2022-06-01T03:25:45,902 Created temporary directory: /tmp/pip-ephem-wheel-cache-rcz8w9gx 2022-06-01T03:25:45,908 Created temporary directory: /tmp/pip-build-tracker-rt4ombbh 2022-06-01T03:25:45,909 Initialized build tracking at /tmp/pip-build-tracker-rt4ombbh 2022-06-01T03:25:45,910 Created build tracker: /tmp/pip-build-tracker-rt4ombbh 2022-06-01T03:25:45,910 Entered build tracker: /tmp/pip-build-tracker-rt4ombbh 2022-06-01T03:25:45,911 Created temporary directory: /tmp/pip-wheel-1lbu7z9p 2022-06-01T03:25:45,989 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-06-01T03:25:45,999 2 location(s) to search for versions of remixt: 2022-06-01T03:25:45,999 * https://pypi.org/simple/remixt/ 2022-06-01T03:25:45,999 * https://www.piwheels.org/simple/remixt/ 2022-06-01T03:25:46,000 Fetching project page and analyzing links: https://pypi.org/simple/remixt/ 2022-06-01T03:25:46,001 Getting page https://pypi.org/simple/remixt/ 2022-06-01T03:25:46,005 Found index url https://pypi.org/simple 2022-06-01T03:25:46,687 Skipping link: No binaries permitted for remixt: https://files.pythonhosted.org/packages/34/47/36474b49522a25ebd0225e8fb14b787d22bd183ec970234f91eaec994c2d/remixt-0.5.6-cp27-cp27m-macosx_10_6_x86_64.whl#sha256=513fca7c1e09623d73497c922296860bf7bd26e129b07602c5a88922492f6a6b (from https://pypi.org/simple/remixt/) 2022-06-01T03:25:46,687 Found link https://files.pythonhosted.org/packages/c2/af/ff31309f6b344064e5ab6078501ce62debe5247ba568c178bbf13c2bcfe3/remixt-0.5.15.tar.gz#sha256=d48827c4182dc018e51bf1ba9a2941b6a620e13a0a3877e54254cf2e48f0d42b (from https://pypi.org/simple/remixt/), version: 0.5.15 2022-06-01T03:25:46,688 Found link https://files.pythonhosted.org/packages/d0/9d/5530963f9b627877ee7822134f924cf2c70dd746ccb8d19f144a9465ab59/remixt-0.5.16.tar.gz#sha256=1cb41ccaf247869fad1dccd529903ffc5d53cef6fc351696d95ed85671257e51 (from https://pypi.org/simple/remixt/), version: 0.5.16 2022-06-01T03:25:46,689 Found link https://files.pythonhosted.org/packages/76/82/68faf5c91c564e4da7b3188d5ea05855adfea3efafcadd5d8e33fc702a15/remixt-0.5.17.tar.gz#sha256=d27b7025a87a145882735dfcd96e2003649bac705aa111f861512808852d1bc6 (from https://pypi.org/simple/remixt/), version: 0.5.17 2022-06-01T03:25:46,690 Found link https://files.pythonhosted.org/packages/01/c9/261ef371a3d445786a7f6b3f9f3a345895f1c88d64afb636b209562bdcae/remixt-0.5.18.tar.gz#sha256=3f2cc6108b705e4e956a867435f15e6ee82270311eeb2a32dfba59e288cc55a8 (from https://pypi.org/simple/remixt/), version: 0.5.18 2022-06-01T03:25:46,691 Found link https://files.pythonhosted.org/packages/7b/b4/93b643bd28690b9bc570d6942cb004b4c46bff97cff8d8361c8daee20578/remixt-0.5.19.tar.gz#sha256=2f810aaba79f49a54bd919f61aea8cd797ea79e5e43d8a3614c279b6263b03e0 (from https://pypi.org/simple/remixt/), version: 0.5.19 2022-06-01T03:25:46,692 Fetching project page and analyzing links: https://www.piwheels.org/simple/remixt/ 2022-06-01T03:25:46,693 Getting page https://www.piwheels.org/simple/remixt/ 2022-06-01T03:25:46,695 Found index url https://www.piwheels.org/simple 2022-06-01T03:25:46,917 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.19-cp37-cp37m-linux_armv7l.whl#sha256=5632cefed45323a87d5c5bab24ffcc751a522dcc9e4bb71e78261be1cb8b4197 (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,918 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.19-cp37-cp37m-linux_armv6l.whl#sha256=5632cefed45323a87d5c5bab24ffcc751a522dcc9e4bb71e78261be1cb8b4197 (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,918 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.18-cp39-cp39-linux_armv7l.whl#sha256=fb546786e8656549a6ab10968762152e89a49b6e1dc26d5a6b9b543032257371 (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,919 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.18-cp39-cp39-linux_armv6l.whl#sha256=fb546786e8656549a6ab10968762152e89a49b6e1dc26d5a6b9b543032257371 (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,920 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.18-cp37-cp37m-linux_armv7l.whl#sha256=b2d4f466c700e28c8a587cbe36d82b89ed1346da37279c0bde272f907b25e60b (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,920 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.18-cp37-cp37m-linux_armv6l.whl#sha256=b2d4f466c700e28c8a587cbe36d82b89ed1346da37279c0bde272f907b25e60b (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,921 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.17-cp39-cp39-linux_armv7l.whl#sha256=5d8ddead1293ed5f2791d126875e70556ae30efcd8db3575f987b3356326b3fc (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,921 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.17-cp39-cp39-linux_armv6l.whl#sha256=5d8ddead1293ed5f2791d126875e70556ae30efcd8db3575f987b3356326b3fc (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,922 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.17-cp37-cp37m-linux_armv7l.whl#sha256=ab307de80ba017e40070da36a6953d0340b4890115d11777756b42b918733256 (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,923 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.17-cp37-cp37m-linux_armv6l.whl#sha256=ab307de80ba017e40070da36a6953d0340b4890115d11777756b42b918733256 (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,923 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.16-cp39-cp39-linux_armv7l.whl#sha256=cbf2ef60ea8ec37410b036a8108f06781612924eeeaee0de4ec8872d7e3c603d (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,924 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.16-cp39-cp39-linux_armv6l.whl#sha256=cbf2ef60ea8ec37410b036a8108f06781612924eeeaee0de4ec8872d7e3c603d (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,924 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.16-cp37-cp37m-linux_armv7l.whl#sha256=707a3cc329b5fd96fea972a934f0a1dbf0c74d5768b056c49ccb3dc845a6321c (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,925 Skipping link: No binaries permitted for remixt: https://www.piwheels.org/simple/remixt/remixt-0.5.16-cp37-cp37m-linux_armv6l.whl#sha256=707a3cc329b5fd96fea972a934f0a1dbf0c74d5768b056c49ccb3dc845a6321c (from https://www.piwheels.org/simple/remixt/) 2022-06-01T03:25:46,926 Skipping link: not a file: https://www.piwheels.org/simple/remixt/ 2022-06-01T03:25:46,926 Skipping link: not a file: https://pypi.org/simple/remixt/ 2022-06-01T03:25:46,971 Given no hashes to check 1 links for project 'remixt': discarding no candidates 2022-06-01T03:25:47,012 Collecting remixt==0.5.19 2022-06-01T03:25:47,016 Created temporary directory: /tmp/pip-unpack-h38_1eui 2022-06-01T03:25:47,115 Downloading remixt-0.5.19.tar.gz (894 kB) 2022-06-01T03:25:49,249 Added remixt==0.5.19 from https://files.pythonhosted.org/packages/7b/b4/93b643bd28690b9bc570d6942cb004b4c46bff97cff8d8361c8daee20578/remixt-0.5.19.tar.gz#sha256=2f810aaba79f49a54bd919f61aea8cd797ea79e5e43d8a3614c279b6263b03e0 to build tracker '/tmp/pip-build-tracker-rt4ombbh' 2022-06-01T03:25:49,252 Running setup.py (path:/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/setup.py) egg_info for package remixt 2022-06-01T03:25:49,254 Created temporary directory: /tmp/pip-pip-egg-info-y3uczku8 2022-06-01T03:25:49,255 Preparing metadata (setup.py): started 2022-06-01T03:25:49,257 Running command python setup.py egg_info 2022-06-01T03:25:51,524 /usr/local/lib/python3.9/dist-packages/setuptools/dist.py:772: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead 2022-06-01T03:25:51,525 warnings.warn( 2022-06-01T03:25:51,987 /usr/local/lib/python3.9/dist-packages/setuptools/installer.py:27: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer. 2022-06-01T03:25:51,988 warnings.warn( 2022-06-01T03:45:17,182 running egg_info 2022-06-01T03:45:17,189 creating /tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info 2022-06-01T03:45:18,071 writing /tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/PKG-INFO 2022-06-01T03:45:18,896 writing dependency_links to /tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/dependency_links.txt 2022-06-01T03:45:21,365 writing entry points to /tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/entry_points.txt 2022-06-01T03:45:23,012 writing requirements to /tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/requires.txt 2022-06-01T03:45:23,861 writing top-level names to /tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/top_level.txt 2022-06-01T03:45:23,864 writing manifest file '/tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/SOURCES.txt' 2022-06-01T03:45:24,020 /usr/local/lib/python3.9/dist-packages/setuptools/command/egg_info.py:633: SetuptoolsDeprecationWarning: Custom 'build_py' does not implement 'get_data_files_without_manifest'. 