2023-06-28T05:47:18,767 Created temporary directory: /tmp/pip-build-tracker-2ydeg5bc 2023-06-28T05:47:18,768 Initialized build tracking at /tmp/pip-build-tracker-2ydeg5bc 2023-06-28T05:47:18,768 Created build tracker: /tmp/pip-build-tracker-2ydeg5bc 2023-06-28T05:47:18,768 Entered build tracker: /tmp/pip-build-tracker-2ydeg5bc 2023-06-28T05:47:18,769 Created temporary directory: /tmp/pip-wheel-686d6ck7 2023-06-28T05:47:18,772 Created temporary directory: /tmp/pip-ephem-wheel-cache-zo60vp2a 2023-06-28T05:47:18,799 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-06-28T05:47:18,802 2 location(s) to search for versions of splam: 2023-06-28T05:47:18,802 * https://pypi.org/simple/splam/ 2023-06-28T05:47:18,802 * https://www.piwheels.org/simple/splam/ 2023-06-28T05:47:18,803 Fetching project page and analyzing links: https://pypi.org/simple/splam/ 2023-06-28T05:47:18,803 Getting page https://pypi.org/simple/splam/ 2023-06-28T05:47:18,805 Found index url https://pypi.org/simple/ 2023-06-28T05:47:18,949 Fetched page https://pypi.org/simple/splam/ as application/vnd.pypi.simple.v1+json 2023-06-28T05:47:18,953 Skipping link: No binaries permitted for splam: https://files.pythonhosted.org/packages/57/2a/d68f86c46b3152c9072975cb1c8b3f2345e0f71cea763c0635ca8c5e0261/splam-0.2.9-cp38-cp38-macosx_13_0_arm64.whl (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,954 Found link https://files.pythonhosted.org/packages/ba/e8/4cf0f802bf26fd6587829e3688109caef6d26e13d19ce003ac876212da15/splam-0.2.9.tar.gz (from https://pypi.org/simple/splam/) (requires-python:>=3.6), version: 0.2.9 2023-06-28T05:47:18,954 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/f0/97/c31f00ac8a786213c4a50dd993cd04e61af08766e9559f244fb9c3929178/splam-0.2.10-py3.8-macosx-11.1-arm64.egg (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,955 Found link https://files.pythonhosted.org/packages/72/d1/671663c98d0cfca3218b880633390493fcebf9972175a7c4d2752259f2ea/splam-0.2.10.tar.gz (from https://pypi.org/simple/splam/) (requires-python:>=3.6), version: 0.2.10 2023-06-28T05:47:18,955 Skipping link: No binaries permitted for splam: https://files.pythonhosted.org/packages/ad/36/84239a43f206dfbfe07c6e6f76ef8c54235439210640aeacc8cb20e24c2e/splam-0.2.11-cp38-cp38-macosx_13_0_arm64.whl (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,955 Found link https://files.pythonhosted.org/packages/c7/b3/96a175c203358d735694d7d5fd9261ef8683af968e14e473e823d159cee1/splam-0.2.11.tar.gz (from https://pypi.org/simple/splam/) (requires-python:>=3.6), version: 0.2.11 2023-06-28T05:47:18,956 Skipping link: No binaries permitted for splam: https://files.pythonhosted.org/packages/a5/f5/e15307ccb65ec9c225b7f1af65ee2c8880ba8eb049d386f4c9da459b2e1e/splam-0.2.12-cp38-cp38-macosx_13_0_arm64.whl (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,956 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/ba/88/6cac004352d4aa92aabdfd31f9b96919f8044db486185d3fd3c924583bc8/splam-0.2.12-py3.8-macosx-11.1-arm64.egg (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,956 Found link https://files.pythonhosted.org/packages/32/fa/a9795e9df88e8ea6c6788ae171702d5f9d8ce2c3472408ab0784f08a7b91/splam-0.2.12.tar.gz (from https://pypi.org/simple/splam/) (requires-python:>=3.6), version: 0.2.12 2023-06-28T05:47:18,957 Skipping link: No binaries permitted for splam: https://files.pythonhosted.org/packages/59/88/fefee12f8e44d6879a0970d37b42fc4dc54010f78b1ee91f6db366c1f125/splam-0.2.13-cp38-cp38-macosx_13_0_arm64.whl (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,957 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/64/13/d601e5e99b31891d95bc0a6201367dab38f12faaadcb6aedbee7725dca71/splam-0.2.13-py3.8-macosx-11.1-arm64.egg (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,957 Found link https://files.pythonhosted.org/packages/cf/fb/2e5425fcdb2e5fd7ff963b174b1582816154fd0373bbc96edf4e851d272d/splam-0.2.13.tar.gz (from https://pypi.org/simple/splam/) (requires-python:>=3.6), version: 0.2.13 2023-06-28T05:47:18,958 Skipping link: No binaries permitted for splam: https://files.pythonhosted.org/packages/da/65/a129eabb1d673da72f1d7dfd3495c01c89da78569b7f2dba2c746a0c0f29/splam-0.2.14-cp38-cp38-macosx_13_0_arm64.whl (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,958 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/6f/79/2fdaa68664126c8c71bac526b41e1e35e4195879170c8129a8d482f3ae7b/splam-0.2.14-py3.8-macosx-11.1-arm64.egg (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,958 Found link https://files.pythonhosted.org/packages/9b/3f/d7dd2411528494ed5062665c3b5d5d7d8422fd11fa181d5fc01ea67d7dbf/splam-0.2.14.tar.gz (from https://pypi.org/simple/splam/) (requires-python:>=3.6), version: 0.2.14 2023-06-28T05:47:18,959 Skipping link: No binaries permitted for splam: https://files.pythonhosted.org/packages/f4/9a/e7d1f5f16d77888ac5d0935e180fa2210e875ff487909519d6871e1301da/splam-0.2.15-cp38-cp38-macosx_13_0_arm64.whl (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,959 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/40/b6/eda61824794c736e52c09353dfbbd70eea4d0f0ab31896f3688d269ab64b/splam-0.2.15-py3.8-macosx-11.1-arm64.egg (from https://pypi.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:18,959 Found link https://files.pythonhosted.org/packages/29/d0/5e9ef93e49636308cb56b70a06c8932321cb60a4aae678d8bb1d213b52b5/splam-0.2.15.tar.gz (from https://pypi.org/simple/splam/) (requires-python:>=3.6), version: 0.2.15 2023-06-28T05:47:18,960 Fetching project page and analyzing links: https://www.piwheels.org/simple/splam/ 2023-06-28T05:47:18,960 Getting page https://www.piwheels.org/simple/splam/ 2023-06-28T05:47:18,961 Found index url https://www.piwheels.org/simple/ 2023-06-28T05:47:19,126 Fetched page https://www.piwheels.org/simple/splam/ as text/html 2023-06-28T05:47:19,131 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.14-cp37-cp37m-linux_armv7l.whl#sha256=198f24795b97dfeeb87bfd8760ef5894be763c7c872f489ea0c4292c781067b6 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,131 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.14-cp37-cp37m-linux_armv6l.whl#sha256=198f24795b97dfeeb87bfd8760ef5894be763c7c872f489ea0c4292c781067b6 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,131 