2023-10-20T15:28:51,104 Created temporary directory: /tmp/pip-build-tracker-h345o32n 2023-10-20T15:28:51,106 Initialized build tracking at /tmp/pip-build-tracker-h345o32n 2023-10-20T15:28:51,106 Created build tracker: /tmp/pip-build-tracker-h345o32n 2023-10-20T15:28:51,106 Entered build tracker: /tmp/pip-build-tracker-h345o32n 2023-10-20T15:28:51,107 Created temporary directory: /tmp/pip-wheel-qcrn63xy 2023-10-20T15:28:51,111 Created temporary directory: /tmp/pip-ephem-wheel-cache-nrpme7b4 2023-10-20T15:28:51,136 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-10-20T15:28:51,139 2 location(s) to search for versions of pybiotk: 2023-10-20T15:28:51,139 * https://pypi.org/simple/pybiotk/ 2023-10-20T15:28:51,139 * https://www.piwheels.org/simple/pybiotk/ 2023-10-20T15:28:51,140 Fetching project page and analyzing links: https://pypi.org/simple/pybiotk/ 2023-10-20T15:28:51,140 Getting page https://pypi.org/simple/pybiotk/ 2023-10-20T15:28:51,142 Found index url https://pypi.org/simple/ 2023-10-20T15:28:51,192 Fetched page https://pypi.org/simple/pybiotk/ as application/vnd.pypi.simple.v1+json 2023-10-20T15:28:51,194 Found link https://files.pythonhosted.org/packages/36/39/63bca353f534b61d1b4d184594aa908e15c1ed647e1e722bfcf9ee064dbc/pybiotk-1.0.3.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.0.3 2023-10-20T15:28:51,195 Found link https://files.pythonhosted.org/packages/c2/63/fd2b3ca946c51dc23242f873ba230b22d55298bd2eb2df0fe06a648e6849/pybiotk-1.0.4.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.0.4 2023-10-20T15:28:51,195 Found link https://files.pythonhosted.org/packages/67/96/a92ce5cf084e83cb215b8d8e9656d5bcfe22ae834956bd208e796b50da16/pybiotk-1.0.6.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.0.6 2023-10-20T15:28:51,196 Found link https://files.pythonhosted.org/packages/be/b5/ff3128b3a5181f7169f2fb8072ae82e4589c45e3c08c3964fc77b897a8cf/pybiotk-1.0.7.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.0.7 2023-10-20T15:28:51,196 Found link https://files.pythonhosted.org/packages/b7/60/f27ad0c199d09158de9f172415057312c69a824f3589e43787ea24925448/pybiotk-1.0.8.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.0.8 2023-10-20T15:28:51,196 Found link https://files.pythonhosted.org/packages/fb/74/d26be594d8fc95a6bf87a98c26341ec248f2bb6fe50fa7a78419c8a152d9/pybiotk-1.0.9.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.0.9 2023-10-20T15:28:51,196 Found link https://files.pythonhosted.org/packages/23/04/fd2a2b3b3177b01265b141db5e1cd962f2e7d435a3cafb23631c2f22076c/pybiotk-1.1.0.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.1.0 2023-10-20T15:28:51,197 Found link https://files.pythonhosted.org/packages/01/7b/9e6f646c28b48a6ef9a434a1b8169c7ec6b8ee8e5ce135c6aa60284ddb84/pybiotk-1.1.1.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.1.1 2023-10-20T15:28:51,197 Found link https://files.pythonhosted.org/packages/f7/2d/b38d75abba8592955a86e4d86c64229b02b37582049427c21925443b1807/pybiotk-1.2.0.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.2.0 2023-10-20T15:28:51,197 Found link https://files.pythonhosted.org/packages/d3/45/4f60c095cbd938d73427d73089a67014adb3f91d0b4f5b0e52a815bd550e/pybiotk-1.2.1.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.2.1 2023-10-20T15:28:51,197 Found link https://files.pythonhosted.org/packages/df/39/c06c8538af00a45170fa6216e13703fefeee2b5b195227cacff55d94e8bb/pybiotk-1.2.3.tar.gz (from https://pypi.org/simple/pybiotk/), version: 1.2.3 2023-10-20T15:28:51,198 Fetching project page and analyzing links: https://www.piwheels.org/simple/pybiotk/ 2023-10-20T15:28:51,198 Getting page https://www.piwheels.org/simple/pybiotk/ 2023-10-20T15:28:51,199 Found index url https://www.piwheels.org/simple/ 2023-10-20T15:28:51,267 Fetched page https://www.piwheels.org/simple/pybiotk/ as text/html 2023-10-20T15:28:51,280 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https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.4-cp39-cp39-linux_armv7l.whl#sha256=50c81a26e08771be990869c49acd65b172ef531d807be2ef54cc44de12463f76 (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,287 Skipping link: No binaries permitted for pybiotk: https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.4-cp39-cp39-linux_armv6l.whl#sha256=50c81a26e08771be990869c49acd65b172ef531d807be2ef54cc44de12463f76 (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,287 Skipping link: No binaries permitted for pybiotk: https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.4-cp37-cp37m-linux_armv7l.whl#sha256=1e5895fe1aa6a3e6127f180defd7a420edf6f8b5f4f1b689995f9758b7286846 (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,287 Skipping link: No binaries permitted for pybiotk: https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.4-cp37-cp37m-linux_armv6l.whl#sha256=1e5895fe1aa6a3e6127f180defd7a420edf6f8b5f4f1b689995f9758b7286846 (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,288 Skipping link: No binaries permitted for pybiotk: https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.3-cp39-cp39-linux_armv7l.whl#sha256=3d07a856b5dfd6012a973e73b174a6b8d70ae723b22a5396f9e1323a3396a327 (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,288 Skipping link: No binaries permitted for pybiotk: https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.3-cp39-cp39-linux_armv6l.whl#sha256=3d07a856b5dfd6012a973e73b174a6b8d70ae723b22a5396f9e1323a3396a327 (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,288 Skipping link: No binaries permitted for pybiotk: https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.3-cp37-cp37m-linux_armv7l.whl#sha256=68c34ca6656477c1de6691804d909876e1f42817256079672904805fc0971aca (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,288 Skipping link: No binaries permitted for