2022-06-01T03:45:24,021 Please extend command classes from setuptools instead of distutils. 2022-06-01T03:45:24,021 warnings.warn( 2022-06-01T03:45:25,773 reading manifest file '/tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/SOURCES.txt' 2022-06-01T03:45:25,777 reading manifest template 'MANIFEST.in' 2022-06-01T03:45:25,893 writing manifest file '/tmp/pip-pip-egg-info-y3uczku8/remixt.egg-info/SOURCES.txt' 2022-06-01T03:45:26,211 Preparing metadata (setup.py): finished with status 'done' 2022-06-01T03:45:26,229 Source in /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460 has version 0.5.19, which satisfies requirement remixt==0.5.19 from https://files.pythonhosted.org/packages/7b/b4/93b643bd28690b9bc570d6942cb004b4c46bff97cff8d8361c8daee20578/remixt-0.5.19.tar.gz#sha256=2f810aaba79f49a54bd919f61aea8cd797ea79e5e43d8a3614c279b6263b03e0 2022-06-01T03:45:26,231 Removed remixt==0.5.19 from https://files.pythonhosted.org/packages/7b/b4/93b643bd28690b9bc570d6942cb004b4c46bff97cff8d8361c8daee20578/remixt-0.5.19.tar.gz#sha256=2f810aaba79f49a54bd919f61aea8cd797ea79e5e43d8a3614c279b6263b03e0 from build tracker '/tmp/pip-build-tracker-rt4ombbh' 2022-06-01T03:45:26,241 Created temporary directory: /tmp/pip-unpack-t53u04nb 2022-06-01T03:45:26,242 Building wheels for collected packages: remixt 2022-06-01T03:45:26,253 Created temporary directory: /tmp/pip-wheel-rlm1zxk_ 2022-06-01T03:45:26,254 Building wheel for remixt (setup.py): started 2022-06-01T03:45:26,257 Destination directory: /tmp/pip-wheel-rlm1zxk_ 2022-06-01T03:45:26,257 Running command python setup.py bdist_wheel 2022-06-01T03:45:28,720 /usr/local/lib/python3.9/dist-packages/setuptools/dist.py:772: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead 2022-06-01T03:45:28,721 warnings.warn( 2022-06-01T03:45:29,199 /usr/local/lib/python3.9/dist-packages/setuptools/installer.py:27: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer. 2022-06-01T03:45:29,200 warnings.warn( 2022-06-01T03:45:34,216 running bdist_wheel 2022-06-01T03:45:35,664 running build 2022-06-01T03:45:35,664 running build_py 2022-06-01T03:45:35,680 creating build 2022-06-01T03:45:35,680 creating build/lib.linux-armv7l-cpython-39 2022-06-01T03:45:35,682 creating build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,684 copying remixt/workflow.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,689 copying remixt/defaults.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,693 copying remixt/visualize.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,700 copying remixt/_version.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,704 copying remixt/utils.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,709 copying remixt/config.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,714 copying remixt/segalg.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,718 copying remixt/ref_data.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,723 copying remixt/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,726 copying remixt/likelihood.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,734 copying remixt/seqdataio.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,739 copying remixt/cn_model.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,748 copying remixt/cn_plot.py -> build/lib.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:35,757 creating build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,759 copying remixt/analysis/stats.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,764 copying remixt/analysis/experiment.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,770 copying remixt/analysis/readdepth.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,772 copying remixt/analysis/readcount.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,776 copying remixt/analysis/temp.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,780 copying remixt/analysis/breakpoints.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,785 copying remixt/analysis/gcbias.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,791 copying remixt/analysis/segment.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,796 copying remixt/analysis/haplotype.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,803 copying remixt/analysis/pipeline.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,809 copying remixt/analysis/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/analysis 2022-06-01T03:45:35,814 creating build/lib.linux-armv7l-cpython-39/remixt/mappability 2022-06-01T03:45:35,816 copying remixt/mappability/tasks.py -> build/lib.linux-armv7l-cpython-39/remixt/mappability 2022-06-01T03:45:35,820 copying remixt/mappability/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/mappability 2022-06-01T03:45:35,826 creating build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,828 copying remixt/simulations/workflow.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,833 copying remixt/simulations/experiment.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,841 copying remixt/simulations/balanced.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,846 copying remixt/simulations/simple.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,850 copying remixt/simulations/seqread.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,858 copying remixt/simulations/haplotype.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,862 copying remixt/simulations/pipeline.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,868 copying remixt/simulations/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/simulations 2022-06-01T03:45:35,873 creating build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,874 copying remixt/wrappers/wraptheta.py -> build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,879 copying remixt/wrappers/utils.py -> build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,883 copying remixt/wrappers/wraptitan.py -> build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,889 copying remixt/wrappers/wrapremixt.py -> build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,895 copying remixt/wrappers/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,899 copying remixt/wrappers/cmdline.py -> build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,902 copying remixt/wrappers/wrapclonehd.py -> build/lib.linux-armv7l-cpython-39/remixt/wrappers 2022-06-01T03:45:35,910 creating build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,912 copying remixt/ui/visualize_solutions.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,915 copying remixt/ui/main.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,919 copying remixt/ui/write_results.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,922 copying remixt/ui/mappability_bwa.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,926 copying remixt/ui/create_ref_data.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,930 copying remixt/ui/run.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,934 copying remixt/ui/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,936 copying remixt/ui/plot_results.py -> build/lib.linux-armv7l-cpython-39/remixt/ui 2022-06-01T03:45:35,942 creating build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,944 copying remixt/tests/test_seqdata.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,951 copying remixt/tests/test_remixt.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,959 copying remixt/tests/test_haplotype.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,962 copying remixt/tests/test_segalg.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,966 copying remixt/tests/test_model.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,971 copying remixt/tests/utils.