hi Greg,

I don't have that setting in my universe. Should I just add it? The output of hg summary is (hg incoming doesn't show any available updates):


parent: 12276:dc067a95261d tip
 Added tag release_2014.02.10 for changeset 5e605ed6069f
branch: stable
commit: 22 modified, 1 deleted, 127 unknown
update: (current)

I currently have 125 packages from toolsheds. Is that considered to be "many"? Most of them are the migrated tools and the devteam mappers/gatk/tophat stuff.

Geert



On 03/25/2014 05:16 PM, Greg Von Kuster wrote:
Hello Geert,

Do you have a lot of repositories installed from the Tool Shed into you Galaxy instance? if so, the time you're experience may be due to loading the in-memory installed repository registry. Using this registry is optional, but the default configuration setting is to use it. You can set the following to entry to False in your universe_wsgi.ini file and restart your Galaxy server to see if that is the problem. This registry is not currently used by anythin except to display the set of dependent repositories that will be affected if a repository is uninstalled. If this is ot what is causing the slow statup, then I'm not sure where else to look.

# Enable use of an in-memory registry with bi-directional relationships
# between repositories (i.e., in addition to lists of dependencies for a
# repository, keep an in-memory registry of dependent items for each repository.
#manage_dependency_relationships = True

Greg Von Kuster


On Mar 25, 2014, at 11:08 AM, Geert Vandeweyer <geert.vandewey...@uantwerpen.be <mailto:geert.vandewey...@uantwerpen.be>> wrote:


Dear all,

I'm wondering if the following behaviour is normal. Since I reinstalled the latest galaxy distribution, every restart hangs/loads for up to 10 minutes at the following lines:

galaxy.model.migrate.check INFO 2014-03-25 15:56:57,965 At database version 118 tool_shed.galaxy_install.migrate.check INFO 2014-03-25 15:56:58,477 At migrate_tools version 9 galaxy.config INFO 2014-03-25 15:56:58,694 Install database targetting Galaxy's database configuration.


After several minutes of no heavy processing (cpu/database is almost idle), the startup continues.

Best,

Geert

--

Geert Vandeweyer, Ph.D.
Department of Medical Genetics
University of Antwerp
Prins Boudewijnlaan 43
2650 Edegem
Belgium
Tel: +32 (0)3 275 97 56
E-mail: geert.vandewe...@ua.ac.be <mailto:geert.vandewe...@ua.ac.be>
http://ua.ac.be/cognitivegenetics
http://www.linkedin.com/in/geertvandeweyer

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--

Geert Vandeweyer, Ph.D.
Department of Medical Genetics
University of Antwerp
Prins Boudewijnlaan 43
2650 Edegem
Belgium
Tel: +32 (0)3 275 97 56
E-mail: geert.vandewe...@ua.ac.be
http://ua.ac.be/cognitivegenetics
http://www.linkedin.com/in/geertvandeweyer

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