2024-04-25T10:21:45,763 Created temporary directory: /tmp/pip-build-tracker-0p2_266x 2024-04-25T10:21:45,764 Initialized build tracking at /tmp/pip-build-tracker-0p2_266x 2024-04-25T10:21:45,765 Created build tracker: /tmp/pip-build-tracker-0p2_266x 2024-04-25T10:21:45,765 Entered build tracker: /tmp/pip-build-tracker-0p2_266x 2024-04-25T10:21:45,765 Created temporary directory: /tmp/pip-wheel-0gv9m2us 2024-04-25T10:21:45,769 Created temporary directory: /tmp/pip-ephem-wheel-cache-pycb7z62 2024-04-25T10:21:45,793 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-04-25T10:21:45,796 2 location(s) to search for versions of pysam: 2024-04-25T10:21:45,796 * https://pypi.org/simple/pysam/ 2024-04-25T10:21:45,796 * https://www.piwheels.org/simple/pysam/ 2024-04-25T10:21:45,797 Fetching project page and analyzing links: https://pypi.org/simple/pysam/ 2024-04-25T10:21:45,797 Getting page https://pypi.org/simple/pysam/ 2024-04-25T10:21:45,799 Found index url https://pypi.org/simple/ 2024-04-25T10:21:45,932 Fetched page https://pypi.org/simple/pysam/ as application/vnd.pypi.simple.v1+json 2024-04-25T10:21:45,997 Found link https://files.pythonhosted.org/packages/7f/ce/e9405fcf72096f78dc7d75e8ce2a1cd907e1b4a9af0dbf1fc4dac5770f81/pysam-0.4.tar.gz (from https://pypi.org/simple/pysam/), version: 0.4 2024-04-25T10:21:45,997 Found link https://files.pythonhosted.org/packages/df/58/508dc40f603551d34b815560d52d9532dd243f1a8c35d9317ebff15d27e7/pysam-0.4.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.4.1 2024-04-25T10:21:45,998 Found link https://files.pythonhosted.org/packages/64/7b/09ff2b61c7600a5aefd7ee0c37cec60140d31f8194d237e1d63c4d457931/pysam-0.7.6.tar.gz (from https://pypi.org/simple/pysam/), version: 0.7.6 2024-04-25T10:21:45,998 Found link https://files.pythonhosted.org/packages/46/b5/877f40fbb84f588b69b4afcb1409b8bdeed7ef980113d3e8ef69bab26e09/pysam-0.7.7.tar.gz (from https://pypi.org/simple/pysam/), version: 0.7.7 2024-04-25T10:21:45,999 Found link https://files.pythonhosted.org/packages/b5/0f/436d15f08096dd9869a956e502fd119c15efbd84896aa53df50c7c6c0e13/pysam-0.7.8.tar.gz (from https://pypi.org/simple/pysam/), version: 0.7.8 2024-04-25T10:21:45,999 Found link https://files.pythonhosted.org/packages/a4/ea/901d47d5621f15c05079dcf45e746a77bab21dbf0f9ce272993a3ca3a367/pysam-0.8.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.8.0 2024-04-25T10:21:46,000 Found link https://files.pythonhosted.org/packages/0e/4a/d1625792b2fd3a172d4bad096ab1559bcb7a81fa5fa6f9bc3937de23340d/pysam-0.8.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.8.1 2024-04-25T10:21:46,000 Found link https://files.pythonhosted.org/packages/10/42/7f51e1ad0c283e1d6bf826d3a193fa0644e675c9c6d42263b69fefc3b527/pysam-0.8.2.tar.gz (from https://pypi.org/simple/pysam/), version: 0.8.2 2024-04-25T10:21:46,000 Found link https://files.pythonhosted.org/packages/07/6b/3f48a2f05fbde46f2c52fc5f9adc15d928951cd54035109d553e14b774c7/pysam-0.8.2.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.8.2.1 2024-04-25T10:21:46,001 Found link https://files.pythonhosted.org/packages/f9/b9/8cfad46376335001f0cbbc46bf402fa107b0e8af8fe9e4192702b251f628/pysam-0.8.3.tar.gz (from https://pypi.org/simple/pysam/), version: 0.8.3 2024-04-25T10:21:46,001 Found link https://files.pythonhosted.org/packages/27/89/bf8c44d0bfe9d0cadab062893806994c168c9f490f67370fc56d6e8ba224/pysam-0.8.4.tar.gz (from https://pypi.org/simple/pysam/), version: 0.8.4 2024-04-25T10:21:46,001 Found link https://files.pythonhosted.org/packages/0f/37/fa514cb2163997551e95f63ec12f7bec7b640a601456f1d0ab3ab900c05f/pysam-0.9.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.9.0 2024-04-25T10:21:46,002 Found link https://files.pythonhosted.org/packages/40/15/20b22dc3d017ec123e533d062b982b111b0214168905de3221b5caf5f766/pysam-0.9.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.9.1 2024-04-25T10:21:46,002 Found link https://files.pythonhosted.org/packages/f7/ae/59341d9fd2bed1cc32225115fc3f866a0e4e020f31073d698785c956360f/pysam-0.9.1.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.9.1.1 2024-04-25T10:21:46,003 Found link https://files.pythonhosted.org/packages/76/62/908776209238850eca22e7139cc23ce2ba14b2941ceb438b1572f84e8d82/pysam-0.9.1.2.tar.gz (from https://pypi.org/simple/pysam/), version: 0.9.1.2 2024-04-25T10:21:46,003 Found link https://files.pythonhosted.org/packages/e7/e9/db49c8bd39673c1f48200f69ccc34784016d664136f36e03a090411a95fc/pysam-0.9.1.3.tar.gz (from https://pypi.org/simple/pysam/), version: 0.9.1.3 2024-04-25T10:21:46,003 Found link https://files.pythonhosted.org/packages/de/03/02934438b204565bc5231f38a11da840a3c3e4b2beac8c8770d675770668/pysam-0.9.1.4.tar.gz (from https://pypi.org/simple/pysam/), version: 0.9.1.4 2024-04-25T10:21:46,004 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/29/5a/0b25d6d734e1797c7ce06442ff6714af53cb1c8cd6c6cfd1a32df4587e33/pysam-0.10.0-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,004 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/72/d2/d106b2fc317e838f7eea7140c8d0ad4df4fde6a456a526649a58397f638c/pysam-0.10.0-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,004 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0c/55/d775726477bfe55e06c88701c8cf9a4b2596a877b09e562551c00cf4a931/pysam-0.10.0-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,005 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/89/ea/01735cceef15296bad16873979ae6848efebbbc9ab20eba244d532846dbf/pysam-0.10.0-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,005 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/8a/09/526378006226fb39eb54d9935c407c9b3c0302792c89e50d6b4f14d6f4b8/pysam-0.10.0-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,005 Found link https://files.pythonhosted.org/packages/87/8e/d2d8238558970df37c7aa01ddec63057a98042334e939b4c1c69cb9a2504/pysam-0.10.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.10.0 2024-04-25T10:21:46,006 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/93/f5/bfca0394bb90cc5993b7595d7c6aeebfc43dce8bf97394df4bfba9141caf/pysam-0.11-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,006 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/4b/ff/7e0c6169883a26cee912ce25ef98893c13966cce1064fd6136b53e28d365/pysam-0.11-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,006 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/39/ba/91614d3e18818011decdb5cda8991cea11330d274399492822fb50b7478e/pysam-0.11-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,006 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/3e/6f/2b166df4d7d55e2f69551b85ec2bba01048e5dc2307163ab8ad7d694bde1/pysam-0.11-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,007 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0b/28/cd6fde9c19444f779130e27195b4c1d9d896266e4e0b0bc8d515c031854f/pysam-0.11-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,007 Found link https://files.pythonhosted.org/packages/f4/bb/c5fcaace8857bdf8a430de41b5298c602fdce4917494f7a941c038e5861a/pysam-0.11.tar.gz (from https://pypi.org/simple/pysam/), version: 0.11 2024-04-25T10:21:46,007 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/81/01/2304e5367c566f538cf64bad1bd41ec41e47d8aeefd197a209c8c1cf14fa/pysam-0.11.1-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,008 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ef/b3/b7ea200fc6e16af0cd2397659a2a2dd383f4ea71d2e0948f7215e73fb6a6/pysam-0.11.1-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,008 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/e5/00/0d55946c0b1c781caee096ef9c4e9e54047ecf897874bf791c5ea8351df3/pysam-0.11.1-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,008 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/45/2a/b5e9e88b0d5097fa45f0832a05acfb39879679a087e55145198d47bb6099/pysam-0.11.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,009 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/6e/0e/967ed910f8ce74ed5ea6b7a4775a86d05205963bf927a8452604ad277913/pysam-0.11.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,009 Found link https://files.pythonhosted.org/packages/be/70/16cdd6c5ef799b2db2af4fd5f9720df0f3206b0a06ed40e03692aa80ae25/pysam-0.11.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.11.1 2024-04-25T10:21:46,009 Found link https://files.pythonhosted.org/packages/89/d9/52995323a3a15e14f2cd579a49f953c804b36a1a7d7dc09a08b7de3591d2/pysam-0.11.2.tar.gz (from https://pypi.org/simple/pysam/), version: 0.11.2 2024-04-25T10:21:46,010 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/8f/23/12b4829036ce49ec068c61a28057029dd19a6a1a29855dff0efb785e0d12/pysam-0.11.2.1-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,010 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0a/d8/daa0986a5049b66b4ab2fc8093a17a961cedc75d1a39e1a4821d19f4f13f/pysam-0.11.2.1-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,010 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/34/5f/254cec485fedd72269c061262eb2bc36f8a438a5badb78c8582e46905623/pysam-0.11.2.1-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,011 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c3/cc/47ae71c341bd822dfeec2148f6521c1bba690e4581814114519b3cc611d4/pysam-0.11.2.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,011 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c7/b0/4acf13c3b125db232e8ed93fec3e5b3a90abe47fd27aaacc15c9e03caf6f/pysam-0.11.2.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,011 Found link https://files.pythonhosted.org/packages/4b/d2/152284e08c551471c7a7b9b23b4d0916637705ee4f979314ca1750b37c83/pysam-0.11.2.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.11.2.1 2024-04-25T10:21:46,011 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/24/dd/2a9226b90d8c98482209617c2376434e1c19da4981de49c78af0e763988f/pysam-0.11.2.2-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,012 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0d/9d/d30859cf5a7555719e9b28d34f61bbd4ef0e811fb8a857a986ee9913b79a/pysam-0.11.2.2-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,012 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/d8/34/b0a7ece94bf7af7d482282ccd8430fe291147960d900b514b7aa606c9170/pysam-0.11.2.2-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,012 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/9d/a0/2bc18552108cf9605e0ffa7c31673bc56653c0cd7521730a2d5eeb06939f/pysam-0.11.2.2-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,013 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/23/c0/18436ad1db0ed38c997b7fda42db8b6489c50abcb321320015de12bdd164/pysam-0.11.2.2-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,013 Found link https://files.pythonhosted.org/packages/a4/1b/b6dfd92aea876647d20d9a8bd8618e4f2af6300539426be83c8bb0912d6f/pysam-0.11.2.2.tar.gz (from https://pypi.org/simple/pysam/), version: 0.11.2.2 2024-04-25T10:21:46,013 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/be/3c/9c0d31f4baa506057e781641325f52f709ca4fe777065e39be08e690752b/pysam-0.12-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,014 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/5e/f1/28f7e3df4941ac01c2c1794b1009000fad81cf026da6c04e223e5e86e6ad/pysam-0.12-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,014 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/e7/a7/9225250a464b91caba6c88e82b59755e07a30aa803085febbb923655d2d5/pysam-0.12-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,014 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c6/ce/08728c6f395b46cdb75b79d4c554184b624fbe344a6a99b62b1a7f58a5df/pysam-0.12-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,014 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ef/bd/a741af36309bfbd8d40e5c5c9fc9f2ca3c7a86c2d1ff7c2563a81d851a44/pysam-0.12-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,015 Found link https://files.pythonhosted.org/packages/0f/e0/19046ae89307ddeadfa8dabc305a9cfce67865de06b762057edd84bc0fd6/pysam-0.12.tar.gz (from https://pypi.org/simple/pysam/), version: 0.12 2024-04-25T10:21:46,015 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/15/bc/9d27138acddecbeca3a010691e71e89ad02e5c6dc3a38ca9d8cc94c92295/pysam-0.12.0.1-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,015 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/29/d9/7a508464feb23b750ba0d56e10e014f0d1a8cd6a4e8fe3887c75affa5fa9/pysam-0.12.0.1-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,016 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/eb/d5/4b67f2767fc352d8246c3eed4ce0f5d61fdbf6cef6e5b57d433ed63f7ed8/pysam-0.12.0.1-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,016 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0e/d9/91db21a596a3a896365a90c5b44c6722b4e0acfd5e90c52071175e77aad4/pysam-0.12.0.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,016 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/50/28/f3a3989a9a34fa6c84fdba3d80b4b1624b2c253d7906a13638152b20555b/pysam-0.12.0.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,017 Found link https://files.pythonhosted.org/packages/b9/98/d98b250f98a6b91df71a03083219bec786cdda5408f77997f8ad81d06058/pysam-0.12.0.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.12.0.1 2024-04-25T10:21:46,017 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/14/cd/676a08a4bd77fd21716add76f946235780a5673c75c7408b2449db2dde5a/pysam-0.13-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,017 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/59/7e/55048651e80ca7ebbed41489ec53da863a500d536fbff5884175e81b40c1/pysam-0.13-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,017 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/fc/63/4a758298dafa37a719540fd55c4e76de15e3ad6be0201c9e0e6ed59b3d8c/pysam-0.13-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,018 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/8b/08/8f6ea307458945f9e5db70e460b7902f210f08646af35800372907095f06/pysam-0.13-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,018 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f1/dd/5f41722f95749537e2f5a84414a4b08fc4e14d39552df8171e375129edf5/pysam-0.13-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,018 Found link https://files.pythonhosted.org/packages/31/17/31d317006a74941d2caddac97c5106601fe4da467653d0f061702e9ead95/pysam-0.13.tar.gz (from https://pypi.org/simple/pysam/), version: 0.13 2024-04-25T10:21:46,019 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c9/0b/ca7620a778a1ac5a6669b750ab82cd8e2ca29f671cf2ab929cf907338bf5/pysam-0.14-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,019 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/2b/ff/a7cdcde7f79ca59cd6a6921f55f0cce8fb3d4ff273257e313efc3e52853a/pysam-0.14-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,019 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/51/c1/474c632acbbd7c06921a4ad31b237c3f41fe662101ec775be6a9c3c8cf20/pysam-0.14-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,020 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f7/53/6e677a66b02755d9d631a7ffa37b23b8eca7b2463faf14dcf3bcbbcbec24/pysam-0.14-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,020 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/96/7b/845e49997825cf2aaef3719853e8d2d07b43d3a5e096cb9863208b7d0af8/pysam-0.14-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,020 Found link https://files.pythonhosted.org/packages/d8/78/8b3fad13d3bd8787c0d922056061727c2a0cf91c45a836c98342594dd293/pysam-0.14.tar.gz (from https://pypi.org/simple/pysam/), version: 0.14 2024-04-25T10:21:46,020 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/cd/9b/2627df910452b49bef57dd5ce720832d49faadea3e3d86f940f168b807b4/pysam-0.14.1-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,021 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b3/96/a9b21863c30c00bde76ab9bd3b538ed9f4d872f6767217c930cd0246fd21/pysam-0.14.1-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,021 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a0/ba/95ee9ea7921ae153c51880ffe047269a7ccf396442214f4fc965cc66ea68/pysam-0.14.1-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,021 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/09/a9/d74aa164efb28ce328cd4890b0182ccdf2e781c192910072717c965765c6/pysam-0.14.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,022 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/97/bb/65b3a258ffca71251ae1d07c1d3eb54448da31ee74106e49e2f251f066d4/pysam-0.14.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,022 Found link https://files.pythonhosted.org/packages/fc/9b/4bb8d016406dcff47e2866e14d3dcb10741ec3920649e8c521996830944f/pysam-0.14.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.14.1 2024-04-25T10:21:46,022 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/2f/d8/57e6c36c4069e3b240115b3cb98bf1d5a2989d76815aff14fb0149d27781/pysam-0.15.0-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,023 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/dc/af/c14708a4d43effb82bd14302e41e9fa818b724ada9b9d89283319a22a585/pysam-0.15.0-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,023 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/15/77/2e258a5ff090226516c4338d682c6f8ed13e5be2ac7a67e6b452b04b0237/pysam-0.15.0-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,023 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0d/5d/d96d3662647a3cf33b1e3fe6d21eaecd00f47d39edbe4cd85486639cb603/pysam-0.15.0-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,023 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/47/da/6a0cc06c65acaea0b8830e632712d53fa8bc88ea19096038b3bef22b25da/pysam-0.15.0-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,024 Found link https://files.pythonhosted.org/packages/f9/c4/f1b6963a05f415aa69c8efd64ebe460d56d03ecc75db70b0e8606b589ade/pysam-0.15.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.15.0 2024-04-25T10:21:46,024 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b4/d8/9afa92bd4b48ebd6896d22bb7cdaeb5aa4577983333df5e99160c62fb6ff/pysam-0.15.1-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,024 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/66/6b/f1a4f142d884b6e1cda6542bf4b89ce88ad8465197511d83994f2cf6484d/pysam-0.15.1-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,025 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/69/5f/030c774b44932d2e23d773558679d553fb31dd5ecdb094b8e26b316de784/pysam-0.15.1-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,025 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/37/27/7d7ce83c0acac59b95849f2fb678484147f1e1393162ee0975cb7f84e53c/pysam-0.15.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,025 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/6f/f4/e12faf1618e977a868fe66d40288fc3dd989a10cc4c77603da33a7634a18/pysam-0.15.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,025 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/1e/04/3e22a04ade5291e968b3f3e9195929574221d86fd8982a4976a40b045060/pysam-0.15.1-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,026 Found link https://files.pythonhosted.org/packages/73/59/c319f1bde3019bbce4583cecb12b9e3e52ffcfbe2c96d8b1fb131c0d4fb7/pysam-0.15.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.15.1 2024-04-25T10:21:46,026 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/1b/7d/68b6555c7bb414b655495305d2add784c251fc83d4e698878e6d1d35fc9a/pysam-0.15.2-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,026 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0f/bd/f5ab828a9ff45a6ca14d5ea2a3580f720134052db258cd7ef929a4ed1d7a/pysam-0.15.2-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,027 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/4b/04/d5a6386b6d124bcdf27d81ab952e5d24e37ff98b97f992aa5b83c647e9c9/pysam-0.15.2-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,027 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/aa/e6/0b18d30c30e3690c5774446c1d7246c5e37c4710e38d93a20bb56cad4bc0/pysam-0.15.2-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,027 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f1/fc/d2be1a093bd8494ab63e3168aca36c2494753bbff190f3201ce2e7da9cda/pysam-0.15.2-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,028 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/20/1a/4fd27da2d19f7d914f757097605709a6509776b4cb63f42bca63f3531058/pysam-0.15.2-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,028 Found link https://files.pythonhosted.org/packages/15/f6/ce0611aaa1865a616f7dc164fbf046eaf38f2b17c6d404403c56250beb93/pysam-0.15.2.tar.gz (from https://pypi.org/simple/pysam/), version: 0.15.2 2024-04-25T10:21:46,028 Found link https://files.pythonhosted.org/packages/15/e7/2dab8bb0ac739555e69586f1492f0ff6bc4a1f8312992a83001d3deb77ac/pysam-0.15.3.tar.gz (from https://pypi.org/simple/pysam/), version: 0.15.3 2024-04-25T10:21:46,029 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/bc/99/5b711afad53f7ebdafc182bae1642fd764e569a8c0de9408ea6138c668b0/pysam-0.15.4-cp27-cp27m-macosx_10_6_intel.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,029 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/1b/28/60742ebf8afa6efdf7d2cc3552cbef24da33bf0f76b26b5afef2406683fd/pysam-0.15.4-cp27-cp27m-manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,029 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f2/c1/8f1562c2b89bc5606a3e8c57add0078af4cee3050507eac4b67b37309b16/pysam-0.15.4-cp27-cp27m-manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,029 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0e/f3/2b9802c61089f6c94c73f902f17046c416793da9242dfe73462e79ec4635/pysam-0.15.4-cp27-cp27mu-manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,030 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/68/7b/a54f66a8b126c0d6eefa3f71ebdd46bf967c0452759b553432e845e927f3/pysam-0.15.4-cp27-cp27mu-manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,030 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a9/c6/a337077e2cbae228a7f1b0ee1d97b240609c9377b6d46df9dc0a477eff73/pysam-0.15.4-cp35-cp35m-macosx_10_6_intel.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,030 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/55/9c/b064140318b64910f0a7938b385f10b88428aaa50f720038b2927a7db908/pysam-0.15.4-cp35-cp35m-manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,031 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/3f/b4/075c25bf8e1aaa11d178fdfe267d73f1ea14f9e90ecb0fe58cb98911bdc5/pysam-0.15.4-cp35-cp35m-manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,031 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b2/78/df321a985e93be0d2dbf2249e9d79a33131381e8d9ef5c965db643183561/pysam-0.15.4-cp36-cp36m-macosx_10_6_intel.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,031 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/47/cc/a9546377a762a84bd17ca313f182e8eba833e579a568c3d62571edd8c2f7/pysam-0.15.4-cp36-cp36m-manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,031 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/2b/01/2be4def91aeb50ccb963879b8193ca667087308696f2fe6aa86c6da9db72/pysam-0.15.4-cp36-cp36m-manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,032 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c1/b9/4a37921da49d89c855b0fae747843b7d07187edd4f35d0069a7b02ce89cc/pysam-0.15.4-cp37-cp37m-macosx_10_6_intel.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,032 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/7e/46/d3abc41217b9cdd97109ab648094915ea55038bfa1d7d880012652704b37/pysam-0.15.4-cp37-cp37m-manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,032 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/63/ee/2c5dacd21d02d3bb7c7baf03dba8f42bc4af8b02370b7e52b6e5425d2366/pysam-0.15.4-cp37-cp37m-manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,033 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ae/1d/8569d5bb7592afa48796e2fc743372eb690c776fe21dce0ccb9607a202cd/pysam-0.15.4-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,033 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/d3/77/b885532e487e15db1b78fa2ecf00ef6edf5f4743025080941f60924da6ea/pysam-0.15.4-cp38-cp38-manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,033 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/78/63/0e143ae469f418cfab28fb165936d4101e1b813e3ce657762d51723ab38a/pysam-0.15.4-cp38-cp38-manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,033 Found link https://files.pythonhosted.org/packages/25/7e/098753acbdac54ace0c6dc1f8a74b54c8028ab73fb027f6a4215487d1fea/pysam-0.15.4.tar.gz (from https://pypi.org/simple/pysam/), version: 0.15.4 2024-04-25T10:21:46,034 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f7/55/6f5ce9cfe9631c32b58d50be54b2d1ef7e53937d6e9208ac98ea41cc264b/pysam-0.16.0-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,034 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/1d/c6/49045eba4ae325d15e9de03802a633fe0d8e9ac2d02ad6de723ca99a9772/pysam-0.16.0-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,034 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/9c/24/537e86533e773c3dcb6bd05de60bf118cf8ccf60dcf24386a5c3807120bd/pysam-0.16.0-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,035 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/87/92/44f62c9b75b8f01f4671e7d4ac0951d3379126c7e2d280ebdcba3d7cb0df/pysam-0.16.0-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,035 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f9/21/dc7ec647d83a21a3b805a20f0039f466d5cfd4acc40f411aaf78da83ebb4/pysam-0.16.0-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,035 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b6/ad/442c56d798a3e8c762f71af8c8c7f75c16599f6e51e1f6dd4df1688ad6d7/pysam-0.16.0-cp38-cp38-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,035 Found link https://files.pythonhosted.org/packages/18/74/69018650a6ec9dae2eb2f710e158fa395134ce579c605f152e41890e7f3c/pysam-0.16.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.16.0 2024-04-25T10:21:46,036 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/9b/57/65c688a9f5757c82fc3954e5562725dbeaf3866f13d71d92d715263cd707/pysam-0.16.0.1-cp27-cp27m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,036 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/9b/ab/a7f2637b5bc8fb278aa9b5a5d4eab70856625c09b1d95328e3b78132847c/pysam-0.16.0.1-cp27-cp27mu-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,036 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ca/09/ad780f4430777a7bfca63ee2d4d4584436d2f31f010d6bab743cfc97da48/pysam-0.16.0.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,037 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/87/a1/73e80a7a873f3fb0e52d368a4343eb9882b737c932b95020d82251f1087e/pysam-0.16.0.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,037 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/20/85/335857b9888f6d9a13b03a8f21b0a6228b180c361631d9d70e7be3e22163/pysam-0.16.0.1-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,037 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/8c/e6/a26fac418a7481b5ce1ffc162fe033edc9a935536f893a0838842c011371/pysam-0.16.0.1-cp38-cp38-manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,038 Found link https://files.pythonhosted.org/packages/99/5a/fc440eb5fffb5346e61a38b49991aa552e4b8b31e8493a101d2833ed1e19/pysam-0.16.0.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.16.0.1 2024-04-25T10:21:46,038 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a5/28/88c9bc6527429dc7de1e8eee674cea4c9c6a0e6791b711a7dcf28ce96592/pysam-0.17.0-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,038 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ac/88/721b1d38c80f8183887dadc96be3422cdad13fb0acc7ffa73594f9bf1dac/pysam-0.17.0-cp36-cp36m-manylinux_2_5_i686.manylinux1_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,039 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/03/ef/6e7342dbe0571fa078bd312f07dcb9b0693b89f8f6fbdf7876e4423374b9/pysam-0.17.0-cp36-cp36m-manylinux_2_5_x86_64.manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,039 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/99/f7/e01c12c24e73fdf2d87cc601ff119a4e175a6215efe9eb7b19c4ad37e22c/pysam-0.17.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,039 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/12/71/7b479540c2baf07a082cf266d0ca34c73f8c77298fad12942225c7d580ac/pysam-0.17.0-cp37-cp37m-manylinux_2_5_i686.manylinux1_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,039 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/d7/67/72012321601a2a0ff98903a4d5b71f695682baa034f10d6f675c9c8d0aea/pysam-0.17.0-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,040 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/47/4a/63786ee93e636a16c478a06aa2589fb9280eb41199dfc2182313ff56c3f8/pysam-0.17.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,040 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/05/02/9f79e6d100f3520e9dd33398ca5727d126fb81075ed78d797c3cf8eb8f3c/pysam-0.17.0-cp38-cp38-manylinux_2_5_i686.manylinux1_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,040 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/22/94/f6b8e682f9456ff7e29715207169c0eb2d5a98741d82bc89daf3fa048f7b/pysam-0.17.0-cp38-cp38-manylinux_2_5_x86_64.manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,040 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b3/b6/1534473335178ece5b2133337564db90472b12b8dffe21124445b1847457/pysam-0.17.0-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,041 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/24/21/01fdca4c351f969629556a720599ea2daca3ce0bcf7cddc4b7c78b83da17/pysam-0.17.0-cp39-cp39-manylinux_2_5_i686.manylinux1_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,041 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/8a/af/723d22ff52b846efdbb693e00e8bdbc39bdcb2952b1deeb8551a9c842691/pysam-0.17.0-cp39-cp39-manylinux_2_5_x86_64.manylinux1_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,041 Found link https://files.pythonhosted.org/packages/bf/a6/b1802ac26bb501ce8dada6f41dd83cdf591ecc834f2c208b07c6d97eba84/pysam-0.17.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.17.0 2024-04-25T10:21:46,042 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/63/9a/d75f5da85e0bd0f9f56a6a70dbd01a27c06dc6e22a5821b0ed38abf4b78a/pysam-0.18.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,042 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/77/72/e3ca6db84546a87fe2932c0078a6f85df62b5358e0a34ac7225bbc23fc52/pysam-0.18.0-cp310-cp310-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,042 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/d8/01/c2917cad72433c4fad038b80cfd52eb79e9364636cd581efcc5fa1a6e0e0/pysam-0.18.0-cp310-cp310-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,043 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c5/10/a07e015f79b8f3a946a5f960cdf817e75bce99498acafc534b3355c73fa9/pysam-0.18.0-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,043 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/dd/df/d556f87e14106fb467be0a0c9a960930f5e6d0d825c99060e248831a3457/pysam-0.18.0-cp36-cp36m-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,043 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/69/9f/9be10fcf302feb446244d4691008a4899e94e19b3c8aeea461bd89c7ec3f/pysam-0.18.0-cp36-cp36m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,043 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ee/d2/ee6a3cb818db9c8cca8e7edd29526e2dca93fed1316a6c6cf7a9465a5b3b/pysam-0.18.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,044 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/06/0b/ae4a2a28d7f84f6bb09de5392e093c17a3d232b902b54bd3415b0919c9d8/pysam-0.18.0-cp37-cp37m-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,044 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b9/bc/2df0c67e2c2d6130b01fa0e4f8c137d5749bfb3d618d1c6a7dab450133aa/pysam-0.18.0-cp37-cp37m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,044 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/35/9a/dd9abdaacae2c23982612a218810f866e3f82ef3925f305d640bc9df7f28/pysam-0.18.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,044 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/4f/5a/cfb4cb6102335003a238e6d98e31ca23b42c9bef79cdf4ee55a1ab8b4cac/pysam-0.18.0-cp38-cp38-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,045 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/41/0f/4ffdea619a8898c936f6f1b909759486167976d761fc265f931119f0da1e/pysam-0.18.0-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,045 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/32/fb/4b78459c42ed9e7f5cee1304b6ecedcfcb74843619855ca4a1f15704a4bd/pysam-0.18.0-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,045 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/52/19/786e6b77ea6d3545ee145179da8d3d7a07ee9480a930ad6c647bf1e764f5/pysam-0.18.0-cp39-cp39-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,046 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b3/8b/13f22de05979c3aa2d2fb1c6627cf1846a59677ee457d30fe6e528d5938e/pysam-0.18.0-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,046 Found link https://files.pythonhosted.org/packages/15/79/00249a37089a6aecb70a4080f8af8d88e7005e2019c71e505c3ad3a0a018/pysam-0.18.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.18.0 2024-04-25T10:21:46,046 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/45/0a/2b0c483ea77567834b6e8185cd17cae2e40cca00534c5d8d61470b9efa90/pysam-0.19.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,046 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/23/17/4e4228ce33b8064b72266e68145911080eea227568a6b9c788e74ce5536f/pysam-0.19.0-cp310-cp310-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,047 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/e5/a2/021bb0875543d0712823884c41b25e52189315a6081fdf53a32861382b37/pysam-0.19.0-cp310-cp310-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,047 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f1/b2/e1f9fff5d7c6afd26ff1b1798d5404822d99185cebbf3ade43ceed4e6a7b/pysam-0.19.0-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,047 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/2e/a2/38e006ddb689d20c7842f7f00176f4f3c92a881350df67dde9c5894f8c7f/pysam-0.19.0-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,048 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ea/37/3c0c1ab1ad34d8c67db3052cb9301daeddedd3c84289b61cb95872324570/pysam-0.19.0-cp36-cp36m-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,048 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/17/45/c5020545abf3138c1f94a5324bc59dba5b4e42634fafebb171dc6fe13574/pysam-0.19.0-cp36-cp36m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,048 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b7/49/a21697b94eac17fa3a73c419c8bf999f5bef8d37e03c3dbfc987c7709572/pysam-0.19.0-cp36-cp36m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,048 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/e0/bb/26dabfedf33529cd17ea859450b46c2547b73aac6eff90573d1b8154abd1/pysam-0.19.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,049 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/da/70/79fec72c55234486f516684225a76903228511ba672783c245d0d4409a1b/pysam-0.19.0-cp37-cp37m-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,049 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/2a/6f/159e60484c50fabfac44783edce6208f1b8864eb001d690550a191f154b0/pysam-0.19.0-cp37-cp37m-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,049 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/09/56/16bdbd513b9d9df090ce7d5d03eeaa26b794b109fefda4fb8af7165446b9/pysam-0.19.0-cp37-cp37m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,050 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/79/a7/da0e9848b3a78c5c3770e8b77ae3e46dc42f0f8e7f1239e825a7a9c1fac1/pysam-0.19.