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,975 copying remixt/tests/test_likelihood.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,980 copying remixt/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/tests 2022-06-01T03:45:35,984 creating build/lib.linux-armv7l-cpython-39/remixt/mappability/bwa 2022-06-01T03:45:35,986 copying remixt/mappability/bwa/workflow.py -> build/lib.linux-armv7l-cpython-39/remixt/mappability/bwa 2022-06-01T03:45:35,999 copying remixt/mappability/bwa/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/mappability/bwa 2022-06-01T03:45:36,015 creating build/lib.linux-armv7l-cpython-39/remixt/tests/unopt 2022-06-01T03:45:36,020 copying remixt/tests/unopt/model.py -> build/lib.linux-armv7l-cpython-39/remixt/tests/unopt 2022-06-01T03:45:36,027 copying remixt/tests/unopt/__init__.py -> build/lib.linux-armv7l-cpython-39/remixt/tests/unopt 2022-06-01T03:45:36,058 UPDATING build/lib.linux-armv7l-cpython-39/remixt/_version.py 2022-06-01T03:45:36,062 set build/lib.linux-armv7l-cpython-39/remixt/_version.py to '0.5.19' 2022-06-01T03:45:36,063 running build_ext 2022-06-01T03:45:36,083 skipping 'remixt/bamreader.cpp' Cython extension (up-to-date) 2022-06-01T03:45:36,086 skipping 'remixt/bpmodel.cpp' Cython extension (up-to-date) 2022-06-01T03:45:36,087 building 'remixt.bamreader' extension 2022-06-01T03:45:39,130 creating build/temp.linux-armv7l-cpython-39 2022-06-01T03:45:39,131 creating build/temp.linux-armv7l-cpython-39/remixt 2022-06-01T03:45:39,133 creating build/temp.linux-armv7l-cpython-39/src 2022-06-01T03:45:39,135 creating build/temp.linux-armv7l-cpython-39/src/external 2022-06-01T03:45:39,136 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools 2022-06-01T03:45:39,137 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src 2022-06-01T03:45:39,138 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api 2022-06-01T03:45:39,142 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal 2022-06-01T03:45:39,142 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam 2022-06-01T03:45:39,145 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/index 2022-06-01T03:45:39,147 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io 2022-06-01T03:45:39,150 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/sam 2022-06-01T03:45:39,152 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/utils 2022-06-01T03:45:39,153 creating build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils 2022-06-01T03:45:39,155 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c remixt/bamreader.cpp -o build/temp.linux-armv7l-cpython-39/remixt/bamreader.o -g 2022-06-01T03:45:39,936 In file included from /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/ndarraytypes.h:1822, 2022-06-01T03:45:39,936 from /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/ndarrayobject.h:12, 2022-06-01T03:45:39,937 from /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/arrayobject.h:4, 2022-06-01T03:45:39,937 from remixt/bamreader.cpp:624: 2022-06-01T03:45:39,938 /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-06-01T03:45:39,938 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-06-01T03:45:39,938 | ^~~~~~~ 2022-06-01T03:45:44,784 remixt/bamreader.cpp: In function ‘PyObject* __pyx_pf_6remixt_9bamreader_12AlleleReader_6GetFragmentTable(__pyx_obj_6remixt_9bamreader_AlleleReader*)’: 2022-06-01T03:45:44,785 remixt/bamreader.cpp:2551:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-01T03:45:44,785 2551 | for (__pyx_t_7 = 0; __pyx_t_7 < __pyx_t_6; __pyx_t_7+=1) { 2022-06-01T03:45:44,785 | ~~~~~~~~~~^~~~~~~~~~~ 2022-06-01T03:45:44,847 remixt/bamreader.cpp: In function ‘PyObject* __pyx_pf_6remixt_9bamreader_12AlleleReader_8GetAlleleTable(__pyx_obj_6remixt_9bamreader_AlleleReader*)’: 2022-06-01T03:45:44,847 remixt/bamreader.cpp:2783:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2022-06-01T03:45:44,848 2783 | for (__pyx_t_7 = 0; __pyx_t_7 < __pyx_t_6; __pyx_t_7+=1) { 2022-06-01T03:45:44,848 | ~~~~~~~~~~^~~~~~~~~~~ 2022-06-01T03:45:56,453 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/BamAlleleReader.cpp -o build/temp.linux-armv7l-cpython-39/src/BamAlleleReader.o -g 2022-06-01T03:46:00,915 In file included from src/BamAlleleReader.cpp:1: 2022-06-01T03:46:00,915 src/BamAlleleReader.h: In constructor ‘AlleleReader::AlleleReader(const string&, const string&, const string&, int, int, bool)’: 2022-06-01T03:46:00,916 src/BamAlleleReader.h:98:6: warning: ‘AlleleReader::mNextFragmentID’ will be initialized after [-Wreorder] 2022-06-01T03:46:00,916 98 | int mNextFragmentID; 2022-06-01T03:46:00,917 | ^~~~~~~~~~~~~~~ 2022-06-01T03:46:00,918 src/BamAlleleReader.h:90:7: warning: ‘bool AlleleReader::mCheckProperPair’ [-Wreorder] 2022-06-01T03:46:00,918 90 | bool mCheckProperPair; 2022-06-01T03:46:00,919 | ^~~~~~~~~~~~~~~~ 2022-06-01T03:46:00,919 src/BamAlleleReader.cpp:62:1: warning: when initialized here [-Wreorder] 2022-06-01T03:46:00,919 62 | AlleleReader::AlleleReader(const string& bamFilename, 2022-06-01T03:46:00,920 | ^~~~~~~~~~~~ 2022-06-01T03:46:14,106 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/BamAlignment.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamAlignment.o -g 2022-06-01T03:46:23,404 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/BamMultiReader.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamMultiReader.o -g 2022-06-01T03:46:29,334 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/BamReader.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamReader.o -g 2022-06-01T03:46:34,563 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/BamWriter.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamWriter.o -g 2022-06-01T03:46:39,122 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/SamHeader.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamHeader.o -g 2022-06-01T03:46:46,023 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/SamProgram.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamProgram.o -g 2022-06-01T03:46:49,356 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/SamProgramChain.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamProgramChain.o -g 2022-06-01T03:46:54,869 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/SamReadGroup.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamReadGroup.o -g 2022-06-01T03:46:59,282 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/SamReadGroupDictionary.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamReadGroupDictionary.o -g 2022-06-01T03:47:07,744 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/SamSequence.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamSequence.o -g 2022-06-01T03:47:12,924 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/SamSequenceDictionary.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamSequenceDictionary.o -g 2022-06-01T03:47:21,594 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/bam/BamHeader_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamHeader_p.o -g 2022-06-01T03:47:27,104 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/bam/BamMultiReader_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamMultiReader_p.o -g 2022-06-01T03:47:50,840 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/bam/BamRandomAccessController_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamRandomAccessController_p.o -g 2022-06-01T03:47:59,218 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/bam/BamReader_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamReader_p.o -g 2022-06-01T03:48:11,981 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/bam/BamWriter_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamWriter_p.o -g 2022-06-01T03:48:18,751 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/index/BamIndexFactory_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/index/BamIndexFactory_p.o -g 2022-06-01T03:48:24,162 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/index/BamStandardIndex_p.o -g 2022-06-01T03:48:32,720 In file included from /usr/include/c++/10/bits/stl_algo.h:61, 2022-06-01T03:48:32,721 from /usr/include/c++/10/algorithm:62, 2022-06-01T03:48:32,721 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:21: 