2024-03-14T22:00:20,323 Created temporary directory: /tmp/pip-build-tracker-3kr3_lbo
2024-03-14T22:00:20,325 Initialized build tracking at /tmp/pip-build-tracker-3kr3_lbo
2024-03-14T22:00:20,326 Created build tracker: /tmp/pip-build-tracker-3kr3_lbo
2024-03-14T22:00:20,326 Entered build tracker: /tmp/pip-build-tracker-3kr3_lbo
2024-03-14T22:00:20,327 Created temporary directory: /tmp/pip-wheel-fs7ki1hv
2024-03-14T22:00:20,330 Created temporary directory: /tmp/pip-ephem-wheel-cache-80mbdhk3
2024-03-14T22:00:20,353 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2024-03-14T22:00:20,357 2 location(s) to search for versions of scbamtools:
2024-03-14T22:00:20,357 * https://pypi.org/simple/scbamtools/
2024-03-14T22:00:20,357 * https://www.piwheels.org/simple/scbamtools/
2024-03-14T22:00:20,357 Fetching project page and analyzing links: https://pypi.org/simple/scbamtools/
2024-03-14T22:00:20,358 Getting page https://pypi.org/simple/scbamtools/
2024-03-14T22:00:20,360 Found index url https://pypi.org/simple/
2024-03-14T22:00:20,581 Fetched page https://pypi.org/simple/scbamtools/ as application/vnd.pypi.simple.v1+json
2024-03-14T22:00:20,583   Found link https://files.pythonhosted.org/packages/90/98/a7355f2097b73330b58718e0c6e83ee7b93bee0d6a00a010db3eaea2fbd5/scbamtools-0.1.tar.gz (from https://pypi.org/simple/scbamtools/) (requires-python:>=3.10), version: 0.1
2024-03-14T22:00:20,585   Found link https://files.pythonhosted.org/packages/24/fa/fd646836da42c49f38967ac48eaf7b6e360da3f50b94a305ef06f093a6ba/scbamtools-0.2.tar.gz (from https://pypi.org/simple/scbamtools/) (requires-python:>=3.10), version: 0.2
2024-03-14T22:00:20,586   Found link https://files.pythonhosted.org/packages/60/fe/4740173cbc7a3bc2c6b041d19db568741f4e5339a3bb12951bb652467fd1/scbamtools-0.5.tar.gz (from https://pypi.org/simple/scbamtools/) (requires-python:>=3.8), version: 0.5
2024-03-14T22:00:20,587 Fetching project page and analyzing links: https://www.piwheels.org/simple/scbamtools/
2024-03-14T22:00:20,588 Getting page https://www.piwheels.org/simple/scbamtools/
2024-03-14T22:00:20,589 Found index url https://www.piwheels.org/simple/
2024-03-14T22:00:22,215 Fetched page https://www.piwheels.org/simple/scbamtools/ as text/html
2024-03-14T22:00:22,218 Skipping link: not a file: https://www.piwheels.org/simple/scbamtools/
2024-03-14T22:00:22,219 Skipping link: not a file: https://pypi.org/simple/scbamtools/
2024-03-14T22:00:22,260 Given no hashes to check 1 links for project 'scbamtools': discarding no candidates
2024-03-14T22:00:22,289 Collecting scbamtools==0.5
2024-03-14T22:00:22,293   Created temporary directory: /tmp/pip-unpack-cd5jm7ho
2024-03-14T22:00:22,547   Downloading scbamtools-0.5.tar.gz (374 kB)
2024-03-14T22:00:22,877   Added scbamtools==0.5 from https://files.pythonhosted.org/packages/60/fe/4740173cbc7a3bc2c6b041d19db568741f4e5339a3bb12951bb652467fd1/scbamtools-0.5.tar.gz to build tracker '/tmp/pip-build-tracker-3kr3_lbo'
2024-03-14T22:00:22,884   Created temporary directory: /tmp/pip-build-env-l9ya65zx
2024-03-14T22:00:22,888   Installing build dependencies: started
2024-03-14T22:00:22,890   Running command pip subprocess to install build dependencies
2024-03-14T22:00:24,088   Using pip 24.0 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11)
2024-03-14T22:00:24,627   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2024-03-14T22:00:27,066   Collecting setuptools>=65.5.1
