[Chimera-users] Cap color precedence when global clip planes slice through multiple volumes?

Oliver Clarke olibclarke at gmail.com
Mon Jun 6 11:05:12 PDT 2016

Thanks Tom - it's okay not being able to see both - better to see one
cleanly overlayed on the others than a mix of the two.

The other way I get around this is to move the yon clip plane to as close
to the hither clip plane as possible, then take pictures of each cap alone
using a transparent background, and combine as desired in a vector graphics


On Mon, Jun 6, 2016 at 2:01 PM, Tom Goddard <goddard at sonic.net> wrote:

> Hi Oliver,
>   Would be nice if intesecting clipped surfaces showed the caps in a nice
> way.  I don’t know a way to do it so you see the outline of both surfaces.
> If you clip one slightly in front of the other then the one behind is just
> not visible in the intersection region.  If Chimera automatically put them
> in some depth order say by model id number that might look a little
> cleaner.  To be able to choose the ordering would require some additional
> user interface.  As you point out this can already be done in a hard way
> using per-model clipping.
>         Tom
> > On Jun 5, 2016, at 5:49 PM, Oliver Clarke  wrote:
> >
> > Hi,
> >
> > When slicing through multiple superimposed volumes with caps shown, the
> color of the resulting cap seems to be a bit of a patchwork - sometimes
> dominated by one volume, sometimes by another, sometimes a mix of the two
> >
> > It would be good if there were a way to control the precedence of the
> caps, to make a cleaner and more interpretable picture - it is often good
> to be able to see the outline of both overlayed volumes.
> >
> > I know there is one way to do this, by using per model clipping planes
> and changing the offsets such that one per model clip plane is just
> slightly in front of the other, but it might be helpful in ChimeraX to have
> more granular control over this.
> >
> > Cheers,
> > Oli
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