Unfortunately I see no easy solution to improve center of view rotation mode. Adding a preference to keep clipping enabled would not be too hard — but Chimera C++ code always turns the clipping off when the first model is opened. That is in a C++ routine (viewAll) that is called from many places so I can’t change it without breaking or fixing other code. Another option is to keep the depth of the center of rotation fixed even while the clip planes are moving. Again this change could break lots of code. We are working on Chimera 2 now, and this problem has a very easy if tedious solution — manually enable clipping after you open a model. So I don’t see it being fixed in Chimera 1. Tom
On Jun 23, 2015, at 11:22 AM, Oliver Clarke wrote:
Yes Tom that is exactly right - don’t really mind how it works so long as center of view rotation works (I guess that is for Chimera 2 though). In the meantime a preference for clip planes on as you describe would be great!
Cheers, Oliver.
On Jun 23, 2015, at 1:56 PM, Tom Goddard wrote:
Hi Oliver,
Is the main point of your request to be able to set a clip plane on/off preference so that center-of-view rotation works? If so the what is needed is to fix center-of-view rotation. I made a bug report for that problem yesterday.
http://plato.cgl.ucsf.edu/trac/chimera/ticket/14028 http://plato.cgl.ucsf.edu/trac/chimera/ticket/14028
With clip planes enabled they still need to automatically adjust. For instance before you open the first data set they are positioned at z -1 and 1. If they don’t adjust when you open the first data you won’t see the data. Commands like “focus” with no arguments are documented to turn off clip planes. If you want clip planes to remain enabled you would use “focus #0”. We won’t add global setting that override the documented behavior of commands. Still it probably is possible to make clip planes on a preference with the planes adjusting when the first data set is opened. This is the way Chimera behaved 5 years ago.
Tom
On Jun 23, 2015, at 6:39 AM, Oliver Clarke wrote:
Dear Tom - just tried this out and it works exactly as I would hope - this makes it much easier to navigate precisely within a structure, thank you.
One additional request on this - would it be possible to add a parameter that locks global clipping on for the session unless explicitly altered by the user?
At the moment, it seems that global clipping is off by default for a new session even if I try to save it in the camera settings, and then in “center of view” mode the cofr keeps shifting about as the clipping planes auto adjust. It would be great to have a way to set clipping planes on as the default unless explicitly altered.
Best, Oliver.
On Jun 22, 2015, at 7:58 PM, Tom Goddard wrote:
Hi Oliver,
I added display of a cross hair (plus sign) at the center of rotation in the graphics window. You turn it on with command
set showCofR
and turn it off with
~set showCofR
The crosshair is white on black (and dark) backgrounds and black on white (or light) backgrounds. This will be in tonight’s daily build.
Tom
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