2024-03-14T22:00:28,071     Using cached https://www.piwheels.org/simple/setuptools/setuptools-69.2.0-py3-none-any.whl (821 kB)
2024-03-14T22:00:30,962   Collecting wheel
2024-03-14T22:00:30,977     Using cached https://www.piwheels.org/simple/wheel/wheel-0.43.0-py3-none-any.whl (65 kB)
2024-03-14T22:00:33,380   Collecting cython>=3.0.8
2024-03-14T22:00:33,449     WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProtocolError('Connection aborted.', RemoteDisconnected('Remote end closed connection without response'))': /simple/cython/Cython-3.0.9-cp311-cp311-linux_armv7l.whl
2024-03-14T22:00:33,702     Using cached https://www.piwheels.org/simple/cython/Cython-3.0.9-cp311-cp311-linux_armv7l.whl (11.7 MB)
2024-03-14T22:00:34,788     Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/3a/be/650f9c091ef71cb01d735775d554e068752d3ff63d7943b26316dc401749/numpy-1.21.2.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11)
2024-03-14T22:00:34,792     Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/5f/d6/ad58ded26556eaeaa8c971e08b6466f17c4ac4d786cd3d800e26ce59cc01/numpy-1.21.3.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11)
2024-03-14T22:00:34,795     Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/fb/48/b0708ebd7718a8933f0d3937513ef8ef2f4f04529f1f66ca86d873043921/numpy-1.21.4.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11)
2024-03-14T22:00:34,798     Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/c2/a8/a924a09492bdfee8c2ec3094d0a13f2799800b4fdc9c890738aeeb12c72e/numpy-1.21.5.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11)
2024-03-14T22:00:34,801     Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/45/b7/de7b8e67f2232c26af57c205aaad29fe17754f793404f59c8a730c7a191a/numpy-1.21.6.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11)
2024-03-14T22:00:36,342   Collecting numpy
2024-03-14T22:00:36,359     Using cached https://www.piwheels.org/simple/numpy/numpy-1.26.4-cp311-cp311-linux_armv7l.whl (5.6 MB)
2024-03-14T22:00:39,299   Installing collected packages: wheel, setuptools, numpy, cython
2024-03-14T22:00:39,553     Creating /tmp/pip-build-env-l9ya65zx/overlay/local/bin
2024-03-14T22:00:39,556     changing mode of /tmp/pip-build-env-l9ya65zx/overlay/local/bin/wheel to 755
2024-03-14T22:00:52,574     changing mode of /tmp/pip-build-env-l9ya65zx/overlay/local/bin/f2py to 755
2024-03-14T22:00:56,766     changing mode of /tmp/pip-build-env-l9ya65zx/overlay/local/bin/cygdb to 755
2024-03-14T22:00:56,768     changing mode of /tmp/pip-build-env-l9ya65zx/overlay/local/bin/cython to 755
2024-03-14T22:00:56,771     changing mode of /tmp/pip-build-env-l9ya65zx/overlay/local/bin/cythonize to 755
2024-03-14T22:00:56,806   Successfully installed cython-3.0.9 numpy-1.26.4 setuptools-69.2.0 wheel-0.43.0
2024-03-14T22:00:57,560   Installing build dependencies: finished with status 'done'
2024-03-14T22:00:57,564   Getting requirements to build wheel: started
2024-03-14T22:00:57,565   Running command Getting requirements to build wheel
2024-03-14T22:01:01,200   warning: scbamtools/cython/bctree.pyx:155:15: Assigning to 'bc_info_t *' from 'const bc_info_t *' discards const qualifier
2024-03-14T22:01:05,210   Compiling scbamtools/cython/kmers.pyx because it depends on /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd.
2024-03-14T22:01:05,211   Compiling scbamtools/cython/bctree.pyx because it depends on /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd.
