2023-09-10T15:18:03,033 Created temporary directory: /tmp/pip-build-tracker-jk496sw7 2023-09-10T15:18:03,035 Initialized build tracking at /tmp/pip-build-tracker-jk496sw7 2023-09-10T15:18:03,035 Created build tracker: /tmp/pip-build-tracker-jk496sw7 2023-09-10T15:18:03,036 Entered build tracker: /tmp/pip-build-tracker-jk496sw7 2023-09-10T15:18:03,036 Created temporary directory: /tmp/pip-wheel-kernhhmh 2023-09-10T15:18:03,039 Created temporary directory: /tmp/pip-ephem-wheel-cache-0ia_pswv 2023-09-10T15:18:03,063 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-10T15:18:03,066 2 location(s) to search for versions of tetoolkit: 2023-09-10T15:18:03,066 * https://pypi.org/simple/tetoolkit/ 2023-09-10T15:18:03,066 * https://www.piwheels.org/simple/tetoolkit/ 2023-09-10T15:18:03,067 Fetching project page and analyzing links: https://pypi.org/simple/tetoolkit/ 2023-09-10T15:18:03,068 Getting page https://pypi.org/simple/tetoolkit/ 2023-09-10T15:18:03,070 Found index url https://pypi.org/simple/ 2023-09-10T15:18:03,285 Fetched page https://pypi.org/simple/tetoolkit/ as application/vnd.pypi.simple.v1+json 2023-09-10T15:18:03,287 Found link https://files.pythonhosted.org/packages/36/8f/0ebbeaf8dc547e108660cf1ff8ae0d8735b1e92dec1df7d6b87f31dbaad5/TEToolkit-1.4.11.tar.gz (from https://pypi.org/simple/tetoolkit/), version: 1.4.11 2023-09-10T15:18:03,288 Found link https://files.pythonhosted.org/packages/6d/a7/3124624726ec038725cf4742cf02196937a551a58123e072b6daa9cc28de/TEToolkit-1.5.0.tar.gz (from https://pypi.org/simple/tetoolkit/), version: 1.5.0 2023-09-10T15:18:03,289 Found link https://files.pythonhosted.org/packages/3c/a2/b8fc869e59439d3f7523adb6d0caf4ba0f58b002ec72148518dc927042d0/TEToolkit-1.5.1.tar.gz (from https://pypi.org/simple/tetoolkit/), version: 1.5.1 2023-09-10T15:18:03,289 Found link https://files.pythonhosted.org/packages/c9/37/1472047b4855b7ec481fa6b489143c6baebe952f19b8eded1f21b652fddc/TEToolkit-2.0.0.tar.gz (from https://pypi.org/simple/tetoolkit/), version: 2.0.0 2023-09-10T15:18:03,290 Found link https://files.pythonhosted.org/packages/ad/8f/c3c458788ed3d37bb7d78e7e5ae665d77223a211303b136bd040dd8ea91f/TEToolkit-2.0.1.tar.gz (from https://pypi.org/simple/tetoolkit/), version: 2.0.1 2023-09-10T15:18:03,290 Found link https://files.pythonhosted.org/packages/c7/a8/11dcbb017659c63cd46730b9237a58e8630955c1435c284306e3271634ca/TEToolkit-2.0.2.tar.gz (from https://pypi.org/simple/tetoolkit/), version: 2.0.2 2023-09-10T15:18:03,291 Found link https://files.pythonhosted.org/packages/86/01/5e4de6185a765e5507cf5ba35d49a0877d4321850fe69557842432644097/TEToolkit-2.0.3.tar.gz (from https://pypi.org/simple/tetoolkit/), version: 2.0.3 2023-09-10T15:18:03,292 Fetching project page and analyzing links: https://www.piwheels.org/simple/tetoolkit/ 2023-09-10T15:18:03,293 Getting page https://www.piwheels.org/simple/tetoolkit/ 2023-09-10T15:18:03,294 Found index url https://www.piwheels.org/simple/ 2023-09-10T15:18:04,490 Fetched page https://www.piwheels.org/simple/tetoolkit/ as text/html 2023-09-10T15:18:04,497 Skipping link: No binaries permitted for tetoolkit: https://www.piwheels.org/simple/tetoolkit/TEToolkit-1.4.11-py3-none-any.whl#sha256=03950fd4b94505bdb9c83a106ed04b7759ca6f26cbc7e0c43b12dca301cf8d10 (from https://www.piwheels.org/simple/tetoolkit/) 2023-09-10T15:18:04,498 Skipping link: No binaries permitted for tetoolkit: https://www.piwheels.org/simple/tetoolkit/TEToolkit-1.5.0-py3-none-any.whl#sha256=78d587b14488594fccf7ebb2afd9e6e298d871ebfc31bc908f64f35bfb92f440 (from https://www.piwheels.org/simple/tetoolkit/) 2023-09-10T15:18:04,499 Skipping link: No binaries permitted for tetoolkit: https://www.piwheels.org/simple/tetoolkit/TEToolkit-1.5.1-py3-none-any.whl#sha256=af8dc2262380692a37465f97ccb1f8bdbfaa60c97ce27615a24b046c4fd60310 (from https://www.piwheels.org/simple/tetoolkit/) 2023-09-10T15:18:04,500 Skipping link: No binaries permitted for tetoolkit: https://www.piwheels.org/simple/tetoolkit/TEToolkit-2.0.1-py3-none-any.whl#sha256=9a6623cfc76662e1d74ea7c7855285f5cd76caa7920c55a7705a4c9a68703907 (from https://www.piwheels.org/simple/tetoolkit/) 2023-09-10T15:18:04,501 Skipping link: No binaries permitted for tetoolkit: https://www.piwheels.org/simple/tetoolkit/TEToolkit-2.0.2-py3-none-any.whl#sha256=daa5f3029aea4a4271f53a76c8b66740e6e43770053d1ef2b30bc5dd5750651a (from https://www.piwheels.org/simple/tetoolkit/) 2023-09-10T15:18:04,503 Skipping link: No binaries permitted for tetoolkit: https://www.piwheels.org/simple/tetoolkit/TEToolkit-2.0.3-py3-none-any.whl#sha256=84f13083363e3078f8e21236ea8f1df0992447f4644b10d298d7fa11039d4a9a (from https://www.piwheels.org/simple/tetoolkit/) 2023-09-10T15:18:04,504 Skipping link: not a file: https://www.piwheels.org/simple/tetoolkit/ 2023-09-10T15:18:04,504 Skipping link: not a file: https://pypi.org/simple/tetoolkit/ 2023-09-10T15:18:04,546 Given no hashes to check 1 links for project 'tetoolkit': discarding no candidates 2023-09-10T15:18:04,565 Collecting tetoolkit==2.0.0 2023-09-10T15:18:04,567 Created temporary directory: /tmp/pip-unpack-lcjz7itl 2023-09-10T15:18:04,852 Downloading TEToolkit-2.0.0.tar.gz (84 kB) 2023-09-10T15:18:04,990 Added tetoolkit==2.0.0 from https://files.pythonhosted.org/packages/c9/37/1472047b4855b7ec481fa6b489143c6baebe952f19b8eded1f21b652fddc/TEToolkit-2.0.0.tar.gz to build tracker '/tmp/pip-build-tracker-jk496sw7' 2023-09-10T15:18:04,991 Running setup.py (path:/tmp/pip-wheel-kernhhmh/tetoolkit_9bf794c136854c9b9f6f75d74eef5405/setup.py) egg_info for package tetoolkit 2023-09-10T15:18:04,992 Created temporary directory: /tmp/pip-pip-egg-info-8vlvnvuv 2023-09-10T15:18:04,993 Preparing metadata (setup.py): started 2023-09-10T15:18:04,994 Running command python setup.py egg_info 2023-09-10T15:18:06,242 running egg_info 2023-09-10T15:18:06,243 creating /tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info 2023-09-10T15:18:06,267 writing /tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info/PKG-INFO 2023-09-10T15:18:06,271 writing dependency_links to /tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info/dependency_links.txt 2023-09-10T15:18:06,273 writing requirements to /tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info/requires.txt 2023-09-10T15:18:06,274 writing top-level names to /tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info/top_level.txt 2023-09-10T15:18:06,275 writing manifest file '/tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info/SOURCES.txt' 2023-09-10T15:18:06,376 reading manifest file '/tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info/SOURCES.txt' 2023-09-10T15:18:06,378 reading manifest template 'MANIFEST.in' 2023-09-10T15:18:06,380 adding license file 'COPYING' 2023-09-10T15:18:06,382 writing manifest file '/tmp/pip-pip-egg-info-8vlvnvuv/TEToolkit.egg-info/SOURCES.txt' 2023-09-10T15:18:06,488 Preparing metadata (setup.py): finished with status 'done' 2023-09-10T15:18:06,493 Source in /tmp/pip-wheel-kernhhmh/tetoolkit_9bf794c136854c9b9f6f75d74eef5405 has version 2.0.0, which satisfies requirement tetoolkit==2.0.0 from https://files.pythonhosted.org/packages/c9/37/1472047b4855b7ec481fa6b489143c6baebe952f19b8eded1f21b652fddc/TEToolkit-2.0.0.tar.gz 2023-09-10T15:18:06,494 Removed tetoolkit==2.0.0 from