I fixed this in the ChimeraX daily build so saving an image in a script will automatically render a graphics frame so updates like clip planes or computing a new volume surface get done before the image is saved. This will not be in 1.8 because we are too close (a few weeks away) to a release. Tom
On May 24, 2024, at 4:26 PM, Tom Goddard via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi Daniel,
The clip planes are only updated when the graphics is rendered. Unfortunately saving an image doesn't do it. Normally during a script it doesn't draw any graphics unless you explicitly tell it to using the wait command. So you should try
hide target m show #1 target ms wait 1 save fig1.png
The wait command just means draw the graphics panel of ChimeraX and the arguments says how many frames to draw (often > 1 when recording a movie). I'll see if I can fix ChimeraX so if you save an image in a script it first draws a frame so this trick "wait" won't be needed.
Tom
On May 24, 2024, at 1:57 PM, Daniel Asarnow via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi Tom/Elaine, I have a series of models with SES surfaces and per-model clipping, and I am trying to create figures for each in a script with several blocks like the following: hide target m show #1 target ms save fig1.png
If I run the commands myself, the figures are as expected, but when I run the script / copy and paste several of these blocks, the surface caps aren't drawn. Am I missing something? Or can I trigger the caps somehow?
Thanks!
Best, -da _______________________________________________ ChimeraX-users mailing list -- chimerax-users@cgl.ucsf.edu To unsubscribe send an email to chimerax-users-leave@cgl.ucsf.edu Archives: https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/
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