[phenixbb] [COOT] CCP4 - Coot in Applications

Nathaniel Echols nechols at lbl.gov
Wed Nov 28 07:36:54 PST 2012

On Wed, Nov 28, 2012 at 7:03 AM, Antony Oliver
<Antony.Oliver at sussex.ac.uk> wrote:
> Ok - annoying thing….
> 1) using /Applications/coot.app/Contents/Resources/script to launch Coot from the command line (terminal window) works IF you don't have X11 open already.
> 2) if you DO have X11 open, coot pretty much always crashes with the aforementioned "invalid window errors".
> ...
> Ideas and suggestions welcome.  I guess I could make sure that X11 is not running each time I invoke a script or run coot from the command line - but it's not exactly ideal.

Sorry, I don't have any bright ideas - in my experience the behavior
of Coot on OS 10.7 with the current XQuartz is horrifically buggy (not
Paul's fault, there is clearly something broken at a very low level in
either XQuartz or GTK or both).  There isn't much that can be done
about it on the Phenix side.  However, the current code tries to
launch this:


instead of the "script" executable, which I was unaware of.  I will
try the latter and see if it works any better, but I suspect the
bugginess is independent of how I launch Coot.

The "native" OS X port of GTK appears to have made enough progress for
GIMP to run independently of X11, so maybe there is still hope for a
native Coot... they don't appear to have OpenGL working yet, however.


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