I thought the difference may be in the -central config handling that didn’t work with my universe_wsgi anymore or something. Will be hard to trace so I will leave this for now. I'll mail you more about the collections though, probably tomorrow.
cheers, — Jorrit Boekel Proteomics systems developer BILS / Lehtiö lab Scilifelab Stockholm, Sweden
On 15 Jan 2015, at 16:27, John Chilton jmchilton@gmail.com wrote:
On Fri, Jan 9, 2015 at 10:42 AM, Jorrit Boekel jorrit.boekel@scilifelab.se wrote:
Hi all,
I’m testing the latest galaxy-central (rev 15961:63d901ca0e6e) to try out dataset collections. First thing I run into is that things don’t seem to run well when running it on a VM (port forwarded) with nginx. If I click on tools I get a white screen instead of tool options, and the log show an error from lib/galaxy/webapps/galaxy/api/tools.py : Checking parameter file failed.
The setup: URL would be galaxydomain.com:3030, which the VM manager forwards to port 80 on the galaxy VM, which there nginx would forward to port 8080. Now, my nginx is set up to work with older galaxy versions, I don’t know if that matters. I haven’t changed any config files at all yet.
When I turn off nginx and serve directly on port 80 (using sudo), things look like they work. At least the tools look like they should. Has the nginx config to use changed recently or is this some weird artefact? Anyone else seen it? Since I’m just goofing around to see how collections work, it is not the end of the world for me, and I know galaxy-dist is the stable one, but still.
I have not seen this and haven't heard of anyone else - it probably doesn't have anything to do with -central versus -stable though - I don't think I have seen any changes related to this recently. Are you sure you have setup all the same configuration options in your new Galaxy instance (e.g. nginx_x_archive_files_base, nginx_x_accel_redirect_base, nginx_upload_store, nginx_upload_path, remote_user, etc...)? Also do you have the same number of web threads and handler threads or both instances - if you configured you older instance to use multiple processes your new instance will need to be configured to do this as well.
Otherwise I am out of ideas - sorry. Good luck with dataset collections - there is still a lot of work that needs to be done in -central for collections for sure but I am really excited about the potential proteomics applications.
-John
cheers, — Jorrit Boekel Proteomics systems developer BILS / Lehtiö lab Scilifelab Stockholm, Sweden
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