2024-03-14T22:01:05,211   [1/2] Cythonizing scbamtools/cython/bctree.pyx
2024-03-14T22:01:05,212   [2/2] Cythonizing scbamtools/cython/kmers.pyx
2024-03-14T22:01:05,375   /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:83: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies)
2024-03-14T22:01:05,376     corresp(dist, value, root_dir)
2024-03-14T22:01:05,641   running egg_info
2024-03-14T22:01:05,646   writing scbamtools.egg-info/PKG-INFO
2024-03-14T22:01:05,650   writing dependency_links to scbamtools.egg-info/dependency_links.txt
2024-03-14T22:01:05,652   writing requirements to scbamtools.egg-info/requires.txt
2024-03-14T22:01:05,654   writing top-level names to scbamtools.egg-info/top_level.txt
2024-03-14T22:01:05,678   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,679   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,679   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,680   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,680   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,681   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,681   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,682   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,682   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,683   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:05,687   reading manifest file 'scbamtools.egg-info/SOURCES.txt'
2024-03-14T22:01:05,690   reading manifest template 'MANIFEST.in'
2024-03-14T22:01:05,693   adding license file 'LICENSE'
2024-03-14T22:01:05,696   writing manifest file 'scbamtools.egg-info/SOURCES.txt'
2024-03-14T22:01:06,352   Getting requirements to build wheel: finished with status 'done'
2024-03-14T22:01:06,365   Created temporary directory: /tmp/pip-modern-metadata-t8ddp_9k
2024-03-14T22:01:06,367   Preparing metadata (pyproject.toml): started
2024-03-14T22:01:06,368   Running command Preparing metadata (pyproject.toml)
2024-03-14T22:01:08,008   /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:83: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies)
2024-03-14T22:01:08,008     corresp(dist, value, root_dir)
2024-03-14T22:01:08,242   running dist_info
2024-03-14T22:01:08,252   creating /tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info
2024-03-14T22:01:08,257   writing /tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info/PKG-INFO
2024-03-14T22:01:08,261   writing dependency_links to /tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info/dependency_links.txt
2024-03-14T22:01:08,264   writing requirements to /tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info/requires.txt
2024-03-14T22:01:08,265   writing top-level names to /tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info/top_level.txt
2024-03-14T22:01:08,266   writing manifest file '/tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info/SOURCES.txt'
2024-03-14T22:01:08,285   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,286   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,287   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,288   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,288   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,289   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,289   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,290   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,290   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,291   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:08,292   reading manifest file '/tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info/SOURCES.txt'
2024-03-14T22:01:08,295   reading manifest template 'MANIFEST.in'
2024-03-14T22:01:08,297   adding license file 'LICENSE'
2024-03-14T22:01:08,300   writing manifest file '/tmp/pip-modern-metadata-t8ddp_9k/scbamtools.egg-info/SOURCES.txt'
2024-03-14T22:01:08,301   creating '/tmp/pip-modern-metadata-t8ddp_9k/scbamtools-0.5.dist-info'