https://files.pythonhosted.org/packages/c9/37/1472047b4855b7ec481fa6b489143c6baebe952f19b8eded1f21b652fddc/TEToolkit-2.0.0.tar.gz from build tracker '/tmp/pip-build-tracker-jk496sw7' 2023-09-10T15:18:06,500 Created temporary directory: /tmp/pip-unpack-mp05t_z1 2023-09-10T15:18:06,501 Created temporary directory: /tmp/pip-unpack-h405ojqj 2023-09-10T15:18:06,507 Building wheels for collected packages: tetoolkit 2023-09-10T15:18:06,511 Created temporary directory: /tmp/pip-wheel-a18a66sh 2023-09-10T15:18:06,512 Building wheel for tetoolkit (setup.py): started 2023-09-10T15:18:06,513 Destination directory: /tmp/pip-wheel-a18a66sh 2023-09-10T15:18:06,514 Running command python setup.py bdist_wheel 2023-09-10T15:18:07,705 running bdist_wheel 2023-09-10T15:18:07,798 running build 2023-09-10T15:18:07,799 running build_py 2023-09-10T15:18:07,825 creating build 2023-09-10T15:18:07,826 creating build/lib 2023-09-10T15:18:07,827 creating build/lib/TEToolkit 2023-09-10T15:18:07,828 copying TEToolkit/TEindex.py -> build/lib/TEToolkit 2023-09-10T15:18:07,831 copying TEToolkit/GeneFeatures.py -> build/lib/TEToolkit 2023-09-10T15:18:07,833 copying TEToolkit/Normalization.py -> build/lib/TEToolkit 2023-09-10T15:18:07,835 copying TEToolkit/IntervalTree.py -> build/lib/TEToolkit 2023-09-10T15:18:07,837 copying TEToolkit/Constants.py -> build/lib/TEToolkit 2023-09-10T15:18:07,839 copying TEToolkit/Prob.py -> build/lib/TEToolkit 2023-09-10T15:18:07,842 copying TEToolkit/__init__.py -> build/lib/TEToolkit 2023-09-10T15:18:07,843 copying TEToolkit/Common.py -> build/lib/TEToolkit 2023-09-10T15:18:07,845 copying TEToolkit/EMAlgorithm.py -> build/lib/TEToolkit 2023-09-10T15:18:07,847 creating build/lib/TEToolkit/IO 2023-09-10T15:18:07,848 copying TEToolkit/IO/FeatIO.py -> build/lib/TEToolkit/IO 2023-09-10T15:18:07,851 copying TEToolkit/IO/__init__.py -> build/lib/TEToolkit/IO 2023-09-10T15:18:07,853 copying TEToolkit/IO/ReadInputs.py -> build/lib/TEToolkit/IO 2023-09-10T15:18:07,856 creating build/lib/TEToolkit/ShortRead 2023-09-10T15:18:07,857 copying TEToolkit/ShortRead/ParseBEDFile.py -> build/lib/TEToolkit/ShortRead 2023-09-10T15:18:07,859 copying TEToolkit/ShortRead/__init__.py -> build/lib/TEToolkit/ShortRead 2023-09-10T15:18:07,860 running egg_info 2023-09-10T15:18:07,917 writing TEToolkit.egg-info/PKG-INFO 2023-09-10T15:18:07,920 writing dependency_links to TEToolkit.egg-info/dependency_links.txt 2023-09-10T15:18:07,922 writing requirements to TEToolkit.egg-info/requires.txt 2023-09-10T15:18:07,923 writing top-level names to TEToolkit.egg-info/top_level.txt 2023-09-10T15:18:07,950 reading manifest file 'TEToolkit.egg-info/SOURCES.txt' 2023-09-10T15:18:07,953 reading manifest template 'MANIFEST.in' 2023-09-10T15:18:07,954 adding license file 'COPYING' 2023-09-10T15:18:07,957 writing manifest file 'TEToolkit.egg-info/SOURCES.txt' 2023-09-10T15:18:07,959 copying TEToolkit/IO/FeatIO.pyc -> build/lib/TEToolkit/IO 2023-09-10T15:18:07,963 copying TEToolkit/IO/ReadInputs.pyc -> build/lib/TEToolkit/IO 2023-09-10T15:18:07,965 copying TEToolkit/IO/__init__.pyc -> build/lib/TEToolkit/IO 2023-09-10T15:18:07,967 copying TEToolkit/ShortRead/ParseBEDFile.pyc -> build/lib/TEToolkit/ShortRead 2023-09-10T15:18:07,970 copying TEToolkit/ShortRead/__init__.pyc -> build/lib/TEToolkit/ShortRead 2023-09-10T15:18:07,974 running build_scripts 2023-09-10T15:18:07,974 creating build/scripts-3.11 2023-09-10T15:18:07,975 error: [Errno 2] No such file or directory: 'bin/TEtranscriptsbin/TEcount' 2023-09-10T15:18:08,082 ERROR: [present-rich] python setup.py bdist_wheel exited with 1 2023-09-10T15:18:08,095 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2023-09-10T15:18:08,095 exec(compile('"'"''"'"''"'"' 2023-09-10T15:18:08,095 # This is -- a caller that pip uses to run setup.py 2023-09-10T15:18:08,095 # 2023-09-10T15:18:08,095 # - It imports setuptools before invoking setup.py, to enable projects that directly 2023-09-10T15:18:08,095 # import from `distutils.core` to work with newer packaging standards. 