Re: [galaxy-dev] ./run.sh segfault

2015-07-16 Thread Martin Vickers [mjv08]
Hi Nate, Thanks for the reply. In syslog I'm getting; Jul 16 20:36:41 galaxy kernel: [ 117.123921] Out of memory: Kill process 1390 (python) score 986 or sacrifice child Jul 16 20:36:41 galaxy kernel: [ 117.124087] Killed process 1390 (python) total-vm:43496348kB, anon-rss:32611892kB, file-r

Re: [galaxy-dev] Slow repsonses viewing histories

2015-07-16 Thread Poole, Richard
Hi Nate, Problem solved (with one small exception) with much help from Marius. I followed his instructions to apply the three patches via mercurial: You can get the diff of a pull request by adding .diff, like so: https://patch-diff.githubusercontent.com/raw/galaxyproject/galaxy/pull/345.diff h

Re: [galaxy-dev] Ipython behind apache proxy, firefox CORS error

2015-07-16 Thread Eric Rasche
Jelle and I have been debugging over IRC, crossposting here for awareness until I can get proper fixes pushed all the right places. Jelle, like I, have "proper" enterprise deployments. I.e. SSL, galaxy under a proxy-prefix, etc. galaxy.ini: 1. galaxy_infrastructure_web_port = 8090 2. dyna

Re: [galaxy-dev] ./run.sh segfault

2015-07-16 Thread Nate Coraor
Hi Martin, Is there anything in the syslog? --nate On Thu, Jul 16, 2015 at 11:26 AM, Martin Vickers wrote: > -BEGIN PGP SIGNED MESSAGE- > Hash: SHA1 > > Hi All, > > I have a weird issue that's just cropped up. After a new install of > galaxy (checked out on Monday from github) on a ubu

[galaxy-dev] ./run.sh segfault

2015-07-16 Thread Martin Vickers
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Hi All, I have a weird issue that's just cropped up. After a new install of galaxy (checked out on Monday from github) on a ubuntu vm, using postgres rather than sqlite as well as a few other production recommendations, I started playing around with t

Re: [galaxy-dev] User is not allowed to view history

2015-07-16 Thread Carl Eberhard
Sometimes histories will not load and appear to error if the server is being restarted when the load is attempted. Difficult to say if that's what happened here. It's on the list to give better feedback in that case and let the user know the server is down. At any rate, glad it's working and let u

Re: [galaxy-dev] cloudman galaxy - too large volume

2015-07-16 Thread Enis Afgan
All of the volumes will be SSD from now on, large or small (technically, gp2 type as defined here http://docs.aws.amazon.com/AWSEC2/latest/UserGuide/EBSVolumeTypes.html) but no, it's not currently possibly to specify the type via user data. Regardless, to specify the *volume_type* the volume needs

Re: [galaxy-dev] User is not allowed to view history

2015-07-16 Thread Lina L Faller
Thanks, Carl! I will try and update the installation to a newer version! I just got an email from the user that the history loaded again on its own. I took a look at the javascript console as you suggested but found no error messages. I'm not sure if the issue is fixed, but upgrading to a newer ve

Re: [galaxy-dev] Slow repsonses viewing histories

2015-07-16 Thread Poole, Richard
Hi Nate, I have managed to update to the latest version of the default branch but I do not see the ‘max_metadate_value_size’ in my universe_wsgi.ini (this file was not changed during the update). Same thing if I use hg pull && hg update stable or hg pull && hg update release_15.05. Does this m