Hi Joshua, You may be able to trick Galaxy into using existing versions of OS X eggs, they are built for both 32 and 64-bit Intel, but should work fine with a single-arch build. If the attached patch works, let me know and I'll commit it.
If you'd rather not mess with the Galaxy source, you should be able to build the missing eggs using `python ./scripts/scramble.py -e <egg_package_name>`. Usually, the fetch_eggs.py script will inform you of this - is it not doing so in your case? --nate On Mon, Mar 24, 2014 at 9:54 PM, Joshua Udall <jaud...@gmail.com> wrote: > For various reasons, I installed a Homebrew of python instead of the > system version on OSX 10.9.2. > > Now, when galaxy initializes, it isn't looking in the right location for > eggs (or they aren't placed in the right spot on my system). I was able to > manually install several of the eggs and the galaxy startup would move to > the next egg until here. > > Some eggs are out of date, attempting to fetch... > Warning: MarkupSafe (a dependent egg of WebHelpers) cannot be fetched > Traceback (most recent call last): > File "./scripts/fetch_eggs.py", line 37, in <module> > c.resolve() # Only fetch eggs required by the config > File "/Users/galaxy/galaxy-old3/lib/galaxy/eggs/__init__.py", line 345, > in resolve > egg.resolve() > File "/Users/galaxy/galaxy-old3/lib/galaxy/eggs/__init__.py", line 195, > in resolve > return self.version_conflict( e.args, e.args ) > File "/Users/galaxy/galaxy-old3/lib/galaxy/eggs/__init__.py", line 226, > in version_conflict > r = pkg_resources.working_set.resolve( ( dist.as_requirement(), ), > env, egg.fetch ) > File "build/bdist.macosx-10.9-x86_64/egg/pkg_resources.py", line 588, in > resolve > The `plugin_env` should be an ``Environment`` instance that contains > pkg_resources.DistributionNotFound: numpy==1.6.0 > Fetch failed. > > > I know numpy, WebHelpers, MarkupSafe are installed and they are current > (maybe too current?) ... what would be a good way to resolve the conflict? > > The manual download below fails on a dozen packages or so. > > sudo python ./scripts/make_egg_packager.py py2.7-macosx-10.9-x86_64-ucs2 > Using Python interpreter at > /usr/local/Cellar/python/2.7.6/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python, > Version 2.7.6 (default, Mar 24 2014, 14:39:40) > [GCC 4.2.1 Compatible Apple LLVM 5.1 (clang-503.0.38)] > This platform is 'py2.7-macosx-10.9-x86_64-ucs2' > Override with: > make_egg_packager.py <forced-platform> > Completed packager is 'egg_packager-py2.7-macosx-10.9-x86_64-ucs2.py'. To > fetch eggs, please copy this file to a system with internet access and run > with: > python egg_packager-py2.7-macosx-10.9-x86_64-ucs2.py > > -- > Joshua Udall > Assistant Professor > 295 WIDB > Plant and Wildlife Science Dept. > Brigham Young University > Provo, UT 84602 > 801-422-9307 > Fax: 801-422-0008 > USA > > ___________________________________________________________ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > http://lists.bx.psu.edu/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ >
Description: Binary data
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/