2022-06-01T03:48:32,722 /usr/include/c++/10/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long unsigned int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: 2022-06-01T03:48:32,723 /usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:32,723 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, 2022-06-01T03:48:32,724 | ^~~~~~~~~~~~~ 2022-06-01T03:48:32,838 /usr/include/c++/10/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = long long int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: 2022-06-01T03:48:32,839 /usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:32,946 In file included from /usr/include/c++/10/algorithm:62, 2022-06-01T03:48:32,947 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:21: 2022-06-01T03:48:32,948 /usr/include/c++/10/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: 2022-06-01T03:48:32,948 /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:32,949 1839 | __insertion_sort(_RandomAccessIterator __first, 2022-06-01T03:48:32,949 | ^~~~~~~~~~~~~~~~ 2022-06-01T03:48:32,950 /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:32,950 /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,076 /usr/include/c++/10/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: 2022-06-01T03:48:33,076 /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,077 1945 | __introsort_loop(_RandomAccessIterator __first, 2022-06-01T03:48:33,077 | ^~~~~~~~~~~~~~~~ 2022-06-01T03:48:33,078 /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,079 /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,079 /usr/include/c++/10/bits/stl_algo.h:1959:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,080 1959 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); 2022-06-01T03:48:33,080 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:33,303 /usr/include/c++/10/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: 2022-06-01T03:48:33,303 /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,304 1945 | __introsort_loop(_RandomAccessIterator __first, 2022-06-01T03:48:33,305 | ^~~~~~~~~~~~~~~~ 2022-06-01T03:48:33,305 /usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,306 /usr/include/c++/10/bits/stl_algo.h:1959:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,306 1959 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); 2022-06-01T03:48:33,307 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:33,560 /usr/include/c++/10/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: 2022-06-01T03:48:33,561 /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:33,561 1839 | __insertion_sort(_RandomAccessIterator __first, 2022-06-01T03:48:33,562 | ^~~~~~~~~~~~~~~~ 2022-06-01T03:48:33,563 /usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:35,931 /usr/include/c++/10/bits/stl_algo.h: In member function ‘void BamTools::Internal::BamStandardIndex::SortLinearOffsets(BamTools::Internal::BaiLinearOffsetVector&)’: 2022-06-01T03:48:35,932 /usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:35,932 1974 | std::__introsort_loop(__first, __last, 2022-06-01T03:48:35,933 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2022-06-01T03:48:35,934 1975 | std::__lg(__last - __first) * 2, 2022-06-01T03:48:35,935 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:35,936 1976 | __comp); 2022-06-01T03:48:35,936 | ~~~~~~~ 2022-06-01T03:48:35,937 /usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:35,938 1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); 2022-06-01T03:48:35,939 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:35,939 /usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:35,940 1891 | std::__insertion_sort(__first, __last, __comp); 2022-06-01T03:48:35,940 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:37,331 In file included from /usr/include/c++/10/vector:72, 2022-06-01T03:48:37,332 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:37,333 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:37,333 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:10: 2022-06-01T03:48:37,335 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BaiAlignmentChunk&}; _Tp = BamTools::Internal::BaiAlignmentChunk; _Alloc = std::allocator]’: 2022-06-01T03:48:37,335 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:37,336 426 | vector<_Tp, _Alloc>:: 2022-06-01T03:48:37,336 | ^~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:37,337 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:37,506 In file included from /usr/include/c++/10/vector:67, 2022-06-01T03:48:37,507 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:37,507 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:37,508 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:10: 2022-06-01T03:48:37,508 /usr/include/c++/10/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamStandardIndex::MergeAlignmentChunks(BamTools::Internal::BaiAlignmentChunkVector&)’: 2022-06-01T03:48:37,508 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:37,509 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:37,509 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:37,510 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:37,510 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:37,510 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:38,442 /usr/include/c++/10/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamStandardIndex::SaveAlignmentChunkToBin(BamTools::Internal::BaiBinMap&, const uint32_t&, const uint64_t&, const uint64_t&)’: 2022-06-01T03:48:38,442 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:38,443 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:38,443 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:38,443 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:38,444 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:38,445 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:38,671 In file included from /usr/include/c++/10/vector:72, 2022-06-01T03:48:38,671 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:38,672 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:38,672 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:10: 2022-06-01T03:48:38,672 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’: 2022-06-01T03:48:38,673 /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:38,673 509 | vector<_Tp, _Alloc>:: 2022-06-01T03:48:38,674 | ^~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:38,877 In file included from /usr/include/c++/10/vector:67, 2022-06-01T03:48:38,878 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:38,878 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:38,879 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:10: 2022-06-01T03:48:38,879 /usr/include/c++/10/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamStandardIndex::SaveLinearOffsetEntry(BamTools::Internal::BaiLinearOffsetVector&, const int&, const int&, const uint64_t&)’: 2022-06-01T03:48:38,880 /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:38,880 960 | _M_fill_insert(end(), __new_size - size(), __x); 2022-06-01T03:48:38,881 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:40,919 In file included from /usr/include/c++/10/vector:72, 2022-06-01T03:48:40,919 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:40,920 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:40,920 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:10: 2022-06-01T03:48:40,921 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator]’: 2022-06-01T03:48:40,921 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:40,922 426 | vector<_Tp, _Alloc>:: 2022-06-01T03:48:40,923 | ^~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:40,923 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:41,062 /usr/include/c++/10/bits/vector.tcc: In member function ‘void BamTools::Internal::BamStandardIndex::CalculateCandidateOffsets(const BamTools::Internal::BaiReferenceSummary&, const uint64_t&, std::set&, std::vector&)’: 2022-06-01T03:48:41,063 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:41,064 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2022-06-01T03:48:41,064 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:41,172 