On Thu, Sep 17, 2009 at 10:35:26AM -0500, Robert Wyatt wrote:
> Jack Howarth wrote:
>> Martin,
>>   Well, the problem is that the bulk (if not all)
>> of X11 Xquartz will likely appear in a future software
>> update of the X11 components from Apple.
>
> Not that it won't or that I wouldn't like to see it, but when has this  
> ever happened before?  --Robert

Robert,
    There was some pymol breakage a few times in the beta or
release candidates of X11 Xquartz but Jeremy always fixed it
before the final releases. Remember that recent changes in
X11 Xquartz have centered on improving the GL DRI performance.
Pymol is actually one of the best tests for bugs in that area
since few other packages in fink push the OpenGL so hard. Since
fink won't support X11 Xquartz in Snow Leopard, it seemed to
me critical that packages like pymol become available in
MacPorts so users and Jeremy could test against them. Previously
Jeremy would often build the pymol package from fink to see
these bugs locally but this will be impossible now.
               Jack
ps I've already provided MacPorts with a port of the fink pymol
package so that issue is solved...

https://trac.macports.org/ticket/21376

The main problem I see in MacPorts at the moment is the
lack of automatic scanning of the build phase for instances
of /usr/X11R6 to ensure that the builds are fully decoupled
from the system X11. Always scanning for that by hand is a
pain.

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