pybiotk: https://www.piwheels.org/simple/pybiotk/pybiotk-1.0.3-cp37-cp37m-linux_armv6l.whl#sha256=68c34ca6656477c1de6691804d909876e1f42817256079672904805fc0971aca (from https://www.piwheels.org/simple/pybiotk/) 2023-10-20T15:28:51,289 Skipping link: not a file: https://www.piwheels.org/simple/pybiotk/ 2023-10-20T15:28:51,289 Skipping link: not a file: https://pypi.org/simple/pybiotk/ 2023-10-20T15:28:51,307 Given no hashes to check 1 links for project 'pybiotk': discarding no candidates 2023-10-20T15:28:51,324 Collecting pybiotk==1.2.3 2023-10-20T15:28:51,326 Created temporary directory: /tmp/pip-unpack-ew_l2pe3 2023-10-20T15:28:51,370 Downloading pybiotk-1.2.3.tar.gz (99 kB) 2023-10-20T15:28:51,631 Added pybiotk==1.2.3 from https://files.pythonhosted.org/packages/df/39/c06c8538af00a45170fa6216e13703fefeee2b5b195227cacff55d94e8bb/pybiotk-1.2.3.tar.gz to build tracker '/tmp/pip-build-tracker-h345o32n' 2023-10-20T15:28:51,638 Created temporary directory: /tmp/pip-build-env-g9h28uhg 2023-10-20T15:28:51,648 Installing build dependencies: started 2023-10-20T15:28:51,649 Running command pip subprocess to install build dependencies 2023-10-20T15:28:52,822 Using pip 23.2.1 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2023-10-20T15:28:53,368 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-10-20T15:28:54,973 Collecting setuptools>=46.1.0 2023-10-20T15:28:55,051 Using cached https://www.piwheels.org/simple/setuptools/setuptools-68.2.2-py3-none-any.whl (807 kB) 2023-10-20T15:28:55,423 Collecting setuptools_scm[toml]>=5 2023-10-20T15:28:55,440 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-8.0.4-py3-none-any.whl (42 kB) 2023-10-20T15:28:55,678 Collecting wheel 2023-10-20T15:28:55,695 Using cached https://www.piwheels.org/simple/wheel/wheel-0.41.2-py3-none-any.whl (64 kB) 2023-10-20T15:28:57,419 Collecting Cython<3.0.0,>=0.29.30 2023-10-20T15:28:57,848 Using cached https://www.piwheels.org/simple/cython/Cython-0.29.36-cp39-cp39-linux_armv7l.whl (4.9 MB) 2023-10-20T15:28:58,416 Collecting packaging>=20 (from setuptools_scm[toml]>=5) 2023-10-20T15:28:58,434 Using cached https://www.piwheels.org/simple/packaging/packaging-23.2-py3-none-any.whl (53 kB) 2023-10-20T15:28:58,615 Collecting typing-extensions (from setuptools_scm[toml]>=5) 2023-10-20T15:28:58,633 Using cached https://www.piwheels.org/simple/typing-extensions/typing_extensions-4.8.0-py3-none-any.whl (31 kB) 2023-10-20T15:28:58,754 Collecting tomli>=1 (from setuptools_scm[toml]>=5) 2023-10-20T15:28:58,771 Using cached https://www.piwheels.org/simple/tomli/tomli-2.0.1-py3-none-any.whl (12 kB) 2023-10-20T15:29:00,593 Installing collected packages: wheel, typing-extensions, tomli, setuptools, packaging, Cython, setuptools_scm 2023-10-20T15:29:00,811 Creating /tmp/pip-build-env-g9h28uhg/overlay/bin 2023-10-20T15:29:00,814 changing mode of /tmp/pip-build-env-g9h28uhg/overlay/bin/wheel to 755 2023-10-20T15:29:06,379 changing mode of /tmp/pip-build-env-g9h28uhg/overlay/bin/cygdb to 755 2023-10-20T15:29:06,381 changing mode of /tmp/pip-build-env-g9h28uhg/overlay/bin/cython to 755 2023-10-20T15:29:06,384 changing mode of /tmp/pip-build-env-g9h28uhg/overlay/bin/cythonize to 755 2023-10-20T15:29:06,597 Successfully installed Cython-0.29.36 packaging-23.2 setuptools-68.2.2 setuptools_scm-8.0.4 tomli-2.0.1 typing-extensions-4.8.0 wheel-0.41.2 2023-10-20T15:29:06,793 [notice] A new release of pip is available: 23.2.1 -> 23.3 2023-10-20T15:29:06,793 [notice] To update, run: python3 -m pip install --upgrade pip 2023-10-20T15:29:07,162 Installing build dependencies: finished with status 'done' 2023-10-20T15:29:07,167 Getting requirements to build wheel: started 2023-10-20T15:29:07,168 Running command Getting requirements to build wheel 2023-10-20T15:29:09,720 Compiling src/bx/bitset.pyx because it changed. 2023-10-20T15:29:09,721 Compiling src/bx/cluster.pyx because it changed. 2023-10-20T15:29:09,721 Compiling src/bx/intersection.pyx because it changed. 2023-10-20T15:29:09,721 [1/3] Cythonizing src/bx/bitset.pyx 2023-10-20T15:29:09,721 [2/3] Cythonizing src/bx/cluster.pyx 2023-10-20T15:29:09,721 [3/3] Cythonizing src/bx/intersection.pyx 2023-10-20T15:29:10,011 running egg_info 2023-10-20T15:29:10,019 writing src/pybiotk.egg-info/PKG-INFO 2023-10-20T15:29:10,023 writing dependency_links to src/pybiotk.egg-info/dependency_links.txt 2023-10-20T15:29:10,026 writing entry points to src/pybiotk.egg-info/entry_points.txt 2023-10-20T15:29:10,029 writing requirements to src/pybiotk.egg-info/requires.txt 2023-10-20T15:29:10,030 writing top-level names to src/pybiotk.egg-info/top_level.txt 2023-10-20T15:29:10,105 ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any 2023-10-20T15:29:10,115 reading manifest file 'src/pybiotk.egg-info/SOURCES.txt' 2023-10-20T15:29:10,121 adding license file 'LICENSE.txt' 2023-10-20T15:29:10,128 writing manifest file 'src/pybiotk.egg-info/SOURCES.txt' 2023-10-20T15:29:10,301 Getting requirements to build wheel: finished with status 'done' 2023-10-20T15:29:10,311 Created temporary directory: /tmp/pip-modern-metadata-doqt1dul 2023-10-20T15:29:10,314 Preparing metadata (pyproject.toml): started 2023-10-20T15:29:10,315 Running command Preparing metadata (pyproject.toml) 2023-10-20T15:29:11,620 running dist_info 2023-10-20T15:29:11,643 creating /tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info 2023-10-20T15:29:11,649 writing /tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/PKG-INFO 2023-10-20T15:29:11,654 writing dependency_links to /tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/dependency_links.txt 2023-10-20T15:29:11,657 writing entry points to /tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/entry_points.txt 2023-10-20T15:29:11,660 writing requirements to /tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/requires.txt 2023-10-20T15:29:11,661 writing top-level names to /tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/top_level.txt 2023-10-20T15:29:11,662 writing manifest file '/tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/SOURCES.txt' 2023-10-20T15:29:11,730 ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any 2023-10-20T15:29:11,739 reading manifest file '/tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/SOURCES.txt' 2023-10-20T15:29:11,742 adding license file 'LICENSE.txt' 2023-10-20T15:29:11,747 writing manifest file '/tmp/pip-modern-metadata-doqt1dul/pybiotk.egg-info/SOURCES.txt' 2023-10-20T15:29:11,748 creating '/tmp/pip-modern-metadata-doqt1dul/pybiotk-1.2.3.dist-info' 2023-10-20T15:29:11,969 Preparing metadata (pyproject.toml): finished with status 'done' 2023-10-20T15:29:11,975 Source in /tmp/pip-wheel-qcrn63xy/pybiotk_ebf8c6ab6a7444cfa8004875e8a97426 has version 1.2.3, which satisfies requirement pybiotk==1.2.3 from https://files.pythonhosted.org/packages/df/39/c06c8538af00a45170fa6216e13703fefeee2b5b195227cacff55d94e8bb/pybiotk-1.2.3.tar.gz 2023-10-20T15:29:11,976 Removed pybiotk==1.2.3 from https://files.pythonhosted.org/packages/df/39/c06c8538af00a45170fa6216e13703fefeee2b5b195227cacff55d94e8bb/pybiotk-1.2.3.tar.gz from build tracker '/tmp/pip-build-tracker-h345o32n' 2023-10-20T15:29:11,980 Created temporary directory: /tmp/pip-unpack-8qzagbwv 2023-10-20T15:29:11,981 Created temporary directory: /tmp/pip-unpack-n29urvo9 2023-10-20T15:29:12,002 Building wheels for collected packages: pybiotk 2023-10-20T15:29:12,006 Created temporary directory: /tmp/pip-wheel-u4_z081w 2023-10-20T15:29:12,006 Destination directory: /tmp/pip-wheel-u4_z081w 2023-10-20T15:29:12,008 Building wheel for pybiotk (pyproject.toml): started 2023-10-20T15:29:12,009 Running command Building wheel for pybiotk (pyproject.toml) 2023-10-20T15:29:13,331 running bdist_wheel 2023-10-20T15:29:13,376 running build 2023-10-20T15:29:13,376 running build_py 2023-10-20T15:29:13,386 creating build/lib.linux-armv7l-cpython-39 2023-10-20T15:29:13,386 creating build/lib.linux-armv7l-cpython-39/pybiotk 2023-10-20T15:29:13,388 copying src/pybiotk/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk 2023-10-20T15:29:13,390 creating build/lib.linux-armv7l-cpython-39/stream 2023-10-20T15:29:13,391 copying src/stream/pipe.py -> build/lib.linux-armv7l-cpython-39/stream 2023-10-20T15:29:13,393 copying src/stream/__init__.py -> build/lib.linux-armv7l-cpython-39/stream 2023-10-20T15:29:13,395 copying src/stream/stream.py -> build/lib.linux-armv7l-cpython-39/stream 2023-10-20T15:29:13,398 creating build/lib.linux-armv7l-cpython-39/pybiotk/intervals 2023-10-20T15:29:13,399 copying src/pybiotk/intervals/merge_bed3.py -> build/lib.linux-armv7l-cpython-39/pybiotk/intervals 2023-10-20T15:29:13,401 copying src/pybiotk/intervals/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk/intervals 2023-10-20T15:29:13,402 copying src/pybiotk/intervals/grange.py -> build/lib.linux-armv7l-cpython-39/pybiotk/intervals 2023-10-20T15:29:13,405 copying src/pybiotk/intervals/merge_intervals.py -> build/lib.linux-armv7l-cpython-39/pybiotk/intervals 2023-10-20T15:29:13,407 creating build/lib.linux-armv7l-cpython-39/pybiotk/string 2023-10-20T15:29:13,408 copying src/pybiotk/string/motif.py -> build/lib.linux-armv7l-cpython-39/pybiotk/string 2023-10-20T15:29:13,410 copying src/pybiotk/string/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk/string 2023-10-20T15:29:13,411 copying src/pybiotk/string/sequence.py -> build/lib.linux-armv7l-cpython-39/pybiotk/string 2023-10-20T15:29:13,414 creating build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,415 copying src/pybiotk/convert/bed2bedgraph.py -> build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,417 copying src/pybiotk/convert/bam2fastx.py -> build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,418 copying src/pybiotk/convert/fa2fastq.py -> build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,420 copying src/pybiotk/convert/gtf2bed.py -> build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,422 copying src/pybiotk/convert/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,423 copying src/pybiotk/convert/fq2fasta.py -> build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,425 copying src/pybiotk/convert/bampe_order_by_name.py -> build/lib.linux-armv7l-cpython-39/pybiotk/convert 2023-10-20T15:29:13,428 creating build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,429 copying src/pybiotk/io/fasta.py -> build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,431 copying src/pybiotk/io/fastq.py -> build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,433 copying src/pybiotk/io/bw.py -> build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,435 copying src/pybiotk/io/bed.py -> build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,437 copying src/pybiotk/io/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,439 copying src/pybiotk/io/bam.py -> build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,441 copying src/pybiotk/io/gtf.py -> build/lib.linux-armv7l-cpython-39/pybiotk/io 2023-10-20T15:29:13,444 creating build/lib.linux-armv7l-cpython-39/pybiotk/data 2023-10-20T15:29:13,445 copying src/pybiotk/data/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk/data 2023-10-20T15:29:13,448 creating build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,448 copying src/pybiotk/utils/fragment_size.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,451 copying src/pybiotk/utils/reference_count.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,453 copying src/pybiotk/utils/merge_row.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,455 copying src/pybiotk/utils/summary_log.