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.13-cp39-cp39-linux_armv7l.whl#sha256=b569a1f7ec82ed71a728c11cab8946f18f70afb705bd6f1811ec5e85b464f975 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,131 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.13-cp39-cp39-linux_armv6l.whl#sha256=b569a1f7ec82ed71a728c11cab8946f18f70afb705bd6f1811ec5e85b464f975 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,132 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.13-cp37-cp37m-linux_armv7l.whl#sha256=2f178935936e8dfbfdc05d7b0d4ca56b74a143f1d0a8f116272e7647c01e1e13 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,132 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.13-cp37-cp37m-linux_armv6l.whl#sha256=2f178935936e8dfbfdc05d7b0d4ca56b74a143f1d0a8f116272e7647c01e1e13 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,132 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.10-cp39-cp39-linux_armv7l.whl#sha256=bc7a085b3f086edc5395dc060b95fe568bab61c94fd8cf56dc6f58b7e62442e3 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,132 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.10-cp39-cp39-linux_armv6l.whl#sha256=bc7a085b3f086edc5395dc060b95fe568bab61c94fd8cf56dc6f58b7e62442e3 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,132 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.10-cp37-cp37m-linux_armv7l.whl#sha256=177b04f8ab6035570b2a34ff26f1903996d7f554131eaaddd22614d25e474b0c (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,133 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.10-cp37-cp37m-linux_armv6l.whl#sha256=177b04f8ab6035570b2a34ff26f1903996d7f554131eaaddd22614d25e474b0c (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,133 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.9-cp39-cp39-linux_armv7l.whl#sha256=434410fd7dfc947ef68b0c85650d0b6930abcf1fc52e3a4db0fde3c579d0530c (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,133 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.9-cp39-cp39-linux_armv6l.whl#sha256=434410fd7dfc947ef68b0c85650d0b6930abcf1fc52e3a4db0fde3c579d0530c (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,133 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.9-cp37-cp37m-linux_armv7l.whl#sha256=c68c4cf3ddbbeac64db06ce5656b1f5ec7df1d53684b7ece65ce366d235c82a1 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,133 Skipping link: No binaries permitted for splam: https://www.piwheels.org/simple/splam/splam-0.2.9-cp37-cp37m-linux_armv6l.whl#sha256=c68c4cf3ddbbeac64db06ce5656b1f5ec7df1d53684b7ece65ce366d235c82a1 (from https://www.piwheels.org/simple/splam/) (requires-python:>=3.6) 2023-06-28T05:47:19,134 Skipping link: not a file: https://www.piwheels.org/simple/splam/ 2023-06-28T05:47:19,134 Skipping link: not a file: https://pypi.org/simple/splam/ 2023-06-28T05:47:19,152 Given no hashes to check 1 links for project 'splam': discarding no candidates 2023-06-28T05:47:19,169 Collecting splam==0.2.14 2023-06-28T05:47:19,171 Created temporary directory: /tmp/pip-unpack-9n78abwv 2023-06-28T05:47:19,229 Downloading splam-0.2.14.tar.gz (40.5 MB) 2023-06-28T05:47:25,580 Added splam==0.2.14 from https://files.pythonhosted.org/packages/9b/3f/d7dd2411528494ed5062665c3b5d5d7d8422fd11fa181d5fc01ea67d7dbf/splam-0.2.14.tar.gz to build tracker '/tmp/pip-build-tracker-2ydeg5bc' 2023-06-28T05:47:25,583 Running setup.py (path:/tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/setup.py) egg_info for package splam 2023-06-28T05:47:25,584 Created temporary directory: /tmp/pip-pip-egg-info-xspui6pl 2023-06-28T05:47:25,584 Preparing metadata (setup.py): started 2023-06-28T05:47:25,585 Running command python setup.py egg_info 2023-06-28T05:47:26,535 running egg_info 2023-06-28T05:47:26,536 creating /tmp/pip-pip-egg-info-xspui6pl/splam.egg-info 2023-06-28T05:47:26,564 writing /tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/PKG-INFO 2023-06-28T05:47:26,567 writing dependency_links to /tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/dependency_links.txt 2023-06-28T05:47:26,568 writing entry points to /tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/entry_points.txt 2023-06-28T05:47:26,570 writing requirements to /tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/requires.txt 2023-06-28T05:47:26,571 writing top-level names to /tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/top_level.txt 2023-06-28T05:47:26,572 writing manifest file '/tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/SOURCES.txt' 2023-06-28T05:47:26,658 reading manifest file '/tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/SOURCES.txt' 2023-06-28T05:47:26,660 reading manifest template 'MANIFEST.in' 2023-06-28T05:47:26,894 adding license file 'LICENSE' 2023-06-28T05:47:26,935 writing manifest file '/tmp/pip-pip-egg-info-xspui6pl/splam.egg-info/SOURCES.txt' 2023-06-28T05:47:27,010 Preparing metadata (setup.py): finished with status 'done' 2023-06-28T05:47:27,015 Source in /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218 has version 0.2.14, which satisfies requirement splam==0.2.14 from https://files.pythonhosted.org/packages/9b/3f/d7dd2411528494ed5062665c3b5d5d7d8422fd11fa181d5fc01ea67d7dbf/splam-0.2.14.tar.gz 2023-06-28T05:47:27,016 Removed splam==0.2.14 from https://files.pythonhosted.org/packages/9b/3f/d7dd2411528494ed5062665c3b5d5d7d8422fd11fa181d5fc01ea67d7dbf/splam-0.2.14.tar.gz from build tracker '/tmp/pip-build-tracker-2ydeg5bc' 2023-06-28T05:47:27,022 Created temporary directory: /tmp/pip-unpack-57lcdwhm 2023-06-28T05:47:27,023 Building wheels for collected packages: splam 2023-06-28T05:47:27,027 Created temporary directory: /tmp/pip-wheel-ddw3r2ks 2023-06-28T05:47:27,027 Building wheel for splam (setup.py): started 2023-06-28T05:47:27,028 Destination directory: /tmp/pip-wheel-ddw3r2ks 2023-06-28T05:47:27,028 Running command python setup.py bdist_wheel 2023-06-28T05:47:27,854 running bdist_wheel 2023-06-28T05:47:27,935 running build 2023-06-28T05:47:27,935 running build_py 2023-06-28T05:47:27,964 creating build 2023-06-28T05:47:27,965 creating build/lib.linux-armv7l-cpython-39 2023-06-28T05:47:27,965 creating build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,966 copying splam/splam.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,969 copying splam/prediction.