Hi Chris, (1) Galaxy configuration has been moved to /config/galaxy.ini ( https://bitbucket.org/galaxy/galaxy-dist/src/579d211c2b0fa8ef4195930cb999edb... ) (2) There might have been some changes to the conf syntax regarding the dependency directory etc. since the version of universe.wsgi.ini that you are using. So please make sure you are using the current galaxy.ini file and try installing a tool again. If it does not go well please include the log of errors. Let us know how it goes. Thanks Martin On Tue, Oct 7, 2014 at 3:50 PM, Chris Dagdigian <dag@sonsorol.org> wrote:
Hi folks,
Got a strange problem - it's hit me on all my self-install options today including using the Chef cookbook as well as the galaxy mecurial install method on Ubuntu 12.04 LTS
I'm trying to build a local galaxy that supports a few common extra tools (things like samtools etc.)
I can boot a fresh Ubuntu 12.04 LTS and follow the instructions at getgalaxy.org:
hg clone https://bitbucket.org/galaxy/galaxy-dist/ cd galaxy-dist hg update stable sh ./run.sh
There are two strange things that don't quite match what I'm expecting to see from the docs ...
(1) The file "universe_wsgi.ini " no longer gets created in galaxy-dist/ after running "run.sh" for the first time. This is strange because I remember it working days ago but now on fresh server and fresh checkout the file does not get created and I have to manually create one in oder to set "host = 0.0.0.0"
(2) I can't even install simple tools like samtools from the standard tool sheds. The status page gets stuck at "installing dependencies" and if I navigate away I get a browser javascript error ("Initializing repository installation failed"
Any tips or tricks appreciated, thanks!
Regards, Chris
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