2024-03-14T22:01:08,534   Preparing metadata (pyproject.toml): finished with status 'done'
2024-03-14T22:01:08,539   Source in /tmp/pip-wheel-fs7ki1hv/scbamtools_46b717ffc415440886546f8b5fa6eb77 has version 0.5, which satisfies requirement scbamtools==0.5 from https://files.pythonhosted.org/packages/60/fe/4740173cbc7a3bc2c6b041d19db568741f4e5339a3bb12951bb652467fd1/scbamtools-0.5.tar.gz
2024-03-14T22:01:08,541   Removed scbamtools==0.5 from https://files.pythonhosted.org/packages/60/fe/4740173cbc7a3bc2c6b041d19db568741f4e5339a3bb12951bb652467fd1/scbamtools-0.5.tar.gz from build tracker '/tmp/pip-build-tracker-3kr3_lbo'
2024-03-14T22:01:08,547 Created temporary directory: /tmp/pip-unpack-w29rnpgu
2024-03-14T22:01:08,548 Created temporary directory: /tmp/pip-unpack-y8c9gu0l
2024-03-14T22:01:08,553 Building wheels for collected packages: scbamtools
2024-03-14T22:01:08,558   Created temporary directory: /tmp/pip-wheel-9p4kkzk_
2024-03-14T22:01:08,558   Destination directory: /tmp/pip-wheel-9p4kkzk_
2024-03-14T22:01:08,560   Building wheel for scbamtools (pyproject.toml): started
2024-03-14T22:01:08,562   Running command Building wheel for scbamtools (pyproject.toml)
2024-03-14T22:01:10,099   /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:83: SetuptoolsWarning: `install_requires` overwritten in `pyproject.toml` (dependencies)
2024-03-14T22:01:10,100     corresp(dist, value, root_dir)
2024-03-14T22:01:10,320   running bdist_wheel
2024-03-14T22:01:10,344   running build
2024-03-14T22:01:10,345   running build_py
2024-03-14T22:01:10,350   creating build
2024-03-14T22:01:10,351   creating build/lib.linux-armv7l-cpython-311
2024-03-14T22:01:10,352   creating build/lib.linux-armv7l-cpython-311/scbamtools
2024-03-14T22:01:10,354   copying scbamtools/annotation.py -> build/lib.linux-armv7l-cpython-311/scbamtools
2024-03-14T22:01:10,357   copying scbamtools/util.py -> build/lib.linux-armv7l-cpython-311/scbamtools
2024-03-14T22:01:10,359   copying scbamtools/contrib.py -> build/lib.linux-armv7l-cpython-311/scbamtools
2024-03-14T22:01:10,360   copying scbamtools/quant.py -> build/lib.linux-armv7l-cpython-311/scbamtools
2024-03-14T22:01:10,363   copying scbamtools/bctree.py -> build/lib.linux-armv7l-cpython-311/scbamtools
2024-03-14T22:01:10,366   creating build/lib.linux-armv7l-cpython-311/scbamtools/bin
2024-03-14T22:01:10,366   copying scbamtools/bin/ann.py -> build/lib.linux-armv7l-cpython-311/scbamtools/bin
2024-03-14T22:01:10,369   copying scbamtools/bin/BamTagHistogram.py -> build/lib.linux-armv7l-cpython-311/scbamtools/bin
2024-03-14T22:01:10,371   copying scbamtools/bin/count.py -> build/lib.linux-armv7l-cpython-311/scbamtools/bin
2024-03-14T22:01:10,374   copying scbamtools/bin/trim.py -> build/lib.linux-armv7l-cpython-311/scbamtools/bin
2024-03-14T22:01:10,376   copying scbamtools/bin/uBAM.py -> build/lib.linux-armv7l-cpython-311/scbamtools/bin
2024-03-14T22:01:10,380   creating build/lib.linux-armv7l-cpython-311/scbamtools/config
2024-03-14T22:01:10,381   copying scbamtools/config/__init__.py -> build/lib.linux-armv7l-cpython-311/scbamtools/config
2024-03-14T22:01:10,382   running egg_info
2024-03-14T22:01:10,387   writing scbamtools.egg-info/PKG-INFO
2024-03-14T22:01:10,390   writing dependency_links to scbamtools.egg-info/dependency_links.txt
2024-03-14T22:01:10,391   writing requirements to scbamtools.egg-info/requires.txt
2024-03-14T22:01:10,393   writing top-level names to scbamtools.egg-info/top_level.txt
2024-03-14T22:01:10,401   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,401   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,402   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,402   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,403   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,403   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,404   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,405   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,406   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,406   dependency /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