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,457 copying src/pybiotk/utils/rmats_filter.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,459 copying src/pybiotk/utils/gtf_filter.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,461 copying src/pybiotk/utils/utils.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,463 copying src/pybiotk/utils/fasta_filter.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,465 copying src/pybiotk/utils/genomefetcher.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,468 copying src/pybiotk/utils/seq_random.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,469 copying src/pybiotk/utils/fastq_join.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,472 copying src/pybiotk/utils/reverse_fastx.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,473 copying src/pybiotk/utils/bam_random.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,475 copying src/pybiotk/utils/fastx_rename.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,477 copying src/pybiotk/utils/read_tables.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,478 copying src/pybiotk/utils/subseq_analysis.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,480 copying src/pybiotk/utils/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,482 copying src/pybiotk/utils/pyanno.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,485 copying src/pybiotk/utils/normalize.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,487 copying src/pybiotk/utils/merge_subseq.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,488 copying src/pybiotk/utils/fastq_uniq.py -> build/lib.linux-armv7l-cpython-39/pybiotk/utils 2023-10-20T15:29:13,491 creating build/lib.linux-armv7l-cpython-39/pybiotk/annodb 2023-10-20T15:29:13,492 copying src/pybiotk/annodb/gene.py -> build/lib.linux-armv7l-cpython-39/pybiotk/annodb 2023-10-20T15:29:13,494 copying src/pybiotk/annodb/transcript.py -> build/lib.linux-armv7l-cpython-39/pybiotk/annodb 2023-10-20T15:29:13,496 copying src/pybiotk/annodb/merged_transcript.py -> build/lib.linux-armv7l-cpython-39/pybiotk/annodb 2023-10-20T15:29:13,498 copying src/pybiotk/annodb/__init__.py -> build/lib.linux-armv7l-cpython-39/pybiotk/annodb 2023-10-20T15:29:13,500 copying src/pybiotk/annodb/anno.py -> build/lib.linux-armv7l-cpython-39/pybiotk/annodb 2023-10-20T15:29:13,502 running egg_info 2023-10-20T15:29:13,508 writing src/pybiotk.egg-info/PKG-INFO 2023-10-20T15:29:13,512 writing dependency_links to src/pybiotk.egg-info/dependency_links.txt 2023-10-20T15:29:13,515 writing entry points to src/pybiotk.egg-info/entry_points.txt 2023-10-20T15:29:13,517 writing requirements to src/pybiotk.egg-info/requires.txt 2023-10-20T15:29:13,518 writing top-level names to src/pybiotk.egg-info/top_level.txt 2023-10-20T15:29:13,562 ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any 2023-10-20T15:29:13,571 reading manifest file 'src/pybiotk.egg-info/SOURCES.txt' 2023-10-20T15:29:13,576 adding license file 'LICENSE.txt' 2023-10-20T15:29:13,583 writing manifest file 'src/pybiotk.egg-info/SOURCES.txt' 2023-10-20T15:29:13,588 copying src/pybiotk/data/hg38.chrom.sizes -> build/lib.linux-armv7l-cpython-39/pybiotk/data 2023-10-20T15:29:13,591 copying src/pybiotk/data/mm10.chrom.sizes -> build/lib.linux-armv7l-cpython-39/pybiotk/data 2023-10-20T15:29:13,598 running build_ext 2023-10-20T15:29:13,603 building 'pybiotk.bx.bitset' extension 2023-10-20T15:29:13,604 creating build/temp.linux-armv7l-cpython-39 2023-10-20T15:29:13,605 creating build/temp.linux-armv7l-cpython-39/build 2023-10-20T15:29:13,605 creating build/temp.linux-armv7l-cpython-39/build/src 2023-10-20T15:29:13,606 creating build/temp.linux-armv7l-cpython-39/build/src/bx 2023-10-20T15:29:13,607 creating build/temp.linux-armv7l-cpython-39/src 2023-10-20T15:29:13,608 creating build/temp.linux-armv7l-cpython-39/src/bx 2023-10-20T15:29:13,609 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/bx -I/usr/include/python3.9 -c build/src/bx/bitset.c -o build/temp.linux-armv7l-cpython-39/build/src/bx/bitset.o 2023-10-20T15:29:19,057 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/bx -I/usr/include/python3.9 -c src/bx/binBits.c -o build/temp.linux-armv7l-cpython-39/src/bx/binBits.o 2023-10-20T15:29:19,440 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/bx -I/usr/include/python3.9 -c src/bx/bits.c -o build/temp.linux-armv7l-cpython-39/src/bx/bits.o 2023-10-20T15:29:19,864 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/bx -I/usr/include/python3.9 -c src/bx/common.c -o build/temp.linux-armv7l-cpython-39/src/bx/common.o 2023-10-20T15:29:20,039 creating build/lib.linux-armv7l-cpython-39/pybiotk/bx 2023-10-20T15:29:20,040 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/build/src/bx/bitset.o build/temp.linux-armv7l-cpython-39/src/bx/binBits.o build/temp.linux-armv7l-cpython-39/src/bx/bits.o build/temp.linux-armv7l-cpython-39/src/bx/common.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/pybiotk/bx/bitset.cpython-39-arm-linux-gnueabihf.so 2023-10-20T15:29:20,173 building 'pybiotk.bx.cluster' extension 2023-10-20T15:29:20,173 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/bx -I/usr/include/python3.9 -c build/src/bx/cluster.c -o build/temp.linux-armv7l-cpython-39/build/src/bx/cluster.o 2023-10-20T15:29:22,198 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/bx -I/usr/include/python3.9 -c src/bx/cluster.c -o build/temp.linux-armv7l-cpython-39/src/bx/cluster.o 2023-10-20T15:29:22,668 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/build/src/bx/cluster.o build/temp.linux-armv7l-cpython-39/src/bx/cluster.