180 src/polyphase/staticsparsegraph.h:225:30: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:30:53,180 225 | uint64_t mask = (1UL << 63); // fill in values right-to-left 2022-03-11T12:30:53,181 | ~~~~^~~~~ 2022-03-11T12:30:54,800 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 -UNDEBUG -I/usr/include/python3.9 -c src/polyphase/edgeheap.cpp -o build/temp.linux-armv7l-3.9/src/polyphase/edgeheap.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:30:58,031 In file included from src/polyphase/edgeheap.h:6, 2022-03-11T12:30:58,031 from src/polyphase/edgeheap.cpp:1: 2022-03-11T12:30:58,032 src/polyphase/staticsparsegraph.h: In member function ‘std::string StaticSparseGraph::int2bin(uint64_t)’: 2022-03-11T12:30:58,032 src/polyphase/staticsparsegraph.h:225:30: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:30:58,033 225 | uint64_t mask = (1UL << 63); // fill in values right-to-left 2022-03-11T12:30:58,033 | ~~~~^~~~~ 2022-03-11T12:31:03,428 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 -UNDEBUG -I/usr/include/python3.9 -c src/polyphase/haplothreader.cpp -o build/temp.linux-armv7l-3.9/src/polyphase/haplothreader.o -std=c++11 -Werror=return-type -Werror=narrowing 2022-03-11T12:31:06,406 In file included from src/polyphase/haplothreader.cpp:1: 2022-03-11T12:31:06,406 src/polyphase/haplothreader.h:31:50: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:31:06,407 31 | 31UL << 20, 31UL << 25, 31UL << 30, 31UL << 35, 2022-03-11T12:31:06,407 | ~~~~~^~~~~ 2022-03-11T12:31:06,408 src/polyphase/haplothreader.h:32:14: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:31:06,408 32 | 31UL << 40, 31UL << 45, 31UL << 50, 31UL << 55}; 2022-03-11T12:31:06,408 | ~~~~~^~~~~ 2022-03-11T12:31:06,409 src/polyphase/haplothreader.h:32:26: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:31:06,409 32 | 31UL << 40, 31UL << 45, 31UL << 50, 31UL << 55}; 2022-03-11T12:31:06,409 | ~~~~~^~~~~ 2022-03-11T12:31:06,410 src/polyphase/haplothreader.h:32:38: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:31:06,410 32 | 31UL << 40, 31UL << 45, 31UL << 50, 31UL << 55}; 2022-03-11T12:31:06,410 | ~~~~~^~~~~ 2022-03-11T12:31:06,410 src/polyphase/haplothreader.h:32:50: warning: left shift count >= width of type [-Wshift-count-overflow] 2022-03-11T12:31:06,411 32 | 31UL << 40, 31UL << 45, 31UL << 50, 31UL << 55}; 2022-03-11T12:31:06,411 | ~~~~~^~~~~ 2022-03-11T12:31:06,411 src/polyphase/haplothreader.h:31:50: error: right operand of shift expression ‘(31 << 35)’ is greater than or equal to the precision 32 of the left operand [-fpermissive] 2022-03-11T12:31:06,412 31 | 31UL << 20, 31UL << 25, 31UL << 30, 31UL << 35, 2022-03-11T12:31:06,412 | ~~~~~^~~~~ 2022-03-11T12:31:07,394 src/polyphase/haplothreader.cpp: In member function ‘std::vector > HaploThreader::computePaths(Position, Position, const std::vector >&, const std::vector >&, const std::vector >&, const std::vector >&, Position) const’: 2022-03-11T12:31:07,394 src/polyphase/haplothreader.cpp:253:18: warning: unused variable ‘allRows’ [-Wunused-variable] 2022-03-11T12:31:07,395 253 | uint32_t allRows = column.size(); 2022-03-11T12:31:07,395 | ^~~~~~~ 2022-03-11T12:31:09,309 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2022-03-11T12:31:09,549 ERROR: [present-diagnostic] Building wheel for whatshap (pyproject.toml) exited with 1 2022-03-11T12:31:09,590 [bold magenta]full command[/]: [blue]/usr/bin/python3 /usr/local/lib/python3.9/dist-packages/pip/_vendor/pep517/in_process/_in_process.py build_wheel /tmp/tmpqq23bo2l[/] 2022-03-11T12:31:09,591 [bold magenta]cwd[/]: /tmp/pip-wheel-22a2z6_x/whatshap_2214ea2319bd4433bd3a1daaca137241 2022-03-11T12:31:09,591 Building wheel for whatshap (pyproject.toml): finished with status 'error' 2022-03-11T12:31:09,596 ERROR: Failed building wheel for whatshap 2022-03-11T12:31:09,601 Failed to build whatshap 2022-03-11T12:31:09,603 ERROR: Failed to build one or more wheels 2022-03-11T12:31:09,606 Exception information: 2022-03-11T12:31:09,606 Traceback (most recent call last): 2022-03-11T12:31:09,606 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 167, in exc_logging_wrapper 2022-03-11T12:31:09,606 status = run_func(*args) 2022-03-11T12:31:09,606 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2022-03-11T12:31:09,606 return func(self, options, args) 2022-03-11T12:31:09,606 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 176, in run 2022-03-11T12:31:09,606 raise CommandError("Failed to build one or more wheels") 2022-03-11T12:31:09,606 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2022-03-11T12:31:09,614 Removed build tracker: '/tmp/pip-req-tracker-v72yhflk'