src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:175:1: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:41,172 175 | } 2022-06-01T03:48:41,173 | ^ 2022-06-01T03:48:41,290 In file included from /usr/include/c++/10/algorithm:62, 2022-06-01T03:48:41,291 from src/external/bamtools/src/api/internal/index/BamStandardIndex_p.cpp:21: 2022-06-01T03:48:41,292 /usr/include/c++/10/bits/stl_algo.h: In member function ‘void BamTools::Internal::BamStandardIndex::GetOffset(const BamTools::BamRegion&, int64_t&, bool*)’: 2022-06-01T03:48:41,293 /usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:41,293 1974 | std::__introsort_loop(__first, __last, 2022-06-01T03:48:41,294 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2022-06-01T03:48:41,295 1975 | std::__lg(__last - __first) * 2, 2022-06-01T03:48:41,296 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:41,296 1976 | __comp); 2022-06-01T03:48:41,297 | ~~~~~~~ 2022-06-01T03:48:41,298 /usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:41,299 1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); 2022-06-01T03:48:41,300 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:41,300 /usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:41,301 1891 | std::__insertion_sort(__first, __last, __comp); 2022-06-01T03:48:41,302 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:44,170 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/index/BamToolsIndex_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/index/BamToolsIndex_p.o -g 2022-06-01T03:48:54,091 In file included from /usr/include/c++/10/vector:72, 2022-06-01T03:48:54,091 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:54,092 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:54,092 from src/external/bamtools/src/api/internal/index/BamToolsIndex_p.cpp:10: 2022-06-01T03:48:54,093 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Internal::BtiBlock&}; _Tp = BamTools::Internal::BtiBlock; _Alloc = std::allocator]’: 2022-06-01T03:48:54,093 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:54,094 426 | vector<_Tp, _Alloc>:: 2022-06-01T03:48:54,094 | ^~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:54,286 In file included from /usr/include/c++/10/vector:67, 2022-06-01T03:48:54,287 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:54,287 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:54,288 from src/external/bamtools/src/api/internal/index/BamToolsIndex_p.cpp:10: 2022-06-01T03:48:54,288 /usr/include/c++/10/bits/stl_vector.h: In member function ‘void BamTools::Internal::BamToolsIndex::ReadBlocks(const BamTools::Internal::BtiReferenceSummary&, BamTools::Internal::BtiBlockVector&)’: 2022-06-01T03:48:54,288 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:54,289 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:54,289 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:55,088 In file included from /usr/include/c++/10/vector:72, 2022-06-01T03:48:55,088 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:55,089 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:55,090 from src/external/bamtools/src/api/internal/index/BamToolsIndex_p.cpp:10: 2022-06-01T03:48:55,090 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {BamTools::Internal::BtiReferenceSummary}; _Tp = BamTools::Internal::BtiReferenceSummary; _Alloc = std::allocator]’: 2022-06-01T03:48:55,091 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:48:55,091 426 | vector<_Tp, _Alloc>:: 2022-06-01T03:48:55,091 | ^~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:55,195 /usr/include/c++/10/bits/vector.tcc: In member function ‘void BamTools::Internal::BamToolsIndex::InitializeFileSummary(const int&)’: 2022-06-01T03:48:55,196 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:55,196 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2022-06-01T03:48:55,197 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:48:55,574 In file included from /usr/include/c++/10/vector:67, 2022-06-01T03:48:55,575 from src/external/bamtools/src/api/BamAux.h:18, 2022-06-01T03:48:55,576 from src/external/bamtools/src/api/BamAlignment.h:14, 2022-06-01T03:48:55,576 from src/external/bamtools/src/api/internal/index/BamToolsIndex_p.cpp:10: 2022-06-01T03:48:55,577 /usr/include/c++/10/bits/stl_vector.h: In member function ‘virtual bool BamTools::Internal::BamToolsIndex::Create()’: 2022-06-01T03:48:55,578 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:55,578 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:55,578 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:55,579 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:55,580 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:55,580 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:55,580 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:48:55,581 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:48:55,582 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:48:57,695 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/BamDeviceFactory_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamDeviceFactory_p.o -g 2022-06-01T03:49:00,954 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/BamFile_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamFile_p.o -g 2022-06-01T03:49:05,044 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/BamFtp_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamFtp_p.o -g 2022-06-01T03:49:16,314 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/BamHttp_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamHttp_p.o -g 2022-06-01T03:49:28,094 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/BamPipe_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamPipe_p.o -g 2022-06-01T03:49:32,634 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/BgzfStream_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BgzfStream_p.o -g 2022-06-01T03:49:41,396 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/ByteArray_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/ByteArray_p.o -g 2022-06-01T03:49:45,826 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/HostAddress_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/HostAddress_p.o -g 2022-06-01T03:49:48,637 src/external/bamtools/src/api/internal/io/HostAddress_p.cpp: In member function ‘bool BamTools::Internal::HostAddress::operator<(const BamTools::Internal::HostAddress&) const’: 2022-06-01T03:49:48,638 src/external/bamtools/src/api/internal/io/HostAddress_p.cpp:266:33: warning: self-comparison always evaluates to false [-Wtautological-compare] 2022-06-01T03:49:48,639 266 | return m_ip4Address < m_ip4Address; 2022-06-01T03:49:48,639 | ~~~~~~~~~~~~ ^ ~~~~~~~~~~~~ 2022-06-01T03:49:48,641 src/external/bamtools/src/api/internal/io/HostAddress_p.cpp: In member function ‘void BamTools::Internal::HostAddress::Clear()’: 2022-06-01T03:49:48,641 src/external/bamtools/src/api/internal/io/HostAddress_p.cpp:283:49: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘struct BamTools::Internal::IPv6Address’; use assignment or value-initialization instead [-Wclass-memaccess] 2022-06-01T03:49:48,642 283 | memset(&m_ip6Address, 0, sizeof(IPv6Address)); 2022-06-01T03:49:48,642 | ^ 2022-06-01T03:49:48,643 In file included from src/external/bamtools/src/api/internal/io/HostAddress_p.cpp:10: 2022-06-01T03:49:48,643 src/external/bamtools/src/api/internal/io/HostAddress_p.h:30:8: note: ‘struct BamTools::Internal::IPv6Address’ declared here 2022-06-01T03:49:48,644 30 | struct IPv6Address { 2022-06-01T03:49:48,644 | ^~~~~~~~~~~ 2022-06-01T03:49:48,659 src/external/bamtools/src/api/internal/io/HostAddress_p.cpp: In member function ‘std::string BamTools::Internal::HostAddress::GetIPString() const’: 2022-06-01T03:49:48,660 src/external/bamtools/src/api/internal/io/HostAddress_p.cpp:325:13: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2022-06-01T03:49:48,661 325 | if ( i != 0 ) 2022-06-01T03:49:48,661 | ^~ 2022-06-01T03:49:48,661 src/external/bamtools/src/api/internal/io/HostAddress_p.cpp:327:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2022-06-01T03:49:48,662 327 | ss << hex << ( (uint16_t(m_ip6Address[2*i]) << 8) | 2022-06-01T03:49:48,662 | ^~ 2022-06-01T03:49:52,819 