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/pybiotk/bx/cluster.cpython-39-arm-linux-gnueabihf.so 2023-10-20T15:29:22,774 building 'pybiotk.bx.intersection' extension 2023-10-20T15:29:22,775 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/usr/include/python3.9 -c build/src/bx/intersection.c -o build/temp.linux-armv7l-cpython-39/build/src/bx/intersection.o 2023-10-20T15:29:31,628 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/build/src/bx/intersection.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/pybiotk/bx/intersection.cpython-39-arm-linux-gnueabihf.so 2023-10-20T15:29:31,750 running build_scripts 2023-10-20T15:29:31,751 creating build/scripts-3.9 2023-10-20T15:29:31,752 copying rscripts/diff_expr_DESeq2.R -> build/scripts-3.9 2023-10-20T15:29:31,755 copying rscripts/plot_FRiPs.R -> build/scripts-3.9 2023-10-20T15:29:31,757 copying rscripts/plot_chip_summary.R -> build/scripts-3.9 2023-10-20T15:29:31,759 copying rscripts/plot_bar.R -> build/scripts-3.9 2023-10-20T15:29:31,761 copying rscripts/plot_hist.R -> build/scripts-3.9 2023-10-20T15:29:31,763 copying rscripts/plot_corr.R -> build/scripts-3.9 2023-10-20T15:29:31,765 copying rscripts/diff_expr_plot.R -> build/scripts-3.9 2023-10-20T15:29:31,768 copying rscripts/peak_anno.R -> build/scripts-3.9 2023-10-20T15:29:31,770 copying rscripts/plot_peak_width.R -> build/scripts-3.9 2023-10-20T15:29:31,773 copying rscripts/plot_venn.R -> build/scripts-3.9 2023-10-20T15:29:31,775 copying rscripts/diff_expr_edgeR.R -> build/scripts-3.9 2023-10-20T15:29:31,778 copying rscripts/plot_rep_cor.R -> build/scripts-3.9 2023-10-20T15:29:31,780 copying rscripts/plot_deeptools_fragmentsize.R -> build/scripts-3.9 2023-10-20T15:29:31,782 copying scripts/merge_subseq.sh -> build/scripts-3.9 2023-10-20T15:29:31,784 copying scripts/get_chrom_length.sh -> build/scripts-3.9 2023-10-20T15:29:31,786 copying scripts/remove_duplicates.sh -> build/scripts-3.9 2023-10-20T15:29:31,788 copying scripts/fasta_len.sh -> build/scripts-3.9 2023-10-20T15:29:31,790 copying scripts/fasta_u2t.sh -> build/scripts-3.9 2023-10-20T15:29:31,792 copying scripts/gtfparser.sh -> build/scripts-3.9 2023-10-20T15:29:31,794 copying scripts/fastq_len.sh -> build/scripts-3.9 2023-10-20T15:29:31,795 changing mode of build/scripts-3.9/diff_expr_DESeq2.R from 644 to 755 2023-10-20T15:29:31,796 changing mode of build/scripts-3.9/plot_FRiPs.R from 644 to 755 2023-10-20T15:29:31,796 changing mode of build/scripts-3.9/plot_chip_summary.R from 644 to 755 2023-10-20T15:29:31,797 changing mode of build/scripts-3.9/plot_bar.R from 644 to 755 2023-10-20T15:29:31,797 changing mode of build/scripts-3.9/plot_hist.R from 644 to 755 2023-10-20T15:29:31,797 changing mode of build/scripts-3.9/plot_corr.R from 644 to 755 2023-10-20T15:29:31,798 changing mode of build/scripts-3.9/diff_expr_plot.R from 644 to 755 2023-10-20T15:29:31,798 changing mode of build/scripts-3.9/peak_anno.R from 644 to 755 2023-10-20T15:29:31,798 changing mode of build/scripts-3.9/plot_peak_width.R from 644 to 755 2023-10-20T15:29:31,799 changing mode of build/scripts-3.9/plot_venn.R from 644 to 755 2023-10-20T15:29:31,799 changing mode of build/scripts-3.9/diff_expr_edgeR.R from 644 to 755 2023-10-20T15:29:31,799 changing mode of build/scripts-3.9/plot_rep_cor.R from 644 to 755 2023-10-20T15:29:31,800 changing mode of build/scripts-3.9/plot_deeptools_fragmentsize.R from 644 to 755 2023-10-20T15:29:31,800 changing mode of build/scripts-3.9/merge_subseq.sh from 644 to 755 2023-10-20T15:29:31,800 changing mode of build/scripts-3.9/get_chrom_length.sh from 644 to 755 2023-10-20T15:29:31,801 changing mode of build/scripts-3.9/remove_duplicates.sh from 644 to 755 2023-10-20T15:29:31,801 changing mode of build/scripts-3.9/fasta_len.sh from 644 to 755 2023-10-20T15:29:31,801 changing mode of build/scripts-3.9/fasta_u2t.sh from 644 to 755 2023-10-20T15:29:31,802 changing mode of build/scripts-3.9/gtfparser.sh from 644 to 755 2023-10-20T15:29:31,802 changing mode of build/scripts-3.9/fastq_len.sh from 644 to 755 2023-10-20T15:29:31,823 installing to build/bdist.linux-armv7l/wheel 2023-10-20T15:29:31,824 running install 2023-10-20T15:29:31,850 running install_lib 2023-10-20T15:29:31,859 creating build/bdist.linux-armv7l 2023-10-20T15:29:31,859 creating build/bdist.linux-armv7l/wheel 2023-10-20T15:29:31,861 creating build/bdist.linux-armv7l/wheel/pybiotk 2023-10-20T15:29:31,862 creating build/bdist.linux-armv7l/wheel/pybiotk/intervals 2023-10-20T15:29:31,863 copying build/lib.linux-armv7l-cpython-39/pybiotk/intervals/merge_bed3.py -> build/bdist.linux-armv7l/wheel/pybiotk/intervals 2023-10-20T15:29:31,865 copying build/lib.linux-armv7l-cpython-39/pybiotk/intervals/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk/intervals 2023-10-20T15:29:31,867 copying build/lib.linux-armv7l-cpython-39/pybiotk/intervals/grange.py -> build/bdist.linux-armv7l/wheel/pybiotk/intervals 2023-10-20T15:29:31,869 copying build/lib.linux-armv7l-cpython-39/pybiotk/intervals/merge_intervals.py -> build/bdist.linux-armv7l/wheel/pybiotk/intervals 2023-10-20T15:29:31,871 creating build/bdist.linux-armv7l/wheel/pybiotk/string 2023-10-20T15:29:31,872 copying build/lib.linux-armv7l-cpython-39/pybiotk/string/motif.py -> build/bdist.linux-armv7l/wheel/pybiotk/string 2023-10-20T15:29:31,874 copying build/lib.linux-armv7l-cpython-39/pybiotk/string/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk/string 2023-10-20T15:29:31,876 copying build/lib.linux-armv7l-cpython-39/pybiotk/string/sequence.py -> build/bdist.linux-armv7l/wheel/pybiotk/string 2023-10-20T15:29:31,878 creating build/bdist.linux-armv7l/wheel/pybiotk/bx 2023-10-20T15:29:31,878 copying build/lib.linux-armv7l-cpython-39/pybiotk/bx/bitset.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pybiotk/bx 2023-10-20T15:29:31,894 copying build/lib.linux-armv7l-cpython-39/pybiotk/bx/cluster.