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,050 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/dd/c5/8bb6517beb7acc3bb384ca98a66c9286003a946643bfd6de3ed1f9ea63a7/pysam-0.19.0-cp38-cp38-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,050 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/3f/ee/24ddc6dd4425d83bf9fb0b24aa840134d99a09509d819b6b1393fcb27e16/pysam-0.19.0-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,050 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/eb/41/4b65a3840c8bc14a4c97d9c66f66a6c08a30d8cc58ef9b45ee9de3bf5fe4/pysam-0.19.0-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,051 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/05/28/475ceedb85a8ef357af5b5394e9ef4ae0a317de651ff9ac6307e6f527b2d/pysam-0.19.0-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,051 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/7e/fb/347f914e5873ec7405b95891fa605c3330d24462f00e7d230b7eb8e3df4c/pysam-0.19.0-cp39-cp39-manylinux_2_12_i686.manylinux2010_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,051 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/fa/31/570861d7b2eb6d605454a80ded377a0945bcc0cd19e804f29503d0f38aca/pysam-0.19.0-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,051 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/03/86/c40d02c99a7da3026ed69add5b2581a31f8d18676f2401811df227d17655/pysam-0.19.0-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,052 Found link https://files.pythonhosted.org/packages/ee/95/aef9a843807c00bb6b4e6c0cad0e69aa161ecc0591f3ece985fd24298f21/pysam-0.19.0.tar.gz (from https://pypi.org/simple/pysam/), version: 0.19.0 2024-04-25T10:21:46,052 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a7/82/968480f3e29bcc8dfd8b0a70654eb9e68f6b4d1e82e2a097615a8fa23d1a/pysam-0.19.1-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,052 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/8f/fd/ff98658c0ca63a18269937330229447bcecda36845b896bc53b0ccf0e3c8/pysam-0.19.1-cp310-cp310-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,053 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/b7/fd/2a054df7bed8080b6e973d5cece0c1a0b2b29fc7caec305bd74a957a4694/pysam-0.19.1-cp310-cp310-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,053 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/85/74/25e9707eca858bd1d838673798da26388e4bb70b5055e6a932857e8d7193/pysam-0.19.1-cp310-cp310-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,053 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/42/b8/22dca6472627ca6db890b8b96fe3072c1664bcc8dea0de72bc4ad5d5c06d/pysam-0.19.1-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,054 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/4e/80/6a74aa85894649e1fe6c54cc967b34c5038184504b30babb2dfa4e659aca/pysam-0.19.1-cp36-cp36m-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,054 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a3/16/9698f98a5158e6a54af67a690791e96de5e7bec25fc0a85c71f07562d4dc/pysam-0.19.1-cp36-cp36m-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,054 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/1b/76/a240c320d38f7b1b0276ec813a86b62706d0889e10e45a3b75199d46d21d/pysam-0.19.1-cp36-cp36m-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,054 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/23/9a/b5331a776d809d480ae8de43e3dfd4f4f95e0c8fde2ae7ba1834f55541c1/pysam-0.19.1-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,055 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/06/3f/19b41f46e1d3d87c436953561d58b13cd7cb0d1cb427dab43219ac772d21/pysam-0.19.1-cp37-cp37m-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,055 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a3/df/d21eb45113df10eed4643a3dccc88dcc9ffaaaa68b05cc64c95224e17682/pysam-0.19.1-cp37-cp37m-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,055 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/89/aa/8d3f39218e6195306226bde4501ca472ea6a949bffaae3ed524a0979d197/pysam-0.19.1-cp37-cp37m-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,055 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f5/b8/0d014ca37b39e082de98c8e663082ffc2dae5ee96ce9781527f5f8e1339d/pysam-0.19.1-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,056 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/39/d6/3dcb9d0304c265e95bf2f75e1f3caa1c9994569215f513f164bef22b8ff6/pysam-0.19.1-cp38-cp38-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,056 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/16/3a/c8705be2ef8c58abf5acd99d9acc4da2b4587db883622fbbe4064d79cd7d/pysam-0.19.1-cp38-cp38-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,056 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a8/69/4618c6f6fc55fc014f32b273d572244244180dd2c38c21b3a4bd4b7db482/pysam-0.19.1-cp38-cp38-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,056 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c2/ba/ad4f8bf3c1040c383480315dc95430c191ae5efc90e425498b84f7b277d5/pysam-0.19.1-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,057 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/18/87/deed4855181dd5c2ebd0781aa80e8d2978d43b0ce0faefec609b45bd2767/pysam-0.19.1-cp39-cp39-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,057 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a8/21/97ca4f1e0766aae90bce672581edfbd791656f7b65689dc38de6c906ee86/pysam-0.19.1-cp39-cp39-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,057 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/a6/b8/ca778d0daaf989a10afac71db2427784b430b2b73c586cb9a0bfa408afd4/pysam-0.19.1-cp39-cp39-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,058 Found link https://files.pythonhosted.org/packages/a0/10/f6d705984838f8620ff597dd99d3904aea7727b4824bee22de8f44b4ebd4/pysam-0.19.1.tar.gz (from https://pypi.org/simple/pysam/), version: 0.19.1 2024-04-25T10:21:46,058 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/12/e8/1157591647bef8afbdda82b3a9aeeacc3b57dcff22ec546b2b7dc03641a2/pysam-0.20.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,058 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/10/b5/1fe09bbff3ea6bbb6d8211758736327144c00505204a942bb312f5a869c1/pysam-0.20.0-cp310-cp310-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,059 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/e5/67/42f8148cdc23559593023a4394b3043c280efc1439dd2f5f414f38e6f2c1/pysam-0.20.0-cp310-cp310-manylinux_2_24_i686.whl (from 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https://files.pythonhosted.org/packages/b2/23/7091e3182e685a7832425178f6b6e73593f9cff0ba51b5a71b43ef2525b9/pysam-0.20.0-cp36-cp36m-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,060 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/e8/2c/f989a55927eb416520e64ee711665ef589b8095a385c2564e1e15226e597/pysam-0.20.0-cp36-cp36m-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,060 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ec/6a/8d73eda449bede59734254688ccb182493667467aa8c2be0dbf64fa68689/pysam-0.20.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,061 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/eb/65/e69e94905ea18ee478066b96863ef2d91f026661f4bb18106f6b0a532f24/pysam-0.20.0-cp37-cp37m-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,061 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/d9/49/a5d747be0e8f0044f52610ceed25b27a15a419b3f46f425507636f137484/pysam-0.20.0-cp37-cp37m-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,061 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/1a/f1/05fa22e7917afa8b0506d9dadc885324544f759d8a25cdd331bdad47d580/pysam-0.20.0-cp37-cp37m-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,061 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/c3/2c/23e8e5cdd6a91a50923653a77c05db872f865a43becac463f0b2963a8199/pysam-0.20.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,062 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/31/e7/019194574aa007c7dd6fe7ac1558d540fb397da4e8eb765542fdb92ec25b/pysam-0.20.0-cp38-cp38-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,062 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/34/3a/b0d850cfd1fc16ebfd44015af3dfe300eb3f7a39f495629b30685daa9e50/pysam-0.20.0-cp38-cp38-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,062 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/58/3f/746463a52b7e43ccd7ace167a4c64f96cb8a5fcd14a3cdae9c36deb28d41/pysam-0.20.0-cp38-cp38-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,062 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0d/f8/db158ef30ca895c78c9265f70be9c8e225857d2aa62825d879c775879cf7/pysam-0.20.0-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,063 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/fd/97/91a89da0db78e9f60d9107131b5725dd114d6c109cd78728b1c793dd884d/pysam-0.20.0-cp39-cp39-manylinux_2_24_aarch64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,063 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/2c/22/85a2be2a21e3c31657b6c4726237dd1335faff64aeadb999f31671a3cbb5/pysam-0.20.0-cp39-cp39-manylinux_2_24_i686.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,063 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ad/dc/93c92f425e61b22ae175cf4a83d8ba192bc82e9671f1cce262a92ae86911/pysam-0.20.0-cp39-cp39-manylinux_2_24_x86_64.whl (from https://pypi.org/simple/pysam/) 2024-04-25T10:21:46,064 Found link https://files.pythonhosted.org/packages/e3/ad/b300abaf0de2834104b671db5aebe71616d7a36fa09a2b8a03068eb7e932/pysam-0.20.0.tar.gz (from https://pypi.org/simple/pysam/), 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https://files.pythonhosted.org/packages/43/2a/de24972a7fde545aec7d3e59230f51b004e407d327087f4a90b7912cb679/pysam-0.22.1-cp312-cp312-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,078 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f6/2c/d226f2db96fda51f7ab70c5256691def40af4879b6b5ffadda2c676ac5e5/pysam-0.22.1-cp312-cp312-macosx_11_0_arm64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,078 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/f5/6b/27106562f2477d38c0d8efa452839505877e335da12ace6bf993b7bee4dd/pysam-0.22.1-cp312-cp312-manylinux_2_28_aarch64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,078 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/0c/fe/ce252dce8e5dd7ae06fd2036b5a146c1200598346ee70cbeb0a44740aa6b/pysam-0.22.1-cp312-cp312-manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,078 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/01/e8/57833ca31e6c14d0560895612fc7974fb9516f324370b3577a2babb8c04e/pysam-0.22.1-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,078 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/97/4f/8b1500b39e2dc06767f5e4786ab96fef34c327444e285e49a8ba0ad335a5/pysam-0.22.1-cp36-cp36m-manylinux_2_28_aarch64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,079 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/4b/01/d6545ddce6aa8980ca973e3eac6fd456a000bae98f47f550aec4d6ae86be/pysam-0.22.1-cp36-cp36m-manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,079 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ac/7e/36b4cc32e5549b36786b5644eb23b44de35db629a2e7f7f83d01865261a5/pysam-0.22.1-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,079 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/56/5b/8136711a4c9293fdd36b70f8b2741ba46b6bf631094b3f4a6560c7fedc99/pysam-0.22.1-cp37-cp37m-manylinux_2_28_aarch64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,079 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/99/83/5de2992ecc7b54306bccfa70d59fb705b38b67e5c1e9314a9ad7427f643c/pysam-0.22.1-cp37-cp37m-manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,079 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/ae/20/5c57003277b3888979c34105056862447337dcd92e68d3e19e2df0ab9ba1/pysam-0.22.1-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,080 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/98/c0/e518d14fc3d115b47c16a5bf9baa508e7b73f247df610ba45b14d053ac7c/pysam-0.22.1-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,080 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/89/a9/56519bdf55f239b2766fc971bbaddfa87a695f55624af3875583ca718ad8/pysam-0.22.1-cp38-cp38-manylinux_2_28_aarch64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,080 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/7d/a6/c2cda684ef8bfd412bc7fc0322e69aa50897a88acad732eefcf50538c51a/pysam-0.22.1-cp38-cp38-manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,080 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/9b/2d/e5883ac46afc669e8f1a9d23f630e558980249ce758215925369ac3fa7db/pysam-0.22.1-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,080 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/d5/79/7a7409705f226a5a887ae271b782c3d8afc4f363658f6f42a11061602f21/pysam-0.22.1-cp39-cp39-macosx_11_0_arm64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,081 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/63/cc/bb33737c9804cbf072e00e32049680c96a8b3698b63c269fae233f48c77d/pysam-0.22.1-cp39-cp39-manylinux_2_28_aarch64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,081 Skipping link: No binaries permitted for pysam: https://files.pythonhosted.org/packages/7b/e3/237dc1594b1bed6c98eb3156d7791dd96399e78103e8d6bce110feb8c08c/pysam-0.22.1-cp39-cp39-manylinux_2_28_x86_64.whl (from https://pypi.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,081 Found link https://files.pythonhosted.org/packages/a6/bc/e0a79d74137643940f5406121039d1272f29f55c5330e7b43484b2259da5/pysam-0.22.1.tar.gz (from https://pypi.org/simple/pysam/) (requires-python:>=3.6), version: 0.22.1 2024-04-25T10:21:46,082 Fetching project page and analyzing links: https://www.piwheels.org/simple/pysam/ 2024-04-25T10:21:46,082 Getting page https://www.piwheels.org/simple/pysam/ 2024-04-25T10:21:46,083 Found index url https://www.piwheels.org/simple/ 2024-04-25T10:21:46,231 Fetched page https://www.piwheels.org/simple/pysam/ as text/html 2024-04-25T10:21:46,277 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.22.1-cp37-cp37m-linux_armv6l.whl#sha256=d7890b6c500754f344eb67d7ce8cd3bcfd9d257615d5f7a4a256caa3e2dcf990 (from https://www.piwheels.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,278 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.22.1-cp37-cp37m-linux_armv7l.whl#sha256=d7890b6c500754f344eb67d7ce8cd3bcfd9d257615d5f7a4a256caa3e2dcf990 (from https://www.piwheels.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,278 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.22.1-cp311-cp311-linux_armv6l.whl#sha256=00a94665cab5e16c8b006ce9e4eb95f21e9d04afa3762f0d29fbed42911c7919 (from https://www.piwheels.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,278 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.22.1-cp311-cp311-linux_armv7l.whl#sha256=00a94665cab5e16c8b006ce9e4eb95f21e9d04afa3762f0d29fbed42911c7919 (from https://www.piwheels.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,278 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.22.0-cp311-cp311-linux_armv6l.whl#sha256=5a4512ae0b78c15a4e6cdab0dbe74604e8dcc7dea326c81d676e6c5c2a8df26c (from https://www.piwheels.org/simple/pysam/) (requires-python:>=3.6) 2024-04-25T10:21:46,279 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,282 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.19.1-cp35-cp35m-linux_armv7l.whl#sha256=ff1cdd21402402c39bafb46fe2a8a7ce876b42357bca356a304320b873cb2282 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,282 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.19.1-cp37-cp37m-linux_armv6l.whl#sha256=2330513e39b52a262391ff1a6d42ed45855452935626eebcc5d881eb4be1b2c1 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,282 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.19.1-cp37-cp37m-linux_armv7l.whl#sha256=2330513e39b52a262391ff1a6d42ed45855452935626eebcc5d881eb4be1b2c1 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,282 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,283 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.19.0-cp39-cp39-linux_armv6l.whl#sha256=abc5f7ca00dd7854f7f5be295b785c43b5b3c29f155ad73f0da2e75af9bbd0b6 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,283 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.19.0-cp39-cp39-linux_armv7l.whl#sha256=abc5f7ca00dd7854f7f5be295b785c43b5b3c29f155ad73f0da2e75af9bbd0b6 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,283 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.18.0-cp35-cp35m-linux_armv6l.whl#sha256=43c9d64012c0bfedaed47b3e6a06d9191b018d315a9894ec814d3f6482421c05 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,284 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.18.0-cp35-cp35m-linux_armv7l.whl#sha256=43c9d64012c0bfedaed47b3e6a06d9191b018d315a9894ec814d3f6482421c05 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,284 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.18.0-cp37-cp37m-linux_armv6l.whl#sha256=ffb98d45af97cc1a83877daaa66e751cac89ef2bafb7309355bcc7aad746cae7 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,284 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.18.0-cp37-cp37m-linux_armv7l.whl#sha256=ffb98d45af97cc1a83877daaa66e751cac89ef2bafb7309355bcc7aad746cae7 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,284 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.18.0-cp39-cp39-linux_armv6l.whl#sha256=bced640fbf8ace81d87f3987edb796cd87595e2187087985e55a19a09f61beae (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,284 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.18.0-cp39-cp39-linux_armv7l.whl#sha256=bced640fbf8ace81d87f3987edb796cd87595e2187087985e55a19a09f61beae (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,285 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.17.0-cp37-cp37m-linux_armv6l.whl#sha256=2fc2f9d80047eb421cc31c6ae3a0c03344b1d5f4dd4d930bf3a77a1c996ff4d5 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,285 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.17.0-cp37-cp37m-linux_armv7l.whl#sha256=2fc2f9d80047eb421cc31c6ae3a0c03344b1d5f4dd4d930bf3a77a1c996ff4d5 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,285 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.17.0-cp35-cp35m-linux_armv6l.whl#sha256=d064a168685618a43e6bd8273d88d19ef40e89acc2276efda1d619185d149b5a (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,285 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.17.0-cp35-cp35m-linux_armv7l.whl#sha256=d064a168685618a43e6bd8273d88d19ef40e89acc2276efda1d619185d149b5a (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,285 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.17.0-cp39-cp39-linux_armv6l.whl#sha256=eaf2bc89169869052d491a0d13c93889b72d0f8eb53fa05805ac3f4dac239b59 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,285 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.17.0-cp39-cp39-linux_armv7l.whl#sha256=eaf2bc89169869052d491a0d13c93889b72d0f8eb53fa05805ac3f4dac239b59 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,286 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0.1-cp34-cp34m-linux_armv6l.whl#sha256=eda5dc98fdf3820ff830d0bfdcf4f1cd4b165073480d35425d31270ff4461e91 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,286 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0.1-cp34-cp34m-linux_armv7l.whl#sha256=eda5dc98fdf3820ff830d0bfdcf4f1cd4b165073480d35425d31270ff4461e91 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,286 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0.1-cp35-cp35m-linux_armv7l.whl#sha256=8653f518db5c738aab3b6a12e0fbfd36245ddd78375cee9a0f6e5c066070f892 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,286 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,287 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0.1-cp39-cp39-linux_armv7l.whl#sha256=5dd1936e862f220b58ec528032224b67ebb11d86663004141e538c25818d7d5d (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,287 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp34-cp34m-linux_armv6l.whl#sha256=be9af17f6da8f632329820756855738acaa0af49cfec713f718923b46a300231 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,287 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp34-cp34m-linux_armv7l.whl#sha256=be9af17f6da8f632329820756855738acaa0af49cfec713f718923b46a300231 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,288 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp35-cp35m-linux_armv6l.whl#sha256=3f2ab4eb88bd29ebdadb6a030db9daa1a08093930c19ee9d6d2e132d3cc7fbfb (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,288 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp35-cp35m-linux_armv7l.whl#sha256=3f2ab4eb88bd29ebdadb6a030db9daa1a08093930c19ee9d6d2e132d3cc7fbfb (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,288 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp37-cp37m-linux_armv6l.whl#sha256=0ea8f2a31eb4fe9b63faa9568018f24905a3eec27d604487bf016925d66a5e6b (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,288 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp37-cp37m-linux_armv7l.whl#sha256=0ea8f2a31eb4fe9b63faa9568018f24905a3eec27d604487bf016925d66a5e6b (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,288 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp39-cp39-linux_armv6l.whl#sha256=f362a21d3d76e12110a57f6a4318e7c6ce8d4428993de45100ee729c34870663 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,288 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.16.0-cp39-cp39-linux_armv7l.whl#sha256=f362a21d3d76e12110a57f6a4318e7c6ce8d4428993de45100ee729c34870663 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,289 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.4-cp37-cp37m-linux_armv6l.whl#sha256=7cb3ca927656dba4156f14b6b3610b966278b18f444e00aea9ffac982ba819d1 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,289 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,290 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.4-cp39-cp39-linux_armv7l.whl#sha256=4cfa381ee91c4311118a9780b7b07170f4f9550e5d5e4dd0da3bd4a16d7786fb (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,290 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.3-cp35-cp35m-linux_armv6l.whl#sha256=5c047d54e81b6a5b5e981f5cb06c1a254a88430aab077f1383a46f1cf3a89c53 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,290 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.3-cp35-cp35m-linux_armv7l.whl#sha256=5c047d54e81b6a5b5e981f5cb06c1a254a88430aab077f1383a46f1cf3a89c53 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,290 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,291 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.2-cp34-cp34m-linux_armv6l.whl#sha256=5d8b5904f634744175e0a043ed83158fed4b4f550eda55f17f1daebdb8b96b55 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,291 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.2-cp34-cp34m-linux_armv7l.whl#sha256=5d8b5904f634744175e0a043ed83158fed4b4f550eda55f17f1daebdb8b96b55 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,291 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.2-cp35-cp35m-linux_armv6l.whl#sha256=820073712c7e0bf84113e262c24f403dc5cc2c1e99fdd2e4136805108492e779 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,291 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,292 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.1-cp35-cp35m-linux_armv6l.whl#sha256=36c58484ffb0bc79775ede3b973fa8119a25e285a9aa1fd925c7b2a7585cd96f (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,292 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.0-cp35-cp35m-linux_armv7l.whl#sha256=40b2010ca6af5e85f9945799141129378049c795c08e72e1902be7afa7d8760c (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,292 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.15.0-cp35-cp35m-linux_armv6l.whl#sha256=40b2010ca6af5e85f9945799141129378049c795c08e72e1902be7afa7d8760c (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,293 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/pysam-0.12.0.1-cp35-cp35m-linux_armv7l.whl#sha256=1632c7664591cdf1025c90d351eadf4e982f22e8eb5265f101e8c1bad3f2bfcc (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,295 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.12-cp34-cp34m-linux_armv7l.whl#sha256=c94eb91b2a476b0f28dffe6194d72d1853055291b9453996e0414cf39391af23 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,296 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.12-cp35-cp35m-linux_armv6l.whl#sha256=822538c1598af9814465b2d57bd13f4a72f3084489090e3ad84abb3b9b7e5cc8 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,296 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.12-cp35-cp35m-linux_armv7l.whl#sha256=822538c1598af9814465b2d57bd13f4a72f3084489090e3ad84abb3b9b7e5cc8 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,296 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.2.2-cp35-cp35m-linux_armv6l.whl#sha256=1f1f6f20aec143dc81cdc6ea8fb982878908d6be7fb215138f52a317af39b007 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,296 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.2.2-cp35-cp35m-linux_armv7l.whl#sha256=1f1f6f20aec143dc81cdc6ea8fb982878908d6be7fb215138f52a317af39b007 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,296 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.2.2-cp34-cp34m-linux_armv7l.whl#sha256=8b007f54c76d032f142f66ce3f52ab28ecbfe04b90140f1c094c7ee27a8efc20 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,297 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,297 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.2.1-cp34-cp34m-linux_armv6l.whl#sha256=9f13d6f9766fa718aab7a502acbeab90b9d973cd6104099d296c2123e17df4c8 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,297 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.2-cp35-cp35m-linux_armv7l.whl#sha256=3fd464df4ebf726c766df1e7259bf9ed27efbd15b054fea9ff61317c1642bdff (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,298 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.2-cp35-cp35m-linux_armv6l.whl#sha256=3fd464df4ebf726c766df1e7259bf9ed27efbd15b054fea9ff61317c1642bdff (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,298 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.1-cp34-cp34m-linux_armv7l.whl#sha256=130adc0c1b0f703615373fe89ccad779c842d4f817d9eee51cb4d7f1d583fb66 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,298 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.1-cp34-cp34m-linux_armv6l.whl#sha256=130adc0c1b0f703615373fe89ccad779c842d4f817d9eee51cb4d7f1d583fb66 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,298 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.1-cp35-cp35m-linux_armv6l.whl#sha256=38bdff111afd0e08e7c45083834ff94f952d6b1d721effe141ee16709e8c43a9 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,298 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11.1-cp35-cp35m-linux_armv7l.whl#sha256=38bdff111afd0e08e7c45083834ff94f952d6b1d721effe141ee16709e8c43a9 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,299 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11-cp35-cp35m-linux_armv6l.whl#sha256=9e42cacee2c0d3d6262960825be47e53245b36b9176166d7a0c8b34793ab3e4c (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,299 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11-cp35-cp35m-linux_armv7l.whl#sha256=9e42cacee2c0d3d6262960825be47e53245b36b9176166d7a0c8b34793ab3e4c (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,299 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.11-cp34-cp34m-linux_armv7l.whl#sha256=caa6a1fe172960233e539844a6ec94ff5f730450b8e5d75546ed95e72093d251 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,299 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,300 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1.4-cp35-cp35m-linux_armv6l.whl#sha256=e08db72fe5fe0c0fdaaa68e90317bfd49d91724f88a0c7336ee58cb5434e057f (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,300 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1.4-cp34-cp34m-linux_armv7l.whl#sha256=6d5642b4b9d4406ee1c1a1e6707988f7e1e1eb95175d6e696db12cc33239bdbc (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,300 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1.4-cp34-cp34m-linux_armv6l.whl#sha256=6d5642b4b9d4406ee1c1a1e6707988f7e1e1eb95175d6e696db12cc33239bdbc (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,300 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,301 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1.2-cp35-cp35m-linux_armv7l.whl#sha256=c720ae8dd1d59c930e40bd060397fa5a19b3ee23f5bf285b6691799ea1585c6f (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,301 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1.2-cp35-cp35m-linux_armv6l.whl#sha256=c720ae8dd1d59c930e40bd060397fa5a19b3ee23f5bf285b6691799ea1585c6f (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,302 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1.2-cp34-cp34m-linux_armv7l.whl#sha256=92f79453d075cab8b9c95cc0a346d4190c95f9648f1edb66ed894e5fb1fae0b3 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,302 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,302 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1.1-cp35-cp35m-linux_armv6l.whl#sha256=c1bd616061b68894916b9830ac6e0c3bda4cf391b2e0b12dc1909f09fdef5e1a (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,303 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1-cp35-cp35m-linux_armv6l.whl#sha256=8fd5cdc4e53ddd0cf566144d5bb0e6cd9e48f30e2f2e689a08929c7fe6436adb (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,303 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.9.1-cp35-cp35m-linux_armv7l.whl#sha256=8fd5cdc4e53ddd0cf566144d5bb0e6cd9e48f30e2f2e689a08929c7fe6436adb (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,303 Skipping link: No binaries permitted for pysam: 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https://www.piwheels.org/simple/pysam/pysam-0.8.4-cp35-cp35m-linux_armv6l.whl#sha256=0f6e3e082682baee36123ad2dfdccc21ca209d7f6138ae8aa7eaa6cf846b463b (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,304 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.4-cp34-cp34m-linux_armv7l.whl#sha256=6847c5b03d052b38a4b9e2fecca445c28a2e1b739c6b78db6b35bb7059cc1edd (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,305 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.4-cp34-cp34m-linux_armv6l.whl#sha256=6847c5b03d052b38a4b9e2fecca445c28a2e1b739c6b78db6b35bb7059cc1edd (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,305 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.3-cp34-cp34m-linux_armv7l.whl#sha256=f9590cb1e4aa53d7fba838ab7f024ad1d6634af160a28030e42177d769107d7c (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,305 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.3-cp34-cp34m-linux_armv6l.whl#sha256=f9590cb1e4aa53d7fba838ab7f024ad1d6634af160a28030e42177d769107d7c (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,305 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.3-cp35-cp35m-linux_armv6l.whl#sha256=0e9f56eab761851799543b69d6789aedf7c3b4cf9f435b49924145ad17578da9 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,305 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.3-cp35-cp35m-linux_armv7l.whl#sha256=0e9f56eab761851799543b69d6789aedf7c3b4cf9f435b49924145ad17578da9 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,306 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2.1-cp35-cp35m-linux_armv6l.whl#sha256=06d7abe7ada0496d0562d699f3870f16b053149fde78eb8161eee3d6a1804e06 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,306 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2.1-cp35-cp35m-linux_armv7l.whl#sha256=06d7abe7ada0496d0562d699f3870f16b053149fde78eb8161eee3d6a1804e06 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,306 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2.1-cp34-cp34m-linux_armv7l.whl#sha256=3922a006fb3ebf65663b7b939cbf5910c86f5a7296cb7a3872d48922b4d8c797 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,306 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2.1-cp34-cp34m-linux_armv6l.whl#sha256=3922a006fb3ebf65663b7b939cbf5910c86f5a7296cb7a3872d48922b4d8c797 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,306 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2-cp35-cp35m-linux_armv6l.whl#sha256=c81d7b98d9aed718e77d931e08c561c48a95c4ad3e041b26c88ca3673ecfcf7d (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,307 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2-cp35-cp35m-linux_armv7l.whl#sha256=c81d7b98d9aed718e77d931e08c561c48a95c4ad3e041b26c88ca3673ecfcf7d (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,307 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2-cp34-cp34m-linux_armv7l.whl#sha256=8539e2409d8466e0706c2c8022075f1e218ae4e0950f4747032fdf35f3d34d8e (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,307 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.2-cp34-cp34m-linux_armv6l.whl#sha256=8539e2409d8466e0706c2c8022075f1e218ae4e0950f4747032fdf35f3d34d8e (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,307 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.1-cp35-cp35m-linux_armv6l.whl#sha256=b20c922d81b119eba54e72ff66c829aec476e09664cd89d654556d740bec9b12 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,307 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.1-cp35-cp35m-linux_armv7l.whl#sha256=b20c922d81b119eba54e72ff66c829aec476e09664cd89d654556d740bec9b12 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,307 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.1-cp34-cp34m-linux_armv7l.whl#sha256=ec65574154de7191d834235df8d3e1eaf427adb45344a1f3641a1363e11734f5 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,308 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.1-cp34-cp34m-linux_armv6l.whl#sha256=ec65574154de7191d834235df8d3e1eaf427adb45344a1f3641a1363e11734f5 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,308 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.0-cp34-cp34m-linux_armv7l.whl#sha256=6030cc5a597c0317594de522e1ef9401e1ec4480d086fdcdc8fe61cedb149084 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,308 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.8.0-cp34-cp34m-linux_armv6l.whl#sha256=6030cc5a597c0317594de522e1ef9401e1ec4480d086fdcdc8fe61cedb149084 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,308 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.7.8-cp34-cp34m-linux_armv7l.whl#sha256=5ff0cd52bfbaf46b34fbfed5bcd5611ee602a28c3ef915ab04f80e8faff03906 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,308 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.7.8-cp34-cp34m-linux_armv6l.whl#sha256=5ff0cd52bfbaf46b34fbfed5bcd5611ee602a28c3ef915ab04f80e8faff03906 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,309 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.7.7-cp34-cp34m-linux_armv7l.whl#sha256=116fc51605a8eb89dba9220b844cbe8006453019223950169ea6337886e06de7 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,309 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.7.7-cp34-cp34m-linux_armv6l.whl#sha256=116fc51605a8eb89dba9220b844cbe8006453019223950169ea6337886e06de7 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,309 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.7.6-cp34-cp34m-linux_armv7l.whl#sha256=eff228d61049aef6592c8e93f2629f0b1e2a080b37065f21646ff9f393020207 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,309 Skipping link: No binaries permitted for pysam: https://www.piwheels.org/simple/pysam/pysam-0.7.6-cp34-cp34m-linux_armv6l.whl#sha256=eff228d61049aef6592c8e93f2629f0b1e2a080b37065f21646ff9f393020207 (from https://www.piwheels.org/simple/pysam/) 2024-04-25T10:21:46,309 Skipping link: not a file: https://www.piwheels.org/simple/pysam/ 2024-04-25T10:21:46,310 Skipping link: not a file: https://pypi.org/simple/pysam/ 2024-04-25T10:21:46,331 Given no hashes to check 1 links for project 'pysam': discarding no candidates 2024-04-25T10:21:46,347 Collecting pysam==0.22.1 2024-04-25T10:21:46,349 Created temporary directory: /tmp/pip-unpack-gsv8g83y 2024-04-25T10:21:46,392 Downloading pysam-0.22.1.tar.gz (4.6 MB) 2024-04-25T10:21:48,900 Added pysam==0.22.1 from https://files.pythonhosted.org/packages/a6/bc/e0a79d74137643940f5406121039d1272f29f55c5330e7b43484b2259da5/pysam-0.22.1.tar.gz to build tracker '/tmp/pip-build-tracker-0p2_266x' 2024-04-25T10:21:48,909 Created temporary directory: /tmp/pip-build-env-dd06osrq 2024-04-25T10:21:48,924 Installing build dependencies: started 2024-04-25T10:21:48,925 Running command pip subprocess to install build dependencies 2024-04-25T10:21:50,156 Using pip 24.0 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2024-04-25T10:21:50,698 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-04-25T10:21:52,225 Collecting setuptools>=59.0 2024-04-25T10:21:52,241 Using cached https://www.piwheels.org/simple/setuptools/setuptools-69.5.1-py3-none-any.whl (894 kB) 2024-04-25T10:21:53,643 Collecting Cython<4,>=0.29.12 2024-04-25T10:21:53,660 Using cached https://www.piwheels.org/simple/cython/Cython-3.0.10-cp39-cp39-linux_armv7l.whl (10.7 MB) 2024-04-25T10:21:55,816 Installing collected packages: setuptools, Cython 2024-04-25T10:22:01,479 Creating /tmp/pip-build-env-dd06osrq/overlay/bin 2024-04-25T10:22:01,481 changing mode of /tmp/pip-build-env-dd06osrq/overlay/bin/cygdb to 755 2024-04-25T10:22:01,483 changing mode of /tmp/pip-build-env-dd06osrq/overlay/bin/cython to 755 2024-04-25T10:22:01,485 changing mode of /tmp/pip-build-env-dd06osrq/overlay/bin/cythonize to 755 2024-04-25T10:22:01,505 Successfully installed Cython-3.0.10 setuptools-69.5.1 2024-04-25T10:22:02,048 Installing build dependencies: finished with status 'done' 2024-04-25T10:22:02,053 Getting requirements to build wheel: started 2024-04-25T10:22:02,054 Running command Getting requirements to build wheel 2024-04-25T10:22:02,598 # pysam: cython is available - using cythonize if necessary 2024-04-25T10:22:02,598 # pysam: htslib mode is shared 2024-04-25T10:22:02,599 # pysam: HTSLIB_CONFIGURE_OPTIONS=None 2024-04-25T10:22:02,599 # pysam: (sysconfig) CC=arm-linux-gnueabihf-gcc -pthread 2024-04-25T10:22:02,599 # pysam: (sysconfig) CFLAGS=-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 2024-04-25T10:22:02,599 # pysam: (sysconfig) LDFLAGS= -Wl,-z,relro -g -fwrapv -O2 2024-04-25T10:22:02,924 checking for gcc... arm-linux-gnueabihf-gcc -pthread 2024-04-25T10:22:03,182 checking whether the C compiler works... yes 2024-04-25T10:22:03,183 checking for C compiler default output file name... a.out 2024-04-25T10:22:03,345 checking for suffix of executables... 