2024-03-14T22:01:10,407   reading manifest file 'scbamtools.egg-info/SOURCES.txt'
2024-03-14T22:01:10,410   reading manifest template 'MANIFEST.in'
2024-03-14T22:01:10,413   adding license file 'LICENSE'
2024-03-14T22:01:10,416   writing manifest file 'scbamtools.egg-info/SOURCES.txt'
2024-03-14T22:01:10,422   creating build/lib.linux-armv7l-cpython-311/scbamtools/cython
2024-03-14T22:01:10,423   copying scbamtools/cython/bctree.c -> build/lib.linux-armv7l-cpython-311/scbamtools/cython
2024-03-14T22:01:10,543   copying scbamtools/cython/bctree.pyx -> build/lib.linux-armv7l-cpython-311/scbamtools/cython
2024-03-14T22:01:10,547   copying scbamtools/cython/kmers.c -> build/lib.linux-armv7l-cpython-311/scbamtools/cython
2024-03-14T22:01:10,595   copying scbamtools/cython/kmers.pyx -> build/lib.linux-armv7l-cpython-311/scbamtools/cython
2024-03-14T22:01:10,597   copying scbamtools/cython/types.pxd -> build/lib.linux-armv7l-cpython-311/scbamtools/cython
2024-03-14T22:01:10,599   copying scbamtools/config/default.yaml -> build/lib.linux-armv7l-cpython-311/scbamtools/config
2024-03-14T22:01:10,603   running build_ext
2024-03-14T22:01:10,609   building 'scbamtools.cython.kmers' extension
2024-03-14T22:01:10,610   creating build/temp.linux-armv7l-cpython-311
2024-03-14T22:01:10,611   creating build/temp.linux-armv7l-cpython-311/scbamtools
2024-03-14T22:01:10,611   creating build/temp.linux-armv7l-cpython-311/scbamtools/cython
2024-03-14T22:01:10,612   arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c scbamtools/cython/kmers.c -o build/temp.linux-armv7l-cpython-311/scbamtools/cython/kmers.o
2024-03-14T22:01:11,041   In file included from /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929,
2024-03-14T22:01:11,042                    from /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
2024-03-14T22:01:11,043                    from /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5,
2024-03-14T22:01:11,043                    from scbamtools/cython/kmers.c:1219:
2024-03-14T22:01:11,044   /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/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]
2024-03-14T22:01:11,044      17 | #warning "Using deprecated NumPy API, disable it with " \
2024-03-14T22:01:11,045         |  ^~~~~~~
2024-03-14T22:01:12,275   scbamtools/cython/kmers.c: In function ‘__Pyx_PyInt_AndObjC’:
2024-03-14T22:01:12,300   scbamtools/cython/kmers.c:28223:36: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare]
2024-03-14T22:01:12,301   28223 |         if ((intval & PyLong_MASK) == intval) {
2024-03-14T22:01:12,302         |                                    ^~
2024-03-14T22:01:12,326   scbamtools/cython/kmers.c:28225:71: warning: operand of ‘?:’ changes signedness from ‘long int’ to ‘long unsigned int’ due to unsignedness of other operand [-Wsign-compare]
2024-03-14T22:01:12,327   28225 |             long result = intval & (likely(__Pyx_PyLong_IsPos(op1)) ? last_digit : (PyLong_MASK - last_digit + 1));
2024-03-14T22:01:12,328         |                                                                       ^~~~~~~~~~
2024-03-14T22:01:39,217   arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/scbamtools/cython/kmers.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/scbamtools/cython/kmers.cpython-311-arm-linux-gnueabihf.so
2024-03-14T22:01:39,383   building 'scbamtools.cython.bctree' extension
2024-03-14T22:01:39,384   arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c scbamtools/cython/bctree.c -o build/temp.linux-armv7l-cpython-311/scbamtools/cython/bctree.o
2024-03-14T22:01:39,789   In file included from /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1929,
2024-03-14T22:01:39,790                    from /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