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pybiotk/bx 2023-10-20T15:29:31,901 copying build/lib.linux-armv7l-cpython-39/pybiotk/bx/intersection.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pybiotk/bx 2023-10-20T15:29:31,923 creating build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,924 copying build/lib.linux-armv7l-cpython-39/pybiotk/convert/bed2bedgraph.py -> build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,926 copying build/lib.linux-armv7l-cpython-39/pybiotk/convert/bam2fastx.py -> build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,928 copying build/lib.linux-armv7l-cpython-39/pybiotk/convert/fa2fastq.py -> build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,929 copying build/lib.linux-armv7l-cpython-39/pybiotk/convert/gtf2bed.py -> build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,931 copying build/lib.linux-armv7l-cpython-39/pybiotk/convert/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,933 copying build/lib.linux-armv7l-cpython-39/pybiotk/convert/fq2fasta.py -> build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,934 copying build/lib.linux-armv7l-cpython-39/pybiotk/convert/bampe_order_by_name.py -> build/bdist.linux-armv7l/wheel/pybiotk/convert 2023-10-20T15:29:31,936 copying build/lib.linux-armv7l-cpython-39/pybiotk/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk 2023-10-20T15:29:31,938 creating build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,939 copying build/lib.linux-armv7l-cpython-39/pybiotk/io/fasta.py -> build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,941 copying build/lib.linux-armv7l-cpython-39/pybiotk/io/fastq.py -> build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,943 copying build/lib.linux-armv7l-cpython-39/pybiotk/io/bw.py -> build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,945 copying build/lib.linux-armv7l-cpython-39/pybiotk/io/bed.py -> build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,947 copying build/lib.linux-armv7l-cpython-39/pybiotk/io/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,949 copying build/lib.linux-armv7l-cpython-39/pybiotk/io/bam.py -> build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,951 copying build/lib.linux-armv7l-cpython-39/pybiotk/io/gtf.py -> build/bdist.linux-armv7l/wheel/pybiotk/io 2023-10-20T15:29:31,954 creating build/bdist.linux-armv7l/wheel/pybiotk/data 2023-10-20T15:29:31,955 copying build/lib.linux-armv7l-cpython-39/pybiotk/data/mm10.chrom.sizes -> build/bdist.linux-armv7l/wheel/pybiotk/data 2023-10-20T15:29:31,957 copying build/lib.linux-armv7l-cpython-39/pybiotk/data/hg38.chrom.sizes -> build/bdist.linux-armv7l/wheel/pybiotk/data 2023-10-20T15:29:31,959 copying build/lib.linux-armv7l-cpython-39/pybiotk/data/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk/data 2023-10-20T15:29:31,961 creating build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,962 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/fragment_size.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,964 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/reference_count.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,966 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/merge_row.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,968 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/summary_log.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,971 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/rmats_filter.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,972 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/gtf_filter.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,974 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/utils.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,977 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/fasta_filter.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,978 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/genomefetcher.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,980 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/seq_random.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,982 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/fastq_join.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,984 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/reverse_fastx.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,986 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/bam_random.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,988 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/fastx_rename.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,989 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/read_tables.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,991 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/subseq_analysis.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,993 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,995 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/pyanno.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,997 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/normalize.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:31,999 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/merge_subseq.