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,971 copying splam/test.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,972 copying splam/config.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,974 copying splam/extract_gff.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,975 copying splam/__init__.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,977 copying splam/chr_size.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,979 copying splam/helper.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,981 copying splam/parse.py -> build/lib.linux-armv7l-cpython-39/splam 2023-06-28T05:47:27,984 running build_ext 2023-06-28T05:47:28,857 -- The C compiler identification is GNU 10.2.1 2023-06-28T05:47:29,735 -- The CXX compiler identification is GNU 10.2.1 2023-06-28T05:47:29,797 -- Detecting C compiler ABI info 2023-06-28T05:47:30,183 -- Detecting C compiler ABI info - done 2023-06-28T05:47:30,243 -- Check for working C compiler: /usr/bin/cc - skipped 2023-06-28T05:47:30,245 -- Detecting C compile features 2023-06-28T05:47:30,247 -- Detecting C compile features - done 2023-06-28T05:47:30,272 -- Detecting CXX compiler ABI info 2023-06-28T05:47:30,702 -- Detecting CXX compiler ABI info - done 2023-06-28T05:47:30,764 -- Check for working CXX compiler: /usr/bin/c++ - skipped 2023-06-28T05:47:30,766 -- Detecting CXX compile features 2023-06-28T05:47:30,769 -- Detecting CXX compile features - done 2023-06-28T05:47:30,798 -- pybind11 v2.11.0 dev1 2023-06-28T05:47:30,864 -- Found PythonInterp: /usr/bin/python3 (found suitable version "3.9.2", minimum required is "3.6") 2023-06-28T05:47:31,384 -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.9.so 2023-06-28T05:47:31,392 -- Performing Test HAS_FLTO 2023-06-28T05:47:32,214 -- Performing Test HAS_FLTO - Success 2023-06-28T05:47:32,265 -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.11") 2023-06-28T05:47:32,266 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/include/htslib 2023-06-28T05:47:32,266 LIBRARY_OUTPUT_DIRECTORY: 2023-06-28T05:47:32,404 EXAMPLE_VERSION_INFO: 0.2.14 2023-06-28T05:47:32,406 -- Configuring done 2023-06-28T05:47:32,506 -- Generating done 2023-06-28T05:47:32,520 -- Build files have been written to: /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/build/temp.linux-armv7l-cpython-39/splam_extract 2023-06-28T05:47:32,583 gmake: Warning: File 'Makefile' has modification time 1.4 s in the future 2023-06-28T05:47:32,690 gmake[1]: Warning: File 'CMakeFiles/Makefile2' has modification time 1.3 s in the future 2023-06-28T05:47:32,699 gmake[2]: Warning: File 'CMakeFiles/htslib.dir/progress.make' has modification time 1.3 s in the future 2023-06-28T05:47:32,761 Scanning dependencies of target htslib 2023-06-28T05:47:32,765 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:47:32,774 gmake[2]: Warning: File 'CMakeFiles/htslib.dir/progress.make' has modification time 1.2 s in the future 2023-06-28T05:47:32,832 [ 2%] Creating directories for 'htslib' 2023-06-28T05:47:33,173 [ 5%] No download step for 'htslib' 2023-06-28T05:47:33,291 [ 8%] No update step for 'htslib' 2023-06-28T05:47:33,410 [ 11%] No patch step for 'htslib' 2023-06-28T05:47:33,526 [ 13%] Performing configure step for 'htslib' 2023-06-28T05:47:39,956 checking for gcc... gcc 2023-06-28T05:47:40,265 checking whether the C compiler works... yes 2023-06-28T05:47:40,266 checking for C compiler default output file name... a.out 2023-06-28T05:47:40,432 checking for suffix of executables... 2023-06-28T05:47:40,630 checking whether we are cross compiling... no 2023-06-28T05:47:40,715 checking for suffix of object files... o 2023-06-28T05:47:40,797 checking whether we are using the GNU C compiler... yes 2023-06-28T05:47:40,886 checking whether gcc accepts -g... yes 2023-06-28T05:47:41,079 checking for gcc option to accept ISO C89... none needed 2023-06-28T05:47:41,082 checking for ranlib... ranlib 2023-06-28T05:47:41,091 checking for grep that handles long lines and -e... /usr/bin/grep 2023-06-28T05:47:41,176 checking for C compiler warning flags... -Wall 2023-06-28T05:47:41,300 checking how to run the C preprocessor... gcc -E 2023-06-28T05:47:41,413 checking for egrep... /usr/bin/grep -E 2023-06-28T05:47:41,930 checking for ANSI C header files... yes 2023-06-28T05:47:42,047 checking for sys/types.h... yes 2023-06-28T05:47:42,184 checking for sys/stat.h... yes 2023-06-28T05:47:42,318 checking for stdlib.h... yes 2023-06-28T05:47:42,462 checking for string.h... yes 2023-06-28T05:47:42,634 checking for memory.h... yes 2023-06-28T05:47:42,774 checking for strings.h... yes 2023-06-28T05:47:42,921 checking for inttypes.h... yes 2023-06-28T05:47:43,065 checking for stdint.h... yes 2023-06-28T05:47:43,225 checking for unistd.h... yes 2023-06-28T05:47:43,430 checking whether _XOPEN_SOURCE is declared... no 2023-06-28T05:47:43,602 checking C compiler flags needed for ssse3... none 2023-06-28T05:47:43,772 checking C compiler flags needed for popcnt... none 2023-06-28T05:47:43,940 checking C compiler flags needed for sse4.1... none 2023-06-28T05:47:44,113 checking C compiler flags needed for avx2... none 2023-06-28T05:47:44,312 checking C compiler flags needed for avx512f... none 2023-06-28T05:47:44,316 checking for pkg-config... /usr/bin/pkg-config 2023-06-28T05:47:44,324 checking pkg-config is at least version 0.9.0... yes 2023-06-28T05:47:44,326 checking for special C compiler options needed for large files... no 2023-06-28T05:47:44,504 checking for _FILE_OFFSET_BITS value needed for large files... 