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/HostInfo_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/HostInfo_p.o -g 2022-06-01T03:49:59,167 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/HttpHeader_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/HttpHeader_p.o -g 2022-06-01T03:50:11,422 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/ILocalIODevice_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/ILocalIODevice_p.o -g 2022-06-01T03:50:13,921 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/RollingBuffer_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/RollingBuffer_p.o -g 2022-06-01T03:50:21,105 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/TcpSocketEngine_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/TcpSocketEngine_p.o -g 2022-06-01T03:50:24,546 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/TcpSocketEngine_unix_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/TcpSocketEngine_unix_p.o -g 2022-06-01T03:50:28,856 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/io/TcpSocket_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/TcpSocket_p.o -g 2022-06-01T03:50:35,911 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/sam/SamFormatParser_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/sam/SamFormatParser_p.o -g 2022-06-01T03:50:45,466 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/sam/SamFormatPrinter_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/sam/SamFormatPrinter_p.o -g 2022-06-01T03:50:53,476 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/sam/SamHeaderValidator_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/sam/SamHeaderValidator_p.o -g 2022-06-01T03:51:04,422 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/api/internal/utils/BamException_p.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/utils/BamException_p.o -g 2022-06-01T03:51:06,613 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/utils/bamtools_fasta.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_fasta.o -g 2022-06-01T03:51:16,173 In file included from /usr/include/c++/10/vector:72, 2022-06-01T03:51:16,174 from src/external/bamtools/src/utils/bamtools_fasta.h:15, 2022-06-01T03:51:16,175 from src/external/bamtools/src/utils/bamtools_fasta.cpp:10: 2022-06-01T03:51:16,175 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const BamTools::Fasta::FastaPrivate::FastaIndexData&}; _Tp = BamTools::Fasta::FastaPrivate::FastaIndexData; _Alloc = std::allocator]’: 2022-06-01T03:51:16,176 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:51:16,176 426 | vector<_Tp, _Alloc>:: 2022-06-01T03:51:16,177 | ^~~~~~~~~~~~~~~~~~~ 2022-06-01T03:51:16,177 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-06-01T03:51:16,717 In file included from /usr/include/c++/10/vector:67, 2022-06-01T03:51:16,718 from src/external/bamtools/src/utils/bamtools_fasta.h:15, 2022-06-01T03:51:16,718 from src/external/bamtools/src/utils/bamtools_fasta.cpp:10: 2022-06-01T03:51:16,719 /usr/include/c++/10/bits/stl_vector.h: In member function ‘bool BamTools::Fasta::FastaPrivate::CreateIndex(const string&)’: 2022-06-01T03:51:16,719 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:51:16,720 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:51:16,721 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:51:17,527 /usr/include/c++/10/bits/stl_vector.h: In member function ‘bool BamTools::Fasta::FastaPrivate::LoadIndexData()’: 2022-06-01T03:51:17,528 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-06-01T03:51:17,529 1198 | _M_realloc_insert(end(), __x); 2022-06-01T03:51:17,529 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-06-01T03:51:20,159 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/utils/bamtools_options.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_options.o -g 2022-06-01T03:51:35,134 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/utils/bamtools_pileup_engine.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_pileup_engine.o -g 2022-06-01T03:51:42,084 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 -Isrc -Isrc/external -Isrc/external/bamtools/src -I/tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c src/external/bamtools/src/utils/bamtools_utilities.cpp -o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_utilities.o -g 2022-06-01T03:51:52,498 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/remixt/bamreader.o build/temp.linux-armv7l-cpython-39/src/BamAlleleReader.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamAlignment.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamMultiReader.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamReader.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/BamWriter.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamHeader.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamProgram.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamProgramChain.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamReadGroup.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamReadGroupDictionary.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamSequence.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/SamSequenceDictionary.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamHeader_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamMultiReader_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamRandomAccessController_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamReader_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/bam/BamWriter_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/index/BamIndexFactory_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/index/BamStandardIndex_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/index/BamToolsIndex_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamDeviceFactory_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamFile_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamFtp_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamHttp_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BamPipe_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/BgzfStream_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/ByteArray_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/HostAddress_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/HostInfo_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/HttpHeader_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/ILocalIODevice_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/RollingBuffer_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/TcpSocketEngine_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/TcpSocketEngine_unix_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/io/TcpSocket_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/sam/SamFormatParser_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/sam/SamFormatPrinter_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/sam/SamHeaderValidator_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/api/internal/utils/BamException_p.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_fasta.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_options.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_pileup_engine.o build/temp.linux-armv7l-cpython-39/src/external/bamtools/src/utils/bamtools_utilities.o -L/usr/lib -lz -lbz2 -o build/lib.linux-armv7l-cpython-39/remixt/bamreader.cpython-39-arm-linux-gnueabihf.so -g 2022-06-01T03:51:55,996 building 'remixt.bpmodel' extension 2022-06-01T03:51:55,998 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-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include -I/usr/include/python3.9 -c remixt/bpmodel.cpp -o build/temp.linux-armv7l-cpython-39/remixt/bpmodel.o -g 2022-06-01T03:51:56,707 In file included from /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/ndarraytypes.h:1822, 2022-06-01T03:51:56,707 from /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/ndarrayobject.h:12, 2022-06-01T03:51:56,708 from /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/arrayobject.h:4, 2022-06-01T03:51:56,708 from remixt/bpmodel.cpp:625: 2022-06-01T03:51:56,708 /tmp/pip-wheel-1lbu7z9p/remixt_e7d44f781c084bceb27e92948f845460/.eggs/numpy-1.19.4-py3.9-linux-armv7l.