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:32,001 copying build/lib.linux-armv7l-cpython-39/pybiotk/utils/fastq_uniq.py -> build/bdist.linux-armv7l/wheel/pybiotk/utils 2023-10-20T15:29:32,003 creating build/bdist.linux-armv7l/wheel/pybiotk/annodb 2023-10-20T15:29:32,004 copying build/lib.linux-armv7l-cpython-39/pybiotk/annodb/gene.py -> build/bdist.linux-armv7l/wheel/pybiotk/annodb 2023-10-20T15:29:32,006 copying build/lib.linux-armv7l-cpython-39/pybiotk/annodb/transcript.py -> build/bdist.linux-armv7l/wheel/pybiotk/annodb 2023-10-20T15:29:32,008 copying build/lib.linux-armv7l-cpython-39/pybiotk/annodb/merged_transcript.py -> build/bdist.linux-armv7l/wheel/pybiotk/annodb 2023-10-20T15:29:32,011 copying build/lib.linux-armv7l-cpython-39/pybiotk/annodb/__init__.py -> build/bdist.linux-armv7l/wheel/pybiotk/annodb 2023-10-20T15:29:32,012 copying build/lib.linux-armv7l-cpython-39/pybiotk/annodb/anno.py -> build/bdist.linux-armv7l/wheel/pybiotk/annodb 2023-10-20T15:29:32,015 creating build/bdist.linux-armv7l/wheel/stream 2023-10-20T15:29:32,016 copying build/lib.linux-armv7l-cpython-39/stream/pipe.py -> build/bdist.linux-armv7l/wheel/stream 2023-10-20T15:29:32,019 copying build/lib.linux-armv7l-cpython-39/stream/__init__.py -> build/bdist.linux-armv7l/wheel/stream 2023-10-20T15:29:32,020 copying build/lib.linux-armv7l-cpython-39/stream/stream.py -> build/bdist.linux-armv7l/wheel/stream 2023-10-20T15:29:32,022 running install_egg_info 2023-10-20T15:29:32,032 Copying src/pybiotk.egg-info to build/bdist.linux-armv7l/wheel/pybiotk-1.2.3-py3.9.egg-info 2023-10-20T15:29:32,045 running install_scripts 2023-10-20T15:29:32,047 creating build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data 2023-10-20T15:29:32,047 creating build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,048 copying build/scripts-3.9/diff_expr_DESeq2.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,051 copying build/scripts-3.9/plot_FRiPs.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,052 copying build/scripts-3.9/plot_chip_summary.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,055 copying build/scripts-3.9/merge_subseq.sh -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,056 copying build/scripts-3.9/plot_bar.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,058 copying build/scripts-3.9/get_chrom_length.sh -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,060 copying build/scripts-3.9/remove_duplicates.sh -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,061 copying build/scripts-3.9/plot_hist.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,063 copying build/scripts-3.9/plot_corr.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,065 copying build/scripts-3.9/fasta_len.sh -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,066 copying build/scripts-3.9/fasta_u2t.sh -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,068 copying build/scripts-3.9/diff_expr_plot.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,070 copying build/scripts-3.9/peak_anno.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,072 copying build/scripts-3.9/plot_peak_width.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,074 copying build/scripts-3.9/plot_venn.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,076 copying build/scripts-3.9/diff_expr_edgeR.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,078 copying build/scripts-3.9/plot_rep_cor.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,080 copying build/scripts-3.9/plot_deeptools_fragmentsize.R -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,082 copying build/scripts-3.9/gtfparser.sh -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,084 copying build/scripts-3.9/fastq_len.sh -> build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts 2023-10-20T15:29:32,085 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/diff_expr_DESeq2.R to 755 2023-10-20T15:29:32,085 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_FRiPs.R to 755 2023-10-20T15:29:32,086 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_chip_summary.R to 755 2023-10-20T15:29:32,086 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/merge_subseq.sh to 755 2023-10-20T15:29:32,086 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_bar.R to 755 2023-10-20T15:29:32,090 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/get_chrom_length.sh to 755 2023-10-20T15:29:32,090 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/remove_duplicates.sh to 755 2023-10-20T15:29:32,091 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_hist.R to 755 2023-10-20T15:29:32,091 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_corr.R to 755 2023-10-20T15:29:32,091 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/fasta_len.sh to 755 2023-10-20T15:29:32,092 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/fasta_u2t.sh to 755 2023-10-20T15:29:32,092 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/diff_expr_plot.R to 755 2023-10-20T15:29:32,092 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/peak_anno.R to 755 2023-10-20T15:29:32,093 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_peak_width.R to 755 2023-10-20T15:29:32,093 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_venn.R to 755 2023-10-20T15:29:32,093 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/diff_expr_edgeR.R to 755 2023-10-20T15:29:32,094 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_rep_cor.R to 755 2023-10-20T15:29:32,094 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/plot_deeptools_fragmentsize.R to 755 2023-10-20T15:29:32,094 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/gtfparser.sh to 755 2023-10-20T15:29:32,095 changing mode of build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.data/scripts/fastq_len.sh to 755 2023-10-20T15:29:32,142 creating build/bdist.linux-armv7l/wheel/pybiotk-1.2.3.dist-info/WHEEL 2023-10-20T15:29:32,145 creating '/tmp/pip-wheel-u4_z081w/.tmp-e0h8lr4n/pybiotk-1.2.3-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-10-20T15:29:32,148 adding 'pybiotk/__init__.py' 2023-10-20T15:29:32,149 adding 'pybiotk/annodb/__init__.py' 2023-10-20T15:29:32,151 adding 'pybiotk/annodb/anno.py' 2023-10-20T15:29:32,153 adding 'pybiotk/annodb/gene.py' 2023-10-20T15:29:32,155 adding 