64 2023-06-28T05:47:44,519 checking shared library type for unknown-Linux... plain .so 2023-06-28T05:47:44,691 checking whether the linker supports versioned symbols... yes 2023-06-28T05:47:44,864 checking whether the compiler accepts -fvisibility=hidden... yes 2023-06-28T05:47:44,877 checking for stdlib.h... (cached) yes 2023-06-28T05:47:44,902 checking for unistd.h... (cached) yes 2023-06-28T05:47:45,113 checking for sys/param.h... yes 2023-06-28T05:47:45,305 checking for getpagesize... yes 2023-06-28T05:47:45,622 checking for working mmap... yes 2023-06-28T05:47:45,847 checking for gmtime_r... yes 2023-06-28T05:47:46,049 checking for fsync... yes 2023-06-28T05:47:46,251 checking for drand48... yes 2023-06-28T05:47:46,475 checking for srand48_deterministic... no 2023-06-28T05:47:46,670 checking whether fdatasync is declared... yes 2023-06-28T05:47:46,848 checking for fdatasync... yes 2023-06-28T05:47:47,248 checking for library containing log... -lm 2023-06-28T05:47:47,358 checking for zlib.h... yes 2023-06-28T05:47:47,559 checking for inflate in -lz... yes 2023-06-28T05:47:47,744 checking for library containing recv... none required 2023-06-28T05:47:47,831 checking for bzlib.h... yes 2023-06-28T05:47:48,011 checking for BZ2_bzBuffToBuffCompress in -lbz2... yes 2023-06-28T05:47:48,025 checking whether htscodecs files are present... yes 2023-06-28T05:47:48,026 configure: WARNING: GCS support not enabled: requires libcurl support 2023-06-28T05:47:48,027 configure: WARNING: S3 support not enabled: requires libcurl support 2023-06-28T05:47:48,237 checking for library containing regcomp... none required 2023-06-28T05:47:48,304 configure: creating ./config.status 2023-06-28T05:47:48,654 config.status: creating config.mk 2023-06-28T05:47:48,697 config.status: creating htslib.pc.tmp 2023-06-28T05:47:48,746 config.status: creating config.h 2023-06-28T05:47:48,780 config.status: linking htscodecs_bundled.mk to htscodecs.mk 2023-06-28T05:47:48,946 [ 16%] Performing build step for 'htslib' 2023-06-28T05:47:49,284 make[3]: Warning: File 'config.mk' has modification time 0.89 s in the future 2023-06-28T05:48:02,893 Updating htscodecs/htscodecs/version.h : #define HTSCODECS_VERSION_TEXT "1.5.0-5-g109f069" 2023-06-28T05:52:09,970 make[3]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:52:10,053 [ 19%] No install step for 'htslib' 2023-06-28T05:52:10,171 [ 22%] Completed 'htslib' 2023-06-28T05:52:10,285 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:52:10,330 [ 22%] Built target htslib 2023-06-28T05:52:10,652 Scanning dependencies of target splam_clean 2023-06-28T05:52:10,668 gmake[2]: Warning: File 'CMakeFiles/splam_clean.dir/depend.make' has modification time 1.5 s in the future 2023-06-28T05:52:10,711 [ 25%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/splam_clean.cpp.o 2023-06-28T05:52:16,280 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp: In function ‘int splam_clean(pybind11::list)’: 2023-06-28T05:52:16,281 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:32: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,281 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:52:16,281 | ^~~~~~~~~~ 2023-06-28T05:52:16,281 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:44: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,281 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:52:16,282 | ^~~~~~ 2023-06-28T05:52:16,282 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:52: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,282 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:52:16,282 | ^~~~ 2023-06-28T05:52:16,282 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:129: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,282 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:52:16,283 | ^~~~ 2023-06-28T05:52:16,283 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:33: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,283 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:52:16,283 | ^~~~~~~~~~ 2023-06-28T05:52:16,283 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:45: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,283 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:52:16,284 | ^~~~~~ 2023-06-28T05:52:16,284 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:53: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,284 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:52:16,284 | ^~~~ 2023-06-28T05:52:16,284 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:142: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,284 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:52:16,284 | ^~~~ 2023-06-28T05:52:16,285 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:31: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,285 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:52:16,285 | ^~~~~~~~~~ 2023-06-28T05:52:16,285 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:43: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,285 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:52:16,285 | ^~~~~~~ 2023-06-28T05:52:16,285 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:52: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,285 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:52:16,286 | ^~~~ 2023-06-28T05:52:16,286 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:58: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,286 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:52:16,286 | ^~~~ 2023-06-28T05:52:16,286 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:91: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,286 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:52:16,286 | ^~~~ 2023-06-28T05:52:16,286 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:25: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,287 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:52:16,287 | ^~~~~~~~~~ 2023-06-28T05:52:16,287 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:37: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,287 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:52:16,287 | ^~~~~~~ 2023-06-28T05:52:16,287 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:46: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,288 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:52:16,288 | ^~~~ 2023-06-28T05:52:16,288 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:52: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,288 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:52:16,288 | ^~~~ 2023-06-28T05:52:16,288 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:85: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:52:16,288 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:52:16,289 | ^~~~ 2023-06-28T05:52:21,322 [ 27%] Building C object CMakeFiles/splam_clean.dir/splam/module/bam_sort.c.o 2023-06-28T05:52:29,364 [ 30%] Building C object CMakeFiles/splam_clean.dir/splam/module/bam.c.o 2023-06-28T05:52:29,848 [ 33%] Building C object CMakeFiles/splam_clean.dir/splam/module/sam_utils.c.o 2023-06-28T05:52:30,356 [ 36%] Building C object CMakeFiles/splam_clean.dir/splam/module/sam_opts.c.o 2023-06-28T05:52:30,660 [ 38%] Building C object CMakeFiles/splam_clean.dir/splam/module/bedidx.c.o 2023-06-28T05:52:32,451 [ 41%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/junc_func.cpp.o 2023-06-28T05:52:35,198 [ 44%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/extract.cpp.o 2023-06-28T05:52:39,217 [ 47%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/predict.cpp.o 2023-06-28T05:52:43,305 [ 50%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/clean.cpp.o 2023-06-28T05:52:47,930 [ 52%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/update.cpp.o 2023-06-28T05:52:52,141 [ 55%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/util.cpp.o 2023-06-28T05:52:56,215 [ 58%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/tmerge.cpp.o 2023-06-28T05:52:59,779 [ 61%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/GSam.cpp.o 2023-06-28T05:53:01,978 [ 63%] Building CXX object CMakeFiles/splam_clean.dir/include/gclib/GStr.cpp.o 2023-06-28T05:53:03,055 [ 66%] Building CXX object CMakeFiles/splam_clean.dir/include/gclib/GArgs.cpp.o 2023-06-28T05:53:03,848 [ 69%] Building CXX object CMakeFiles/splam_clean.dir/include/gclib/GBase.cpp.o 2023-06-28T05:53:04,800 [ 72%] Linking CXX shared module ../../lib.linux-armv7l-cpython-39/splam_clean.cpython-39-arm-linux-gnueabihf.so 2023-06-28T05:53:25,862 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:53:25,911 [ 72%] Built target splam_clean 2023-06-28T05:53:26,083 Scanning dependencies of target splam_extract 2023-06-28T05:53:26,103 gmake[2]: Warning: File 'CMakeFiles/splam_extract.dir/depend.make' has modification time 1.5 s in the future 2023-06-28T05:53:26,148 [ 75%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/splam_extract.cpp.o 2023-06-28T05:53:36,423 [ 77%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/extract.cpp.o 2023-06-28T05:53:40,416 [ 80%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/junc_func.cpp.o 2023-06-28T05:53:43,146 [ 83%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/util.cpp.o 2023-06-28T05:53:47,193 [ 86%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/tmerge.cpp.o 2023-06-28T05:53:50,713 [ 88%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/GSam.cpp.o 2023-06-28T05:53:52,957 [ 91%] Building CXX object CMakeFiles/splam_extract.dir/include/gclib/GStr.cpp.o 2023-06-28T05:53:54,059 [ 94%] Building CXX object CMakeFiles/splam_extract.dir/include/gclib/GArgs.cpp.o 2023-06-28T05:53:55,558 [ 97%] Building CXX object CMakeFiles/splam_extract.dir/include/gclib/GBase.cpp.o 2023-06-28T05:53:56,562 [100%] Linking CXX shared module ../../lib.linux-armv7l-cpython-39/splam_extract.cpython-39-arm-linux-gnueabihf.so 2023-06-28T05:54:10,751 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/include/gclib/GVec.hh: In member function ‘setCapacity’: 2023-06-28T05:54:10,751 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/include/gclib/GVec.hh:107:14: warning: argument 1 value ‘4294967295’ exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 2023-06-28T05:54:10,752 107 | fArray=new OBJ[NewCapacity]; 2023-06-28T05:54:10,752 | ^ 2023-06-28T05:54:10,752 /usr/include/c++/10/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 2023-06-28T05:54:10,752 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) 2023-06-28T05:54:10,752 | ^ 2023-06-28T05:54:19,000 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:54:19,390 [100%] Built target splam_extract 2023-06-28T05:54:19,397 gmake[1]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:54:19,482 gmake: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:54:19,830 -- The C compiler identification is GNU 10.2.1 2023-06-28T05:54:20,158 -- The CXX compiler identification is GNU 10.2.1 2023-06-28T05:54:20,204 -- Detecting C compiler ABI info 2023-06-28T05:54:20,582 -- Detecting C compiler ABI info - done 2023-06-28T05:54:20,643 -- Check for working C compiler: /usr/bin/cc - skipped 2023-06-28T05:54:20,644 -- Detecting C compile features 2023-06-28T05:54:20,647 -- Detecting C compile features - done 2023-06-28T05:54:20,673 -- Detecting CXX compiler ABI info 2023-06-28T05:54:21,083 -- Detecting CXX compiler ABI info - done 2023-06-28T05:54:21,162 -- Check for working CXX compiler: /usr/bin/c++ - skipped 2023-06-28T05:54:21,163 -- Detecting CXX compile features 2023-06-28T05:54:21,167 -- Detecting CXX compile features - done 2023-06-28T05:54:21,193 -- pybind11 v2.11.0 dev1 2023-06-28T05:54:21,259 -- Found PythonInterp: /usr/bin/python3 (found suitable version "3.9.2", minimum required is "3.6") 2023-06-28T05:54:21,764 -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.9.so 2023-06-28T05:54:21,772 -- Performing Test HAS_FLTO 2023-06-28T05:54:22,363 -- Performing Test HAS_FLTO - Success 2023-06-28T05:54:22,403 -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.2.11") 2023-06-28T05:54:22,404 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/include/htslib 2023-06-28T05:54:22,404 LIBRARY_OUTPUT_DIRECTORY: 2023-06-28T05:54:22,543 EXAMPLE_VERSION_INFO: 0.2.14 2023-06-28T05:54:22,544 -- Configuring done 2023-06-28T05:54:22,655 -- Generating done 2023-06-28T05:54:22,668 -- Build files have been written to: /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/build/temp.linux-armv7l-cpython-39/splam_clean 2023-06-28T05:54:22,730 gmake: Warning: File 'Makefile' has modification time 1.4 s in the future 2023-06-28T05:54:22,819 gmake[1]: Warning: File 'CMakeFiles/Makefile2' has modification time 1.3 s in the future 2023-06-28T05:54:22,827 gmake[2]: Warning: File 'CMakeFiles/htslib.dir/progress.make' has modification time 1.3 s in the future 2023-06-28T05:54:22,868 Scanning dependencies of target htslib 2023-06-28T05:54:22,871 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:54:22,878 gmake[2]: Warning: File 'CMakeFiles/htslib.dir/progress.make' has modification time 1.3 s in the future 2023-06-28T05:54:22,918 [ 2%] Creating directories for 'htslib' 2023-06-28T05:54:23,260 [ 5%] No download step for 'htslib' 2023-06-28T05:54:23,394 [ 8%] No update step for 'htslib' 2023-06-28T05:54:23,562 [ 11%] No patch step for 'htslib' 2023-06-28T05:54:23,721 [ 13%] Performing configure step for 'htslib' 2023-06-28T05:54:28,320 checking for gcc... gcc 2023-06-28T05:54:28,649 checking whether the C compiler works... yes 2023-06-28T05:54:28,650 checking for C compiler default output file name... a.out 2023-06-28T05:54:28,812 checking for suffix of executables... 