Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Simplejson Reimport Error
0
gravatar for Sean Davis
10.1 years ago by
Sean Davis • 220
Sean Davis • 220 wrote:
/home/www/galaxy/lib/galaxy/eggs/__init__.py:529: UserWarning: Module simplejson was already imported from /usr/local/lib64/python2.5/site- packages/simplejson-1.7.1-py2.5.egg/simplejson/__init__.py, but /home/www/galaxy/eggs/py2.5-noplatform/simplejson-1.5-py2.5.egg is being added to sys.path pkg_resources.working_set.require( "%s==%s" % ( name, egg.get_vertag() ) ) I got this when doing Get Data->UCSC table browser->get BED of ucsc known genes; the download failed. It looks like there are some version confusions here. Any suggestions? Sean
galaxy • 1.1k views
ADD COMMENT • link •
modified 10.1 years ago by Nate Coraor ♦ 3.2k • written 10.1 years ago by Sean Davis • 220
0
gravatar for Nate Coraor
10.1 years ago by
Nate Coraor ♦ 3.2k
United States
Nate Coraor ♦ 3.2k wrote:
Hi Sean, This is a bug with the way we handle dependency versions, but for the short term, a simple solution is to remove the conflicting egg (from /usr/local). --nate
ADD COMMENT • link written 10.1 years ago by Nate Coraor ♦ 3.2k
Thanks, Nate. Removing the conflicting egg isn't really an option (the host runs multiple sites), but it is good to know what the problem is. I guess will need to go with a custom python installation for running galaxy. Sean
ADD REPLY • link written 10.1 years ago by Sean Davis • 220
Sean, I've tracked the bug down and pushed a fix to hg. Please update your source and try again. Hopefully you can avoid having to run a custom Python. --nate
ADD REPLY • link written 10.1 years ago by Nate Coraor ♦ 3.2k
Great. Thanks so much for the information and the unbelievably quick fix! Sean
ADD REPLY • link written 10.1 years ago by Sean Davis • 220
I have finally gotten around to trying this--it looks like the error is now gone. Thanks again, Sean
ADD REPLY • link written 10.1 years ago by Sean Davis • 220
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 173 users visited in the last hour