2024-04-25T10:22:03,565 checking whether we are cross compiling... no 2024-04-25T10:22:03,654 checking for suffix of object files... o 2024-04-25T10:22:03,732 checking whether we are using the GNU C compiler... yes 2024-04-25T10:22:03,809 checking whether arm-linux-gnueabihf-gcc -pthread accepts -g... yes 2024-04-25T10:22:03,932 checking for arm-linux-gnueabihf-gcc -pthread option to accept ISO C89... none needed 2024-04-25T10:22:03,935 checking for ranlib... ranlib 2024-04-25T10:22:03,945 checking for grep that handles long lines and -e... /usr/bin/grep 2024-04-25T10:22:04,001 checking for C compiler warning flags... unknown 2024-04-25T10:22:04,108 checking how to run the C preprocessor... arm-linux-gnueabihf-gcc -pthread -E 2024-04-25T10:22:04,219 checking for egrep... /usr/bin/grep -E 2024-04-25T10:22:04,701 checking for ANSI C header files... yes 2024-04-25T10:22:04,817 checking for sys/types.h... yes 2024-04-25T10:22:04,950 checking for sys/stat.h... yes 2024-04-25T10:22:05,084 checking for stdlib.h... yes 2024-04-25T10:22:05,246 checking for string.h... yes 2024-04-25T10:22:05,382 checking for memory.h... yes 2024-04-25T10:22:05,518 checking for strings.h... yes 2024-04-25T10:22:05,660 checking for inttypes.h... yes 2024-04-25T10:22:05,799 checking for stdint.h... yes 2024-04-25T10:22:05,977 checking for unistd.h... yes 2024-04-25T10:22:06,149 checking whether _XOPEN_SOURCE is declared... no 2024-04-25T10:22:06,319 checking C compiler flags needed for ssse3... none 2024-04-25T10:22:06,486 checking C compiler flags needed for popcnt... none 2024-04-25T10:22:06,653 checking C compiler flags needed for sse4.1... none 2024-04-25T10:22:06,851 checking C compiler flags needed for avx2... none 2024-04-25T10:22:07,020 checking C compiler flags needed for avx512f... none 2024-04-25T10:22:07,023 checking for pkg-config... /usr/bin/pkg-config 2024-04-25T10:22:07,029 checking pkg-config is at least version 0.9.0... yes 2024-04-25T10:22:07,031 checking for special C compiler options needed for large files... no 2024-04-25T10:22:07,204 checking for _FILE_OFFSET_BITS value needed for large files... 64 2024-04-25T10:22:07,218 checking shared library type for unknown-Linux... plain .so 2024-04-25T10:22:07,333 checking whether the linker supports versioned symbols... no 2024-04-25T10:22:07,503 checking whether the compiler accepts -fvisibility=hidden... yes 2024-04-25T10:22:07,521 checking for stdlib.h... (cached) yes 2024-04-25T10:22:07,556 checking for unistd.h... (cached) yes 2024-04-25T10:22:07,768 checking for sys/param.h... yes 2024-04-25T10:22:07,958 checking for getpagesize... yes 2024-04-25T10:22:08,271 checking for working mmap... yes 2024-04-25T10:22:08,478 checking for gmtime_r... yes 2024-04-25T10:22:08,687 checking for fsync... yes 2024-04-25T10:22:08,886 checking for drand48... yes 2024-04-25T10:22:09,105 checking for srand48_deterministic... no 2024-04-25T10:22:09,293 checking whether fdatasync is declared... yes 2024-04-25T10:22:09,473 checking for fdatasync... yes 2024-04-25T10:22:09,866 checking for library containing log... -lm 2024-04-25T10:22:09,969 checking for zlib.h... yes 2024-04-25T10:22:10,178 checking for inflate in -lz... yes 2024-04-25T10:22:10,362 checking for library containing recv... none required 2024-04-25T10:22:10,449 checking for bzlib.h... yes 2024-04-25T10:22:10,627 checking for BZ2_bzBuffToBuffCompress in -lbz2... yes 2024-04-25T10:22:10,731 checking for lzma.h... yes 2024-04-25T10:22:10,946 checking for lzma_easy_buffer_encode in -llzma... yes 2024-04-25T10:22:10,951 checking whether htscodecs files are present... yes 2024-04-25T10:22:11,032 checking for libdeflate.h... yes 2024-04-25T10:22:11,215 checking for libdeflate_deflate_compress in -ldeflate... yes 2024-04-25T10:22:11,358 checking for curl/curl.h... yes 2024-04-25T10:22:11,708 checking for curl_easy_pause in -lcurl... yes 2024-04-25T10:22:11,919 checking for CCHmac... no 2024-04-25T10:22:12,486 checking for library containing HMAC... -lcrypto 2024-04-25T10:22:12,667 checking for library containing regcomp... none required 2024-04-25T10:22:12,732 configure: creating ./config.status 2024-04-25T10:22:13,058 config.status: creating config.mk 2024-04-25T10:22:13,100 config.status: creating htslib.pc.tmp 2024-04-25T10:22:13,147 config.status: creating config.h 2024-04-25T10:22:13,193 config.status: linking htscodecs_bundled.mk to htscodecs.mk 2024-04-25T10:22:13,906 # pysam: htslib configure options: --enable-libcurl 2024-04-25T10:22:13,906 # pysam: htslib_config HTS_CFLAGS_AVX2= 2024-04-25T10:22:13,907 # pysam: htslib_config HTS_CFLAGS_AVX512= 2024-04-25T10:22:13,907 # pysam: htslib_config HTS_CFLAGS_SSE4= 2024-04-25T10:22:13,907 # pysam: htslib_config LIBHTS_OBJS=kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o sam_mods.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static32x16pr_avx2.o htscodecs/htscodecs/rANS_static32x16pr_avx512.o htscodecs/htscodecs/rANS_static32x16pr_sse4.o htscodecs/htscodecs/rANS_static32x16pr_neon.o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/utils.o hfile_libcurl.o hfile_gcs.o hfile_s3.o hfile_s3_write.o 2024-04-25T10:22:13,907 # pysam: htslib_config LIBS=-ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto 2024-04-25T10:22:13,907 # pysam: htslib_config PLATFORM=default 2024-04-25T10:22:13,907 # pysam: config_option: ENABLE_GCS=1 2024-04-25T10:22:13,908 # pysam: config_option: ENABLE_PLUGINS=0 2024-04-25T10:22:13,908 # pysam: config_option: ENABLE_S3=1 2024-04-25T10:22:13,908 # pysam: config_option: HAVE_COMMONCRYPTO=0 2024-04-25T10:22:13,908 # pysam: config_option: HAVE_HMAC=1 2024-04-25T10:22:13,908 # pysam: config_option: HAVE_LIBBZ2=1 2024-04-25T10:22:13,908 # pysam: config_option: HAVE_LIBCURL=1 2024-04-25T10:22:13,908 # pysam: config_option: HAVE_LIBDEFLATE=1 2024-04-25T10:22:13,909 # pysam: config_option: HAVE_LIBLZMA=1 2024-04-25T10:22:13,909 # pysam: config_option: HAVE_MMAP=1 2024-04-25T10:22:13,909 running egg_info 2024-04-25T10:22:13,912 writing pysam.egg-info/PKG-INFO 2024-04-25T10:22:13,915 writing dependency_links to pysam.egg-info/dependency_links.txt 2024-04-25T10:22:13,917 writing top-level names to pysam.egg-info/top_level.txt 2024-04-25T10:22:13,964 reading manifest file 'pysam.egg-info/SOURCES.txt' 2024-04-25T10:22:13,988 reading manifest template 'MANIFEST.in' 2024-04-25T10:22:13,989 warning: no files found matching 'KNOWN_BUGS' 2024-04-25T10:22:13,990 warning: no files found matching 'THANKS' 2024-04-25T10:22:13,999 no previously-included directories found matching 'tests/' 2024-04-25T10:22:14,106 adding license file 'COPYING' 2024-04-25T10:22:14,107 adding license file 'AUTHORS' 2024-04-25T10:22:14,138 writing manifest file 'pysam.egg-info/SOURCES.txt' 2024-04-25T10:22:14,253 Getting requirements to build wheel: finished with status 'done' 2024-04-25T10:22:14,264 Installing backend dependencies: started 2024-04-25T10:22:14,265 Running command pip subprocess to install backend dependencies 2024-04-25T10:22:15,428 Using pip 24.0 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2024-04-25T10:22:15,934 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-04-25T10:22:16,279 Collecting wheel 2024-04-25T10:22:16,294 Using cached https://www.piwheels.org/simple/wheel/wheel-0.43.0-py3-none-any.whl (65 kB) 2024-04-25T10:22:17,739 Installing collected packages: wheel 2024-04-25T10:22:17,960 Creating /tmp/pip-build-env-dd06osrq/normal/bin 2024-04-25T10:22:17,962 changing mode of /tmp/pip-build-env-dd06osrq/normal/bin/wheel to 755 2024-04-25T10:22:17,975 Successfully installed wheel-0.43.0 2024-04-25T10:22:18,357 Installing backend dependencies: finished with status 'done' 2024-04-25T10:22:18,359 Created temporary directory: /tmp/pip-modern-metadata-ce7gqpv5 2024-04-25T10:22:18,362 Preparing metadata (pyproject.toml): started 2024-04-25T10:22:18,363 Running command Preparing metadata (pyproject.toml) 2024-04-25T10:22:18,910 # pysam: cython is available - using cythonize if necessary 2024-04-25T10:22:18,911 # pysam: htslib mode is shared 2024-04-25T10:22:18,911 # pysam: HTSLIB_CONFIGURE_OPTIONS=None 2024-04-25T10:22:18,911 # pysam: (sysconfig) CC=arm-linux-gnueabihf-gcc -pthread 2024-04-25T10:22:18,911 # pysam: (sysconfig) CFLAGS=-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 2024-04-25T10:22:18,911 # pysam: (sysconfig) LDFLAGS= -Wl,-z,relro -g -fwrapv -O2 2024-04-25T10:22:19,219 checking for gcc... arm-linux-gnueabihf-gcc -pthread 2024-04-25T10:22:19,472 checking whether the C compiler works... yes 2024-04-25T10:22:19,473 checking for C compiler default output file name... a.out 2024-04-25T10:22:19,636 checking for suffix of executables... 2024-04-25T10:22:19,862 checking whether we are cross compiling... no 2024-04-25T10:22:19,950 checking for suffix of object files... o 2024-04-25T10:22:20,031 checking whether we are using the GNU C compiler... yes 2024-04-25T10:22:20,108 checking whether arm-linux-gnueabihf-gcc -pthread accepts -g... yes 2024-04-25T10:22:20,230 checking for arm-linux-gnueabihf-gcc -pthread option to accept ISO C89... none needed 2024-04-25T10:22:20,233 checking for ranlib... ranlib 2024-04-25T10:22:20,242 checking for grep that handles long lines and -e... /usr/bin/grep 2024-04-25T10:22:20,298 checking for C compiler warning flags... unknown 2024-04-25T10:22:20,400 checking how to run the C preprocessor... arm-linux-gnueabihf-gcc -pthread -E 2024-04-25T10:22:20,539 checking for egrep... /usr/bin/grep -E 2024-04-25T10:22:21,011 checking for ANSI C header files... yes 2024-04-25T10:22:21,127 checking for sys/types.h... yes 2024-04-25T10:22:21,258 checking for sys/stat.h... yes 2024-04-25T10:22:21,403 checking for stdlib.h... yes 2024-04-25T10:22:21,591 checking for string.h... yes 2024-04-25T10:22:21,729 checking for memory.h... yes 2024-04-25T10:22:21,869 checking for strings.h... yes 2024-04-25T10:22:22,010 checking for inttypes.h... yes 2024-04-25T10:22:22,151 checking for stdint.h... yes 2024-04-25T10:22:22,314 checking for unistd.h... yes 2024-04-25T10:22:22,531 checking whether _XOPEN_SOURCE is declared... no 2024-04-25T10:22:22,699 checking C compiler flags needed for ssse3... none 2024-04-25T10:22:22,871 checking C compiler flags needed for popcnt... none 2024-04-25T10:22:23,287 checking C compiler flags needed for sse4.1... none 2024-04-25T10:22:23,456 checking C compiler flags needed for avx2... none 2024-04-25T10:22:23,624 checking C compiler flags needed for avx512f... none 2024-04-25T10:22:23,627 checking for pkg-config... /usr/bin/pkg-config 2024-04-25T10:22:23,633 checking pkg-config is at least version 0.9.0... yes 2024-04-25T10:22:23,635 checking for special C compiler options needed for large files... no 2024-04-25T10:22:23,814 checking for _FILE_OFFSET_BITS value needed for large files... 64 2024-04-25T10:22:23,828 checking shared library type for unknown-Linux... plain .so 2024-04-25T10:22:23,943 checking whether the linker supports versioned symbols... no 2024-04-25T10:22:24,414 checking whether the compiler accepts -fvisibility=hidden... yes 2024-04-25T10:22:24,428 checking for stdlib.h... (cached) yes 2024-04-25T10:22:24,451 checking for unistd.h... (cached) yes 2024-04-25T10:22:24,610 checking for sys/param.h... yes 2024-04-25T10:22:24,806 checking for getpagesize... yes 2024-04-25T10:22:25,117 checking for working mmap... yes 2024-04-25T10:22:25,343 checking for gmtime_r... yes 2024-04-25T10:22:25,545 checking for fsync... yes 2024-04-25T10:22:25,743 checking for drand48... yes 2024-04-25T10:22:25,962 checking for srand48_deterministic... no 2024-04-25T10:22:26,118 checking whether fdatasync is declared... yes 2024-04-25T10:22:26,292 checking for fdatasync... yes 2024-04-25T10:22:26,695 checking for library containing log... -lm 2024-04-25T10:22:26,814 checking for zlib.h... yes 2024-04-25T10:22:27,216 checking for inflate in -lz... yes 2024-04-25T10:22:27,400 checking for library containing recv... none required 2024-04-25T10:22:27,505 checking for bzlib.h... yes 2024-04-25T10:22:27,766 checking for BZ2_bzBuffToBuffCompress in -lbz2... yes 2024-04-25T10:22:27,869 checking for lzma.h... yes 2024-04-25T10:22:28,059 checking for lzma_easy_buffer_encode in -llzma... yes 2024-04-25T10:22:28,064 checking whether htscodecs files are present... yes 2024-04-25T10:22:28,145 checking for libdeflate.h... yes 2024-04-25T10:22:28,326 checking for libdeflate_deflate_compress in -ldeflate... yes 2024-04-25T10:22:28,457 checking for curl/curl.h... yes 2024-04-25T10:22:28,831 checking for curl_easy_pause in -lcurl... yes 2024-04-25T10:22:29,040 checking for CCHmac... no 2024-04-25T10:22:29,590 checking for library containing HMAC... -lcrypto 2024-04-25T10:22:29,774 checking for library containing regcomp... none required 2024-04-25T10:22:29,843 configure: creating ./config.status 2024-04-25T10:22:30,150 config.status: creating config.mk 2024-04-25T10:22:30,193 config.status: creating htslib.pc.tmp 2024-04-25T10:22:30,252 config.status: creating config.h 2024-04-25T10:22:30,485 config.status: config.h is unchanged 2024-04-25T10:22:30,490 config.status: linking htscodecs_bundled.mk to htscodecs.mk 2024-04-25T10:22:31,242 # pysam: htslib configure options: --enable-libcurl 2024-04-25T10:22:31,242 # pysam: htslib_config HTS_CFLAGS_AVX2= 2024-04-25T10:22:31,242 # pysam: htslib_config HTS_CFLAGS_AVX512= 2024-04-25T10:22:31,242 # pysam: htslib_config HTS_CFLAGS_SSE4= 2024-04-25T10:22:31,242 # pysam: htslib_config LIBHTS_OBJS=kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o sam_mods.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static32x16pr_avx2.o htscodecs/htscodecs/rANS_static32x16pr_avx512.o htscodecs/htscodecs/rANS_static32x16pr_sse4.o htscodecs/htscodecs/rANS_static32x16pr_neon.o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/utils.o hfile_libcurl.o hfile_gcs.o hfile_s3.o hfile_s3_write.o 2024-04-25T10:22:31,243 # pysam: htslib_config LIBS=-ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto 2024-04-25T10:22:31,243 # pysam: htslib_config PLATFORM=default 2024-04-25T10:22:31,243 # pysam: config_option: ENABLE_GCS=1 2024-04-25T10:22:31,243 # pysam: config_option: ENABLE_PLUGINS=0 2024-04-25T10:22:31,243 # pysam: config_option: ENABLE_S3=1 2024-04-25T10:22:31,243 # pysam: config_option: HAVE_COMMONCRYPTO=0 2024-04-25T10:22:31,243 # pysam: config_option: HAVE_HMAC=1 2024-04-25T10:22:31,244 # pysam: config_option: HAVE_LIBBZ2=1 2024-04-25T10:22:31,244 # pysam: config_option: HAVE_LIBCURL=1 2024-04-25T10:22:31,244 # pysam: config_option: HAVE_LIBDEFLATE=1 2024-04-25T10:22:31,244 # pysam: config_option: HAVE_LIBLZMA=1 2024-04-25T10:22:31,244 # pysam: config_option: HAVE_MMAP=1 2024-04-25T10:22:31,244 running dist_info 2024-04-25T10:22:31,248 creating /tmp/pip-modern-metadata-ce7gqpv5/pysam.egg-info 2024-04-25T10:22:31,253 writing /tmp/pip-modern-metadata-ce7gqpv5/pysam.egg-info/PKG-INFO 2024-04-25T10:22:31,257 writing dependency_links to /tmp/pip-modern-metadata-ce7gqpv5/pysam.egg-info/dependency_links.txt 2024-04-25T10:22:31,259 writing top-level names to /tmp/pip-modern-metadata-ce7gqpv5/pysam.egg-info/top_level.txt 2024-04-25T10:22:31,261 writing manifest file '/tmp/pip-modern-metadata-ce7gqpv5/pysam.egg-info/SOURCES.txt' 2024-04-25T10:22:31,338 reading manifest file '/tmp/pip-modern-metadata-ce7gqpv5/pysam.egg-info/SOURCES.txt' 2024-04-25T10:22:31,340 reading manifest template 'MANIFEST.in' 2024-04-25T10:22:31,341 warning: no files found matching 'KNOWN_BUGS' 2024-04-25T10:22:31,342 warning: no files found matching 'THANKS' 2024-04-25T10:22:31,352 no previously-included directories found matching 'tests/' 2024-04-25T10:22:31,464 adding license file 'COPYING' 2024-04-25T10:22:31,464 adding license file 'AUTHORS' 2024-04-25T10:22:31,486 writing manifest file '/tmp/pip-modern-metadata-ce7gqpv5/pysam.egg-info/SOURCES.txt' 2024-04-25T10:22:31,487 creating '/tmp/pip-modern-metadata-ce7gqpv5/pysam-0.22.1.dist-info' 2024-04-25T10:22:31,637 Preparing metadata (pyproject.toml): finished with status 'done' 2024-04-25T10:22:31,643 Source in /tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d has version 0.22.1, which satisfies requirement pysam==0.22.1 from https://files.pythonhosted.org/packages/a6/bc/e0a79d74137643940f5406121039d1272f29f55c5330e7b43484b2259da5/pysam-0.22.1.tar.gz 2024-04-25T10:22:31,645 Removed pysam==0.22.1 from https://files.pythonhosted.org/packages/a6/bc/e0a79d74137643940f5406121039d1272f29f55c5330e7b43484b2259da5/pysam-0.22.1.tar.gz from build tracker '/tmp/pip-build-tracker-0p2_266x' 2024-04-25T10:22:31,650 Created temporary directory: /tmp/pip-unpack-69as45gm 2024-04-25T10:22:31,651 Created temporary directory: /tmp/pip-unpack-xzq9guin 2024-04-25T10:22:31,653 Building wheels for collected packages: pysam 2024-04-25T10:22:31,657 Created temporary directory: /tmp/pip-wheel-a9jwc9di 2024-04-25T10:22:31,658 Destination directory: /tmp/pip-wheel-a9jwc9di 2024-04-25T10:22:31,660 Building wheel for pysam (pyproject.toml): started 2024-04-25T10:22:31,661 Running command Building wheel for pysam (pyproject.toml) 2024-04-25T10:22:32,194 # pysam: cython is available - using cythonize if necessary 2024-04-25T10:22:32,195 # pysam: htslib mode is shared 2024-04-25T10:22:32,195 # pysam: HTSLIB_CONFIGURE_OPTIONS=None 2024-04-25T10:22:32,195 # pysam: (sysconfig) CC=arm-linux-gnueabihf-gcc -pthread 2024-04-25T10:22:32,195 # pysam: (sysconfig) CFLAGS=-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 2024-04-25T10:22:32,195 # pysam: (sysconfig) LDFLAGS= -Wl,-z,relro -g -fwrapv -O2 2024-04-25T10:22:32,508 checking for gcc... arm-linux-gnueabihf-gcc -pthread 2024-04-25T10:22:32,763 checking whether the C compiler works... yes 2024-04-25T10:22:32,765 checking for C compiler default output file name... a.out 2024-04-25T10:22:32,941 checking for suffix of executables... 2024-04-25T10:22:33,157 checking whether we are cross compiling... no 2024-04-25T10:22:33,246 checking for suffix of object files... o 2024-04-25T10:22:33,325 checking whether we are using the GNU C compiler... yes 2024-04-25T10:22:33,400 checking whether arm-linux-gnueabihf-gcc -pthread accepts -g... yes 2024-04-25T10:22:33,522 checking for arm-linux-gnueabihf-gcc -pthread option to accept ISO C89... none needed 2024-04-25T10:22:33,524 checking for ranlib... ranlib 2024-04-25T10:22:33,533 checking for grep that handles long lines and -e... /usr/bin/grep 2024-04-25T10:22:33,588 checking for C compiler warning flags... unknown 2024-04-25T10:22:33,689 checking how to run the C preprocessor... arm-linux-gnueabihf-gcc -pthread -E 2024-04-25T10:22:33,835 checking for egrep... /usr/bin/grep -E 2024-04-25T10:22:34,294 checking for ANSI C header files... yes 2024-04-25T10:22:34,409 checking for sys/types.h... yes 2024-04-25T10:22:34,542 checking for sys/stat.h... yes 2024-04-25T10:22:34,697 checking for stdlib.h... yes 2024-04-25T10:22:34,872 checking for string.h... yes 2024-04-25T10:22:35,010 checking for memory.h... yes 2024-04-25T10:22:35,147 checking for strings.h... yes 2024-04-25T10:22:35,292 checking for inttypes.h... yes 2024-04-25T10:22:35,433 checking for stdint.h... yes 2024-04-25T10:22:35,602 checking for unistd.h... yes 2024-04-25T10:22:35,775 checking whether _XOPEN_SOURCE is declared... no 2024-04-25T10:22:35,944 checking C compiler flags needed for ssse3... none 2024-04-25T10:22:36,112 checking C compiler flags needed for popcnt... none 2024-04-25T10:22:36,280 checking C compiler flags needed for sse4.1... none 2024-04-25T10:22:36,482 checking C compiler flags needed for avx2... none 2024-04-25T10:22:36,648 checking C compiler flags needed for avx512f... none 2024-04-25T10:22:36,651 checking for pkg-config... /usr/bin/pkg-config 2024-04-25T10:22:36,657 checking pkg-config is at least version 0.9.0... yes 2024-04-25T10:22:36,659 checking for special C compiler options needed for large files... no 2024-04-25T10:22:36,833 checking for _FILE_OFFSET_BITS value needed for large files... 64 2024-04-25T10:22:36,847 checking shared library type for unknown-Linux... plain .so 2024-04-25T10:22:36,961 checking whether the linker supports versioned symbols... no 2024-04-25T10:22:37,127 checking whether the compiler accepts -fvisibility=hidden... yes 2024-04-25T10:22:37,139 checking for stdlib.h... (cached) yes 2024-04-25T10:22:37,170 checking for unistd.h... (cached) yes 2024-04-25T10:22:37,381 checking for sys/param.h... yes 2024-04-25T10:22:37,571 checking for getpagesize... yes 2024-04-25T10:22:37,880 checking for working mmap... yes 2024-04-25T10:22:38,081 checking for gmtime_r... yes 2024-04-25T10:22:38,339 checking for fsync... yes 2024-04-25T10:22:38,538 checking for drand48... yes 2024-04-25T10:22:38,764 checking for srand48_deterministic... no 2024-04-25T10:22:38,930 checking whether fdatasync is declared... yes 2024-04-25T10:22:39,137 checking for fdatasync... yes 2024-04-25T10:22:39,532 checking for library containing log... -lm 2024-04-25T10:22:39,632 checking for zlib.h... yes 2024-04-25T10:22:39,823 checking for inflate in -lz... yes 2024-04-25T10:22:40,081 checking for library containing recv... none required 2024-04-25T10:22:40,167 checking for bzlib.h... yes 2024-04-25T10:22:40,344 checking for BZ2_bzBuffToBuffCompress in -lbz2... yes 2024-04-25T10:22:40,445 checking for lzma.h... yes 2024-04-25T10:22:40,635 checking for lzma_easy_buffer_encode in -llzma... yes 2024-04-25T10:22:40,641 checking whether htscodecs files are present... yes 2024-04-25T10:22:40,722 checking for libdeflate.h... yes 2024-04-25T10:22:41,143 checking for libdeflate_deflate_compress in -ldeflate... yes 2024-04-25T10:22:41,276 checking for curl/curl.h... yes 2024-04-25T10:22:41,631 checking for curl_easy_pause in -lcurl... yes 2024-04-25T10:22:41,912 checking for CCHmac... no 2024-04-25T10:22:42,459 checking for library containing HMAC... -lcrypto 2024-04-25T10:22:42,652 checking for library containing regcomp... none required 2024-04-25T10:22:42,747 configure: creating ./config.status 2024-04-25T10:22:43,182 config.status: creating config.mk 2024-04-25T10:22:43,244 config.status: creating htslib.pc.tmp 2024-04-25T10:22:43,310 config.status: creating config.h 2024-04-25T10:22:43,336 config.status: config.h is unchanged 2024-04-25T10:22:43,344 config.status: linking htscodecs_bundled.mk to htscodecs.mk 2024-04-25T10:22:44,146 # pysam: htslib configure options: --enable-libcurl 2024-04-25T10:22:44,147 # pysam: htslib_config HTS_CFLAGS_AVX2= 2024-04-25T10:22:44,147 # pysam: htslib_config HTS_CFLAGS_AVX512= 2024-04-25T10:22:44,147 # pysam: htslib_config HTS_CFLAGS_SSE4= 2024-04-25T10:22:44,147 # pysam: htslib_config LIBHTS_OBJS=kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o sam_mods.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static32x16pr_avx2.o htscodecs/htscodecs/rANS_static32x16pr_avx512.o htscodecs/htscodecs/rANS_static32x16pr_sse4.o htscodecs/htscodecs/rANS_static32x16pr_neon.o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/utils.o hfile_libcurl.o hfile_gcs.o hfile_s3.o hfile_s3_write.o 2024-04-25T10:22:44,147 # pysam: htslib_config LIBS=-ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto 2024-04-25T10:22:44,147 # pysam: htslib_config PLATFORM=default 2024-04-25T10:22:44,148 # pysam: config_option: ENABLE_GCS=1 2024-04-25T10:22:44,148 # pysam: config_option: ENABLE_PLUGINS=0 2024-04-25T10:22:44,148 # pysam: config_option: ENABLE_S3=1 2024-04-25T10:22:44,148 # pysam: config_option: HAVE_COMMONCRYPTO=0 2024-04-25T10:22:44,148 # pysam: config_option: HAVE_HMAC=1 2024-04-25T10:22:44,148 # pysam: config_option: HAVE_LIBBZ2=1 2024-04-25T10:22:44,148 # pysam: config_option: HAVE_LIBCURL=1 2024-04-25T10:22:44,148 # pysam: config_option: HAVE_LIBDEFLATE=1 2024-04-25T10:22:44,149 # pysam: config_option: HAVE_LIBLZMA=1 2024-04-25T10:22:44,149 # pysam: config_option: HAVE_MMAP=1 2024-04-25T10:22:44,149 running bdist_wheel 2024-04-25T10:22:44,168 running build 2024-04-25T10:22:44,168 running build_py 2024-04-25T10:22:44,176 creating build 2024-04-25T10:22:44,177 creating build/lib.linux-armv7l-cpython-39 2024-04-25T10:22:44,178 creating build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,180 copying pysam/utils.py -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,183 copying pysam/version.py -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,186 copying pysam/bcftools.py -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,189 copying pysam/config.py -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,190 copying pysam/__init__.py -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,192 copying pysam/Pileup.py -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,194 copying pysam/samtools.py -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,197 creating build/lib.linux-armv7l-cpython-39/pysam/include 2024-04-25T10:22:44,198 copying pysam/include/__init__.py -> build/lib.linux-armv7l-cpython-39/pysam/include 2024-04-25T10:22:44,202 running egg_info 2024-04-25T10:22:44,207 writing pysam.egg-info/PKG-INFO 2024-04-25T10:22:44,209 writing dependency_links to pysam.egg-info/dependency_links.txt 2024-04-25T10:22:44,211 writing top-level names to pysam.egg-info/top_level.txt 2024-04-25T10:22:44,276 reading manifest file 'pysam.egg-info/SOURCES.txt' 2024-04-25T10:22:44,314 reading manifest template 'MANIFEST.in' 2024-04-25T10:22:44,315 warning: no files found matching 'KNOWN_BUGS' 2024-04-25T10:22:44,315 warning: no files found matching 'THANKS' 2024-04-25T10:22:44,324 no previously-included directories found matching 'tests/' 2024-04-25T10:22:44,434 adding license file 'COPYING' 2024-04-25T10:22:44,434 adding license file 'AUTHORS' 2024-04-25T10:22:44,463 writing manifest file 'pysam.egg-info/SOURCES.txt' 2024-04-25T10:22:44,469 /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:207: _Warning: Package 'pysam.include.htslib.cram' is absent from the `packages` configuration. 2024-04-25T10:22:44,470 !! 2024-04-25T10:22:44,470 ******************************************************************************** 2024-04-25T10:22:44,470 ############################ 2024-04-25T10:22:44,470 # Package would be ignored # 2024-04-25T10:22:44,470 ############################ 2024-04-25T10:22:44,470 Python recognizes 'pysam.include.htslib.cram' as an importable package[^1], 2024-04-25T10:22:44,470 but it is absent from setuptools' `packages` configuration. 2024-04-25T10:22:44,471 This leads to an ambiguous overall configuration. If you want to distribute this 2024-04-25T10:22:44,471 package, please make sure that 'pysam.include.htslib.cram' is explicitly added 2024-04-25T10:22:44,471 to the `packages` configuration field. 2024-04-25T10:22:44,471 Alternatively, you can also rely on setuptools' discovery methods 2024-04-25T10:22:44,471 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-04-25T10:22:44,471 instead of `find_packages(...)`/`find:`). 2024-04-25T10:22:44,472 You can read more about "package discovery" on setuptools documentation page: 2024-04-25T10:22:44,472 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-04-25T10:22:44,472 If you don't want 'pysam.include.htslib.cram' to be distributed and are 2024-04-25T10:22:44,472 already explicitly excluding 'pysam.include.htslib.cram' via 2024-04-25T10:22:44,472 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-04-25T10:22:44,472 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-04-25T10:22:44,472 combination with a more fine grained `package-data` configuration. 2024-04-25T10:22:44,473 You can read more about "package data files" on setuptools documentation page: 2024-04-25T10:22:44,473 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-04-25T10:22:44,473 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-04-25T10:22:44,473 even if it does not contain any `.py` files. 2024-04-25T10:22:44,473 On the other hand, currently there is no concept of package data 2024-04-25T10:22:44,474 directory, all directories are treated like packages. 2024-04-25T10:22:44,474 ******************************************************************************** 2024-04-25T10:22:44,474 !! 2024-04-25T10:22:44,474 check.warn(importable) 2024-04-25T10:22:44,474 /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:207: _Warning: Package 'pysam.include.htslib.htscodecs.htscodecs' is absent from the `packages` configuration. 2024-04-25T10:22:44,474 !! 2024-04-25T10:22:44,475 ******************************************************************************** 2024-04-25T10:22:44,475 ############################ 2024-04-25T10:22:44,475 # Package would be ignored # 2024-04-25T10:22:44,475 ############################ 2024-04-25T10:22:44,475 Python recognizes 'pysam.include.htslib.htscodecs.htscodecs' as an importable package[^1], 2024-04-25T10:22:44,475 but it is absent from setuptools' `packages` configuration. 2024-04-25T10:22:44,475 This leads to an ambiguous overall configuration. If you want to distribute this 2024-04-25T10:22:44,475 package, please make sure that 'pysam.include.htslib.htscodecs.htscodecs' is explicitly added 2024-04-25T10:22:44,476 to the `packages` configuration field. 2024-04-25T10:22:44,476 Alternatively, you can also rely on setuptools' discovery methods 2024-04-25T10:22:44,476 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-04-25T10:22:44,476 instead of `find_packages(...)`/`find:`). 2024-04-25T10:22:44,476 You can read more about "package discovery" on setuptools documentation page: 2024-04-25T10:22:44,476 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-04-25T10:22:44,477 If you don't want 'pysam.include.htslib.htscodecs.htscodecs' to be distributed and are 2024-04-25T10:22:44,477 already explicitly excluding 'pysam.include.htslib.htscodecs.htscodecs' via 2024-04-25T10:22:44,477 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-04-25T10:22:44,477 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-04-25T10:22:44,477 combination with a more fine grained `package-data` configuration. 2024-04-25T10:22:44,477 You can read more about "package data files" on setuptools documentation page: 2024-04-25T10:22:44,478 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-04-25T10:22:44,478 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-04-25T10:22:44,478 even if it does not contain any `.py` files. 2024-04-25T10:22:44,478 On the other hand, currently there is no concept of package data 2024-04-25T10:22:44,478 directory, all directories are treated like packages. 2024-04-25T10:22:44,478 ******************************************************************************** 2024-04-25T10:22:44,479 !! 2024-04-25T10:22:44,479 check.warn(importable) 2024-04-25T10:22:44,479 /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:207: _Warning: Package 'pysam.include.htslib.m4' is absent from the `packages` configuration. 2024-04-25T10:22:44,479 !! 2024-04-25T10:22:44,479 ******************************************************************************** 2024-04-25T10:22:44,479 ############################ 2024-04-25T10:22:44,479 # Package would be ignored # 2024-04-25T10:22:44,480 ############################ 2024-04-25T10:22:44,480 Python recognizes 'pysam.include.htslib.m4' as an importable package[^1], 2024-04-25T10:22:44,480 but it is absent from setuptools' `packages` configuration. 2024-04-25T10:22:44,480 This leads to an ambiguous overall configuration. If you want to distribute this 2024-04-25T10:22:44,480 package, please make sure that 'pysam.include.htslib.m4' is explicitly added 2024-04-25T10:22:44,480 to the `packages` configuration field. 2024-04-25T10:22:44,481 Alternatively, you can also rely on setuptools' discovery methods 2024-04-25T10:22:44,481 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-04-25T10:22:44,481 instead of `find_packages(...)`/`find:`). 2024-04-25T10:22:44,481 You can read more about "package discovery" on setuptools documentation page: 2024-04-25T10:22:44,481 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-04-25T10:22:44,481 If you don't want 'pysam.include.htslib.m4' to be distributed and are 2024-04-25T10:22:44,482 already explicitly excluding 'pysam.include.htslib.m4' via 2024-04-25T10:22:44,482 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-04-25T10:22:44,482 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-04-25T10:22:44,482 combination with a more fine grained `package-data` configuration. 2024-04-25T10:22:44,482 You can read more about "package data files" on setuptools documentation page: 2024-04-25T10:22:44,482 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-04-25T10:22:44,483 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-04-25T10:22:44,483 even if it does not contain any `.py` files. 2024-04-25T10:22:44,483 On the other hand, currently there is no concept of package data 2024-04-25T10:22:44,483 directory, all directories are treated like packages. 2024-04-25T10:22:44,483 ******************************************************************************** 2024-04-25T10:22:44,483 !! 2024-04-25T10:22:44,484 check.warn(importable) 2024-04-25T10:22:44,484 /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:207: _Warning: Package 'pysam.include.htslib.os' is absent from the `packages` configuration. 2024-04-25T10:22:44,484 !! 2024-04-25T10:22:44,484 ******************************************************************************** 2024-04-25T10:22:44,484 ############################ 2024-04-25T10:22:44,484 # Package would be ignored # 2024-04-25T10:22:44,484 ############################ 2024-04-25T10:22:44,484 Python recognizes 'pysam.include.htslib.os' as an importable package[^1], 2024-04-25T10:22:44,485 but it is absent from setuptools' `packages` configuration. 2024-04-25T10:22:44,485 This leads to an ambiguous overall configuration. If you want to distribute this 2024-04-25T10:22:44,485 package, please make sure that 'pysam.include.htslib.os' is explicitly added 2024-04-25T10:22:44,485 to the `packages` configuration field. 2024-04-25T10:22:44,485 Alternatively, you can also rely on setuptools' discovery methods 2024-04-25T10:22:44,485 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-04-25T10:22:44,485 instead of `find_packages(...)`/`find:`). 2024-04-25T10:22:44,486 You can read more about "package discovery" on setuptools documentation page: 2024-04-25T10:22:44,486 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-04-25T10:22:44,486 If you don't want 'pysam.include.htslib.os' to be distributed and are 2024-04-25T10:22:44,486 already explicitly excluding 'pysam.include.htslib.os' via 2024-04-25T10:22:44,486 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-04-25T10:22:44,486 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-04-25T10:22:44,487 combination with a more fine grained `package-data` configuration. 