2023-06-28T05:54:28,995 checking whether we are cross compiling... no 2023-06-28T05:54:29,083 checking for suffix of object files... o 2023-06-28T05:54:29,163 checking whether we are using the GNU C compiler... yes 2023-06-28T05:54:29,246 checking whether gcc accepts -g... yes 2023-06-28T05:54:29,368 checking for gcc option to accept ISO C89... none needed 2023-06-28T05:54:29,370 checking for ranlib... ranlib 2023-06-28T05:54:29,378 checking for grep that handles long lines and -e... /usr/bin/grep 2023-06-28T05:54:29,460 checking for C compiler warning flags... -Wall 2023-06-28T05:54:29,575 checking how to run the C preprocessor... gcc -E 2023-06-28T05:54:29,687 checking for egrep... /usr/bin/grep -E 2023-06-28T05:54:30,182 checking for ANSI C header files... yes 2023-06-28T05:54:30,302 checking for sys/types.h... yes 2023-06-28T05:54:30,436 checking for sys/stat.h... yes 2023-06-28T05:54:30,574 checking for stdlib.h... yes 2023-06-28T05:54:30,718 checking for string.h... yes 2023-06-28T05:54:30,901 checking for memory.h... yes 2023-06-28T05:54:31,050 checking for strings.h... yes 2023-06-28T05:54:31,199 checking for inttypes.h... yes 2023-06-28T05:54:31,348 checking for stdint.h... yes 2023-06-28T05:54:31,510 checking for unistd.h... yes 2023-06-28T05:54:31,724 checking whether _XOPEN_SOURCE is declared... no 2023-06-28T05:54:31,898 checking C compiler flags needed for ssse3... none 2023-06-28T05:54:32,074 checking C compiler flags needed for popcnt... none 2023-06-28T05:54:32,248 checking C compiler flags needed for sse4.1... none 2023-06-28T05:54:32,444 checking C compiler flags needed for avx2... none 2023-06-28T05:54:32,629 checking C compiler flags needed for avx512f... none 2023-06-28T05:54:32,632 checking for pkg-config... /usr/bin/pkg-config 2023-06-28T05:54:32,638 checking pkg-config is at least version 0.9.0... yes 2023-06-28T05:54:32,640 checking for special C compiler options needed for large files... no 2023-06-28T05:54:32,823 checking for _FILE_OFFSET_BITS value needed for large files... 64 2023-06-28T05:54:32,840 checking shared library type for unknown-Linux... plain .so 2023-06-28T05:54:33,013 checking whether the linker supports versioned symbols... yes 2023-06-28T05:54:33,184 checking whether the compiler accepts -fvisibility=hidden... yes 2023-06-28T05:54:33,202 checking for stdlib.h... (cached) yes 2023-06-28T05:54:33,236 checking for unistd.h... (cached) yes 2023-06-28T05:54:33,451 checking for sys/param.h... yes 2023-06-28T05:54:33,647 checking for getpagesize... yes 2023-06-28T05:54:33,963 checking for working mmap... yes 2023-06-28T05:54:34,186 checking for gmtime_r... yes 2023-06-28T05:54:34,394 checking for fsync... yes 2023-06-28T05:54:34,602 checking for drand48... yes 2023-06-28T05:54:34,833 checking for srand48_deterministic... no 2023-06-28T05:54:35,034 checking whether fdatasync is declared... yes 2023-06-28T05:54:35,222 checking for fdatasync... yes 2023-06-28T05:54:35,625 checking for library containing log... -lm 2023-06-28T05:54:35,731 checking for zlib.h... yes 2023-06-28T05:54:35,941 checking for inflate in -lz... yes 2023-06-28T05:54:36,129 checking for library containing recv... none required 2023-06-28T05:54:36,218 checking for bzlib.h... yes 2023-06-28T05:54:36,409 checking for BZ2_bzBuffToBuffCompress in -lbz2... yes 2023-06-28T05:54:36,421 checking whether htscodecs files are present... yes 2023-06-28T05:54:36,423 configure: WARNING: GCS support not enabled: requires libcurl support 2023-06-28T05:54:36,423 configure: WARNING: S3 support not enabled: requires libcurl support 2023-06-28T05:54:36,646 checking for library containing regcomp... none required 2023-06-28T05:54:36,711 configure: creating ./config.status 2023-06-28T05:54:37,029 config.status: creating config.mk 2023-06-28T05:54:37,074 config.status: creating htslib.pc.tmp 2023-06-28T05:54:37,123 config.status: creating config.h 2023-06-28T05:54:37,143 config.status: config.h is unchanged 2023-06-28T05:54:37,149 config.status: linking htscodecs_bundled.mk to htscodecs.mk 2023-06-28T05:54:37,315 [ 16%] Performing build step for 'htslib' 2023-06-28T05:54:37,627 make[3]: Warning: File 'config.mk' has modification time 0.92 s in the future 2023-06-28T05:54:37,703 make[3]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:54:37,784 [ 19%] No install step for 'htslib' 2023-06-28T05:54:37,909 [ 22%] Completed 'htslib' 2023-06-28T05:54:38,029 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:54:38,073 [ 22%] Built target htslib 2023-06-28T05:54:38,297 Scanning dependencies of target splam_clean 2023-06-28T05:54:38,314 gmake[2]: Warning: File 'CMakeFiles/splam_clean.dir/depend.make' has modification time 1.5 s in the future 2023-06-28T05:54:38,354 [ 25%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/splam_clean.cpp.o 2023-06-28T05:54:43,638 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp: In function ‘int splam_clean(pybind11::list)’: 2023-06-28T05:54:43,639 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:32: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,639 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:54:43,639 | ^~~~~~~~~~ 2023-06-28T05:54:43,639 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:44: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,640 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:54:43,640 | ^~~~~~ 2023-06-28T05:54:43,640 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:52: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,640 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:54:43,640 | ^~~~ 2023-06-28T05:54:43,640 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:319:129: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,640 319 | char *s_uniq_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), "-o", (char*)outfname_s_uniq_map_cleaned_sort.chars()}; 2023-06-28T05:54:43,641 | ^~~~ 2023-06-28T05:54:43,641 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:33: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,641 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:54:43,641 | ^~~~~~~~~~ 2023-06-28T05:54:43,641 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:45: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,642 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:54:43,642 | ^~~~~~ 2023-06-28T05:54:43,642 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:53: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,642 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:54:43,642 | ^~~~ 2023-06-28T05:54:43,642 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:329:142: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,642 329 | char *s_multi_argv[] = {"samtools", "sort", "-@", (char*)thread_num.