2024-03-14T22:01:39,790                    from /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5,
2024-03-14T22:01:39,791                    from scbamtools/cython/bctree.c:1219:
2024-03-14T22:01:39,791   /tmp/pip-build-env-l9ya65zx/overlay/local/lib/python3.11/dist-packages/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]
2024-03-14T22:01:39,792      17 | #warning "Using deprecated NumPy API, disable it with " \
2024-03-14T22:01:39,792         |  ^~~~~~~
2024-03-14T22:01:40,233   scbamtools/cython/bctree.c: In function ‘__pyx_f_10scbamtools_6cython_6bctree_check_contains’:
2024-03-14T22:01:40,251   scbamtools/cython/bctree.c:21777:18: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers]
2024-03-14T22:01:40,253   21777 |     __pyx_v_node = (&(*((struct __pyx_t_10scbamtools_6cython_6bctree_bc_info_t const  *) ( /* dim=0 */ (__pyx_v_buf.data + __pyx_t_2 * __pyx_v_buf.strides[0]) ))));
2024-03-14T22:01:40,253         |                  ^
2024-03-14T22:01:41,037   scbamtools/cython/bctree.c: In function ‘__Pyx_PyInt_AndObjC’:
2024-03-14T22:01:41,062   scbamtools/cython/bctree.c:28231:36: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare]
2024-03-14T22:01:41,063   28231 |         if ((intval & PyLong_MASK) == intval) {
2024-03-14T22:01:41,063         |                                    ^~
2024-03-14T22:01:41,087   scbamtools/cython/bctree.c:28233:71: warning: operand of ‘?:’ changes signedness from ‘long int’ to ‘long unsigned int’ due to unsignedness of other operand [-Wsign-compare]
2024-03-14T22:01:41,088   28233 |             long result = intval & (likely(__Pyx_PyLong_IsPos(op1)) ? last_digit : (PyLong_MASK - last_digit + 1));
2024-03-14T22:01:41,088         |                                                                       ^~~~~~~~~~
2024-03-14T22:02:07,894   arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/scbamtools/cython/bctree.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/scbamtools/cython/bctree.cpython-311-arm-linux-gnueabihf.so
2024-03-14T22:02:08,048   installing to build/bdist.linux-armv7l/wheel
2024-03-14T22:02:08,049   running install
2024-03-14T22:02:08,072   running install_lib
2024-03-14T22:02:08,078   creating build/bdist.linux-armv7l
2024-03-14T22:02:08,078   creating build/bdist.linux-armv7l/wheel
2024-03-14T22:02:08,080   creating build/bdist.linux-armv7l/wheel/scbamtools
2024-03-14T22:02:08,081   copying build/lib.linux-armv7l-cpython-311/scbamtools/annotation.py -> build/bdist.linux-armv7l/wheel/scbamtools
2024-03-14T22:02:08,085   copying build/lib.linux-armv7l-cpython-311/scbamtools/util.py -> build/bdist.linux-armv7l/wheel/scbamtools
2024-03-14T22:02:08,087   creating build/bdist.linux-armv7l/wheel/scbamtools/bin
2024-03-14T22:02:08,088   copying build/lib.linux-armv7l-cpython-311/scbamtools/bin/ann.py -> build/bdist.linux-armv7l/wheel/scbamtools/bin
2024-03-14T22:02:08,091   copying build/lib.linux-armv7l-cpython-311/scbamtools/bin/BamTagHistogram.py -> build/bdist.linux-armv7l/wheel/scbamtools/bin
2024-03-14T22:02:08,094   copying build/lib.linux-armv7l-cpython-311/scbamtools/bin/count.py -> build/bdist.linux-armv7l/wheel/scbamtools/bin
2024-03-14T22:02:08,097   copying build/lib.linux-armv7l-cpython-311/scbamtools/bin/trim.py -> build/bdist.linux-armv7l/wheel/scbamtools/bin
2024-03-14T22:02:08,099   copying build/lib.linux-armv7l-cpython-311/scbamtools/bin/uBAM.py -> build/bdist.linux-armv7l/wheel/scbamtools/bin
2024-03-14T22:02:08,102   creating build/bdist.linux-armv7l/wheel/scbamtools/config
2024-03-14T22:02:08,103   copying build/lib.linux-armv7l-cpython-311/scbamtools/config/__init__.py -> build/bdist.linux-armv7l/wheel/scbamtools/config
2024-03-14T22:02:08,106   copying build/lib.linux-armv7l-cpython-311/scbamtools/config/default.yaml -> build/bdist.linux-armv7l/wheel/scbamtools/config
2024-03-14T22:02:08,107   copying build/lib.linux-armv7l-cpython-311/scbamtools/contrib.py -> build/bdist.linux-armv7l/wheel/scbamtools
