When installing scipy through pip with :
pip install scipy
Pip fails to build scipy and throws the following error:
Cleaning up...
Command /Users/administrator/dev/KaggleAux/env/bin/python2.7 -c "import setuptools, tokenize;__file__='/Users/administrator/dev/KaggleAux/env/build/scipy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/zl/7698ng4d4nxd49q1845jd9340000gn/T/pip-eO8gua-record/install-record.txt --single-version-externally-managed --compile --install-headers /Users/administrator/dev/KaggleAux/env/bin/../include/site/python2.7 failed with error code 1 in /Users/administrator/dev/KaggleAux/env/build/scipy
Storing debug log for failure in /Users/administrator/.pip/pip.log
How can I get scipy to build successfully? This may be a new issue with OSX Yosemite since I just upgraded and haven't had issues installing scipy before.
Debug log:
Cleaning up...
Removing temporary dir /Users/administrator/dev/KaggleAux/env/build...
Command /Users/administrator/dev/KaggleAux/env/bin/python2.7 -c "import setuptools, tokenize;__file__='/Users/administrator/dev/KaggleAux/env/build/scipy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/zl/7698ng4d4nxd49q1845jd9340000gn/T/pip-eO8gua-record/install-record.txt --single-version-externally-managed --compile --install-headers /Users/administrator/dev/KaggleAux/env/bin/../include/site/python2.7 failed with error code 1 in /Users/administrator/dev/KaggleAux/env/build/scipy
Exception information:
Traceback (most recent call last):
File "/Users/administrator/dev/KaggleAux/env/lib/python2.7/site-packages/pip/basecommand.py", line 122, in main
status = self.run(options, args)
File "/Users/administrator/dev/KaggleAux/env/lib/python2.7/site-packages/pip/commands/install.py", line 283, in run
requirement_set.install(install_options, global_options, root=options.root_path)
File "/Users/administrator/dev/KaggleAux/env/lib/python2.7/site-packages/pip/req.py", line 1435, in install
requirement.install(install_options, global_options, *args, **kwargs)
File "/Users/administrator/dev/KaggleAux/env/lib/python2.7/site-packages/pip/req.py", line 706, in install
cwd=self.source_dir, filter_stdout=self._filter_install, show_stdout=False)
File "/Users/administrator/dev/KaggleAux/env/lib/python2.7/site-packages/pip/util.py", line 697, in call_subprocess
% (command_desc, proc.returncode, cwd))
InstallationError: Command /Users/administrator/dev/KaggleAux/env/bin/python2.7 -c "import setuptools, tokenize;__file__='/Users/administrator/dev/KaggleAux/env/build/scipy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/zl/7698ng4d4nxd49q1845jd9340000gn/T/pip-eO8gua-record/install-record.txt --single-version-externally-managed --compile --install-headers /Users/administrator/dev/KaggleAux/env/bin/../include/site/python2.7 failed with error code 1 in /Users/administrator/dev/KaggleAux/env/build/scipy
Answer
After opening up an issue with the SciPy team, we found that you need to upgrade pip with:
pip install --upgrade pip
And in Python 3 this works:
python3 -m pip install --upgrade pip
for SciPy to install properly. Why? Because:
Older versions of pip have to be told to use wheels, IIRC with --use-wheel. Or you can upgrade pip itself, then it should pick up the wheels.
Upgrading pip solves the issue, but you might be able to just use the --use-wheel flag as well.