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-06-01T03:51:56,709 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-06-01T03:51:56,709 | ^~~~~~~ 2022-06-01T03:52:05,830 remixt/bpmodel.cpp:4355:33: warning: ‘__pyx_t_5numpy_float64_t __pyx_f_6remixt_7bpmodel__exp_normalize3(__Pyx_memviewslice, __Pyx_memviewslice)’ defined but not used [-Wunused-function] 2022-06-01T03:52:05,830 4355 | static __pyx_t_5numpy_float64_t __pyx_f_6remixt_7bpmodel__exp_normalize3(__Pyx_memviewslice __pyx_v_Y, __Pyx_memviewslice __pyx_v_X) { 2022-06-01T03:52:05,831 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:52:05,832 remixt/bpmodel.cpp:3442:13: warning: ‘void __pyx_f_6remixt_7bpmodel__argmax2(__Pyx_memviewslice, __Pyx_memviewslice)’ defined but not used [-Wunused-function] 2022-06-01T03:52:05,832 3442 | static void __pyx_f_6remixt_7bpmodel__argmax2(__Pyx_memviewslice __pyx_v_values, __Pyx_memviewslice __pyx_v_indices) { 2022-06-01T03:52:05,833 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-06-01T03:53:39,783 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/remixt/bpmodel.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/remixt/bpmodel.cpython-39-arm-linux-gnueabihf.so -g 2022-06-01T03:53:41,343 /usr/local/lib/python3.9/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. 2022-06-01T03:53:41,343 warnings.warn( 2022-06-01T03:53:42,104 installing to build/bdist.linux-armv7l/wheel 2022-06-01T03:53:42,105 running install 2022-06-01T03:53:42,182 running install_lib 2022-06-01T03:53:42,931 creating build/bdist.linux-armv7l 2022-06-01T03:53:42,933 creating build/bdist.linux-armv7l/wheel 2022-06-01T03:53:42,938 creating build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:42,941 creating build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,944 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/stats.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,950 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/experiment.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,956 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/readdepth.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,961 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/readcount.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,966 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/temp.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,970 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/breakpoints.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,975 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/gcbias.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,981 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/segment.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,987 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/haplotype.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:42,994 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/pipeline.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:43,000 copying build/lib.linux-armv7l-cpython-39/remixt/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/analysis 2022-06-01T03:53:43,003 copying build/lib.linux-armv7l-cpython-39/remixt/workflow.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,010 copying build/lib.linux-armv7l-cpython-39/remixt/bpmodel.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,138 creating build/bdist.linux-armv7l/wheel/remixt/mappability 2022-06-01T03:53:43,143 copying build/lib.linux-armv7l-cpython-39/remixt/mappability/tasks.py -> build/bdist.linux-armv7l/wheel/remixt/mappability 2022-06-01T03:53:43,148 copying build/lib.linux-armv7l-cpython-39/remixt/mappability/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/mappability 2022-06-01T03:53:43,153 creating build/bdist.linux-armv7l/wheel/remixt/mappability/bwa 2022-06-01T03:53:43,156 copying build/lib.linux-armv7l-cpython-39/remixt/mappability/bwa/workflow.py -> build/bdist.linux-armv7l/wheel/remixt/mappability/bwa 2022-06-01T03:53:43,161 copying build/lib.linux-armv7l-cpython-39/remixt/mappability/bwa/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/mappability/bwa 2022-06-01T03:53:43,164 copying build/lib.linux-armv7l-cpython-39/remixt/defaults.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,170 copying build/lib.linux-armv7l-cpython-39/remixt/visualize.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,177 copying build/lib.linux-armv7l-cpython-39/remixt/bamreader.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,685 copying build/lib.linux-armv7l-cpython-39/remixt/_version.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,690 creating build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,692 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/workflow.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,696 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/experiment.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,702 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/balanced.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,707 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/simple.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,711 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/seqread.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,716 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/haplotype.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,720 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/pipeline.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,726 copying build/lib.linux-armv7l-cpython-39/remixt/simulations/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/simulations 2022-06-01T03:53:43,732 creating build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,734 copying build/lib.linux-armv7l-cpython-39/remixt/wrappers/wraptheta.py -> build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,742 copying build/lib.linux-armv7l-cpython-39/remixt/wrappers/utils.py -> build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,748 copying build/lib.linux-armv7l-cpython-39/remixt/wrappers/wraptitan.py -> build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,754 copying build/lib.linux-armv7l-cpython-39/remixt/wrappers/wrapremixt.py -> build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,760 copying build/lib.linux-armv7l-cpython-39/remixt/wrappers/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,766 copying build/lib.linux-armv7l-cpython-39/remixt/wrappers/cmdline.py -> build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,771 copying build/lib.linux-armv7l-cpython-39/remixt/wrappers/wrapclonehd.py -> build/bdist.linux-armv7l/wheel/remixt/wrappers 2022-06-01T03:53:43,777 copying build/lib.linux-armv7l-cpython-39/remixt/utils.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,783 copying build/lib.linux-armv7l-cpython-39/remixt/config.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,789 copying build/lib.linux-armv7l-cpython-39/remixt/segalg.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,794 copying build/lib.linux-armv7l-cpython-39/remixt/ref_data.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,800 creating build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,801 copying build/lib.linux-armv7l-cpython-39/remixt/ui/visualize_solutions.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,806 copying build/lib.linux-armv7l-cpython-39/remixt/ui/main.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,810 copying build/lib.linux-armv7l-cpython-39/remixt/ui/write_results.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,815 copying build/lib.linux-armv7l-cpython-39/remixt/ui/mappability_bwa.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,819 copying build/lib.linux-armv7l-cpython-39/remixt/ui/create_ref_data.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,825 copying build/lib.linux-armv7l-cpython-39/remixt/ui/run.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,829 copying build/lib.linux-armv7l-cpython-39/remixt/ui/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,832 copying build/lib.linux-armv7l-cpython-39/remixt/ui/plot_results.py -> build/bdist.linux-armv7l/wheel/remixt/ui 2022-06-01T03:53:43,838 creating build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,840 copying build/lib.linux-armv7l-cpython-39/remixt/tests/test_seqdata.