2023-09-10T15:18:08,095 # - It provides a clear error message when setuptools is not installed. 2023-09-10T15:18:08,095 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2023-09-10T15:18:08,095 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2023-09-10T15:18:08,095 # manifest_maker: standard file '"'"'-c'"'"' not found". 2023-09-10T15:18:08,095 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2023-09-10T15:18:08,095 import os, sys, tokenize 2023-09-10T15:18:08,095 2023-09-10T15:18:08,095 try: 2023-09-10T15:18:08,095 import setuptools 2023-09-10T15:18:08,095 except ImportError as error: 2023-09-10T15:18:08,095 print( 2023-09-10T15:18:08,095 "ERROR: Can not execute `setup.py` since setuptools is not available in " 2023-09-10T15:18:08,095 "the build environment.", 2023-09-10T15:18:08,095 file=sys.stderr, 2023-09-10T15:18:08,095 ) 2023-09-10T15:18:08,095 sys.exit(1) 2023-09-10T15:18:08,095 2023-09-10T15:18:08,095 __file__ = %r 2023-09-10T15:18:08,095 sys.argv[0] = __file__ 2023-09-10T15:18:08,095 2023-09-10T15:18:08,095 if os.path.exists(__file__): 2023-09-10T15:18:08,095 filename = __file__ 2023-09-10T15:18:08,095 with tokenize.open(__file__) as f: 2023-09-10T15:18:08,095 setup_py_code = f.read() 2023-09-10T15:18:08,095 else: 2023-09-10T15:18:08,095 filename = "" 2023-09-10T15:18:08,095 setup_py_code = "from setuptools import setup; setup()" 2023-09-10T15:18:08,095 2023-09-10T15:18:08,095 exec(compile(setup_py_code, filename, "exec")) 2023-09-10T15:18:08,095 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-kernhhmh/tetoolkit_9bf794c136854c9b9f6f75d74eef5405/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-a18a66sh[/] 2023-09-10T15:18:08,096 [bold magenta]cwd[/]: /tmp/pip-wheel-kernhhmh/tetoolkit_9bf794c136854c9b9f6f75d74eef5405/ 2023-09-10T15:18:08,097 Building wheel for tetoolkit (setup.py): finished with status 'error' 2023-09-10T15:18:08,098 ERROR: Failed building wheel for tetoolkit 2023-09-10T15:18:08,099 Running setup.py clean for tetoolkit 2023-09-10T15:18:08,100 Running command python setup.py clean 2023-09-10T15:18:09,083 running clean 2023-09-10T15:18:09,129 removing 'build/lib' (and everything under it) 2023-09-10T15:18:09,136 'build/bdist.linux-armv7l' does not exist -- can't clean it 2023-09-10T15:18:09,136 removing 'build/scripts-3.11' (and everything under it) 2023-09-10T15:18:09,137 removing 'build' 2023-09-10T15:18:09,242 Failed to build tetoolkit 2023-09-10T15:18:09,243 ERROR: Failed to build one or more wheels 2023-09-10T15:18:09,245 Exception information: 2023-09-10T15:18:09,245 Traceback (most recent call last): 2023-09-10T15:18:09,245 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 180, in exc_logging_wrapper 2023-09-10T15:18:09,245 status = run_func(*args) 2023-09-10T15:18:09,245 ^^^^^^^^^^^^^^^ 2023-09-10T15:18:09,245 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 248, in wrapper 2023-09-10T15:18:09,245 return func(self, options, args) 2023-09-10T15:18:09,245 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-10T15:18:09,245 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 181, in run 2023-09-10T15:18:09,245 raise CommandError("Failed to build one or more wheels") 2023-09-10T15:18:09,245 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2023-09-10T15:18:09,248 Removed build tracker: '/tmp/pip-build-tracker-jk496sw7'