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havakv / pycox

Survival analysis with PyTorch
BSD 2-Clause "Simplified" License
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[Installation] python setup.py egg_info did not run successfully #179

Open Taha-Bahadori opened 2 months ago

Taha-Bahadori commented 2 months ago

I am trying to install pycox via pip:

$ pip3 install pycox                                                                                                                                    
Defaulting to user installation because normal site-packages is not writeable                                                                                                                         
Collecting pycox                                                                                                                                                                                      
  Using cached pycox-0.2.3-py3-none-any.whl.metadata (1.5 kB)                                                                                                                                         
Collecting torchtuples>=0.2.0 (from pycox)                                                                                                                                                            
  Using cached torchtuples-0.2.2-py3-none-any.whl.metadata (3.8 kB)                                                                                                                                   
Collecting feather-format>=0.4.0 (from pycox)                                                                                                                                                         
  Using cached feather-format-0.4.1.tar.gz (3.2 kB)                                                                                                                                                   
  Preparing metadata (setup.py) ... error                                                                                                                                                             
  error: subprocess-exited-with-error                                                                                                                                                                 

  × python setup.py egg_info did not run successfully.                                                                                                                                                
  │ exit code: 1                                                                                                                                                                                      
  ╰─> [47 lines of output]                                                                                                                                                                            
      running egg_info                                                                                                                                                                                
      creating /tmp/pip-pip-egg-info-yfr_qufy/feather_format.egg-info                                                                                                                                 
      writing /tmp/pip-pip-egg-info-yfr_qufy/feather_format.egg-info/PKG-INFO                                                                                                                         
      writing dependency_links to /tmp/pip-pip-egg-info-yfr_qufy/feather_format.egg-info/dependency_links.txt
      writing requirements to /tmp/pip-pip-egg-info-yfr_qufy/feather_format.egg-info/requires.txt
      writing top-level names to /tmp/pip-pip-egg-info-yfr_qufy/feather_format.egg-info/top_level.txt
      writing manifest file '/tmp/pip-pip-egg-info-yfr_qufy/feather_format.egg-info/SOURCES.txt'
      reading manifest file '/tmp/pip-pip-egg-info-yfr_qufy/feather_format.egg-info/SOURCES.txt'
      reading manifest template 'MANIFEST.in'
      warning: no files found matching '../LICENSE.txt'
      warning: no directories found matching 'src'
      warning: no previously-included files matching '*.so' found anywhere in distribution
      warning: no previously-included files matching '*.pyc' found anywhere in distribution
      warning: no previously-included files matching '*~' found anywhere in distribution
      warning: no previously-included files matching '#*' found anywhere in distribution
      warning: no previously-included files matching '.git*' found anywhere in distribution
      warning: no previously-included files matching '.DS_Store' found anywhere in distribution
      Traceback (most recent call last):
        File "<string>", line 2, in <module>
        File "<pip-setuptools-caller>", line 34, in <module>
        File "/tmp/pip-install-o0doxadx/feather-format_f265bea1dd4c4496b775da30da5ca70c/setup.py", line 66, in <module>
          setup(
        File "/usr/local/lib/python3.10/dist-packages/setuptools/__init__.py", line 108, in setup
          return distutils.core.setup(**attrs)
        File "/usr/local/lib/python3.10/dist-packages/setuptools/_distutils/core.py", line 184, in setup
          return run_commands(dist)
        File "/usr/local/lib/python3.10/dist-packages/setuptools/_distutils/core.py", line 200, in run_commands
          dist.run_commands()
        File "/usr/local/lib/python3.10/dist-packages/setuptools/_distutils/dist.py", line 970, in run_commands
          self.run_command(cmd)
        File "/usr/local/lib/python3.10/dist-packages/setuptools/dist.py", line 945, in run_command 
          super().run_command(command)
        File "/usr/local/lib/python3.10/dist-packages/setuptools/_distutils/dist.py", line 989, in run_command
          cmd_obj.run()
        File "/usr/local/lib/python3.10/dist-packages/setuptools/command/egg_info.py", line 310, in run
          self.find_sources()
        File "/usr/local/lib/python3.10/dist-packages/setuptools/command/egg_info.py", line 318, in find_sources
          mm.run()
        File "/usr/local/lib/python3.10/dist-packages/setuptools/command/egg_info.py", line 544, in run
          self.prune_file_list()
        File "/usr/local/lib/python3.10/dist-packages/setuptools/command/egg_info.py", line 610, in prune_file_list
          base_dir = self.distribution.get_fullname()
        File "/usr/local/lib/python3.10/dist-packages/setuptools/_core_metadata.py", line 266, in get_fullname
          return _distribution_fullname(self.get_name(), self.get_version())
        File "/usr/local/lib/python3.10/dist-packages/setuptools/_core_metadata.py", line 284, in _distribution_fullname
          canonicalize_version(version, strip_trailing_zero=False),
      TypeError: canonicalize_version() got an unexpected keyword argument 'strip_trailing_zero'
      [end of output]

  note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed

× Encountered error while generating package metadata.
╰─> See above for output.

note: This is an issue with the package mentioned above, not pip.

The system info is:

Python 3.10.12 (main, Jul 29 2024, 16:56:48) [GCC 11.4.0] on linux
Ubuntu 22.04.4 LTS

Can you help me resolve this issue?

Taha-Bahadori commented 2 months ago

It seems that the problem is with feather_format package, which is now a part of pyarrow.