[phenixbb] phenix gui freezes

hari jayaram harijay at gmail.com
Thu Mar 11 04:54:55 PST 2010

Hello John,

I have seen exactly this problem after running phenix.validate . Not only
does the GUI freeze , but it seems to take the windowing system down with
it. The window manager gets unresponsive. Remote shelling into the system
was possible , but there was no active python process that I could kill to
get control back. In the end I had to restart-X to log back in loosing what
I was doing in other windows.

I have seen this at-least 2 or 3 times on two 64 bit ubuntu hardy running
machines with phenix 1.6.289. Both boxes have 4 to 8 cores and 8 to 16 GB of

On mac OSX running 10.6.2 , on a core duo , so probably everything is
running in 32 bit mode . Things are relatively very stable. Other than a few
times where phenix said it was launching coot and just sat there, I have
been using it without incident, so much so I have switched to using my slow
laptop because of something I thought was wrong at my end.

Looking forward to troubleshooting instructions . Thanks


On Thu, Mar 11, 2010 at 7:28 AM, John Berrisford <jmb at mrc-mbu.cam.ac.uk>wrote:

> Dear All
> A little while ago I posted a message about the GUI freezing on linux
> systems, either run remotely (centos) or locally (ubuntu system). I never
> received a solution and I'm still having this problem despite upgrading to
> version 1.6.
> On my ubuntu system the GUI seems to freeze either when the screen saver
> comes on (set to turn the screen off) or I switch desktop - although not
> everytime I do this.
> The freezing GUI means that I have to force quit phenix after every
> refinement run (I haven't tried other tasks) and that the freeR is not
> reported to the GUI (not a major problem). Thankfully in version 1.6 the
> configuration and results for each refinement run are recorded and I can
> retrieve this information by loading a job through job history - a big
> improvement over version 1.5.
> Anyone else having this problem and does anyone know a solution?
> Thanks
> John
> --
> John Berrisford
> Medical Research Council
> Mitochondrial Biology Unit
> Wellcome Trust / MRC Building
> Hills Road
> Cambridge
> CB2 0XY
> WEB: www.mrc-mbu.cam.ac.uk
> TEL: +44 (01223) 252918
> _______________________________________________
> phenixbb mailing list
> phenixbb at phenix-online.org
> http://phenix-online.org/mailman/listinfo/phenixbb
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://phenix-online.org/pipermail/phenixbb/attachments/20100311/8ebdf98b/attachment-0003.htm>

More information about the phenixbb mailing list