[Biopython-dev] [Biopython (old issues only) - Bug #3384] (Closed) Installation fails with pip-3.2

redmine at redmine.open-bio.org redmine at redmine.open-bio.org
Fri Jul 22 15:52:16 UTC 2016

Issue #3384 has been updated by Peter Cock.

Status changed from New to Closed
% Done changed from 0 to 100

"pip install biopython" seems to be working nowadays, belatedly closing this issue.

Bug #3384: Installation fails with pip-3.2

* Author: Roy Crihfield
* Status: Closed
* Priority: Normal
* Assignee: Biopython Dev Mailing List
* Category: Main Distribution
* Target version: 
* URL: 
Linux 3.5.3-1-ARCH x86_64 GNU/Linux
Python 3.2.3
Bio.__version__ == '1.60'

Installation fails with with pip 1.2:

$ sudo pip-3.2 install biopython


Converting build/py3.2/Doc/examples/fasta_dictionary.py

Converting build/py3.2/Doc/examples/nmr/simplepredict.py

Python 2to3 processing done.

running egg_info

error: error in 'egg_base' option: 'pip-egg-info' does not exist or is not a directory


Command python setup.py egg_info failed with error code 1 in /tmp/pip-build/biopython

Exception information:
Traceback (most recent call last):
  File "/usr/lib/python3.2/site-packages/pip-1.2-py3.2.egg/pip/basecommand.py", line 106, in main
    status = self.run(options, args)
  File "/usr/lib/python3.2/site-packages/pip-1.2-py3.2.egg/pip/commands/install.py", line 256, in run
    requirement_set.prepare_files(finder, force_root_egg_info=self.bundle, bundle=self.bundle)
  File "/usr/lib/python3.2/site-packages/pip-1.2-py3.2.egg/pip/req.py", line 1042, in prepare_files
  File "/usr/lib/python3.2/site-packages/pip-1.2-py3.2.egg/pip/req.py", line 236, in run_egg_info
    command_desc='python setup.py egg_info')
  File "/usr/lib/python3.2/site-packages/pip-1.2-py3.2.egg/pip/util.py", line 612, in call_subprocess
    % (command_desc, proc.returncode, cwd))
pip.exceptions.InstallationError: Command python setup.py egg_info failed with error code 1 in /tmp/pip-build/biopython

pip.log (85.9 KB)

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