2024-03-14T22:02:08,109   copying build/lib.linux-armv7l-cpython-311/scbamtools/quant.py -> build/bdist.linux-armv7l/wheel/scbamtools
2024-03-14T22:02:08,112   copying build/lib.linux-armv7l-cpython-311/scbamtools/bctree.py -> build/bdist.linux-armv7l/wheel/scbamtools
2024-03-14T22:02:08,115   creating build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,116   copying build/lib.linux-armv7l-cpython-311/scbamtools/cython/kmers.pyx -> build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,118   copying build/lib.linux-armv7l-cpython-311/scbamtools/cython/kmers.c -> build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,152   copying build/lib.linux-armv7l-cpython-311/scbamtools/cython/kmers.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,185   copying build/lib.linux-armv7l-cpython-311/scbamtools/cython/bctree.pyx -> build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,187   copying build/lib.linux-armv7l-cpython-311/scbamtools/cython/types.pxd -> build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,189   copying build/lib.linux-armv7l-cpython-311/scbamtools/cython/bctree.c -> build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,433   copying build/lib.linux-armv7l-cpython-311/scbamtools/cython/bctree.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/scbamtools/cython
2024-03-14T22:02:08,462   running install_egg_info
2024-03-14T22:02:08,468   Copying scbamtools.egg-info to build/bdist.linux-armv7l/wheel/scbamtools-0.5-py3.11.egg-info
2024-03-14T22:02:08,483   running install_scripts
2024-03-14T22:02:08,535   creating build/bdist.linux-armv7l/wheel/scbamtools-0.5.dist-info/WHEEL
2024-03-14T22:02:08,539   creating '/tmp/pip-wheel-9p4kkzk_/.tmp-_1qqceru/scbamtools-0.5-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2024-03-14T22:02:08,544   adding 'scbamtools/annotation.py'
2024-03-14T22:02:08,546   adding 'scbamtools/bctree.py'
2024-03-14T22:02:08,547   adding 'scbamtools/contrib.py'
2024-03-14T22:02:08,551   adding 'scbamtools/quant.py'
2024-03-14T22:02:08,552   adding 'scbamtools/util.py'
2024-03-14T22:02:08,555   adding 'scbamtools/bin/BamTagHistogram.py'
2024-03-14T22:02:08,558   adding 'scbamtools/bin/ann.py'
2024-03-14T22:02:08,560   adding 'scbamtools/bin/count.py'
2024-03-14T22:02:08,563   adding 'scbamtools/bin/trim.py'
2024-03-14T22:02:08,565   adding 'scbamtools/bin/uBAM.py'
2024-03-14T22:02:08,567   adding 'scbamtools/config/__init__.py'
2024-03-14T22:02:08,569   adding 'scbamtools/config/default.yaml'
2024-03-14T22:02:08,670   adding 'scbamtools/cython/bctree.c'
2024-03-14T22:02:08,948   adding 'scbamtools/cython/bctree.cpython-311-arm-linux-gnueabihf.so'
2024-03-14T22:02:08,956   adding 'scbamtools/cython/bctree.pyx'
2024-03-14T22:02:09,056   adding 'scbamtools/cython/kmers.c'
2024-03-14T22:02:09,293   adding 'scbamtools/cython/kmers.cpython-311-arm-linux-gnueabihf.so'
2024-03-14T22:02:09,301   adding 'scbamtools/cython/kmers.pyx'
2024-03-14T22:02:09,303   adding 'scbamtools/cython/types.pxd'
2024-03-14T22:02:09,306   adding 'scbamtools-0.5.dist-info/LICENSE'
2024-03-14T22:02:09,307   adding 'scbamtools-0.5.dist-info/METADATA'
2024-03-14T22:02:09,308   adding 'scbamtools-0.5.dist-info/WHEEL'
2024-03-14T22:02:09,310   adding 'scbamtools-0.5.dist-info/top_level.txt'
2024-03-14T22:02:09,311   adding 'scbamtools-0.5.dist-info/RECORD'
2024-03-14T22:02:09,376   removing build/bdist.linux-armv7l/wheel
2024-03-14T22:02:09,579   Building wheel for scbamtools (pyproject.toml): finished with status 'done'
2024-03-14T22:02:09,620   Created wheel for scbamtools: filename=scbamtools-0.5-cp311-cp311-linux_armv7l.whl size=1260294 sha256=9eeb10371047b47673bf1fa28614f1f47c0b6089fd1cf486ed8be089efd51140
2024-03-14T22:02:09,621   Stored in directory: /tmp/pip-ephem-wheel-cache-80mbdhk3/wheels/b2/c5/1d/91a2c475a84abfb0cce2bade5ac7f0f09acf9ed0d247d6c197
2024-03-14T22:02:09,632 Successfully built scbamtools
2024-03-14T22:02:09,682 Removed build tracker: '/tmp/pip-build-tracker-3kr3_lbo'