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars(), "-o", (char*)outfname_s_multi_map_cleaned_nh_updated_sort.chars()}; 2023-06-28T05:54:43,643 | ^~~~ 2023-06-28T05:54:43,643 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:31: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,643 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:54:43,643 | ^~~~~~~~~~ 2023-06-28T05:54:43,643 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:43: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,643 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:54:43,643 | ^~~~~~~ 2023-06-28T05:54:43,643 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:52: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,644 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:54:43,644 | ^~~~ 2023-06-28T05:54:43,644 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:58: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,644 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:54:43,644 | ^~~~ 2023-06-28T05:54:43,644 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:336:91: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,644 336 | char *merge_argv[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), 2023-06-28T05:54:43,644 | ^~~~ 2023-06-28T05:54:43,645 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:25: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,645 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:54:43,645 | ^~~~~~~~~~ 2023-06-28T05:54:43,645 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:37: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,645 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:54:43,645 | ^~~~~~~ 2023-06-28T05:54:43,645 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:46: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,646 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:54:43,646 | ^~~~ 2023-06-28T05:54:43,646 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:52: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,646 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:54:43,646 | ^~~~ 2023-06-28T05:54:43,646 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/splam/module/splam_clean.cpp:354:85: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 2023-06-28T05:54:43,647 354 | char *test[] = {"samtools", "merge", "-f", "-@", (char*)thread_num.chars(), "-o", (char*)outfname_cleaned.chars(), (char*)outfname_ns_uniq_map.chars(), (char*)outfname_ns_multi_map_nh_updated.chars(), (char*)outfname_s_uniq_map_cleaned.chars(), (char*)outfname_s_multi_map_cleaned_nh_updated.chars()}; 2023-06-28T05:54:43,647 | ^~~~ 2023-06-28T05:54:48,685 [ 27%] Building C object CMakeFiles/splam_clean.dir/splam/module/bam_sort.c.o 2023-06-28T05:54:56,743 [ 30%] Building C object CMakeFiles/splam_clean.dir/splam/module/bam.c.o 2023-06-28T05:54:57,235 [ 33%] Building C object CMakeFiles/splam_clean.dir/splam/module/sam_utils.c.o 2023-06-28T05:54:57,744 [ 36%] Building C object CMakeFiles/splam_clean.dir/splam/module/sam_opts.c.o 2023-06-28T05:54:58,053 [ 38%] Building C object CMakeFiles/splam_clean.dir/splam/module/bedidx.c.o 2023-06-28T05:54:59,836 [ 41%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/junc_func.cpp.o 2023-06-28T05:55:02,564 [ 44%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/extract.cpp.o 2023-06-28T05:55:06,560 [ 47%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/predict.cpp.o 2023-06-28T05:55:10,639 [ 50%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/clean.cpp.o 2023-06-28T05:55:15,225 [ 52%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/update.cpp.o 2023-06-28T05:55:19,421 [ 55%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/util.cpp.o 2023-06-28T05:55:23,494 [ 58%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/tmerge.cpp.o 2023-06-28T05:55:27,017 [ 61%] Building CXX object CMakeFiles/splam_clean.dir/splam/module/GSam.cpp.o 2023-06-28T05:55:29,221 [ 63%] Building CXX object CMakeFiles/splam_clean.dir/include/gclib/GStr.cpp.o 2023-06-28T05:55:30,316 [ 66%] Building CXX object CMakeFiles/splam_clean.dir/include/gclib/GArgs.cpp.o 2023-06-28T05:55:31,102 [ 69%] Building CXX object CMakeFiles/splam_clean.dir/include/gclib/GBase.cpp.o 2023-06-28T05:55:32,058 [ 72%] Linking CXX shared module ../../lib.linux-armv7l-cpython-39/splam_clean.cpython-39-arm-linux-gnueabihf.so 2023-06-28T05:55:53,082 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:55:53,132 [ 72%] Built target splam_clean 2023-06-28T05:55:53,283 Scanning dependencies of target splam_extract 2023-06-28T05:55:53,297 gmake[2]: Warning: File 'CMakeFiles/splam_extract.dir/depend.make' has modification time 1.5 s in the future 2023-06-28T05:55:53,338 [ 75%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/splam_extract.cpp.o 2023-06-28T05:56:03,528 [ 77%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/extract.cpp.o 2023-06-28T05:56:07,517 [ 80%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/junc_func.cpp.o 2023-06-28T05:56:10,233 [ 83%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/util.cpp.o 2023-06-28T05:56:14,289 [ 86%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/tmerge.cpp.o 2023-06-28T05:56:17,805 [ 88%] Building CXX object CMakeFiles/splam_extract.dir/splam/module/GSam.cpp.o 2023-06-28T05:56:20,007 [ 91%] Building CXX object CMakeFiles/splam_extract.dir/include/gclib/GStr.cpp.o 2023-06-28T05:56:21,082 [ 94%] Building CXX object