[galaxy-dev] connecting to a DB on a different host

Hi, I am trying to connect my galaxy instance to a DB on a different host. This DB uses an SSL encryption and Auth method md5. I have no problems in connecting to the DB via the command line, but the line (in universe_wsqi.ini) : database_connection =

Re: [galaxy-dev] connecting to a DB on a different host

Hi, Nate, Thanks a lot for the hint : I also had suspicions about the SSL and it seems to be working, well, I mean, failing, as you supposed because of my psycopg2 which was built without SSL. OperationalError: (OperationalError) sslmode value require invalid when SSL support is not

Re: [galaxy-dev] connecting to a DB on a different host

the above details, can I just execute 4? Thank you Nikolay On Mon, 2 May 2011 10:27:41 -0400, Nate Coraor n...@bx.psu.edu wrote: Nikolai Vazov wrote: Hi, Nate, Thanks a lot for the hint : I also had suspicions about the SSL and it seems to be working, well, I mean, failing, as you supposed because

Re: [galaxy-dev] connecting to a DB on a different host

Hi again, The version of the PostgreSQL server I am trying to connect to is actually 8.3. The DB department say they will soon move to 9.0. The psycopg2 version in my eggs.ini for Galaxy is 8.4.2: psycopg2-2.0.13_8.4.2_static-py2.6-linux-x86_64-ucs4.egg Do you think it will work? 3. Find

Re: [galaxy-dev] connecting to a DB on a different host

Hi, Nate, When trying to execute PYTHONPATH=/home/galaxy/galaxy-dist/scripts/scramble/lib python26 setup.py egg_info --tag-build=_8.4.2_static bdist_egg I get Traceback (most recent call last): File setup.py, line 52, in module from scramble_lib import * File

[galaxy-dev] Adding an OpenID provider to Galaxy

Hi, I have been trying to add a new OpenID provider to the Galaxy-hardcoded list of providers. I type in my credentials in the new provider's window, but I got the following error (I am giving here only the last five lines) Module openid.consumer.consumer:413 in complete Module

[galaxy-dev] ID providers other than OpenID

Hi, we work at the University of Oslo, USIT, The Research Computing Service group (Norway). We are preparing a bioinformatics portal using Galaxy and one of the requirements for the University of Oslo production is to implement an authentication called FEIDE. Feide is local (for Norway)

Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

Hi, all, We are in the process of setting up Galaxy as a big university framework for the entire university and world-wide free academic access. We currently have a portal (www.bioportal.uio.no) which is bioinformatics oriented. The Galaxy we are setting up will give access to more than 100

[galaxy-dev] POST and WSGI

Hi, I am trying to set up Galaxy with an IdP. Yet, after the autentication, the SAML data coming via POST method to the WSGI (Galaxy) dissappears. I can only see it in a Firefox add-on, scrolling, but there is no way I can get hold of it in order to validate the users. Any idea how one can

[galaxy-dev] bug in handling sessions

Hi, I have discovered the following weird Galaxy behaviour. If one sets log_actions = True in universe_wsgi.ini and tries to display the Saved Histories, then the Saved histories don't show up. The problem arises from ../lib/galaxy/web/framework/helpers/grids.py line (around 230)

Re: [galaxy-dev] Galaxy dropping jobs?

that would prevent this. --nate On Oct 31, 2013, at 5:27 AM, Nikolai Vazov wrote: Hi, I discovered a weird issue in the job behaviour : Galaxy is running a long job on a cluster (more than 24h), about 15 hours later it misses the connection with SLURM on the cluster and throws the following message