In Chimera, if there aren’t too many, you could select them with the mouse and then bring up the Selection Inspector (magnifying glass icon in the lower right corner of the Chimera window) and change “displayed” to “false”.

—Eric

On Apr 23, 2020, at 10:10 PM, Daniel Asarnow <asarnow@msg.ucsf.edu> wrote:

I upgraded to the latest release ChimeraX (and Isolde) and this only happens when the CIF is then opened in old Chimera. In X it's fine.

Best,
-da

On Wed, Apr 22, 2020 at 11:04 PM Daniel Asarnow <asarnow@msg.ucsf.edu> wrote:
It's 0.92 nightly from March 8th, I'm running the ISOLDE beta from that time. I'll update to the 0.93 release and see what happens.

Also, I'm running Windows.

Thanks!

-da

On Wed, Apr 22, 2020 at 10:56 PM Tristan Croll <tic20@cam.ac.uk> wrote:
Is your ChimeraX version up to date? That used to be an issue, but I haven’t seen it for quite a while now.






> On 23 Apr 2020, at 06:51, Daniel Asarnow <asarnow@msg.ucsf.edu> wrote:
>
> Hi all,
> When I save a CIF from ChimeraX, the missing segment pseudobonds are replaced by real (super unphysical) bonds. Can I do something about it, or is this a bug?
>
> Thanks and best,
> -da
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