'pybiotk/annodb/merged_transcript.py' 2023-10-20T15:29:32,157 adding 'pybiotk/annodb/transcript.py' 2023-10-20T15:29:32,251 adding 'pybiotk/bx/bitset.cpython-39-arm-linux-gnueabihf.so' 2023-10-20T15:29:32,289 adding 'pybiotk/bx/cluster.cpython-39-arm-linux-gnueabihf.so' 2023-10-20T15:29:32,420 adding 'pybiotk/bx/intersection.cpython-39-arm-linux-gnueabihf.so' 2023-10-20T15:29:32,426 adding 'pybiotk/convert/__init__.py' 2023-10-20T15:29:32,427 adding 'pybiotk/convert/bam2fastx.py' 2023-10-20T15:29:32,429 adding 'pybiotk/convert/bampe_order_by_name.py' 2023-10-20T15:29:32,430 adding 'pybiotk/convert/bed2bedgraph.py' 2023-10-20T15:29:32,431 adding 'pybiotk/convert/fa2fastq.py' 2023-10-20T15:29:32,432 adding 'pybiotk/convert/fq2fasta.py' 2023-10-20T15:29:32,434 adding 'pybiotk/convert/gtf2bed.py' 2023-10-20T15:29:32,435 adding 'pybiotk/data/__init__.py' 2023-10-20T15:29:32,438 adding 'pybiotk/data/hg38.chrom.sizes' 2023-10-20T15:29:32,439 adding 'pybiotk/data/mm10.chrom.sizes' 2023-10-20T15:29:32,441 adding 'pybiotk/intervals/__init__.py' 2023-10-20T15:29:32,442 adding 'pybiotk/intervals/grange.py' 2023-10-20T15:29:32,444 adding 'pybiotk/intervals/merge_bed3.py' 2023-10-20T15:29:32,445 adding 'pybiotk/intervals/merge_intervals.py' 2023-10-20T15:29:32,447 adding 'pybiotk/io/__init__.py' 2023-10-20T15:29:32,449 adding 'pybiotk/io/bam.py' 2023-10-20T15:29:32,450 adding 'pybiotk/io/bed.py' 2023-10-20T15:29:32,452 adding 'pybiotk/io/bw.py' 2023-10-20T15:29:32,453 adding 'pybiotk/io/fasta.py' 2023-10-20T15:29:32,455 adding 'pybiotk/io/fastq.py' 2023-10-20T15:29:32,457 adding 'pybiotk/io/gtf.py' 2023-10-20T15:29:32,459 adding 'pybiotk/string/__init__.py' 2023-10-20T15:29:32,460 adding 'pybiotk/string/motif.py' 2023-10-20T15:29:32,461 adding 'pybiotk/string/sequence.py' 2023-10-20T15:29:32,463 adding 'pybiotk/utils/__init__.py' 2023-10-20T15:29:32,464 adding 'pybiotk/utils/bam_random.py' 2023-10-20T15:29:32,466 adding 'pybiotk/utils/fasta_filter.py' 2023-10-20T15:29:32,467 adding 'pybiotk/utils/fastq_join.py' 2023-10-20T15:29:32,469 adding 'pybiotk/utils/fastq_uniq.py' 2023-10-20T15:29:32,470 adding 'pybiotk/utils/fastx_rename.py' 2023-10-20T15:29:32,471 adding 'pybiotk/utils/fragment_size.py' 2023-10-20T15:29:32,473 adding 'pybiotk/utils/genomefetcher.py' 2023-10-20T15:29:32,475 adding 'pybiotk/utils/gtf_filter.py' 2023-10-20T15:29:32,476 adding 'pybiotk/utils/merge_row.py' 2023-10-20T15:29:32,477 adding 'pybiotk/utils/merge_subseq.py' 2023-10-20T15:29:32,479 adding 'pybiotk/utils/normalize.py' 2023-10-20T15:29:32,481 adding 'pybiotk/utils/pyanno.py' 2023-10-20T15:29:32,482 adding 'pybiotk/utils/read_tables.py' 2023-10-20T15:29:32,483 adding 'pybiotk/utils/reference_count.py' 2023-10-20T15:29:32,485 adding 'pybiotk/utils/reverse_fastx.py' 2023-10-20T15:29:32,486 adding 'pybiotk/utils/rmats_filter.py' 2023-10-20T15:29:32,488 adding 'pybiotk/utils/seq_random.py' 2023-10-20T15:29:32,489 adding 'pybiotk/utils/subseq_analysis.py' 2023-10-20T15:29:32,491 adding 'pybiotk/utils/summary_log.py' 2023-10-20T15:29:32,493 adding 'pybiotk/utils/utils.py' 2023-10-20T15:29:32,496 adding 'pybiotk-1.2.3.data/scripts/diff_expr_DESeq2.R' 2023-10-20T15:29:32,497 adding 'pybiotk-1.2.3.data/scripts/diff_expr_edgeR.R' 2023-10-20T15:29:32,500 adding 'pybiotk-1.2.3.data/scripts/diff_expr_plot.R' 2023-10-20T15:29:32,501 adding 'pybiotk-1.2.3.data/scripts/fasta_len.sh' 2023-10-20T15:29:32,502 adding 'pybiotk-1.2.3.data/scripts/fasta_u2t.sh' 2023-10-20T15:29:32,503 adding 'pybiotk-1.2.3.data/scripts/fastq_len.sh' 2023-10-20T15:29:32,505 adding 'pybiotk-1.2.3.data/scripts/get_chrom_length.sh' 2023-10-20T15:29:32,506 adding 'pybiotk-1.2.3.data/scripts/gtfparser.sh' 2023-10-20T15:29:32,507 adding 'pybiotk-1.2.3.data/scripts/merge_subseq.sh' 2023-10-20T15:29:32,508 adding 'pybiotk-1.2.3.data/scripts/peak_anno.R' 2023-10-20T15:29:32,510 adding 'pybiotk-1.2.3.data/scripts/plot_FRiPs.R' 2023-10-20T15:29:32,511 adding 'pybiotk-1.2.3.data/scripts/plot_bar.R' 2023-10-20T15:29:32,513 adding 'pybiotk-1.2.3.data/scripts/plot_chip_summary.R' 2023-10-20T15:29:32,514 adding 'pybiotk-1.2.3.data/scripts/plot_corr.R' 2023-10-20T15:29:32,516 adding 'pybiotk-1.2.3.data/scripts/plot_deeptools_fragmentsize.R' 2023-10-20T15:29:32,517 adding 'pybiotk-1.2.3.data/scripts/plot_hist.R' 2023-10-20T15:29:32,518 adding 'pybiotk-1.2.3.data/scripts/plot_peak_width.R' 2023-10-20T15:29:32,520 adding 'pybiotk-1.2.3.data/scripts/plot_rep_cor.R' 2023-10-20T15:29:32,521 adding 'pybiotk-1.2.3.data/scripts/plot_venn.R' 2023-10-20T15:29:32,522 adding 'pybiotk-1.2.3.data/scripts/remove_duplicates.sh' 2023-10-20T15:29:32,525 adding 'stream/__init__.py' 2023-10-20T15:29:32,527 adding 'stream/pipe.py' 2023-10-20T15:29:32,529 adding 'stream/stream.py' 2023-10-20T15:29:32,530 adding 'pybiotk-1.2.3.dist-info/LICENSE.txt' 2023-10-20T15:29:32,531 adding 'pybiotk-1.2.3.dist-info/METADATA' 2023-10-20T15:29:32,532 adding 'pybiotk-1.2.3.dist-info/WHEEL' 2023-10-20T15:29:32,533 adding 'pybiotk-1.2.3.dist-info/entry_points.txt' 2023-10-20T15:29:32,534 adding 'pybiotk-1.2.3.dist-info/top_level.txt' 2023-10-20T15:29:32,536 adding 'pybiotk-1.2.3.dist-info/RECORD' 2023-10-20T15:29:32,546 removing build/bdist.linux-armv7l/wheel 2023-10-20T15:29:32,698 Building wheel for pybiotk (pyproject.toml): finished with status 'done' 2023-10-20T15:29:32,718 Created wheel for pybiotk: filename=pybiotk-1.2.3-cp39-cp39-linux_armv7l.whl size=566376 sha256=54c28aeaeafe285214b9a2178be151502a11de2b5c45205dffa54a5ab894ff63 2023-10-20T15:29:32,719 Stored in directory: /tmp/pip-ephem-wheel-cache-nrpme7b4/wheels/28/78/9c/dd2181f4e48ae2b14b1efc1a68de0a552386a353449fb43da6 2023-10-20T15:29:32,732 Successfully built pybiotk 2023-10-20T15:29:32,756 Removed build tracker: '/tmp/pip-build-tracker-h345o32n'