2024-04-25T10:22:44,487 You can read more about "package data files" on setuptools documentation page: 2024-04-25T10:22:44,487 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-04-25T10:22:44,487 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-04-25T10:22:44,488 even if it does not contain any `.py` files. 2024-04-25T10:22:44,488 On the other hand, currently there is no concept of package data 2024-04-25T10:22:44,488 directory, all directories are treated like packages. 2024-04-25T10:22:44,488 ******************************************************************************** 2024-04-25T10:22:44,488 !! 2024-04-25T10:22:44,488 check.warn(importable) 2024-04-25T10:22:44,489 /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:207: _Warning: Package 'pysam.include.samtools.lz4' is absent from the `packages` configuration. 2024-04-25T10:22:44,489 !! 2024-04-25T10:22:44,489 ******************************************************************************** 2024-04-25T10:22:44,489 ############################ 2024-04-25T10:22:44,489 # Package would be ignored # 2024-04-25T10:22:44,489 ############################ 2024-04-25T10:22:44,489 Python recognizes 'pysam.include.samtools.lz4' as an importable package[^1], 2024-04-25T10:22:44,489 but it is absent from setuptools' `packages` configuration. 2024-04-25T10:22:44,490 This leads to an ambiguous overall configuration. If you want to distribute this 2024-04-25T10:22:44,490 package, please make sure that 'pysam.include.samtools.lz4' is explicitly added 2024-04-25T10:22:44,490 to the `packages` configuration field. 2024-04-25T10:22:44,490 Alternatively, you can also rely on setuptools' discovery methods 2024-04-25T10:22:44,490 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2024-04-25T10:22:44,490 instead of `find_packages(...)`/`find:`). 2024-04-25T10:22:44,491 You can read more about "package discovery" on setuptools documentation page: 2024-04-25T10:22:44,491 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2024-04-25T10:22:44,491 If you don't want 'pysam.include.samtools.lz4' to be distributed and are 2024-04-25T10:22:44,491 already explicitly excluding 'pysam.include.samtools.lz4' via 2024-04-25T10:22:44,491 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2024-04-25T10:22:44,491 you can try to use `exclude_package_data`, or `include-package-data=False` in 2024-04-25T10:22:44,492 combination with a more fine grained `package-data` configuration. 2024-04-25T10:22:44,492 You can read more about "package data files" on setuptools documentation page: 2024-04-25T10:22:44,492 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2024-04-25T10:22:44,492 [^1]: For Python, any directory (with suitable naming) can be imported, 2024-04-25T10:22:44,492 even if it does not contain any `.py` files. 2024-04-25T10:22:44,493 On the other hand, currently there is no concept of package data 2024-04-25T10:22:44,493 directory, all directories are treated like packages. 2024-04-25T10:22:44,493 ******************************************************************************** 2024-04-25T10:22:44,493 !! 2024-04-25T10:22:44,493 check.warn(importable) 2024-04-25T10:22:44,524 copying pysam/cbcftools_util.h -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,526 copying pysam/csamtools_util.h -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,528 copying pysam/htslib_util.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,530 copying pysam/htslib_util.h -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,532 copying pysam/libcalignedsegment.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,600 copying pysam/libcalignedsegment.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,602 copying pysam/libcalignedsegment.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,604 copying pysam/libcalignedsegment.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,608 copying pysam/libcalignmentfile.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,657 copying pysam/libcalignmentfile.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,659 copying pysam/libcalignmentfile.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,661 copying pysam/libcalignmentfile.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,665 copying pysam/libcbcf.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,773 copying pysam/libcbcf.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,775 copying pysam/libcbcf.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,778 copying pysam/libcbcf.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,873 copying pysam/libcbcftools.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,901 copying pysam/libcbcftools.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,903 copying pysam/libcbcftools.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,905 copying pysam/libcbcftools.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,907 copying pysam/libcbgzf.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,934 copying pysam/libcbgzf.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,938 copying pysam/libcbgzf.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,942 copying pysam/libcfaidx.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,972 copying pysam/libcfaidx.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,975 copying pysam/libcfaidx.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,977 copying pysam/libcfaidx.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:44,980 copying pysam/libchtslib.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,012 copying pysam/libchtslib.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,018 copying pysam/libchtslib.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,020 copying pysam/libchtslib.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,022 copying pysam/libcsamfile.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,037 copying pysam/libcsamfile.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,039 copying pysam/libcsamfile.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,042 copying pysam/libcsamfile.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,044 copying pysam/libcsamtools.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,052 copying pysam/libcsamtools.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,054 copying pysam/libcsamtools.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,056 copying pysam/libcsamtools.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,059 copying pysam/libctabix.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,097 copying pysam/libctabix.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,099 copying pysam/libctabix.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,102 copying pysam/libctabix.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,105 copying pysam/libctabixproxies.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,147 copying pysam/libctabixproxies.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,150 copying pysam/libctabixproxies.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,153 copying pysam/libctabixproxies.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,157 copying pysam/libcutils.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,213 copying pysam/libcutils.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,216 copying pysam/libcutils.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,219 copying pysam/libcutils.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,223 copying pysam/libcvcf.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,271 copying pysam/libcvcf.pxd -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,274 copying pysam/libcvcf.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,277 copying pysam/libcvcf.pyx -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,282 copying pysam/py.typed -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,284 copying pysam/pysam_stream.h -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,287 copying pysam/pysam_util.c -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,290 copying pysam/pysam_util.h -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,293 copying pysam/version.h -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,296 copying pysam/version.pyi -> build/lib.linux-armv7l-cpython-39/pysam 2024-04-25T10:22:45,299 creating build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,300 copying samtools/LICENSE -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,303 copying samtools/README -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,307 copying samtools/amplicon_stats.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,312 copying samtools/amplicon_stats.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,317 copying samtools/bam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,321 copying samtools/bam.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,324 copying samtools/bam.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,326 copying samtools/bam2depth.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,329 copying samtools/bam2depth.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,332 copying samtools/bam_addrprg.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,336 copying samtools/bam_addrprg.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,339 copying samtools/bam_ampliconclip.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,342 copying samtools/bam_ampliconclip.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,345 copying samtools/bam_ampliconclip.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,347 copying samtools/bam_aux.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,350 copying samtools/bam_aux.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,352 copying samtools/bam_cat.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,355 copying samtools/bam_cat.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,359 copying samtools/bam_color.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,361 copying samtools/bam_color.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,364 copying samtools/bam_consensus.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,368 copying samtools/bam_consensus.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,372 copying samtools/bam_fastq.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,376 copying samtools/bam_fastq.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,379 copying samtools/bam_flags.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,381 copying samtools/bam_flags.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,383 copying samtools/bam_import.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,386 copying samtools/bam_import.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,389 copying samtools/bam_index.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,392 copying samtools/bam_index.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,395 copying samtools/bam_lpileup.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,398 copying samtools/bam_lpileup.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,400 copying samtools/bam_lpileup.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,403 copying samtools/bam_markdup.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,407 copying samtools/bam_markdup.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,411 copying samtools/bam_mate.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,415 copying samtools/bam_mate.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,418 copying samtools/bam_md.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,421 copying samtools/bam_md.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,424 copying samtools/bam_plbuf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,426 copying samtools/bam_plbuf.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,428 copying samtools/bam_plbuf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,431 copying samtools/bam_plcmd.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,434 copying samtools/bam_plcmd.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,438 copying samtools/bam_quickcheck.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,441 copying samtools/bam_quickcheck.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,443 copying samtools/bam_reheader.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,446 copying samtools/bam_reheader.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,449 copying samtools/bam_rmdup.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,452 copying samtools/bam_rmdup.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,455 copying samtools/bam_rmdupse.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,457 copying samtools/bam_rmdupse.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,460 copying samtools/bam_samples.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,463 copying samtools/bam_samples.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,466 copying samtools/bam_sort.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,472 copying samtools/bam_sort.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,478 copying samtools/bam_split.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,481 copying samtools/bam_split.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,484 copying samtools/bam_stat.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,487 copying samtools/bam_stat.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,490 copying samtools/bamshuf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,493 copying samtools/bamshuf.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,496 copying samtools/bamtk.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,498 copying samtools/bamtk.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,501 copying samtools/bedcov.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,504 copying samtools/bedcov.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,507 copying samtools/bedidx.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,510 copying samtools/bedidx.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,512 copying samtools/bedidx.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,515 copying samtools/consensus_pileup.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,518 copying samtools/consensus_pileup.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,521 copying samtools/consensus_pileup.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,523 copying samtools/coverage.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,527 copying samtools/coverage.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,530 copying samtools/cram_size.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,533 copying samtools/cram_size.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,535 copying samtools/cut_target.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,538 copying samtools/cut_target.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,541 copying samtools/dict.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,543 copying samtools/dict.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,546 copying samtools/faidx.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,549 copying samtools/faidx.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,552 copying samtools/padding.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,555 copying samtools/padding.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,558 copying samtools/phase.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,561 copying samtools/phase.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,564 copying samtools/reference.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,567 copying samtools/reference.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,570 copying samtools/reset.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,573 copying samtools/reset.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,576 copying samtools/sam_opts.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,579 copying samtools/sam_opts.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,581 copying samtools/sam_opts.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,584 copying samtools/sam_utils.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,586 copying samtools/sam_utils.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,589 copying samtools/sam_utils.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,591 copying samtools/sam_view.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,594 copying samtools/sam_view.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,598 copying samtools/sample.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,601 copying samtools/sample.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,603 copying samtools/sample.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,606 copying samtools/samtools.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,608 copying samtools/samtools.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,610 copying samtools/samtools.pysam.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,612 copying samtools/splaysort.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,615 copying samtools/stats.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,620 copying samtools/stats.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,625 copying samtools/stats_isize.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,627 copying samtools/stats_isize.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,630 copying samtools/stats_isize.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,632 copying samtools/tmp_file.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,635 copying samtools/tmp_file.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,638 copying samtools/tmp_file.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,640 copying samtools/version.sh -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,642 creating build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4 2024-04-25T10:22:45,643 copying samtools/lz4/LICENSE -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4 2024-04-25T10:22:45,646 copying samtools/lz4/lz4.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4 2024-04-25T10:22:45,650 copying samtools/lz4/lz4.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4 2024-04-25T10:22:45,654 copying samtools/lz4/lz4.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4 2024-04-25T10:22:45,657 copying samtools/config.h -> build/lib.linux-armv7l-cpython-39/pysam/include/samtools 2024-04-25T10:22:45,659 creating build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,660 copying bcftools/HMM.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,663 copying bcftools/HMM.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,666 copying bcftools/HMM.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,669 copying bcftools/LICENSE -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,672 copying bcftools/README -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,675 copying bcftools/abuf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,678 copying bcftools/abuf.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,681 copying bcftools/abuf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,683 copying bcftools/bam2bcf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,687 copying bcftools/bam2bcf.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,690 copying bcftools/bam2bcf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,693 copying bcftools/bam2bcf_iaux.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,696 copying bcftools/bam2bcf_iaux.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,700 copying bcftools/bam2bcf_indel.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,703 copying bcftools/bam2bcf_indel.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,706 copying bcftools/bam_sample.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,709 copying bcftools/bam_sample.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,712 copying bcftools/bam_sample.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,714 copying bcftools/bcftools.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,717 copying bcftools/bcftools.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,719 copying bcftools/bcftools.pysam.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,722 copying bcftools/bin.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,724 copying bcftools/bin.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,726 copying bcftools/bin.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,728 copying bcftools/call.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,731 copying bcftools/ccall.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,734 copying bcftools/ccall.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,737 copying bcftools/cigar_state.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,740 copying bcftools/cols.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,742 copying bcftools/cols.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,744 copying bcftools/cols.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,746 copying bcftools/consensus.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,750 copying bcftools/consensus.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,754 copying bcftools/convert.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,758 copying bcftools/convert.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,767 copying bcftools/convert.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,769 copying bcftools/csq.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,775 copying bcftools/csq.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,781 copying bcftools/dbuf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,783 copying bcftools/dist.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,786 copying bcftools/dist.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,788 copying bcftools/dist.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,790 copying bcftools/em.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,793 copying bcftools/em.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,796 copying bcftools/extsort.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,799 copying bcftools/extsort.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,801 copying bcftools/extsort.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,804 copying bcftools/filter.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,810 copying bcftools/filter.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,815 copying bcftools/filter.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,818 copying bcftools/gff.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,821 copying bcftools/gff.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,824 copying bcftools/gff.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,827 copying bcftools/gvcf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,830 copying bcftools/gvcf.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,832 copying bcftools/gvcf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,835 copying bcftools/hclust.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,838 copying bcftools/hclust.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,840 copying bcftools/hclust.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,843 copying bcftools/hex.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,845 copying bcftools/khash_str2str.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,847 copying bcftools/kheap.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,850 copying bcftools/kmin.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,852 copying bcftools/kmin.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,855 copying bcftools/kmin.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,857 copying bcftools/main.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,860 copying bcftools/main.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,862 copying bcftools/mcall.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,866 copying bcftools/mcall.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,870 copying bcftools/mpileup.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,875 copying bcftools/mpileup.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,879 copying bcftools/mw.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,883 copying bcftools/ploidy.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,885 copying bcftools/ploidy.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,888 copying bcftools/ploidy.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,891 copying bcftools/prob1.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,894 copying bcftools/prob1.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,897 copying bcftools/prob1.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,899 copying bcftools/rbuf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,902 copying bcftools/read_consensus.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,905 copying bcftools/read_consensus.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,908 copying bcftools/read_consensus.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,911 copying bcftools/regidx.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,913 copying bcftools/regidx.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,916 copying bcftools/regidx.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,919 copying bcftools/reheader.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,922 copying bcftools/reheader.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,925 copying bcftools/smpl_ilist.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,928 copying bcftools/smpl_ilist.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,931 copying bcftools/smpl_ilist.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,933 copying bcftools/str_finder.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,935 copying bcftools/str_finder.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,938 copying bcftools/str_finder.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,940 copying bcftools/tabix.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,943 copying bcftools/tabix.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,946 copying bcftools/tsv2vcf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,948 copying bcftools/tsv2vcf.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,950 copying bcftools/tsv2vcf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,953 copying bcftools/utlist.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,956 copying bcftools/variantkey.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,959 copying bcftools/vcfannotate.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,964 copying bcftools/vcfannotate.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,969 copying bcftools/vcfbuf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,972 copying bcftools/vcfbuf.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,975 copying bcftools/vcfbuf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,977 copying bcftools/vcfcall.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,981 copying bcftools/vcfcall.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,985 copying bcftools/vcfcnv.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,989 copying bcftools/vcfcnv.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,993 copying bcftools/vcfconcat.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:45,997 copying bcftools/vcfconcat.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,001 copying bcftools/vcfconvert.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,005 copying bcftools/vcfconvert.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,009 copying bcftools/vcffilter.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,013 copying bcftools/vcffilter.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,016 copying bcftools/vcfgtcheck.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,020 copying bcftools/vcfgtcheck.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,023 copying bcftools/vcfhead.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,026 copying bcftools/vcfhead.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,028 copying bcftools/vcfindex.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,032 copying bcftools/vcfindex.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,036 copying bcftools/vcfisec.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,040 copying bcftools/vcfisec.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,044 copying bcftools/vcfmerge.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,052 copying bcftools/vcfmerge.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,059 copying bcftools/vcfnorm.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,065 copying bcftools/vcfnorm.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,071 copying bcftools/vcfplugin.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,075 copying bcftools/vcfplugin.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,079 copying bcftools/vcfquery.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,083 copying bcftools/vcfquery.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,087 copying bcftools/vcfroh.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,092 copying bcftools/vcfroh.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,098 copying bcftools/vcfsom.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,102 copying bcftools/vcfsom.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,106 copying bcftools/vcfsort.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,110 copying bcftools/vcfsort.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,114 copying bcftools/vcfstats.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,120 copying bcftools/vcfstats.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,127 copying bcftools/vcfview.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,131 copying bcftools/vcfview.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,136 copying bcftools/vcmp.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,139 copying bcftools/vcmp.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,142 copying bcftools/vcmp.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,145 copying bcftools/version.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,148 copying bcftools/version.c.pysam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,151 copying bcftools/version.sh -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,154 copying bcftools/config.h -> build/lib.linux-armv7l-cpython-39/pysam/include/bcftools 2024-04-25T10:22:46,157 creating build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,158 copying htslib/LICENSE -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,161 copying htslib/Makefile -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,166 copying htslib/README -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,168 copying htslib/bcf_sr_sort.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,172 copying htslib/bcf_sr_sort.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,175 copying htslib/bgzf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,181 copying htslib/bgzip.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,185 copying htslib/builddir_vars.mk.in -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,187 copying htslib/config.h.in -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,190 copying htslib/config.mk.in -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,193 copying htslib/configure -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,203 copying htslib/configure.ac -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,207 copying htslib/errmod.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,210 copying htslib/faidx.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,214 copying htslib/header.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,220 copying htslib/header.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,224 copying htslib/hfile.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,228 copying htslib/hfile_gcs.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,231 copying htslib/hfile_internal.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,234 copying htslib/hfile_libcurl.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,237 copying htslib/hfile_s3.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,240 copying htslib/hfile_s3_write.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,244 copying htslib/hts.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,250 copying htslib/hts_expr.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,253 copying htslib/hts_internal.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,255 copying htslib/hts_os.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,258 copying htslib/hts_time_funcs.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,260 copying htslib/htscodecs_bundled.mk -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,263 copying htslib/htscodecs_external.mk -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,265 copying htslib/htsfile.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,268 copying htslib/htslib.mk -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,271 copying htslib/htslib.pc.in -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,273 copying htslib/htslib_vars.mk -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,275 copying htslib/kfunc.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,277 copying htslib/kstring.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,280 copying htslib/md5.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,283 copying htslib/multipart.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,285 copying htslib/plugin.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,288 copying htslib/probaln.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,291 copying htslib/realn.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,294 copying htslib/regidx.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,297 copying htslib/region.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,299 copying htslib/sam.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,306 copying htslib/sam_internal.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,308 copying htslib/sam_mods.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,311 copying htslib/synced_bcf_reader.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,315 copying htslib/tabix.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,318 copying htslib/tbx.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,321 copying htslib/textutils.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,324 copying htslib/textutils_internal.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,327 copying htslib/thread_pool.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,330 copying htslib/thread_pool_internal.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,333 copying htslib/vcf.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,339 copying htslib/vcf_sweep.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,342 copying htslib/vcfutils.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,345 copying htslib/version.sh -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,347 creating build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,348 copying htslib/cram/cram.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,351 copying htslib/cram/cram_codecs.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,356 copying htslib/cram/cram_codecs.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,359 copying htslib/cram/cram_decode.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,364 copying htslib/cram/cram_decode.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,366 copying htslib/cram/cram_encode.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,372 copying htslib/cram/cram_encode.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,375 copying htslib/cram/cram_external.