CMakeFiles/splam_extract.dir/include/gclib/GArgs.cpp.o 2023-06-28T05:56:21,872 [ 97%] Building CXX object CMakeFiles/splam_extract.dir/include/gclib/GBase.cpp.o 2023-06-28T05:56:22,823 [100%] Linking CXX shared module ../../lib.linux-armv7l-cpython-39/splam_extract.cpython-39-arm-linux-gnueabihf.so 2023-06-28T05:56:37,155 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/include/gclib/GVec.hh: In member function ‘setCapacity’: 2023-06-28T05:56:37,156 /tmp/pip-wheel-686d6ck7/splam_76d8f274bf6e493fa8f5d7a55444b218/include/gclib/GVec.hh:107:14: warning: argument 1 value ‘4294967295’ exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 2023-06-28T05:56:37,156 107 | fArray=new OBJ[NewCapacity]; 2023-06-28T05:56:37,156 | ^ 2023-06-28T05:56:37,156 /usr/include/c++/10/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 2023-06-28T05:56:37,157 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) 2023-06-28T05:56:37,157 | ^ 2023-06-28T05:56:45,430 gmake[2]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:56:45,474 [100%] Built target splam_extract 2023-06-28T05:56:45,477 gmake[1]: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:56:45,524 gmake: warning: Clock skew detected. Your build may be incomplete. 2023-06-28T05:56:45,582 /home/piwheels/.local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-06-28T05:56:45,583 !! 2023-06-28T05:56:45,583 ******************************************************************************** 2023-06-28T05:56:45,583 Please avoid running ``setup.py`` directly. 2023-06-28T05:56:45,583 Instead, use pypa/build, pypa/installer, pypa/build or 2023-06-28T05:56:45,583 other standards-based tools. 2023-06-28T05:56:45,584 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-06-28T05:56:45,584 ******************************************************************************** 2023-06-28T05:56:45,584 !! 2023-06-28T05:56:45,584 self.initialize_options() 2023-06-28T05:56:45,613 installing to build/bdist.linux-armv7l/wheel 2023-06-28T05:56:45,613 running install 2023-06-28T05:56:45,640 running install_lib 2023-06-28T05:56:45,669 creating build/bdist.linux-armv7l 2023-06-28T05:56:45,670 creating build/bdist.linux-armv7l/wheel 2023-06-28T05:56:45,672 creating build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,673 copying build/lib.linux-armv7l-cpython-39/splam/splam.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,675 copying build/lib.linux-armv7l-cpython-39/splam/prediction.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,678 copying build/lib.linux-armv7l-cpython-39/splam/test.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,679 copying build/lib.linux-armv7l-cpython-39/splam/config.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,681 copying build/lib.linux-armv7l-cpython-39/splam/extract_gff.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,683 copying build/lib.linux-armv7l-cpython-39/splam/__init__.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,685 copying build/lib.linux-armv7l-cpython-39/splam/chr_size.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,688 copying build/lib.linux-armv7l-cpython-39/splam/helper.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,689 copying build/lib.linux-armv7l-cpython-39/splam/parse.py -> build/bdist.linux-armv7l/wheel/splam 2023-06-28T05:56:45,692 copying build/lib.linux-armv7l-cpython-39/splam_extract.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2023-06-28T05:56:45,698 copying build/lib.linux-armv7l-cpython-39/splam_clean.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2023-06-28T05:56:45,708 running install_egg_info 2023-06-28T05:56:45,781 running egg_info 2023-06-28T05:56:45,808 writing splam.egg-info/PKG-INFO 2023-06-28T05:56:45,810 writing dependency_links to splam.egg-info/dependency_links.txt 2023-06-28T05:56:45,812 writing entry points to splam.egg-info/entry_points.txt 2023-06-28T05:56:45,814 writing requirements to splam.egg-info/requires.txt 2023-06-28T05:56:45,815 writing top-level names to splam.egg-info/top_level.txt 2023-06-28T05:56:45,846 reading manifest file 'splam.egg-info/SOURCES.txt' 2023-06-28T05:56:46,040 reading manifest template 'MANIFEST.in' 2023-06-28T05:56:46,338 adding license file 'LICENSE' 2023-06-28T05:56:46,404 writing manifest file 'splam.egg-info/SOURCES.txt' 2023-06-28T05:56:46,407 Copying splam.egg-info to build/bdist.linux-armv7l/wheel/splam-0.2.14-py3.9.egg-info 2023-06-28T05:56:46,420 running install_scripts 2023-06-28T05:56:46,472 creating build/bdist.linux-armv7l/wheel/splam-0.2.14.dist-info/WHEEL 2023-06-28T05:56:46,475 creating '/tmp/pip-wheel-ddw3r2ks/splam-0.2.14-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-06-28T05:56:46,555 adding 'splam_clean.cpython-39-arm-linux-gnueabihf.so' 2023-06-28T05:56:46,608 adding 'splam_extract.cpython-39-arm-linux-gnueabihf.so' 2023-06-28T05:56:46,612 adding 'splam/__init__.py' 2023-06-28T05:56:46,615 adding 'splam/chr_size.py' 2023-06-28T05:56:46,617 adding 'splam/config.py' 2023-06-28T05:56:46,618 adding 'splam/extract_gff.py' 2023-06-28T05:56:46,620 adding 'splam/helper.py' 2023-06-28T05:56:46,621 adding 'splam/parse.py' 2023-06-28T05:56:46,623 adding 'splam/prediction.py' 2023-06-28T05:56:46,625 adding 'splam/splam.py' 2023-06-28T05:56:46,626 adding 'splam/test.py' 2023-06-28T05:56:46,629 adding 'splam-0.2.14.dist-info/LICENSE' 2023-06-28T05:56:46,630 adding 'splam-0.2.14.dist-info/METADATA' 2023-06-28T05:56:46,631 adding 'splam-0.2.14.dist-info/WHEEL' 2023-06-28T05:56:46,632 adding 'splam-0.2.14.dist-info/entry_points.txt' 2023-06-28T05:56:46,633 adding 'splam-0.2.14.dist-info/top_level.txt' 2023-06-28T05:56:46,634 adding 'splam-0.2.14.dist-info/RECORD' 2023-06-28T05:56:46,640 removing build/bdist.linux-armv7l/wheel 2023-06-28T05:56:46,736 Building wheel for splam (setup.py): finished with status 'done' 2023-06-28T05:56:46,742 Created wheel for splam: filename=splam-0.2.14-cp39-cp39-linux_armv7l.whl size=294208 sha256=9237ea34fa9b75f3eca15e7e1d738cc0dc9aad5de23b68b3716774ca83e9319c 2023-06-28T05:56:46,743 Stored in directory: /tmp/pip-ephem-wheel-cache-zo60vp2a/wheels/b4/7d/80/fceede90dc978ac4d4c415806f9a199dd9c8e5f49a293576b8 2023-06-28T05:56:46,755 Successfully built splam 2023-06-28T05:56:46,766 Removed build tracker: '/tmp/pip-build-tracker-2ydeg5bc'