% module load pkgsrc/2014Q3
% module load python/2.7.9
% hg clone
https://bitbucket.org/yt_analysis/ytwarning:
bitbucket.org certificate with fingerprint 46:de:34:e7:9b:18:cd:7f:ae:fd:8b:e3:bc:f4:1a:5e:38:d7:ac:24 not verified (check hostfingerprints or web.cacerts config setting)
destination directory: yt
requesting all changes
adding changesets
adding manifests
adding file changes
added 17568 changesets with 36510 changes to 3053 files (+3 heads)
updating to bookmark @ on branch stable
1209 files updated, 0 files merged, 0 files removed, 0 files unresolved
% cd yt
% hg update yt
317 files updated, 0 files merged, 148 files removed, 0 files unresolved
(leaving bookmark @)
% python setup.py install --user --prefix=/nobackupnfs2/mruszkow
Cython is a build-time requirement for the source tree of yt.
Please either install yt from a provided, release tarball,
or install Cython (version 0.22 or higher).
You may be able to accomplish this by typing:
pip install -U Cython
% pip install -U Cython
Downloading/unpacking Cython from
https://pypi.python.org/packages/source/C/Cython/Cython-0.23.4.tar.gz#md5=157df1f69bcec6b56fd97e0f2e057f6e Downloading Cython-0.23.4.tar.gz (1.6MB): 1.6MB downloaded
Running setup.py (path:/tmp/pip_build_mruszkow/Cython/setup.py) egg_info for package Cython
Unable to find pgen, not compiling formal grammar.
warning: no files found matching '*.pyx' under directory 'Cython/Debugger/Tests'
warning: no files found matching '*.pxd' under directory 'Cython/Debugger/Tests'
warning: no files found matching '*.h' under directory 'Cython/Debugger/Tests'
warning: no files found matching '*.pxd' under directory 'Cython/Utility'
Installing collected packages: Cython
Found existing installation: Cython 0.21.1
Uninstalling Cython:
Cleaning up...
Exception:
Traceback (most recent call last):
File "/nasa/pkgsrc/2014Q4/lib/python2.7/site-packages/pip/basecommand.py", line 122, in main
status = self.run(options, args)
File "/nasa/pkgsrc/2014Q4/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 "/nasa/pkgsrc/2014Q4/lib/python2.7/site-packages/pip/req.py", line 1431, in install
requirement.uninstall(auto_confirm=True)
File "/nasa/pkgsrc/2014Q4/lib/python2.7/site-packages/pip/req.py", line 598, in uninstall
paths_to_remove.remove(auto_confirm)
File "/nasa/pkgsrc/2014Q4/lib/python2.7/site-packages/pip/req.py", line 1836, in remove
renames(path, new_path)
File "/nasa/pkgsrc/2014Q4/lib/python2.7/site-packages/pip/util.py", line 295, in renames
shutil.move(old, new)
File "/nasa/pkgsrc/2014Q4/lib/python2.7/shutil.py", line 300, in move
rmtree(src)
File "/nasa/pkgsrc/2014Q4/lib/python2.7/shutil.py", line 247, in rmtree
rmtree(fullname, ignore_errors, onerror)
File "/nasa/pkgsrc/2014Q4/lib/python2.7/shutil.py", line 252, in rmtree
onerror(os.remove, fullname, sys.exc_info())
File "/nasa/pkgsrc/2014Q4/lib/python2.7/shutil.py", line 250, in rmtree
os.remove(fullname)
OSError: [Errno 30] Read-only file system: '/nasa/pkgsrc/2014Q4/lib/python2.7/site-packages/Cython/Build/BuildExecutable.py'
Storing debug log for failure in /u/mruszkow/.pip/pip.log
%