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,845 copying build/lib.linux-armv7l-cpython-39/remixt/tests/test_remixt.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,850 copying build/lib.linux-armv7l-cpython-39/remixt/tests/test_haplotype.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,855 copying build/lib.linux-armv7l-cpython-39/remixt/tests/test_segalg.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,859 copying build/lib.linux-armv7l-cpython-39/remixt/tests/test_model.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,865 copying build/lib.linux-armv7l-cpython-39/remixt/tests/utils.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,870 creating build/bdist.linux-armv7l/wheel/remixt/tests/unopt 2022-06-01T03:53:43,872 copying build/lib.linux-armv7l-cpython-39/remixt/tests/unopt/model.py -> build/bdist.linux-armv7l/wheel/remixt/tests/unopt 2022-06-01T03:53:43,878 copying build/lib.linux-armv7l-cpython-39/remixt/tests/unopt/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/tests/unopt 2022-06-01T03:53:43,881 copying build/lib.linux-armv7l-cpython-39/remixt/tests/test_likelihood.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,888 copying build/lib.linux-armv7l-cpython-39/remixt/tests/__init__.py -> build/bdist.linux-armv7l/wheel/remixt/tests 2022-06-01T03:53:43,891 copying build/lib.linux-armv7l-cpython-39/remixt/__init__.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,896 copying build/lib.linux-armv7l-cpython-39/remixt/likelihood.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,903 copying build/lib.linux-armv7l-cpython-39/remixt/seqdataio.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,908 copying build/lib.linux-armv7l-cpython-39/remixt/cn_model.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,914 copying build/lib.linux-armv7l-cpython-39/remixt/cn_plot.py -> build/bdist.linux-armv7l/wheel/remixt 2022-06-01T03:53:43,919 running install_egg_info 2022-06-01T03:53:45,601 running egg_info 2022-06-01T03:53:46,334 writing remixt.egg-info/PKG-INFO 2022-06-01T03:53:47,049 writing dependency_links to remixt.egg-info/dependency_links.txt 2022-06-01T03:53:49,318 writing entry points to remixt.egg-info/entry_points.txt 2022-06-01T03:53:50,752 writing requirements to remixt.egg-info/requires.txt 2022-06-01T03:53:51,585 writing top-level names to remixt.egg-info/top_level.txt 2022-06-01T03:53:51,640 /usr/local/lib/python3.9/dist-packages/setuptools/command/egg_info.py:633: SetuptoolsDeprecationWarning: Custom 'build_py' does not implement 'get_data_files_without_manifest'. 2022-06-01T03:53:51,641 Please extend command classes from setuptools instead of distutils. 2022-06-01T03:53:51,641 warnings.warn( 2022-06-01T03:53:51,732 reading manifest file 'remixt.egg-info/SOURCES.txt' 2022-06-01T03:53:51,834 reading manifest template 'MANIFEST.in' 2022-06-01T03:53:51,916 writing manifest file 'remixt.egg-info/SOURCES.txt' 2022-06-01T03:53:51,922 Copying remixt.egg-info to build/bdist.linux-armv7l/wheel/remixt-0.5.19-py3.9.egg-info 2022-06-01T03:53:51,949 running install_scripts 2022-06-01T03:53:52,239 creating build/bdist.linux-armv7l/wheel/remixt-0.5.19.dist-info/WHEEL 2022-06-01T03:53:52,244 creating '/tmp/pip-wheel-rlm1zxk_/remixt-0.5.19-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2022-06-01T03:53:52,250 adding 'remixt/__init__.py' 2022-06-01T03:53:52,254 adding 'remixt/_version.py' 2022-06-01T03:53:57,491 adding 'remixt/bamreader.cpython-39-arm-linux-gnueabihf.so' 2022-06-01T03:53:58,879 adding 'remixt/bpmodel.cpython-39-arm-linux-gnueabihf.so' 2022-06-01T03:53:58,935 adding 'remixt/cn_model.py' 2022-06-01T03:53:58,944 adding 'remixt/cn_plot.py' 2022-06-01T03:53:58,948 adding 'remixt/config.py' 2022-06-01T03:53:58,953 adding 'remixt/defaults.py' 2022-06-01T03:53:58,964 adding 'remixt/likelihood.py' 2022-06-01T03:53:58,969 adding 'remixt/ref_data.py' 2022-06-01T03:53:58,975 adding 'remixt/segalg.py' 2022-06-01T03:53:58,981 adding 'remixt/seqdataio.py' 2022-06-01T03:53:58,986 adding 'remixt/utils.py' 2022-06-01T03:53:58,994 adding 'remixt/visualize.py' 2022-06-01T03:53:59,000 adding 'remixt/workflow.py' 2022-06-01T03:53:59,005 adding 'remixt/analysis/__init__.py' 2022-06-01T03:53:59,008 adding 'remixt/analysis/breakpoints.py' 2022-06-01T03:53:59,015 adding 'remixt/analysis/experiment.py' 2022-06-01T03:53:59,021 adding 'remixt/analysis/gcbias.py' 2022-06-01T03:53:59,032 adding 'remixt/analysis/haplotype.py' 2022-06-01T03:53:59,038 adding 'remixt/analysis/pipeline.py' 2022-06-01T03:53:59,041 adding 'remixt/analysis/readcount.py' 2022-06-01T03:53:59,045 adding 'remixt/analysis/readdepth.py' 2022-06-01T03:53:59,049 adding 'remixt/analysis/segment.py' 2022-06-01T03:53:59,053 adding 'remixt/analysis/stats.py' 2022-06-01T03:53:59,056 adding 'remixt/analysis/temp.py' 2022-06-01T03:53:59,060 adding 'remixt/mappability/__init__.py' 2022-06-01T03:53:59,064 adding 'remixt/mappability/tasks.py' 2022-06-01T03:53:59,068 adding 'remixt/mappability/bwa/__init__.py' 2022-06-01T03:53:59,072 adding 'remixt/mappability/bwa/workflow.py' 2022-06-01T03:53:59,076 adding 'remixt/simulations/__init__.py' 2022-06-01T03:53:59,079 adding 'remixt/simulations/balanced.py' 2022-06-01T03:53:59,092 adding 'remixt/simulations/experiment.py' 2022-06-01T03:53:59,097 adding 'remixt/simulations/haplotype.py' 2022-06-01T03:53:59,106 adding 'remixt/simulations/pipeline.py' 2022-06-01T03:53:59,113 adding 'remixt/simulations/seqread.py' 2022-06-01T03:53:59,117 adding 'remixt/simulations/simple.py' 2022-06-01T03:53:59,121 adding 'remixt/simulations/workflow.py' 2022-06-01T03:53:59,126 adding 'remixt/tests/__init__.py' 2022-06-01T03:53:59,129 adding 'remixt/tests/test_haplotype.py' 2022-06-01T03:53:59,134 adding 'remixt/tests/test_likelihood.py' 2022-06-01T03:53:59,140 adding 'remixt/tests/test_model.py' 2022-06-01T03:53:59,147 adding 'remixt/tests/test_remixt.py' 2022-06-01T03:53:59,151 adding 'remixt/tests/test_segalg.py' 2022-06-01T03:53:59,154 adding 'remixt/tests/test_seqdata.py' 2022-06-01T03:53:59,158 adding 'remixt/tests/utils.py' 2022-06-01T03:53:59,163 adding 'remixt/tests/unopt/__init__.py' 2022-06-01T03:53:59,167 adding 'remixt/tests/unopt/model.py' 2022-06-01T03:53:59,172 adding 'remixt/ui/__init__.py' 2022-06-01T03:53:59,175 adding 'remixt/ui/create_ref_data.py' 2022-06-01T03:53:59,178 adding 'remixt/ui/main.py' 2022-06-01T03:53:59,182 adding 'remixt/ui/mappability_bwa.py' 2022-06-01T03:53:59,185 adding 'remixt/ui/plot_results.py' 2022-06-01T03:53:59,189 adding 'remixt/ui/run.py' 2022-06-01T03:53:59,192 adding 'remixt/ui/visualize_solutions.py' 2022-06-01T03:53:59,196 adding 'remixt/ui/write_results.py' 2022-06-01T03:53:59,201 adding 'remixt/wrappers/__init__.py' 2022-06-01T03:53:59,204 adding 'remixt/wrappers/cmdline.py' 2022-06-01T03:53:59,208 adding 'remixt/wrappers/utils.py' 2022-06-01T03:53:59,214 adding 'remixt/wrappers/wrapclonehd.py' 2022-06-01T03:53:59,218 adding 'remixt/wrappers/wrapremixt.py' 2022-06-01T03:53:59,223 adding 'remixt/wrappers/wraptheta.py' 2022-06-01T03:53:59,229 adding 'remixt/wrappers/wraptitan.py' 2022-06-01T03:53:59,235 adding 'remixt-0.5.19.dist-info/METADATA' 2022-06-01T03:53:59,238 adding 'remixt-0.5.19.dist-info/WHEEL' 2022-06-01T03:53:59,240 adding 'remixt-0.5.19.dist-info/entry_points.txt' 2022-06-01T03:53:59,243 adding 'remixt-0.5.19.dist-info/top_level.txt' 2022-06-01T03:53:59,247 adding 'remixt-0.5.19.dist-info/RECORD' 2022-06-01T03:53:59,430 removing build/bdist.linux-armv7l/wheel 2022-06-01T03:53:59,861 Building wheel for remixt (setup.py): finished with status 'done' 2022-06-01T03:54:00,020 Created wheel for remixt: filename=remixt-0.5.19-cp39-cp39-linux_armv7l.whl size=4655859 sha256=7b1d713b99df96c4e5b2a400fc6ed03613f5f2315322ec2d7194b5f051ceba09 2022-06-01T03:54:00,023 Stored in directory: /tmp/pip-ephem-wheel-cache-rcz8w9gx/wheels/6c/56/8b/b107cb25b3f7c792d0bafd305766bf9ac33305312125d7d652 2022-06-01T03:54:00,061 Successfully built remixt 2022-06-01T03:54:00,407 Removed build tracker: '/tmp/pip-build-tracker-rt4ombbh'