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,378 copying htslib/cram/cram_index.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,381 copying htslib/cram/cram_index.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,383 copying htslib/cram/cram_io.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,390 copying htslib/cram/cram_io.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,392 copying htslib/cram/cram_samtools.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,394 copying htslib/cram/cram_stats.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,397 copying htslib/cram/cram_stats.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,399 copying htslib/cram/cram_structs.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,402 copying htslib/cram/mFILE.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,404 copying htslib/cram/mFILE.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,406 copying htslib/cram/misc.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,408 copying htslib/cram/open_trace_file.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,411 copying htslib/cram/open_trace_file.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,413 copying htslib/cram/os.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,416 copying htslib/cram/pooled_alloc.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,418 copying htslib/cram/pooled_alloc.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,420 copying htslib/cram/string_alloc.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,422 copying htslib/cram/string_alloc.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram 2024-04-25T10:22:46,424 creating build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs 2024-04-25T10:22:46,425 creating build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,426 copying htslib/htscodecs/htscodecs/arith_dynamic.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,430 copying htslib/htscodecs/htscodecs/arith_dynamic.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,432 copying htslib/htscodecs/htscodecs/c_range_coder.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,434 copying htslib/htscodecs/htscodecs/c_simple_model.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,436 copying htslib/htscodecs/htscodecs/fqzcomp_qual.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,440 copying htslib/htscodecs/htscodecs/fqzcomp_qual.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,442 copying htslib/htscodecs/htscodecs/htscodecs.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,444 copying htslib/htscodecs/htscodecs/htscodecs.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,446 copying htslib/htscodecs/htscodecs/htscodecs_endian.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,448 copying htslib/htscodecs/htscodecs/pack.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,451 copying htslib/htscodecs/htscodecs/pack.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,453 copying htslib/htscodecs/htscodecs/permute.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,455 copying htslib/htscodecs/htscodecs/pooled_alloc.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,457 copying htslib/htscodecs/htscodecs/rANS_byte.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,460 copying htslib/htscodecs/htscodecs/rANS_static.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,463 copying htslib/htscodecs/htscodecs/rANS_static.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,465 copying htslib/htscodecs/htscodecs/rANS_static16_int.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,468 copying htslib/htscodecs/htscodecs/rANS_static32x16pr.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,470 copying htslib/htscodecs/htscodecs/rANS_static32x16pr.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,473 copying htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,476 copying htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,479 copying htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,483 copying htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,486 copying htslib/htscodecs/htscodecs/rANS_static4x16.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,488 copying htslib/htscodecs/htscodecs/rANS_static4x16pr.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,491 copying htslib/htscodecs/htscodecs/rANS_word.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,494 copying htslib/htscodecs/htscodecs/rle.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,496 copying htslib/htscodecs/htscodecs/rle.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,498 copying htslib/htscodecs/htscodecs/tokenise_name3.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,501 copying htslib/htscodecs/htscodecs/tokenise_name3.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,503 copying htslib/htscodecs/htscodecs/utils.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,505 copying htslib/htscodecs/htscodecs/utils.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,507 copying htslib/htscodecs/htscodecs/varint.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,510 copying htslib/htscodecs/htscodecs/varint2.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,512 copying htslib/htscodecs/htscodecs/version.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:22:46,514 creating build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4 2024-04-25T10:22:46,514 copying htslib/m4/hts_check_compile_flags_needed.m4 -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4 2024-04-25T10:22:46,516 copying htslib/m4/hts_hide_dynamic_syms.m4 -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4 2024-04-25T10:22:46,518 copying htslib/m4/hts_prog_cc_warnings.m4 -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4 2024-04-25T10:22:46,521 copying htslib/m4/pkg.m4 -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4 2024-04-25T10:22:46,523 creating build/lib.linux-armv7l-cpython-39/pysam/include/htslib/os 2024-04-25T10:22:46,523 copying htslib/os/lzma_stub.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/os 2024-04-25T10:22:46,525 copying htslib/os/rand.c -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/os 2024-04-25T10:22:46,527 copying htslib/config.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib 2024-04-25T10:22:46,529 creating build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,530 copying htslib/htslib/bgzf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,532 copying htslib/htslib/cram.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,535 copying htslib/htslib/faidx.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,537 copying htslib/htslib/hfile.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,540 copying htslib/htslib/hts.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,543 copying htslib/htslib/hts_defs.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,545 copying htslib/htslib/hts_endian.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,547 copying htslib/htslib/hts_expr.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,549 copying htslib/htslib/hts_log.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,551 copying htslib/htslib/hts_os.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,553 copying htslib/htslib/kbitset.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,555 copying htslib/htslib/kfunc.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,558 copying htslib/htslib/khash.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,560 copying htslib/htslib/khash_str2int.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,562 copying htslib/htslib/klist.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,565 copying htslib/htslib/knetfile.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,566 copying htslib/htslib/kroundup.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,568 copying htslib/htslib/kseq.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,571 copying htslib/htslib/ksort.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,573 copying htslib/htslib/kstring.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,576 copying htslib/htslib/regidx.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,578 copying htslib/htslib/sam.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,582 copying htslib/htslib/synced_bcf_reader.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,584 copying htslib/htslib/tbx.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,587 copying htslib/htslib/thread_pool.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,589 copying htslib/htslib/vcf.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,592 copying htslib/htslib/vcf_sweep.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,594 copying htslib/htslib/vcfutils.h -> build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib 2024-04-25T10:22:46,602 running build_ext 2024-04-25T10:22:46,609 creating htslib/config_vars.h for 'pysam.libchtslib' extension 2024-04-25T10:22:46,610 building 'libhts.a' 2024-04-25T10:22:46,665 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o kfunc.o kfunc.c 2024-04-25T10:22:47,065 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o kstring.o kstring.c 2024-04-25T10:22:47,769 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o bcf_sr_sort.o bcf_sr_sort.c 2024-04-25T10:22:49,778 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o bgzf.o bgzf.c 2024-04-25T10:22:52,561 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o errmod.o errmod.c 2024-04-25T10:22:53,109 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o faidx.o faidx.c 2024-04-25T10:22:54,747 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o header.o header.c 2024-04-25T10:22:58,551 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hfile.o hfile.c 2024-04-25T10:22:59,955 echo '#define HTS_VERSION_TEXT "1.18"' > version.h 2024-04-25T10:22:59,961 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hts.o hts.c 2024-04-25T10:23:07,475 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hts_expr.o hts_expr.c 2024-04-25T10:23:09,071 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hts_os.o hts_os.c 2024-04-25T10:23:09,170 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o md5.o md5.c 2024-04-25T10:23:09,701 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o multipart.o multipart.c 2024-04-25T10:23:10,167 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o probaln.o probaln.c 2024-04-25T10:23:10,783 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o realn.o realn.c 2024-04-25T10:23:11,614 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare 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textutils.o textutils.c 2024-04-25T10:23:29,503 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o thread_pool.o thread_pool.c 2024-04-25T10:23:30,282 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o vcf.o vcf.c 2024-04-25T10:23:42,774 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 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2024-04-25T10:23:55,848 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_encode.o cram/cram_encode.c 2024-04-25T10:24:03,020 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/cram_external.o cram/cram_external.c 2024-04-25T10:24:03,973 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 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2024-04-25T10:24:12,392 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/mFILE.o cram/mFILE.c 2024-04-25T10:24:12,948 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o cram/open_trace_file.o cram/open_trace_file.c 2024-04-25T10:24:13,412 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 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htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/arith_dynamic.c 2024-04-25T10:24:17,050 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/fqzcomp_qual.c 2024-04-25T10:24:21,230 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/htscodecs.c 2024-04-25T10:24:21,301 arm-linux-gnueabihf-gcc -pthread 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-Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rANS_static32x16pr_sse4.o htscodecs/htscodecs/rANS_static32x16pr_sse4.c 2024-04-25T10:24:26,332 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rANS_static32x16pr_neon.o htscodecs/htscodecs/rANS_static32x16pr_neon.c 2024-04-25T10:24:26,393 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static32x16pr.c 2024-04-25T10:24:29,170 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rANS_static.c 2024-04-25T10:24:30,927 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/rle.o htscodecs/htscodecs/rle.c 2024-04-25T10:24:31,332 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/tokenise_name3.c 2024-04-25T10:24:33,820 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o htscodecs/htscodecs/utils.o htscodecs/htscodecs/utils.c 2024-04-25T10:24:34,052 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hfile_libcurl.o hfile_libcurl.c 2024-04-25T10:24:36,171 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hfile_gcs.o hfile_gcs.c 2024-04-25T10:24:36,607 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hfile_s3.o hfile_s3.c 2024-04-25T10:24:39,197 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 -fvisibility=hidden -I. -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement -c -o hfile_s3_write.o hfile_s3_write.c 2024-04-25T10:24:40,412 ar -rc libhts.a kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o sam_mods.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o htscodecs/htscodecs/arith_dynamic.o htscodecs/htscodecs/fqzcomp_qual.o htscodecs/htscodecs/htscodecs.o htscodecs/htscodecs/pack.o htscodecs/htscodecs/rANS_static4x16pr.o htscodecs/htscodecs/rANS_static32x16pr_avx2.o htscodecs/htscodecs/rANS_static32x16pr_avx512.o htscodecs/htscodecs/rANS_static32x16pr_sse4.o htscodecs/htscodecs/rANS_static32x16pr_neon.o htscodecs/htscodecs/rANS_static32x16pr.o htscodecs/htscodecs/rANS_static.o htscodecs/htscodecs/rle.o htscodecs/htscodecs/tokenise_name3.o htscodecs/htscodecs/utils.o hfile_libcurl.o hfile_gcs.o hfile_s3.o hfile_s3_write.o 2024-04-25T10:24:40,569 ranlib libhts.a 2024-04-25T10:24:46,548 Compiling pysam/libchtslib.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/unistd.pxd. 2024-04-25T10:24:46,548 [1/1] Cythonizing pysam/libchtslib.pyx 2024-04-25T10:24:46,550 building 'pysam.libchtslib' extension 2024-04-25T10:24:46,550 creating build/temp.linux-armv7l-cpython-39 2024-04-25T10:24:46,551 creating build/temp.linux-armv7l-cpython-39/pysam 2024-04-25T10:24:46,552 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/htslib_util.c -o build/temp.linux-armv7l-cpython-39/pysam/htslib_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:24:46,845 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libchtslib.c -o build/temp.linux-armv7l-cpython-39/pysam/libchtslib.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:18,591 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/htslib_util.o build/temp.linux-armv7l-cpython-39/pysam/libchtslib.o htslib/kfunc.o htslib/kstring.o htslib/bcf_sr_sort.o htslib/bgzf.o htslib/errmod.o htslib/faidx.o htslib/header.o htslib/hfile.o htslib/hts.o htslib/hts_expr.o htslib/hts_os.o htslib/md5.o htslib/multipart.o htslib/probaln.o htslib/realn.o htslib/regidx.o htslib/region.o htslib/sam.o htslib/sam_mods.o htslib/synced_bcf_reader.o htslib/vcf_sweep.o htslib/tbx.o htslib/textutils.o htslib/thread_pool.o htslib/vcf.o htslib/vcfutils.o htslib/cram/cram_codecs.o htslib/cram/cram_decode.o htslib/cram/cram_encode.o htslib/cram/cram_external.o htslib/cram/cram_index.o htslib/cram/cram_io.o htslib/cram/cram_stats.o htslib/cram/mFILE.o htslib/cram/open_trace_file.o htslib/cram/pooled_alloc.o htslib/cram/string_alloc.o htslib/htscodecs/htscodecs/arith_dynamic.o htslib/htscodecs/htscodecs/fqzcomp_qual.o htslib/htscodecs/htscodecs/htscodecs.o htslib/htscodecs/htscodecs/pack.o htslib/htscodecs/htscodecs/rANS_static4x16pr.o htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.o htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.o htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.o htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.o htslib/htscodecs/htscodecs/rANS_static32x16pr.o htslib/htscodecs/htscodecs/rANS_static.o htslib/htscodecs/htscodecs/rle.o htslib/htscodecs/htscodecs/tokenise_name3.o htslib/htscodecs/htscodecs/utils.o htslib/hfile_libcurl.o htslib/hfile_gcs.o htslib/hfile_s3.o htslib/hfile_s3_write.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -o build/lib.linux-armv7l-cpython-39/pysam/libchtslib.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:25:19,256 creating samtools/samtools_config_vars.h for 'pysam.libcsamtools' extension 2024-04-25T10:25:19,264 building 'pysam.libcsamtools' extension 2024-04-25T10:25:19,268 creating build/temp.linux-armv7l-cpython-39/samtools 2024-04-25T10:25:19,270 creating build/temp.linux-armv7l-cpython-39/samtools/lz4 2024-04-25T10:25:19,272 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcsamtools.c -o build/temp.linux-armv7l-cpython-39/pysam/libcsamtools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:21,083 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/amplicon_stats.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/amplicon_stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:24,580 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:25,084 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam2depth.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam2depth.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:27,152 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_addrprg.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_addrprg.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:27,823 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_ampliconclip.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:29,622 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_aux.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_aux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:29,850 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_cat.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_cat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:30,550 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_color.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_color.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:30,817 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_consensus.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:33,543 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_fastq.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_fastq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:34,822 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_flags.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_flags.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:35,055 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_import.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_import.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:35,971 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_index.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_index.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:36,387 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_lpileup.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_lpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:36,930 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_markdup.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_markdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:41,105 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_mate.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_mate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:42,352 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_md.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_md.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:43,296 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_plbuf.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_plbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:43,492 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_plcmd.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_plcmd.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:45,603 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_quickcheck.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_quickcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:45,935 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_reheader.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:46,695 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_rmdup.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_rmdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:47,938 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_rmdupse.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_rmdupse.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:48,987 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_samples.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_samples.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:49,715 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_sort.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_sort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:58,541 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_split.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_split.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:25:59,690 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bam_stat.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bam_stat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:00,438 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bamshuf.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bamshuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:02,419 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bamtk.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bamtk.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:02,874 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bedcov.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bedcov.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:03,832 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/bedidx.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/bedidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:05,375 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/consensus_pileup.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/consensus_pileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:05,980 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/coverage.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/coverage.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:06,979 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/cram_size.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/cram_size.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:07,913 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/cut_target.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/cut_target.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:08,525 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/dict.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/dict.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:09,438 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/faidx.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/faidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:09,998 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/lz4/lz4.c -o build/temp.linux-armv7l-cpython-39/samtools/lz4/lz4.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:15,242 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/padding.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/padding.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:16,398 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/phase.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/phase.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:19,051 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/reference.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/reference.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:19,918 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/reset.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/reset.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:20,858 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/sam_opts.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/sam_opts.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:21,370 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/sam_utils.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/sam_utils.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:21,850 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/sam_view.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/sam_view.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:24,528 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/sample.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:25,224 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/samtools.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/samtools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:25,424 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/stats.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:29,874 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/stats_isize.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/stats_isize.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:30,461 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c samtools/tmp_file.c.pysam.c -o build/temp.linux-armv7l-cpython-39/samtools/tmp_file.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:30,895 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcsamtools.o build/temp.linux-armv7l-cpython-39/samtools/amplicon_stats.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam2depth.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_addrprg.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_ampliconclip.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_aux.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_cat.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_color.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_consensus.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_fastq.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_flags.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_import.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_index.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_lpileup.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_markdup.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_mate.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_md.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_plbuf.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_plcmd.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_quickcheck.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_reheader.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_rmdup.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_rmdupse.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_samples.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_sort.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_split.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bam_stat.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bamshuf.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bamtk.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bedcov.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/bedidx.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/consensus_pileup.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/coverage.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/cram_size.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/cut_target.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/dict.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/faidx.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/lz4/lz4.o build/temp.linux-armv7l-cpython-39/samtools/padding.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/phase.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/reference.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/reset.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/sam_opts.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/sam_utils.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/sam_view.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/sample.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/samtools.pysam.o build/temp.linux-armv7l-cpython-39/samtools/stats.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/stats_isize.c.pysam.o build/temp.linux-armv7l-cpython-39/samtools/tmp_file.c.pysam.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcsamtools.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:26:31,362 building 'pysam.libcbcftools' extension 2024-04-25T10:26:31,364 creating build/temp.linux-armv7l-cpython-39/bcftools 2024-04-25T10:26:31,368 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/HMM.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/HMM.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:32,228 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/abuf.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/abuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:34,668 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/bam2bcf.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/bam2bcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:36,806 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/bam2bcf_iaux.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/bam2bcf_iaux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:38,226 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/bam2bcf_indel.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/bam2bcf_indel.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:40,285 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/bam_sample.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/bam_sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:41,942 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/bcftools.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/bcftools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:42,139 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/bin.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/bin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:42,438 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/ccall.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/ccall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:43,135 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/cols.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/cols.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:43,358 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/consensus.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:45,565 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/convert.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/convert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:50,818 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/csq.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/csq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:56,985 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/dist.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/dist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:57,230 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/em.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/em.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:57,728 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/extsort.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/extsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:26:58,193 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/filter.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/filter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:11,309 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/gff.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/gff.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:13,868 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/gvcf.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/gvcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:14,378 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/hclust.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/hclust.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:14,928 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/kmin.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/kmin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:15,338 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/main.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/main.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:15,636 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/mcall.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/mcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:18,917 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/mpileup.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/mpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:21,222 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/ploidy.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/ploidy.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:22,151 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/prob1.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/prob1.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:23,503 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/read_consensus.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/read_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:25,168 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/regidx.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/regidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:26,348 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/reheader.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:29,108 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/smpl_ilist.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/smpl_ilist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:29,512 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/str_finder.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/str_finder.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:29,898 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/tabix.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/tabix.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:30,258 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/tsv2vcf.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/tsv2vcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:30,624 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfannotate.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfannotate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:38,726 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfbuf.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:39,883 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfcall.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:42,248 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfcnv.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfcnv.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:44,131 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfconcat.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfconcat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:46,550 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfconvert.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfconvert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:49,893 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcffilter.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcffilter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:51,316 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfgtcheck.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfgtcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:53,984 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfhead.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfhead.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:54,317 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfindex.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfindex.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:54,894 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfisec.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfisec.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:56,461 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfmerge.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfmerge.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:27:58,500 bcftools/vcfmerge.c.pysam.c: In function ‘maux_init’: 2024-04-25T10:27:58,500 bcftools/vcfmerge.c.pysam.c:860:34: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 2024-04-25T10:27:58,501 860 | ma->gvcf = (gvcf_aux_t*) calloc(ma->n,sizeof(gvcf_aux_t)); // -Walloc-size-larger-than gives a harmless warning caused by signed integer ma->n 2024-04-25T10:27:58,501 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-04-25T10:27:58,501 In file included from /tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib/htslib/kstring.h:30, 2024-04-25T10:27:58,501 from /tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib/htslib/hts.h:37, 2024-04-25T10:27:58,501 from /tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib/htslib/vcf.h:39, 2024-04-25T10:27:58,501 from bcftools/vcfmerge.c.pysam.c:35: 2024-04-25T10:27:58,502 /usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here 2024-04-25T10:27:58,502 542 | extern void *calloc (size_t __nmemb, size_t __size) 2024-04-25T10:27:58,502 | ^~~~~~ 2024-04-25T10:28:07,175 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfnorm.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfnorm.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:15,158 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfplugin.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfplugin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:15,428 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfquery.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfquery.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:16,558 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfroh.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfroh.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:18,781 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfsom.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfsom.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:19,958 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfsort.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:20,676 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfstats.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfstats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:24,807 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcfview.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcfview.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:26,565 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/vcmp.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/vcmp.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:26,948 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c bcftools/version.c.pysam.c -o build/temp.linux-armv7l-cpython-39/bcftools/version.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:27,299 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcbcftools.c -o build/temp.linux-armv7l-cpython-39/pysam/libcbcftools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:29,110 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/bcftools/HMM.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/abuf.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/bam2bcf.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/bam2bcf_iaux.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/bam2bcf_indel.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/bam_sample.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/bcftools.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/bin.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/ccall.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/cols.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/consensus.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/convert.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/csq.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/dist.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/em.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/extsort.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/filter.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/gff.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/gvcf.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/hclust.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/kmin.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/main.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/mcall.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/mpileup.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/ploidy.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/prob1.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/read_consensus.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/regidx.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/reheader.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/smpl_ilist.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/str_finder.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/tabix.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/tsv2vcf.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfannotate.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfbuf.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfcall.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfcnv.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfconcat.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfconvert.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcffilter.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfgtcheck.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfhead.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfindex.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfisec.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfmerge.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfnorm.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfplugin.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfquery.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfroh.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfsom.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfsort.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfstats.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcfview.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/vcmp.c.pysam.o build/temp.linux-armv7l-cpython-39/bcftools/version.c.pysam.o build/temp.linux-armv7l-cpython-39/pysam/libcbcftools.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcbcftools.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:28:32,216 Compiling pysam/libcutils.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/unistd.pxd. 2024-04-25T10:28:32,216 [1/1] Cythonizing pysam/libcutils.pyx 2024-04-25T10:28:32,217 building 'pysam.libcutils' extension 2024-04-25T10:28:32,218 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcutils.c -o build/temp.linux-armv7l-cpython-39/pysam/libcutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:48,488 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/pysam_util.c -o build/temp.linux-armv7l-cpython-39/pysam/pysam_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:28:48,637 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcutils.o build/temp.linux-armv7l-cpython-39/pysam/pysam_util.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcsamtools.cpython-39-arm-linux-gnueabihf -lcbcftools.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcutils.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:28:52,076 warning: pysam/libcalignmentfile.pyx:2567:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation 2024-04-25T10:28:52,077 warning: pysam/libcalignmentfile.pyx:2572:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation 2024-04-25T10:28:52,079 warning: pysam/libcalignmentfile.pyx:2577:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation 2024-04-25T10:28:52,084 warning: pysam/libcalignmentfile.pyx:2616:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation 2024-04-25T10:28:52,085 warning: pysam/libcalignmentfile.pyx:2621:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation 2024-04-25T10:28:52,087 warning: pysam/libcalignmentfile.pyx:2626:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation 2024-04-25T10:28:53,454 Compiling pysam/libcalignmentfile.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/types.pxd. 2024-04-25T10:28:53,454 [1/1] Cythonizing pysam/libcalignmentfile.pyx 2024-04-25T10:28:53,455 building 'pysam.libcalignmentfile' extension 2024-04-25T10:28:53,455 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcalignmentfile.c -o build/temp.linux-armv7l-cpython-39/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:30:33,416 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcalignmentfile.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcalignmentfile.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:30:35,750 Compiling pysam/libcsamfile.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/types.pxd. 2024-04-25T10:30:35,750 [1/1] Cythonizing pysam/libcsamfile.pyx 2024-04-25T10:30:35,751 building 'pysam.libcsamfile' extension 2024-04-25T10:30:35,751 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcsamfile.c -o build/temp.linux-armv7l-cpython-39/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:30:40,441 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcsamfile.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcsamfile.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:30:43,185 warning: pysam/libcalignedsegment.pyx:760:14: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2024-04-25T10:30:43,185 warning: pysam/libcalignedsegment.pyx:760:32: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. 2024-04-25T10:30:47,594 Compiling pysam/libcalignedsegment.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/types.pxd. 2024-04-25T10:30:47,594 [1/1] Cythonizing pysam/libcalignedsegment.pyx 2024-04-25T10:30:47,595 building 'pysam.libcalignedsegment' extension 2024-04-25T10:30:47,596 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcalignedsegment.c -o build/temp.linux-armv7l-cpython-39/pysam/libcalignedsegment.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:32:35,503 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcalignedsegment.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcalignedsegment.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:32:39,400 Compiling pysam/libctabix.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/unistd.pxd. 2024-04-25T10:32:39,400 [1/1] Cythonizing pysam/libctabix.pyx 2024-04-25T10:32:39,401 building 'pysam.libctabix' extension 2024-04-25T10:32:39,402 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libctabix.c -o build/temp.linux-armv7l-cpython-39/pysam/libctabix.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:33:18,978 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libctabix.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libctabix.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:33:22,173 Compiling pysam/libcfaidx.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/types.pxd. 2024-04-25T10:33:22,173 [1/1] Cythonizing pysam/libcfaidx.pyx 2024-04-25T10:33:22,173 building 'pysam.libcfaidx' extension 2024-04-25T10:33:22,174 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcfaidx.c -o build/temp.linux-armv7l-cpython-39/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:33:44,441 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcfaidx.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcfaidx.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:33:53,226 Compiling pysam/libcbcf.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/types.pxd. 2024-04-25T10:33:53,227 [1/1] Cythonizing pysam/libcbcf.pyx 2024-04-25T10:33:53,227 building 'pysam.libcbcf' extension 2024-04-25T10:33:53,228 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcbcf.c -o build/temp.linux-armv7l-cpython-39/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:36:28,283 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcbcf.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcbcf.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:36:30,794 Compiling pysam/libcbgzf.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/types.pxd. 2024-04-25T10:36:30,794 [1/1] Cythonizing pysam/libcbgzf.pyx 2024-04-25T10:36:30,795 building 'pysam.libcbgzf' extension 2024-04-25T10:36:30,796 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcbgzf.c -o build/temp.linux-armv7l-cpython-39/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:36:41,877 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcbgzf.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcbgzf.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:36:45,091 Compiling pysam/libctabixproxies.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2024-04-25T10:36:45,091 [1/1] Cythonizing pysam/libctabixproxies.pyx 2024-04-25T10:36:45,092 building 'pysam.libctabixproxies' extension 2024-04-25T10:36:45,093 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libctabixproxies.c -o build/temp.linux-armv7l-cpython-39/pysam/libctabixproxies.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:37:19,508 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libctabixproxies.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libctabixproxies.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:37:20,121 warning: pysam/libcvcf.pyx:1083:27: Unreachable code 2024-04-25T10:37:23,499 Compiling pysam/libcvcf.pyx because it depends on /tmp/pip-build-env-dd06osrq/overlay/lib/python3.9/site-packages/Cython/Includes/posix/types.pxd. 2024-04-25T10:37:23,499 [1/1] Cythonizing pysam/libcvcf.pyx 2024-04-25T10:37:23,499 building 'pysam.libcvcf' extension 2024-04-25T10:37:23,500 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 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/htslib -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/samtools/lz4 -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/bcftools -I/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -I/usr/include/python3.9 -c pysam/libcvcf.c -o build/temp.linux-armv7l-cpython-39/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement 2024-04-25T10:38:43,438 pysam/libcvcf.c: In function ‘__pyx_pf_5pysam_7libcvcf_3VCF_32parse_data.constprop’: 2024-04-25T10:38:43,457 pysam/libcvcf.c:30037:16: warning: ‘__pyx_v_qual’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2024-04-25T10:38:43,457 30037 | __pyx_t_11 = PyFloat_FromDouble(__pyx_v_qual); if (unlikely(!__pyx_t_11)) __PYX_ERR(0, 873, __pyx_L1_error) 2024-04-25T10:38:43,458 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-04-25T10:39:12,168 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/pysam/libcvcf.o -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d/pysam -L/tmp/pip-wheel-0gv9m2us/pysam_255d842e6a6942d088bfb2b1abcb145d -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -Lbuild/lib.linux-armv7l-cpython-39/pysam -L/usr/lib -lz -ldeflate -llzma -lbz2 -lz -lm -lcurl -lcrypto -lchtslib.cpython-39-arm-linux-gnueabihf -lcutils.cpython-39-arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-39/pysam/libcvcf.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,$ORIGIN 2024-04-25T10:39:12,894 installing to build/bdist.linux-armv7l/wheel 2024-04-25T10:39:12,895 running install 2024-04-25T10:39:12,921 running install_lib 2024-04-25T10:39:12,926 creating build/bdist.linux-armv7l 2024-04-25T10:39:12,926 creating build/bdist.linux-armv7l/wheel 2024-04-25T10:39:12,929 creating build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:12,930 copying build/lib.linux-armv7l-cpython-39/pysam/libctabixproxies.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:12,962 copying build/lib.linux-armv7l-cpython-39/pysam/htslib_util.h -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:12,963 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcf.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,040 copying build/lib.linux-armv7l-cpython-39/pysam/cbcftools_util.h -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,042 copying build/lib.linux-armv7l-cpython-39/pysam/libchtslib.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,061 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcftools.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,062 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignedsegment.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,064 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcftools.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,066 copying build/lib.linux-armv7l-cpython-39/pysam/libcfaidx.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,067 copying build/lib.linux-armv7l-cpython-39/pysam/libcutils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,080 copying build/lib.linux-armv7l-cpython-39/pysam/libcutils.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,082 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcf.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,084 copying build/lib.linux-armv7l-cpython-39/pysam/libctabixproxies.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,112 copying build/lib.linux-armv7l-cpython-39/pysam/libctabix.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,114 copying build/lib.linux-armv7l-cpython-39/pysam/utils.py -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,116 copying build/lib.linux-armv7l-cpython-39/pysam/libcvcf.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,117 copying build/lib.linux-armv7l-cpython-39/pysam/libcvcf.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,152 copying build/lib.linux-armv7l-cpython-39/pysam/py.typed -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,153 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamtools.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,155 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamtools.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,156 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamfile.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,158 copying build/lib.linux-armv7l-cpython-39/pysam/version.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,160 copying build/lib.linux-armv7l-cpython-39/pysam/version.h -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,162 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignedsegment.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,164 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignmentfile.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,166 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamtools.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,242 copying build/lib.linux-armv7l-cpython-39/pysam/libctabix.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,278 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignedsegment.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,329 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamfile.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,337 copying build/lib.linux-armv7l-cpython-39/pysam/libcutils.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,349 copying build/lib.linux-armv7l-cpython-39/pysam/htslib_util.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,351 copying build/lib.linux-armv7l-cpython-39/pysam/libchtslib.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,354 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamfile.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,356 copying build/lib.linux-armv7l-cpython-39/pysam/libctabixproxies.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,358 copying build/lib.linux-armv7l-cpython-39/pysam/libcbgzf.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,366 copying build/lib.linux-armv7l-cpython-39/pysam/libcbgzf.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,368 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcf.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,448 copying build/lib.linux-armv7l-cpython-39/pysam/libctabix.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,473 copying build/lib.linux-armv7l-cpython-39/pysam/libchtslib.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,559 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamtools.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,565 copying build/lib.linux-armv7l-cpython-39/pysam/pysam_util.h -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,566 copying build/lib.linux-armv7l-cpython-39/pysam/libctabix.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,569 copying build/lib.linux-armv7l-cpython-39/pysam/libcfaidx.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,572 copying build/lib.linux-armv7l-cpython-39/pysam/libcvcf.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,614 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamtools.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,615 copying build/lib.linux-armv7l-cpython-39/pysam/csamtools_util.h -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,617 copying build/lib.linux-armv7l-cpython-39/pysam/version.py -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,618 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcftools.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,686 copying build/lib.linux-armv7l-cpython-39/pysam/libcvcf.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,689 copying build/lib.linux-armv7l-cpython-39/pysam/pysam_stream.h -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,691 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignedsegment.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,695 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcf.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,699 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcf.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,701 copying build/lib.linux-armv7l-cpython-39/pysam/libcbgzf.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,712 copying build/lib.linux-armv7l-cpython-39/pysam/bcftools.py -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,713 copying build/lib.linux-armv7l-cpython-39/pysam/libcfaidx.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,715 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamfile.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,717 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignedsegment.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,785 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignmentfile.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,840 copying build/lib.linux-armv7l-cpython-39/pysam/config.py -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,842 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcftools.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,845 copying build/lib.linux-armv7l-cpython-39/pysam/libcbgzf.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,846 copying build/lib.linux-armv7l-cpython-39/pysam/libctabixproxies.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,849 copying build/lib.linux-armv7l-cpython-39/pysam/libcvcf.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,850 copying build/lib.linux-armv7l-cpython-39/pysam/libcbcftools.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,862 copying build/lib.linux-armv7l-cpython-39/pysam/libchtslib.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,865 copying build/lib.linux-armv7l-cpython-39/pysam/__init__.py -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,867 copying build/lib.linux-armv7l-cpython-39/pysam/libctabix.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,870 copying build/lib.linux-armv7l-cpython-39/pysam/Pileup.py -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:13,873 creating build/bdist.linux-armv7l/wheel/pysam/include 2024-04-25T10:39:13,877 creating build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,878 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfsom.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,883 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/tsv2vcf.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,885 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam2bcf_indel.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,888 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfcall.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,891 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/gvcf.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,893 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/mcall.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,897 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/prob1.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,900 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/mpileup.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,905 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/tsv2vcf.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,908 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/csq.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,914 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/hclust.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,916 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfconcat.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,919 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/kmin.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,922 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam_sample.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,925 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/consensus.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,928 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfmerge.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,934 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/mw.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,938 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfcnv.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,942 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfview.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,946 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam2bcf_iaux.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,949 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/filter.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,954 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam2bcf.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,957 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfcnv.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,961 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/dist.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,964 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/rbuf.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,966 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/mpileup.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,974 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/HMM.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,982 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/em.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,989 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/ploidy.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:13,994 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfannotate.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,005 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/read_consensus.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,011 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfbuf.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,013 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfindex.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,016 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfhead.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,019 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bcftools.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,022 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/version.sh -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,024 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/main.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,028 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/read_consensus.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,030 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/read_consensus.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,034 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfplugin.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,039 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/kheap.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,043 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bin.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,045 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/abuf.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,050 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/version.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,052 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/variantkey.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,056 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/tabix.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,059 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/cols.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,061 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bin.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,063 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcmp.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,065 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/prob1.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,068 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfnorm.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,119 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfquery.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,122 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam_sample.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,124 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfstats.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,131 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bin.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,135 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcmp.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,138 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/khash_str2str.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,140 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/version.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,143 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfview.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,147 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/str_finder.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,150 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bcftools.pysam.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,154 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bcftools.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,156 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/dist.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,158 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/cols.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,160 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam2bcf_iaux.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,163 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/gvcf.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,165 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/consensus.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,168 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/hclust.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,171 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfgtcheck.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,174 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/gff.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,177 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfsom.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,180 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcffilter.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,183 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/cigar_state.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,185 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfindex.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,188 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam2bcf_indel.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,190 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfhead.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,193 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/regidx.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,195 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/smpl_ilist.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,197 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/smpl_ilist.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,200 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/ccall.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,202 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfconvert.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,206 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfgtcheck.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,209 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/utlist.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,213 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/tabix.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,215 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfbuf.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,218 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfroh.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,221 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/kmin.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,223 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/dbuf.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,225 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/extsort.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,227 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/regidx.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,230 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfnorm.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,234 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/str_finder.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,236 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/ploidy.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,239 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/tsv2vcf.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,241 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/filter.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,245 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/hex.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,247 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/em.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,250 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/gff.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,252 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfstats.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,256 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfplugin.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,259 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/extsort.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,262 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/hclust.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,264 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/convert.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,266 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfannotate.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,272 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/convert.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,276 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/config.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,278 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/csq.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,284 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfbuf.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,286 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfconvert.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,291 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfconcat.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,294 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/mcall.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,298 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/regidx.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,301 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfsort.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,303 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/README -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,305 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/filter.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,307 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfmerge.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,313 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcffilter.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,316 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfsort.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,319 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/reheader.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,322 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/prob1.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,324 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfcall.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,328 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/dist.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,329 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/gff.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,332 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/kmin.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,334 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/call.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,336 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam2bcf.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,339 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/str_finder.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,341 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/reheader.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,343 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/convert.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,347 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/cols.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,348 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcmp.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,351 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/ploidy.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,353 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/LICENSE -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,356 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/smpl_ilist.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,359 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfroh.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,361 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfisec.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,364 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/extsort.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,366 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfquery.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,369 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam_sample.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,372 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/abuf.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,375 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/gvcf.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,378 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/vcfisec.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,381 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/abuf.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,383 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/main.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,385 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/ccall.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,388 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/bam2bcf.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,392 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/HMM.h -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,394 copying build/lib.linux-armv7l-cpython-39/pysam/include/bcftools/HMM.c -> build/bdist.linux-armv7l/wheel/pysam/include/bcftools 2024-04-25T10:39:14,398 creating build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,399 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/bcf_sr_sort.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,401 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/bgzf.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,406 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/thread_pool.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,409 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/config.h.in -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,412 creating build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs 2024-04-25T10:39:14,414 creating build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,415 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,419 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static16_int.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,422 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/pack.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,425 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/tokenise_name3.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,427 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rle.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,430 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,433 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/htscodecs.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,435 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/varint.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,438 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/fqzcomp_qual.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,442 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,445 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/version.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,447 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,450 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rle.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,452 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static4x16.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,454 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/htscodecs.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,456 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/htscodecs_endian.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,458 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static4x16pr.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,461 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,463 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/permute.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,465 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/pooled_alloc.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,467 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/arith_dynamic.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,469 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,471 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/tokenise_name3.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,474 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/c_simple_model.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,476 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/arith_dynamic.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,479 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,482 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/utils.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,484 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/varint2.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,487 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/c_range_coder.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,488 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_byte.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,491 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/fqzcomp_qual.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,493 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,496 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/utils.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,498 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/rANS_word.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,500 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs/htscodecs/pack.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htscodecs/htscodecs 2024-04-25T10:39:14,502 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/vcf.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,508 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hts_time_funcs.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,510 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/Makefile -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,513 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/thread_pool_internal.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,515 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/plugin.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,517 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/configure -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,524 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/sam_internal.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,526 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/version.sh -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,527 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/realn.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,530 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/probaln.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,532 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/multipart.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,534 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/kfunc.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,537 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/faidx.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,539 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/configure.ac -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,542 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/textutils_internal.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,544 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hts_internal.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,546 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs_external.mk -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,548 creating build/bdist.linux-armv7l/wheel/pysam/include/htslib/m4 2024-04-25T10:39:14,549 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4/hts_prog_cc_warnings.m4 -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/m4 2024-04-25T10:39:14,551 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4/hts_hide_dynamic_syms.m4 -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/m4 2024-04-25T10:39:14,553 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4/pkg.m4 -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/m4 2024-04-25T10:39:14,556 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/m4/hts_check_compile_flags_needed.m4 -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/m4 2024-04-25T10:39:14,557 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/textutils.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,560 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib.mk -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,562 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/synced_bcf_reader.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,564 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/header.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,567 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hfile_libcurl.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,570 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/bcf_sr_sort.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,572 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hts_expr.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,575 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/tabix.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,577 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/vcfutils.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,580 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/config.mk.in -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,582 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/header.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,585 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hfile.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,588 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib.pc.in -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,590 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htscodecs_bundled.mk -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,592 creating build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,593 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_encode.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,598 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_codecs.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,600 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/pooled_alloc.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,602 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_stats.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,604 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,605 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/string_alloc.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,607 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_io.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,610 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_decode.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,612 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_index.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,613 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_encode.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,615 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/mFILE.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,618 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_codecs.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,623 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_io.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,631 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/pooled_alloc.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,633 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/open_trace_file.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,635 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_structs.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,638 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/string_alloc.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,640 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/misc.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,641 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/mFILE.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,643 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_external.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,646 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_stats.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,648 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/open_trace_file.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,650 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_samtools.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,652 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_index.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,655 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/os.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,657 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/cram/cram_decode.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/cram 2024-04-25T10:39:14,663 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htsfile.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,665 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/kstring.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,667 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/errmod.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,670 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/builddir_vars.mk.in -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,671 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hts.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,678 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/config.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,680 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/sam_mods.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,684 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib_vars.mk -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,686 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/region.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,690 creating build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,691 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/knetfile.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,694 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/thread_pool.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,696 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/synced_bcf_reader.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,700 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/ksort.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,702 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/cram.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,706 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/hfile.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,709 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/vcfutils.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,711 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/hts_defs.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,713 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/regidx.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,716 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/vcf_sweep.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,718 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/khash_str2int.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,720 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/hts_log.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,723 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/vcf.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,728 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/kstring.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,731 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/klist.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,734 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/hts.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,739 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/hts_endian.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,742 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/bgzf.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,745 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/faidx.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,748 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/kseq.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,751 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/hts_expr.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,753 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/kroundup.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,755 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/khash.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,759 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/hts_os.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,761 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/kfunc.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,763 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/tbx.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,765 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/sam.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,772 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/htslib/kbitset.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/htslib 2024-04-25T10:39:14,774 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/regidx.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,777 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/README -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,779 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hfile_gcs.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,782 creating build/bdist.linux-armv7l/wheel/pysam/include/htslib/os 2024-04-25T10:39:14,783 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/os/lzma_stub.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/os 2024-04-25T10:39:14,785 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/os/rand.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib/os 2024-04-25T10:39:14,787 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/vcf_sweep.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,789 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/md5.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,791 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hfile_s3_write.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,794 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/tbx.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,796 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/sam.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,801 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/LICENSE -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,802 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hts_os.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,804 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hfile_s3.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,807 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/bgzip.c -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,809 copying build/lib.linux-armv7l-cpython-39/pysam/include/htslib/hfile_internal.h -> build/bdist.linux-armv7l/wheel/pysam/include/htslib 2024-04-25T10:39:14,811 copying build/lib.linux-armv7l-cpython-39/pysam/include/__init__.py -> build/bdist.linux-armv7l/wheel/pysam/include 2024-04-25T10:39:14,815 creating build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,816 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_plbuf.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,817 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_quickcheck.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,819 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bedidx.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,822 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_samples.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,824 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bamshuf.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,827 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_import.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,829 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/tmp_file.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,831 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_stat.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,833 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_fastq.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,836 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/stats_isize.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,838 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_ampliconclip.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,839 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/stats_isize.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,841 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_utils.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,843 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_lpileup.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,845 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/coverage.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,848 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/coverage.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,851 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,852 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/padding.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,855 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/samtools.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,856 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_fastq.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,859 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_opts.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,861 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/consensus_pileup.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,863 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/phase.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,866 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/cram_size.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,868 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/dict.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,870 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sample.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,872 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/amplicon_stats.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,875 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/version.sh -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,876 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/cut_target.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,879 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/consensus_pileup.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,881 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_opts.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,883 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/faidx.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,885 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_rmdup.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,888 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_index.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,890 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/splaysort.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,892 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/phase.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,894 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/cram_size.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,897 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_quickcheck.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,899 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_utils.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,901 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sample.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,903 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/reset.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,905 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/cut_target.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,907 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_lpileup.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,909 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_index.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,911 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/consensus_pileup.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,914 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_addrprg.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,916 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_utils.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,918 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_reheader.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,920 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_mate.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,922 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_import.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,925 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_cat.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,927 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_plcmd.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,930 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_sort.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,934 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam2depth.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,937 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam2depth.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,940 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/reference.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,942 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_flags.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,944 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_rmdupse.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,946 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_split.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,948 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,951 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_md.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,953 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_plbuf.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,955 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_consensus.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,959 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_color.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,961 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_plcmd.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,964 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_reheader.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,966 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_samples.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,969 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bamshuf.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,971 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_md.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,973 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_addrprg.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,976 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bedidx.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,977 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_rmdupse.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,980 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_markdup.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,983 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_split.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,986 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_flags.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,988 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bamtk.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,990 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_color.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,992 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_aux.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,994 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,996 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/samtools.pysam.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:14,998 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/padding.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,000 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/reset.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,003 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/tmp_file.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,006 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/config.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,007 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/tmp_file.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,009 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/samtools.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,011 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/stats.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,015 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/reference.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,018 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/README -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,020 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_markdup.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,024 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_opts.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,026 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_rmdup.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,028 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bedcov.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,031 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_consensus.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,035 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bamtk.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,037 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bedidx.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,039 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_plbuf.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,041 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/stats.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,045 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sample.