On Thu, Nov 21, 2013 at 10:10 PM, Dr. César Rodríguez Sánchez CESAR.RODRIGUEZSANCHEZ@ucr.ac.cr wrote:
Dear Nate, I am trying to install galaxy on a different computer. This time it does not run because of the following:
Traceback (most recent call last): File "./scripts/paster.py", line 33, in <module> serve.run() File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/serve.py", line 1049, in run File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/serve.py", line 1055, in invoke File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/serve.py", line 220, in run File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/serve.py", line 643, in command File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/loadwsgi.py", line 350, in loadapp File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/loadwsgi.py", line 374, in loadobj File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/loadwsgi.py", line 399, in loadcontext File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/loadwsgi.py", line 423, in _loadconfig File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/loadwsgi.py", line 561, in get_context File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/loadwsgi.py", line 620, in _context_from_explicit File "/Users/rodriguez/galaxy-dist/lib/galaxy/util/pastescript/loadwsgi.py", line 125, in import_string File "/Users/rodriguez/galaxy-dist/lib/pkg_resources.py", line 1954, in load entry = __import__(self.module_name, globals(),globals(), ['__name__']) File "/Users/rodriguez/galaxy-dist/lib/galaxy/web/__init__.py", line 4, in
<module> File "/Users/rodriguez/galaxy-dist/lib/galaxy/web/framework/__init__.py", line 40, in <module> File "/Users/rodriguez/galaxy-dist/eggs/Babel-0.9.4-py2.6.egg/babel/support.py", line 29, in <module> File "/Users/rodriguez/galaxy-dist/eggs/Babel-0.9.4-py2.6.egg/babel/dates.py", line 34, in <module> File "/Users/rodriguez/galaxy-dist/eggs/Babel-0.9.4-py2.6.egg/babel/core.py", line 642, in default_locale File "/Users/rodriguez/galaxy-dist/eggs/Babel-0.9.4-py2.6.egg/babel/core.py", line 763, in parse_locale ValueError: expected only letters, got 'utf-8'
How can I solve this locale issue?
Hi Cesar,
Sorry I didn't get back to you earlier. If you haven't yet discovered the solution, this is occurring because of a bug in the version of the Babel library Galaxy is using. To work around this, set the environment variable `LC_ALL` to a valid locale, e.g. 'en_US.UTF-8' or 'C', before starting Galaxy:
% export LC_ALL='en_US.UTF-8' % sh run.sh
--nate
Thanks Cesar De: Nate Coraor nate@bx.psu.edu Fecha: miércoles 20 de noviembre de 2013 08:12 Para: César Rodríguez Sánchez cesar.rodriguezsanchez@ucr.ac.cr CC: galaxy-dev@bx.psu.edu Asunto: Re: [galaxy-dev] Local installation problem
Hi Cesar,
The easiest way to avoid module version conflicts is to use virtualenv to set up a self-contained environment:
http://wiki.galaxyproject.org/Admin/Config/Performance/ProductionServer#Use_...
--nate
On Tue, Nov 19, 2013 at 4:02 PM, Cesar Rodriguez CESAR.RODRIGUEZSANCHEZ@ucr.ac.cr wrote:
Hi there, I am trying to install Galaxy locally on my Mac OSX 10.9, python 2.7. Nonetheless, when I run it, it says that some eggs are out of date. I have fetched them, but the following message appears:
Mac-Pro-Cesar-Rodriguez:scripts Rodriguez$ python fetch_eggs.py
Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched
Warning: pycrypto (a dependent egg of Fabric) cannot be fetched
Fetched http://eggs.galaxyproject.org/paramiko/paramiko-1.11.1-py2.7.egg
One of Galaxy's managed eggs depends on something which is missing, this is almost certainly a bug in the egg distribution.
Dependency "paramiko" requires "pycrypto>=2.1,!=2.4"
Traceback (most recent call last):
File "fetch_eggs.py", line 37, in <module>
c.resolve() # Only fetch eggs required by the configFile "/Users/Rodriguez/galaxy-dist/lib/galaxy/eggs/__init__.py", line 345, in resolve
egg.resolve()File "/Users/Rodriguez/galaxy-dist/lib/galaxy/eggs/__init__.py", line 168, in resolve
dists = pkg_resources.working_set.resolve( (self.distribution.as_requirement(), ), env, self.fetch )
File "/Users/Rodriguez/galaxy-dist/lib/pkg_resources.py", line 569, in resolve
raise VersionConflict(dist,req) # XXX put more info herepkg_resources.VersionConflict: (paramiko 1.11.1 (/Users/Rodriguez/galaxy-dist/eggs/paramiko-1.11.1-py2.7.egg), Requirement.parse('pycrypto>=2.1,!=2.4’))
What should I do to fix this?
Thank you so much for your help.
Cesar
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