Running Galaxy under a python virtualenv created with the --no-site-packages flag will prevent any pollution from local packages.
eg see http://wiki.pylonshq.com/display/pylonscookbook/Using+a+Virtualenv+Sandbox Galaxy will then run using its own distributed eggs without any conflicts. On Tue, Sep 20, 2011 at 5:51 PM, Sebastian Bauer <sebastian.ba...@charite.de> wrote: > Hi, > > we want to setup a local installation of Galaxy. It seems that Galaxy > doesn't like the fact that we already have a different version of numpy > installed. When following the installation instructions, we get following > error messages: > >> Traceback (most recent call last): >> File "./scripts/fetch_eggs.py", line 30, in <module> >> c.resolve() # Only fetch eggs required by the config >> File "/home/galaxy/galaxy-new/galaxy-dist/lib/galaxy/eggs/__init__.py", >> line 345, in resolve >> egg.resolve() >> File "/home/galaxy/galaxy-new/galaxy-dist/lib/galaxy/eggs/__init__.py", >> line 195, in resolve >> return self.version_conflict( e.args[0], e.args[1] ) >> File "/home/galaxy/galaxy-new/galaxy-dist/lib/galaxy/eggs/__init__.py", >> line 226, in version_conflict >> r = pkg_resources.working_set.resolve( ( dist.as_requirement(), ), env, >> egg.fetch ) >> File "/usr/lib/python2.6/dist-packages/pkg_resources.py", line 552, in >> resolve >> raise DistributionNotFound(req) >> pkg_resources.DistributionNotFound: numpy==1.6.0 > > Note that we are using Debian and have already numpy 1.4.1 installed. How > can we solve this problem without deinstalling numpy 1.4.1 (due to other > dependencies)? > > Thanks in advance! > > Best, > Sebastian > ___________________________________________________________ > 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/ > -- Ross Lazarus MBBS MPH; Associate Professor, Harvard Medical School; Director of Bioinformatics, Channing Lab; Tel: +1 617 505 4850; Head, Medical Bioinformatics, BakerIDI; Tel: +61 385321444; ___________________________________________________________ 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/
