Hi Eleanor
I was running into the same problem when I did the updates for our servers (from release_2013.11.04 to release_2014.04.14), eg:
... pkg_resources.VersionConflict: (pycrypto 2.0.1 (/usr/lib64/python2.6/site-packages), Requirement.parse('pycrypto>=2.1,!=2.4')) Fetch failed.
I solved it by deleting the contents of ~/galaxy_dist/eggs/ and fetched all eggs again (not just the new/updated ones). This somehow solved the problem, by using the (re-fetched) 'pycrypto' from ~/galaxy_dist/eggs/ instead of the one provided by the system.
Regards, Hans-Rudolf
On 07/17/2014 04:35 AM, Eleanor Morgan wrote:
Hi all,
I am new to galaxy. We have a local install that we intend to turn into a production server at some stage. We initially installed galaxy using the April 2014 version. We set up a Virtual Python Environment following the instructions set out on this page:
https://wiki.galaxyproject.org/Admin/Config/Performance/ProductionServer#Use...
When I updated to the June version of galaxy and tried to start up the server using the recommended shell script placed in /etc/init.d I got the following error message:
Starting galaxy...
Some eggs are out of date, attempting to fetch...
Traceback (most recent call last):
File "./scripts/fetch_eggs.py", line 37, in <module>
c.resolve() # Only fetch eggs required by the configFile "/galaxy/galaxy-dist/lib/galaxy/eggs/__init__.py", line 345, in resolve
egg.resolve()File "/galaxy/galaxy-dist/lib/galaxy/eggs/__init__.py", line 195, in resolve
return self.version_conflict( e.args[0], e.args[1] )File "/galaxy/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/site-packages/pkg_resources.py", line 550, in resolve
raise VersionConflict(dist,req) # XXX put more info herepkg_resources.VersionConflict: (pycrypto 2.0.1 (/usr/lib64/python2.6/site-packages), Requirement.parse('pycrypto>=2.1,!=2.4'))
Fetch failed.
…done.
This error message implies that I need to update pycrypto on our system, but my understanding is that the virtual python environment takes care of these sorts of dependencies. Can someone please advise? Here are two series of commands that I tried to start the system:
First attempt:
sudo bash
/etc/init.d/galaxy stop
su - galaxy
cd /galaxy/galaxy-dist
hg pull
hg update latest_2014.06.02
exit
/etc/init.d/galaxy start
After galaxy start failed I tried:
su – galaxy
cd /galaxy
. ./galaxy_env/bin/activate
cd galaxy_dist
sh run.sh
I also tried reinstalling the virtual environment to no avail.
Regards,
Eleanor
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/