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,047 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/faidx.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,049 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_view.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,053 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/dict.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,055 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_mate.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,057 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/LICENSE -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,059 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_sort.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,064 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/stats_isize.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,066 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_ampliconclip.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,069 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_lpileup.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,071 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/amplicon_stats.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,074 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/sam_view.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,077 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bedcov.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,079 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_ampliconclip.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,082 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_stat.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,085 creating build/bdist.linux-armv7l/wheel/pysam/include/samtools/lz4 2024-04-25T10:39:15,086 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4/lz4.h -> build/bdist.linux-armv7l/wheel/pysam/include/samtools/lz4 2024-04-25T10:39:15,088 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4/lz4.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools/lz4 2024-04-25T10:39:15,091 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4/lz4.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools/lz4 2024-04-25T10:39:15,094 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/lz4/LICENSE -> build/bdist.linux-armv7l/wheel/pysam/include/samtools/lz4 2024-04-25T10:39:15,096 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_aux.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,098 copying build/lib.linux-armv7l-cpython-39/pysam/include/samtools/bam_cat.c.pysam.c -> build/bdist.linux-armv7l/wheel/pysam/include/samtools 2024-04-25T10:39:15,100 copying build/lib.linux-armv7l-cpython-39/pysam/pysam_util.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,102 copying build/lib.linux-armv7l-cpython-39/pysam/libcutils.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,104 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignmentfile.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,162 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignmentfile.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,165 copying build/lib.linux-armv7l-cpython-39/pysam/libcfaidx.c -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,184 copying build/lib.linux-armv7l-cpython-39/pysam/libctabixproxies.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,186 copying build/lib.linux-armv7l-cpython-39/pysam/libchtslib.pyx -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,189 copying build/lib.linux-armv7l-cpython-39/pysam/samtools.py -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,191 copying build/lib.linux-armv7l-cpython-39/pysam/libcsamfile.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,197 copying build/lib.linux-armv7l-cpython-39/pysam/libcalignmentfile.pxd -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,199 copying build/lib.linux-armv7l-cpython-39/pysam/libcutils.pyi -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,201 copying build/lib.linux-armv7l-cpython-39/pysam/libcfaidx.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pysam 2024-04-25T10:39:15,218 running install_egg_info 2024-04-25T10:39:15,223 Copying pysam.egg-info to build/bdist.linux-armv7l/wheel/pysam-0.22.1-py3.9.egg-info 2024-04-25T10:39:15,234 running install_scripts 2024-04-25T10:39:15,286 creating build/bdist.linux-armv7l/wheel/pysam-0.22.1.dist-info/WHEEL 2024-04-25T10:39:15,288 creating '/tmp/pip-wheel-a9jwc9di/.tmp-xpzmg4d5/pysam-0.22.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-04-25T10:39:15,292 adding 'pysam/Pileup.py' 2024-04-25T10:39:15,294 adding 'pysam/__init__.py' 2024-04-25T10:39:15,295 adding 'pysam/bcftools.py' 2024-04-25T10:39:15,296 adding 'pysam/cbcftools_util.h' 2024-04-25T10:39:15,297 adding 'pysam/config.py' 2024-04-25T10:39:15,299 adding 'pysam/csamtools_util.h' 2024-04-25T10:39:15,300 adding 'pysam/htslib_util.c' 2024-04-25T10:39:15,301 adding 'pysam/htslib_util.h' 2024-04-25T10:39:15,554 adding 'pysam/libcalignedsegment.c' 2024-04-25T10:39:16,243 adding 'pysam/libcalignedsegment.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:16,266 adding 'pysam/libcalignedsegment.pxd' 2024-04-25T10:39:16,268 adding 'pysam/libcalignedsegment.pyi' 2024-04-25T10:39:16,280 adding 'pysam/libcalignedsegment.pyx' 2024-04-25T10:39:16,456 adding 'pysam/libcalignmentfile.c' 2024-04-25T10:39:17,001 adding 'pysam/libcalignmentfile.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:17,020 adding 'pysam/libcalignmentfile.pxd' 2024-04-25T10:39:17,022 adding 'pysam/libcalignmentfile.pyi' 2024-04-25T10:39:17,034 adding 'pysam/libcalignmentfile.pyx' 2024-04-25T10:39:17,335 adding 'pysam/libcbcf.c' 2024-04-25T10:39:18,258 adding 'pysam/libcbcf.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:18,293 adding 'pysam/libcbcf.pxd' 2024-04-25T10:39:18,295 adding 'pysam/libcbcf.pyi' 2024-04-25T10:39:18,309 adding 'pysam/libcbcf.pyx' 2024-04-25T10:39:18,331 adding 'pysam/libcbcftools.c' 2024-04-25T10:39:19,295 adding 'pysam/libcbcftools.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:19,321 adding 'pysam/libcbcftools.pxd' 2024-04-25T10:39:19,323 adding 'pysam/libcbcftools.pyi' 2024-04-25T10:39:19,324 adding 'pysam/libcbcftools.pyx' 2024-04-25T10:39:19,372 adding 'pysam/libcbgzf.c' 2024-04-25T10:39:19,475 adding 'pysam/libcbgzf.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:19,479 adding 'pysam/libcbgzf.pyi' 2024-04-25T10:39:19,481 adding 'pysam/libcbgzf.pyx' 2024-04-25T10:39:19,556 adding 'pysam/libcfaidx.c' 2024-04-25T10:39:19,764 adding 'pysam/libcfaidx.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:19,772 adding 'pysam/libcfaidx.pxd' 2024-04-25T10:39:19,774 adding 'pysam/libcfaidx.pyi' 2024-04-25T10:39:19,777 adding 'pysam/libcfaidx.pyx' 2024-04-25T10:39:19,858 adding 'pysam/libchtslib.c' 2024-04-25T10:39:21,128 adding 'pysam/libchtslib.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:21,178 adding 'pysam/libchtslib.pxd' 2024-04-25T10:39:21,180 adding 'pysam/libchtslib.pyi' 2024-04-25T10:39:21,183 adding 'pysam/libchtslib.pyx' 2024-04-25T10:39:21,221 adding 'pysam/libcsamfile.c' 2024-04-25T10:39:21,278 adding 'pysam/libcsamfile.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:21,281 adding 'pysam/libcsamfile.pxd' 2024-04-25T10:39:21,282 adding 'pysam/libcsamfile.pyi' 2024-04-25T10:39:21,284 adding 'pysam/libcsamfile.pyx' 2024-04-25T10:39:21,305 adding 'pysam/libcsamtools.c' 2024-04-25T10:39:21,949 adding 'pysam/libcsamtools.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:21,968 adding 'pysam/libcsamtools.pxd' 2024-04-25T10:39:21,969 adding 'pysam/libcsamtools.pyi' 2024-04-25T10:39:21,970 adding 'pysam/libcsamtools.pyx' 2024-04-25T10:39:22,069 adding 'pysam/libctabix.c' 2024-04-25T10:39:22,348 adding 'pysam/libctabix.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:22,359 adding 'pysam/libctabix.pxd' 2024-04-25T10:39:22,361 adding 'pysam/libctabix.pyi' 2024-04-25T10:39:22,366 adding 'pysam/libctabix.pyx' 2024-04-25T10:39:22,466 adding 'pysam/libctabixproxies.c' 2024-04-25T10:39:22,759 adding 'pysam/libctabixproxies.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:22,769 adding 'pysam/libctabixproxies.pxd' 2024-04-25T10:39:22,771 adding 'pysam/libctabixproxies.pyi' 2024-04-25T10:39:22,774 adding 'pysam/libctabixproxies.pyx' 2024-04-25T10:39:22,829 adding 'pysam/libcutils.c' 2024-04-25T10:39:22,977 adding 'pysam/libcutils.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:22,982 adding 'pysam/libcutils.pxd' 2024-04-25T10:39:22,984 adding 'pysam/libcutils.pyi' 2024-04-25T10:39:22,986 adding 'pysam/libcutils.pyx' 2024-04-25T10:39:23,135 adding 'pysam/libcvcf.c' 2024-04-25T10:39:23,686 adding 'pysam/libcvcf.cpython-39-arm-linux-gnueabihf.so' 2024-04-25T10:39:23,705 adding 'pysam/libcvcf.pxd' 2024-04-25T10:39:23,706 adding 'pysam/libcvcf.pyi' 2024-04-25T10:39:23,712 adding 'pysam/libcvcf.pyx' 2024-04-25T10:39:23,714 adding 'pysam/py.typed' 2024-04-25T10:39:23,715 adding 'pysam/pysam_stream.h' 2024-04-25T10:39:23,716 adding 'pysam/pysam_util.c' 2024-04-25T10:39:23,717 adding 'pysam/pysam_util.h' 2024-04-25T10:39:23,719 adding 'pysam/samtools.py' 2024-04-25T10:39:23,721 adding 'pysam/utils.py' 2024-04-25T10:39:23,722 adding 'pysam/version.h' 2024-04-25T10:39:23,723 adding 'pysam/version.py' 2024-04-25T10:39:23,724 adding 'pysam/version.pyi' 2024-04-25T10:39:23,726 adding 'pysam/include/__init__.py' 2024-04-25T10:39:23,731 adding 'pysam/include/bcftools/HMM.c' 2024-04-25T10:39:23,733 adding 'pysam/include/bcftools/HMM.c.pysam.c' 2024-04-25T10:39:23,735 adding 'pysam/include/bcftools/HMM.h' 2024-04-25T10:39:23,742 adding 'pysam/include/bcftools/LICENSE' 2024-04-25T10:39:23,743 adding 'pysam/include/bcftools/README' 2024-04-25T10:39:23,747 adding 'pysam/include/bcftools/abuf.c' 2024-04-25T10:39:23,751 adding 'pysam/include/bcftools/abuf.c.pysam.c' 2024-04-25T10:39:23,752 adding 'pysam/include/bcftools/abuf.h' 2024-04-25T10:39:23,758 adding 'pysam/include/bcftools/bam2bcf.c' 2024-04-25T10:39:23,764 adding 'pysam/include/bcftools/bam2bcf.c.pysam.c' 2024-04-25T10:39:23,766 adding 'pysam/include/bcftools/bam2bcf.h' 2024-04-25T10:39:23,770 adding 'pysam/include/bcftools/bam2bcf_iaux.c' 2024-04-25T10:39:23,775 adding 'pysam/include/bcftools/bam2bcf_iaux.c.pysam.c' 2024-04-25T10:39:23,779 adding 'pysam/include/bcftools/bam2bcf_indel.c' 2024-04-25T10:39:23,784 adding 'pysam/include/bcftools/bam2bcf_indel.c.pysam.c' 2024-04-25T10:39:23,787 adding 'pysam/include/bcftools/bam_sample.c' 2024-04-25T10:39:23,789 adding 'pysam/include/bcftools/bam_sample.c.pysam.c' 2024-04-25T10:39:23,790 adding 'pysam/include/bcftools/bam_sample.h' 2024-04-25T10:39:23,792 adding 'pysam/include/bcftools/bcftools.h' 2024-04-25T10:39:23,793 adding 'pysam/include/bcftools/bcftools.pysam.c' 2024-04-25T10:39:23,794 adding 'pysam/include/bcftools/bcftools.pysam.h' 2024-04-25T10:39:23,796 adding 'pysam/include/bcftools/bin.c' 2024-04-25T10:39:23,797 adding 'pysam/include/bcftools/bin.c.pysam.c' 2024-04-25T10:39:23,799 adding 'pysam/include/bcftools/bin.h' 2024-04-25T10:39:23,800 adding 'pysam/include/bcftools/call.h' 2024-04-25T10:39:23,803 adding 'pysam/include/bcftools/ccall.c' 2024-04-25T10:39:23,805 adding 'pysam/include/bcftools/ccall.c.pysam.c' 2024-04-25T10:39:23,807 adding 'pysam/include/bcftools/cigar_state.h' 2024-04-25T10:39:23,808 adding 'pysam/include/bcftools/cols.c' 2024-04-25T10:39:23,810 adding 'pysam/include/bcftools/cols.c.pysam.c' 2024-04-25T10:39:23,811 adding 'pysam/include/bcftools/cols.h' 2024-04-25T10:39:23,812 adding 'pysam/include/bcftools/config.h' 2024-04-25T10:39:23,818 adding 'pysam/include/bcftools/consensus.c' 2024-04-25T10:39:23,824 adding 'pysam/include/bcftools/consensus.c.pysam.c' 2024-04-25T10:39:23,831 adding 'pysam/include/bcftools/convert.c' 2024-04-25T10:39:23,838 adding 'pysam/include/bcftools/convert.c.pysam.c' 2024-04-25T10:39:23,840 adding 'pysam/include/bcftools/convert.h' 2024-04-25T10:39:23,855 adding 'pysam/include/bcftools/csq.c' 2024-04-25T10:39:23,871 adding 'pysam/include/bcftools/csq.c.pysam.c' 2024-04-25T10:39:23,873 adding 'pysam/include/bcftools/dbuf.h' 2024-04-25T10:39:23,875 adding 'pysam/include/bcftools/dist.c' 2024-04-25T10:39:23,876 adding 'pysam/include/bcftools/dist.c.pysam.c' 2024-04-25T10:39:23,878 adding 'pysam/include/bcftools/dist.h' 2024-04-25T10:39:23,880 adding 'pysam/include/bcftools/em.c' 2024-04-25T10:39:23,881 adding 'pysam/include/bcftools/em.c.pysam.c' 2024-04-25T10:39:23,883 adding 'pysam/include/bcftools/extsort.c' 2024-04-25T10:39:23,885 adding 'pysam/include/bcftools/extsort.c.pysam.c' 2024-04-25T10:39:23,886 adding 'pysam/include/bcftools/extsort.h' 2024-04-25T10:39:23,900 adding 'pysam/include/bcftools/filter.c' 2024-04-25T10:39:23,915 adding 'pysam/include/bcftools/filter.c.pysam.c' 2024-04-25T10:39:23,917 adding 'pysam/include/bcftools/filter.h' 2024-04-25T10:39:23,922 adding 'pysam/include/bcftools/gff.c' 2024-04-25T10:39:23,927 adding 'pysam/include/bcftools/gff.c.pysam.c' 2024-04-25T10:39:23,930 adding 'pysam/include/bcftools/gff.h' 2024-04-25T10:39:23,931 adding 'pysam/include/bcftools/gvcf.c' 2024-04-25T10:39:23,933 adding 'pysam/include/bcftools/gvcf.c.pysam.c' 2024-04-25T10:39:23,935 adding 'pysam/include/bcftools/gvcf.h' 2024-04-25T10:39:23,937 adding 'pysam/include/bcftools/hclust.c' 2024-04-25T10:39:23,939 adding 'pysam/include/bcftools/hclust.c.pysam.c' 2024-04-25T10:39:23,940 adding 'pysam/include/bcftools/hclust.h' 2024-04-25T10:39:23,942 adding 'pysam/include/bcftools/hex.h' 2024-04-25T10:39:23,943 adding 'pysam/include/bcftools/khash_str2str.h' 2024-04-25T10:39:23,945 adding 'pysam/include/bcftools/kheap.h' 2024-04-25T10:39:23,947 adding 'pysam/include/bcftools/kmin.c' 2024-04-25T10:39:23,949 adding 'pysam/include/bcftools/kmin.c.pysam.c' 2024-04-25T10:39:23,950 adding 'pysam/include/bcftools/kmin.h' 2024-04-25T10:39:23,952 adding 'pysam/include/bcftools/main.c' 2024-04-25T10:39:23,954 adding 'pysam/include/bcftools/main.c.pysam.c' 2024-04-25T10:39:23,961 adding 'pysam/include/bcftools/mcall.c' 2024-04-25T10:39:23,969 adding 'pysam/include/bcftools/mcall.c.pysam.c' 2024-04-25T10:39:23,978 adding 'pysam/include/bcftools/mpileup.c' 2024-04-25T10:39:23,986 adding 'pysam/include/bcftools/mpileup.c.pysam.c' 2024-04-25T10:39:23,990 adding 'pysam/include/bcftools/mw.h' 2024-04-25T10:39:23,992 adding 'pysam/include/bcftools/ploidy.c' 2024-04-25T10:39:23,994 adding 'pysam/include/bcftools/ploidy.c.pysam.c' 2024-04-25T10:39:23,995 adding 'pysam/include/bcftools/ploidy.h' 2024-04-25T10:39:23,998 adding 'pysam/include/bcftools/prob1.c' 2024-04-25T10:39:24,001 adding 'pysam/include/bcftools/prob1.c.pysam.c' 2024-04-25T10:39:24,003 adding 'pysam/include/bcftools/prob1.h' 2024-04-25T10:39:24,004 adding 'pysam/include/bcftools/rbuf.h' 2024-04-25T10:39:24,008 adding 'pysam/include/bcftools/read_consensus.c' 2024-04-25T10:39:24,012 adding 'pysam/include/bcftools/read_consensus.c.pysam.c' 2024-04-25T10:39:24,014 adding 'pysam/include/bcftools/read_consensus.h' 2024-04-25T10:39:24,016 adding 'pysam/include/bcftools/regidx.c' 2024-04-25T10:39:24,019 adding 'pysam/include/bcftools/regidx.c.pysam.c' 2024-04-25T10:39:24,021 adding 'pysam/include/bcftools/regidx.h' 2024-04-25T10:39:24,024 adding 'pysam/include/bcftools/reheader.c' 2024-04-25T10:39:24,028 adding 'pysam/include/bcftools/reheader.c.pysam.c' 2024-04-25T10:39:24,030 adding 'pysam/include/bcftools/smpl_ilist.c' 2024-04-25T10:39:24,031 adding 'pysam/include/bcftools/smpl_ilist.c.pysam.c' 2024-04-25T10:39:24,033 adding 'pysam/include/bcftools/smpl_ilist.h' 2024-04-25T10:39:24,034 adding 'pysam/include/bcftools/str_finder.c' 2024-04-25T10:39:24,036 adding 'pysam/include/bcftools/str_finder.c.pysam.c' 2024-04-25T10:39:24,038 adding 'pysam/include/bcftools/str_finder.h' 2024-04-25T10:39:24,039 adding 'pysam/include/bcftools/tabix.c' 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'pysam/include/bcftools/vcfcnv.c.pysam.c' 2024-04-25T10:39:24,120 adding 'pysam/include/bcftools/vcfconcat.c' 2024-04-25T10:39:24,126 adding 'pysam/include/bcftools/vcfconcat.c.pysam.c' 2024-04-25T10:39:24,134 adding 'pysam/include/bcftools/vcfconvert.c' 2024-04-25T10:39:24,142 adding 'pysam/include/bcftools/vcfconvert.c.pysam.c' 2024-04-25T10:39:24,146 adding 'pysam/include/bcftools/vcffilter.c' 2024-04-25T10:39:24,150 adding 'pysam/include/bcftools/vcffilter.c.pysam.c' 2024-04-25T10:39:24,156 adding 'pysam/include/bcftools/vcfgtcheck.c' 2024-04-25T10:39:24,161 adding 'pysam/include/bcftools/vcfgtcheck.c.pysam.c' 2024-04-25T10:39:24,163 adding 'pysam/include/bcftools/vcfhead.c' 2024-04-25T10:39:24,165 adding 'pysam/include/bcftools/vcfhead.c.pysam.c' 2024-04-25T10:39:24,167 adding 'pysam/include/bcftools/vcfindex.c' 2024-04-25T10:39:24,169 adding 'pysam/include/bcftools/vcfindex.c.pysam.c' 2024-04-25T10:39:24,172 adding 'pysam/include/bcftools/vcfisec.c' 2024-04-25T10:39:24,176 adding 'pysam/include/bcftools/vcfisec.c.pysam.c' 2024-04-25T10:39:24,192 adding 'pysam/include/bcftools/vcfmerge.c' 2024-04-25T10:39:24,208 adding 'pysam/include/bcftools/vcfmerge.c.pysam.c' 2024-04-25T10:39:24,219 adding 'pysam/include/bcftools/vcfnorm.c' 2024-04-25T10:39:24,230 adding 'pysam/include/bcftools/vcfnorm.c.pysam.c' 2024-04-25T10:39:24,234 adding 'pysam/include/bcftools/vcfplugin.c' 2024-04-25T10:39:24,238 adding 'pysam/include/bcftools/vcfplugin.c.pysam.c' 2024-04-25T10:39:24,240 adding 'pysam/include/bcftools/vcfquery.c' 2024-04-25T10:39:24,243 adding 'pysam/include/bcftools/vcfquery.c.pysam.c' 2024-04-25T10:39:24,249 adding 'pysam/include/bcftools/vcfroh.c' 2024-04-25T10:39:24,254 adding 'pysam/include/bcftools/vcfroh.c.pysam.c' 2024-04-25T10:39:24,258 adding 'pysam/include/bcftools/vcfsom.c' 2024-04-25T10:39:24,261 adding 'pysam/include/bcftools/vcfsom.c.pysam.c' 2024-04-25T10:39:24,264 adding 'pysam/include/bcftools/vcfsort.c' 2024-04-25T10:39:24,266 adding 'pysam/include/bcftools/vcfsort.c.pysam.c' 2024-04-25T10:39:24,275 adding 'pysam/include/bcftools/vcfstats.c' 2024-04-25T10:39:24,284 adding 'pysam/include/bcftools/vcfstats.c.pysam.c' 2024-04-25T10:39:24,289 adding 'pysam/include/bcftools/vcfview.c' 2024-04-25T10:39:24,293 adding 'pysam/include/bcftools/vcfview.c.pysam.c' 2024-04-25T10:39:24,295 adding 'pysam/include/bcftools/vcmp.c' 2024-04-25T10:39:24,296 adding 'pysam/include/bcftools/vcmp.c.pysam.c' 2024-04-25T10:39:24,298 adding 'pysam/include/bcftools/vcmp.h' 2024-04-25T10:39:24,299 adding 'pysam/include/bcftools/version.c' 2024-04-25T10:39:24,301 adding 'pysam/include/bcftools/version.c.pysam.c' 2024-04-25T10:39:24,302 adding 'pysam/include/bcftools/version.sh' 2024-04-25T10:39:24,305 adding 'pysam/include/htslib/LICENSE' 2024-04-25T10:39:24,310 adding 'pysam/include/htslib/Makefile' 2024-04-25T10:39:24,311 adding 'pysam/include/htslib/README' 2024-04-25T10:39:24,314 adding 'pysam/include/htslib/bcf_sr_sort.c' 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adding 'pysam/include/htslib/hfile_internal.h' 2024-04-25T10:39:24,392 adding 'pysam/include/htslib/hfile_libcurl.c' 2024-04-25T10:39:24,397 adding 'pysam/include/htslib/hfile_s3.c' 2024-04-25T10:39:24,400 adding 'pysam/include/htslib/hfile_s3_write.c' 2024-04-25T10:39:24,419 adding 'pysam/include/htslib/hts.c' 2024-04-25T10:39:24,423 adding 'pysam/include/htslib/hts_expr.c' 2024-04-25T10:39:24,425 adding 'pysam/include/htslib/hts_internal.h' 2024-04-25T10:39:24,426 adding 'pysam/include/htslib/hts_os.c' 2024-04-25T10:39:24,428 adding 'pysam/include/htslib/hts_time_funcs.h' 2024-04-25T10:39:24,430 adding 'pysam/include/htslib/htscodecs_bundled.mk' 2024-04-25T10:39:24,431 adding 'pysam/include/htslib/htscodecs_external.mk' 2024-04-25T10:39:24,433 adding 'pysam/include/htslib/htsfile.c' 2024-04-25T10:39:24,434 adding 'pysam/include/htslib/htslib.mk' 2024-04-25T10:39:24,435 adding 'pysam/include/htslib/htslib.pc.in' 2024-04-25T10:39:24,437 adding 'pysam/include/htslib/htslib_vars.mk' 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'pysam/include/htslib/textutils.c' 2024-04-25T10:39:24,501 adding 'pysam/include/htslib/textutils_internal.h' 2024-04-25T10:39:24,506 adding 'pysam/include/htslib/thread_pool.c' 2024-04-25T10:39:24,508 adding 'pysam/include/htslib/thread_pool_internal.h' 2024-04-25T10:39:24,529 adding 'pysam/include/htslib/vcf.c' 2024-04-25T10:39:24,532 adding 'pysam/include/htslib/vcf_sweep.c' 2024-04-25T10:39:24,535 adding 'pysam/include/htslib/vcfutils.c' 2024-04-25T10:39:24,536 adding 'pysam/include/htslib/version.sh' 2024-04-25T10:39:24,539 adding 'pysam/include/htslib/cram/cram.h' 2024-04-25T10:39:24,551 adding 'pysam/include/htslib/cram/cram_codecs.c' 2024-04-25T10:39:24,553 adding 'pysam/include/htslib/cram/cram_codecs.h' 2024-04-25T10:39:24,565 adding 'pysam/include/htslib/cram/cram_decode.c' 2024-04-25T10:39:24,567 adding 'pysam/include/htslib/cram/cram_decode.h' 2024-04-25T10:39:24,582 adding 'pysam/include/htslib/cram/cram_encode.c' 2024-04-25T10:39:24,584 adding 'pysam/include/htslib/cram/cram_encode.h' 2024-04-25T10:39:24,588 adding 'pysam/include/htslib/cram/cram_external.c' 2024-04-25T10:39:24,591 adding 'pysam/include/htslib/cram/cram_index.c' 2024-04-25T10:39:24,593 adding 'pysam/include/htslib/cram/cram_index.h' 2024-04-25T10:39:24,612 adding 'pysam/include/htslib/cram/cram_io.c' 2024-04-25T10:39:24,616 adding 'pysam/include/htslib/cram/cram_io.h' 2024-04-25T10:39:24,617 adding 'pysam/include/htslib/cram/cram_samtools.h' 2024-04-25T10:39:24,619 adding 'pysam/include/htslib/cram/cram_stats.c' 2024-04-25T10:39:24,620 adding 'pysam/include/htslib/cram/cram_stats.h' 2024-04-25T10:39:24,624 adding 'pysam/include/htslib/cram/cram_structs.h' 2024-04-25T10:39:24,627 adding 'pysam/include/htslib/cram/mFILE.c' 2024-04-25T10:39:24,629 adding 'pysam/include/htslib/cram/mFILE.h' 2024-04-25T10:39:24,630 adding 'pysam/include/htslib/cram/misc.h' 2024-04-25T10:39:24,632 adding 'pysam/include/htslib/cram/open_trace_file.c' 2024-04-25T10:39:24,634 adding 'pysam/include/htslib/cram/open_trace_file.h' 2024-04-25T10:39:24,635 adding 'pysam/include/htslib/cram/os.h' 2024-04-25T10:39:24,637 adding 'pysam/include/htslib/cram/pooled_alloc.c' 2024-04-25T10:39:24,638 adding 'pysam/include/htslib/cram/pooled_alloc.h' 2024-04-25T10:39:24,640 adding 'pysam/include/htslib/cram/string_alloc.c' 2024-04-25T10:39:24,641 adding 'pysam/include/htslib/cram/string_alloc.h' 2024-04-25T10:39:24,646 adding 'pysam/include/htslib/htscodecs/htscodecs/arith_dynamic.c' 2024-04-25T10:39:24,648 adding 'pysam/include/htslib/htscodecs/htscodecs/arith_dynamic.h' 2024-04-25T10:39:24,649 adding 'pysam/include/htslib/htscodecs/htscodecs/c_range_coder.h' 2024-04-25T10:39:24,651 adding 'pysam/include/htslib/htscodecs/htscodecs/c_simple_model.h' 2024-04-25T10:39:24,656 adding 'pysam/include/htslib/htscodecs/htscodecs/fqzcomp_qual.c' 2024-04-25T10:39:24,658 adding 'pysam/include/htslib/htscodecs/htscodecs/fqzcomp_qual.h' 2024-04-25T10:39:24,660 adding 'pysam/include/htslib/htscodecs/htscodecs/htscodecs.c' 2024-04-25T10:39:24,661 adding 'pysam/include/htslib/htscodecs/htscodecs/htscodecs.h' 2024-04-25T10:39:24,663 adding 'pysam/include/htslib/htscodecs/htscodecs/htscodecs_endian.h' 2024-04-25T10:39:24,664 adding 'pysam/include/htslib/htscodecs/htscodecs/pack.c' 2024-04-25T10:39:24,666 adding 'pysam/include/htslib/htscodecs/htscodecs/pack.h' 2024-04-25T10:39:24,668 adding 'pysam/include/htslib/htscodecs/htscodecs/permute.h' 2024-04-25T10:39:24,670 adding 'pysam/include/htslib/htscodecs/htscodecs/pooled_alloc.h' 2024-04-25T10:39:24,672 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_byte.h' 2024-04-25T10:39:24,676 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static.c' 2024-04-25T10:39:24,677 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static.h' 2024-04-25T10:39:24,680 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static16_int.h' 2024-04-25T10:39:24,683 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr.c' 2024-04-25T10:39:24,685 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr.h' 2024-04-25T10:39:24,690 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx2.c' 2024-04-25T10:39:24,695 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_avx512.c' 2024-04-25T10:39:24,701 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_neon.c' 2024-04-25T10:39:24,707 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static32x16pr_sse4.c' 2024-04-25T10:39:24,709 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static4x16.h' 2024-04-25T10:39:24,715 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_static4x16pr.c' 2024-04-25T10:39:24,718 adding 'pysam/include/htslib/htscodecs/htscodecs/rANS_word.h' 2024-04-25T10:39:24,720 adding 'pysam/include/htslib/htscodecs/htscodecs/rle.c' 2024-04-25T10:39:24,721 adding 'pysam/include/htslib/htscodecs/htscodecs/rle.h' 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'pysam/include/htslib/htslib/hts_defs.h' 2024-04-25T10:39:24,761 adding 'pysam/include/htslib/htslib/hts_endian.h' 2024-04-25T10:39:24,762 adding 'pysam/include/htslib/htslib/hts_expr.h' 2024-04-25T10:39:24,764 adding 'pysam/include/htslib/htslib/hts_log.h' 2024-04-25T10:39:24,765 adding 'pysam/include/htslib/htslib/hts_os.h' 2024-04-25T10:39:24,767 adding 'pysam/include/htslib/htslib/kbitset.h' 2024-04-25T10:39:24,768 adding 'pysam/include/htslib/htslib/kfunc.h' 2024-04-25T10:39:24,771 adding 'pysam/include/htslib/htslib/khash.h' 2024-04-25T10:39:24,772 adding 'pysam/include/htslib/htslib/khash_str2int.h' 2024-04-25T10:39:24,774 adding 'pysam/include/htslib/htslib/klist.h' 2024-04-25T10:39:24,775 adding 'pysam/include/htslib/htslib/knetfile.h' 2024-04-25T10:39:24,777 adding 'pysam/include/htslib/htslib/kroundup.h' 2024-04-25T10:39:24,779 adding 'pysam/include/htslib/htslib/kseq.h' 2024-04-25T10:39:24,781 adding 'pysam/include/htslib/htslib/ksort.h' 2024-04-25T10:39:24,783 adding 'pysam/include/htslib/htslib/kstring.h' 2024-04-25T10:39:24,785 adding 'pysam/include/htslib/htslib/regidx.h' 2024-04-25T10:39:24,796 adding 'pysam/include/htslib/htslib/sam.h' 2024-04-25T10:39:24,799 adding 'pysam/include/htslib/htslib/synced_bcf_reader.h' 2024-04-25T10:39:24,801 adding 'pysam/include/htslib/htslib/tbx.h' 2024-04-25T10:39:24,803 adding 'pysam/include/htslib/htslib/thread_pool.h' 2024-04-25T10:39:24,812 adding 'pysam/include/htslib/htslib/vcf.h' 2024-04-25T10:39:24,814 adding 'pysam/include/htslib/htslib/vcf_sweep.h' 2024-04-25T10:39:24,815 adding 'pysam/include/htslib/htslib/vcfutils.h' 2024-04-25T10:39:24,817 adding 'pysam/include/htslib/m4/hts_check_compile_flags_needed.m4' 2024-04-25T10:39:24,819 adding 'pysam/include/htslib/m4/hts_hide_dynamic_syms.m4' 2024-04-25T10:39:24,820 adding 'pysam/include/htslib/m4/hts_prog_cc_warnings.m4' 2024-04-25T10:39:24,822 adding 'pysam/include/htslib/m4/pkg.m4' 2024-04-25T10:39:24,824 adding 'pysam/include/htslib/os/lzma_stub.h' 2024-04-25T10:39:24,826 adding 'pysam/include/htslib/os/rand.c' 2024-04-25T10:39:24,829 adding 'pysam/include/samtools/LICENSE' 2024-04-25T10:39:24,831 adding 'pysam/include/samtools/README' 2024-04-25T10:39:24,838 adding 'pysam/include/samtools/amplicon_stats.c' 2024-04-25T10:39:24,846 adding 'pysam/include/samtools/amplicon_stats.c.pysam.c' 2024-04-25T10:39:24,848 adding 'pysam/include/samtools/bam.c' 2024-04-25T10:39:24,850 adding 'pysam/include/samtools/bam.c.pysam.c' 2024-04-25T10:39:24,851 adding 'pysam/include/samtools/bam.h' 2024-04-25T10:39:24,855 adding 'pysam/include/samtools/bam2depth.c' 2024-04-25T10:39:24,859 adding 'pysam/include/samtools/bam2depth.c.pysam.c' 2024-04-25T10:39:24,862 adding 'pysam/include/samtools/bam_addrprg.c' 2024-04-25T10:39:24,864 adding 'pysam/include/samtools/bam_addrprg.c.pysam.c' 2024-04-25T10:39:24,868 adding 'pysam/include/samtools/bam_ampliconclip.c' 2024-04-25T10:39:24,872 adding 'pysam/include/samtools/bam_ampliconclip.c.pysam.c' 2024-04-25T10:39:24,874 adding 'pysam/include/samtools/bam_ampliconclip.h' 2024-04-25T10:39:24,875 adding 'pysam/include/samtools/bam_aux.c' 2024-04-25T10:39:24,877 adding 'pysam/include/samtools/bam_aux.c.pysam.c' 2024-04-25T10:39:24,879 adding 'pysam/include/samtools/bam_cat.c' 2024-04-25T10:39:24,882 adding 'pysam/include/samtools/bam_cat.c.pysam.c' 2024-04-25T10:39:24,883 adding 'pysam/include/samtools/bam_color.c' 2024-04-25T10:39:24,885 adding 'pysam/include/samtools/bam_color.c.pysam.c' 2024-04-25T10:39:24,897 adding 'pysam/include/samtools/bam_consensus.c' 2024-04-25T10:39:24,909 adding 'pysam/include/samtools/bam_consensus.c.pysam.c' 2024-04-25T10:39:24,914 adding 'pysam/include/samtools/bam_fastq.c' 2024-04-25T10:39:24,918 adding 'pysam/include/samtools/bam_fastq.c.pysam.c' 2024-04-25T10:39:24,920 adding 'pysam/include/samtools/bam_flags.c' 2024-04-25T10:39:24,921 adding 'pysam/include/samtools/bam_flags.c.pysam.c' 2024-04-25T10:39:24,924 adding 'pysam/include/samtools/bam_import.c' 2024-04-25T10:39:24,926 adding 'pysam/include/samtools/bam_import.c.pysam.c' 2024-04-25T10:39:24,928 adding 'pysam/include/samtools/bam_index.c' 2024-04-25T10:39:24,930 adding 'pysam/include/samtools/bam_index.c.pysam.c' 2024-04-25T10:39:24,932 adding 'pysam/include/samtools/bam_lpileup.c' 2024-04-25T10:39:24,934 adding 'pysam/include/samtools/bam_lpileup.c.pysam.c' 2024-04-25T10:39:24,935 adding 'pysam/include/samtools/bam_lpileup.h' 2024-04-25T10:39:24,944 adding 'pysam/include/samtools/bam_markdup.c' 2024-04-25T10:39:24,953 adding 'pysam/include/samtools/bam_markdup.c.pysam.c' 2024-04-25T10:39:24,957 adding 'pysam/include/samtools/bam_mate.c' 2024-04-25T10:39:24,960 adding 'pysam/include/samtools/bam_mate.c.pysam.c' 2024-04-25T10:39:24,963 adding 'pysam/include/samtools/bam_md.c' 2024-04-25T10:39:24,966 adding 'pysam/include/samtools/bam_md.c.pysam.c' 2024-04-25T10:39:24,967 adding 'pysam/include/samtools/bam_plbuf.c' 2024-04-25T10:39:24,969 adding 'pysam/include/samtools/bam_plbuf.c.pysam.c' 2024-04-25T10:39:24,970 adding 'pysam/include/samtools/bam_plbuf.h' 2024-04-25T10:39:24,975 adding 'pysam/include/samtools/bam_plcmd.c' 2024-04-25T10:39:24,980 adding 'pysam/include/samtools/bam_plcmd.c.pysam.c' 2024-04-25T10:39:24,982 adding 'pysam/include/samtools/bam_quickcheck.c' 2024-04-25T10:39:24,984 adding 'pysam/include/samtools/bam_quickcheck.c.pysam.c' 2024-04-25T10:39:24,987 adding 'pysam/include/samtools/bam_reheader.c' 2024-04-25T10:39:24,990 adding 'pysam/include/samtools/bam_reheader.c.pysam.c' 2024-04-25T10:39:24,992 adding 'pysam/include/samtools/bam_rmdup.c' 2024-04-25T10:39:24,994 adding 'pysam/include/samtools/bam_rmdup.c.pysam.c' 2024-04-25T10:39:24,996 adding 'pysam/include/samtools/bam_rmdupse.c' 2024-04-25T10:39:24,997 adding 'pysam/include/samtools/bam_rmdupse.c.pysam.c' 2024-04-25T10:39:25,000 adding 'pysam/include/samtools/bam_samples.c' 2024-04-25T10:39:25,002 adding 'pysam/include/samtools/bam_samples.c.pysam.c' 2024-04-25T10:39:25,018 adding 'pysam/include/samtools/bam_sort.c' 2024-04-25T10:39:25,034 adding 'pysam/include/samtools/bam_sort.c.pysam.c' 2024-04-25T10:39:25,038 adding 'pysam/include/samtools/bam_split.c' 2024-04-25T10:39:25,040 adding 'pysam/include/samtools/bam_split.c.pysam.c' 2024-04-25T10:39:25,043 adding 'pysam/include/samtools/bam_stat.c' 2024-04-25T10:39:25,045 adding 'pysam/include/samtools/bam_stat.c.pysam.c' 2024-04-25T10:39:25,047 adding 'pysam/include/samtools/bamshuf.c' 2024-04-25T10:39:25,050 adding 'pysam/include/samtools/bamshuf.c.pysam.c' 2024-04-25T10:39:25,052 adding 'pysam/include/samtools/bamtk.c' 2024-04-25T10:39:25,054 adding 'pysam/include/samtools/bamtk.c.pysam.c' 2024-04-25T10:39:25,057 adding 'pysam/include/samtools/bedcov.c' 2024-04-25T10:39:25,059 adding 'pysam/include/samtools/bedcov.c.pysam.c' 2024-04-25T10:39:25,061 adding 'pysam/include/samtools/bedidx.c' 2024-04-25T10:39:25,064 adding 'pysam/include/samtools/bedidx.c.pysam.c' 2024-04-25T10:39:25,066 adding 'pysam/include/samtools/bedidx.h' 2024-04-25T10:39:25,067 adding 'pysam/include/samtools/config.h' 2024-04-25T10:39:25,069 adding 'pysam/include/samtools/consensus_pileup.c' 2024-04-25T10:39:25,072 adding 'pysam/include/samtools/consensus_pileup.c.pysam.c' 2024-04-25T10:39:25,074 adding 'pysam/include/samtools/consensus_pileup.h' 2024-04-25T10:39:25,077 adding 'pysam/include/samtools/coverage.c' 2024-04-25T10:39:25,081 adding 'pysam/include/samtools/coverage.c.pysam.c' 2024-04-25T10:39:25,084 adding 'pysam/include/samtools/cram_size.c' 2024-04-25T10:39:25,086 adding 'pysam/include/samtools/cram_size.c.pysam.c' 2024-04-25T10:39:25,088 adding 'pysam/include/samtools/cut_target.c' 2024-04-25T10:39:25,090 adding 'pysam/include/samtools/cut_target.c.pysam.c' 2024-04-25T10:39:25,092 adding 'pysam/include/samtools/dict.c' 2024-04-25T10:39:25,094 adding 'pysam/include/samtools/dict.c.pysam.c' 2024-04-25T10:39:25,096 adding 'pysam/include/samtools/faidx.c' 2024-04-25T10:39:25,098 adding 'pysam/include/samtools/faidx.c.pysam.c' 2024-04-25T10:39:25,101 adding 'pysam/include/samtools/padding.c' 2024-04-25T10:39:25,105 adding 'pysam/include/samtools/padding.c.pysam.c' 2024-04-25T10:39:25,109 adding 'pysam/include/samtools/phase.c' 2024-04-25T10:39:25,113 adding 'pysam/include/samtools/phase.c.pysam.c' 2024-04-25T10:39:25,115 adding 'pysam/include/samtools/reference.c' 2024-04-25T10:39:25,118 adding 'pysam/include/samtools/reference.c.pysam.c' 2024-04-25T10:39:25,121 adding 'pysam/include/samtools/reset.c' 2024-04-25T10:39:25,124 adding 'pysam/include/samtools/reset.c.pysam.c' 2024-04-25T10:39:25,125 adding 'pysam/include/samtools/sam_opts.c' 2024-04-25T10:39:25,127 adding 'pysam/include/samtools/sam_opts.c.pysam.c' 2024-04-25T10:39:25,129 adding 'pysam/include/samtools/sam_opts.h' 2024-04-25T10:39:25,130 adding 'pysam/include/samtools/sam_utils.c' 2024-04-25T10:39:25,132 adding 'pysam/include/samtools/sam_utils.c.pysam.c' 2024-04-25T10:39:25,133 adding 'pysam/include/samtools/sam_utils.h' 2024-04-25T10:39:25,140 adding 'pysam/include/samtools/sam_view.c' 2024-04-25T10:39:25,147 adding 'pysam/include/samtools/sam_view.c.pysam.c' 2024-04-25T10:39:25,149 adding 'pysam/include/samtools/sample.c' 2024-04-25T10:39:25,150 adding 'pysam/include/samtools/sample.c.pysam.c' 2024-04-25T10:39:25,152 adding 'pysam/include/samtools/sample.h' 2024-04-25T10:39:25,153 adding 'pysam/include/samtools/samtools.h' 2024-04-25T10:39:25,154 adding 'pysam/include/samtools/samtools.pysam.c' 2024-04-25T10:39:25,155 adding 'pysam/include/samtools/samtools.pysam.h' 2024-04-25T10:39:25,157 adding 'pysam/include/samtools/splaysort.h' 2024-04-25T10:39:25,169 adding 'pysam/include/samtools/stats.c' 2024-04-25T10:39:25,181 adding 'pysam/include/samtools/stats.c.pysam.c' 2024-04-25T10:39:25,183 adding 'pysam/include/samtools/stats_isize.c' 2024-04-25T10:39:25,185 adding 'pysam/include/samtools/stats_isize.c.pysam.c' 2024-04-25T10:39:25,186 adding 'pysam/include/samtools/stats_isize.h' 2024-04-25T10:39:25,189 adding 'pysam/include/samtools/tmp_file.c' 2024-04-25T10:39:25,191 adding 'pysam/include/samtools/tmp_file.c.pysam.c' 2024-04-25T10:39:25,192 adding 'pysam/include/samtools/tmp_file.h' 2024-04-25T10:39:25,194 adding 'pysam/include/samtools/version.sh' 2024-04-25T10:39:25,195 adding 'pysam/include/samtools/lz4/LICENSE' 2024-04-25T10:39:25,202 adding 'pysam/include/samtools/lz4/lz4.c' 2024-04-25T10:39:25,208 adding 'pysam/include/samtools/lz4/lz4.c.pysam.c' 2024-04-25T10:39:25,212 adding 'pysam/include/samtools/lz4/lz4.h' 2024-04-25T10:39:25,214 adding 'pysam-0.22.1.dist-info/AUTHORS' 2024-04-25T10:39:25,215 adding 'pysam-0.22.1.dist-info/COPYING' 2024-04-25T10:39:25,216 adding 'pysam-0.22.1.dist-info/METADATA' 2024-04-25T10:39:25,217 adding 'pysam-0.22.1.dist-info/WHEEL' 2024-04-25T10:39:25,218 adding 'pysam-0.22.1.dist-info/top_level.txt' 2024-04-25T10:39:25,226 adding 'pysam-0.22.1.dist-info/RECORD' 2024-04-25T10:39:25,453 removing build/bdist.linux-armv7l/wheel 2024-04-25T10:39:27,309 Building wheel for pysam (pyproject.toml): finished with status 'done' 2024-04-25T10:39:27,691 Created wheel for pysam: filename=pysam-0.22.1-cp39-cp39-linux_armv7l.whl size=17545239 sha256=55353610d4249fa4984342fdbecae3e12b833cd6b14f6ba410a74f25bc8df08c 2024-04-25T10:39:27,692 Stored in directory: /tmp/pip-ephem-wheel-cache-pycb7z62/wheels/4b/9f/fa/2e722425b2d73cd1a3d3beeb8be852e5e0254be8b964a75473 2024-04-25T10:39:27,726 Successfully built pysam 2024-04-25T10:39:28,166 Removed build tracker: '/tmp/pip-build-tracker-0p2_266x'