[chimerax-users] shape tool in ChimeraX

[Joel Meyerson]

Great stuff. Thanks, Tom.
Joel

From: Tom Goddard <goddard at sonic.net>
Date: Monday, April 20, 2020 at 6:36 PM
To: Joel Meyerson <jrm2008 at med.cornell.edu>
Cc: ChimeraX Users Help <chimerax-users at cgl.ucsf.edu>
Subject: [EXTERNAL] Re: [chimerax-users] shape tool in ChimeraX

Hi Joel,

  The "shape" command has been added to ChimeraX and can make spheres, cylinders, cones, smooth tubes, icosahedrons, ... the same stuff that the Chimera shape command did with the same command syntax.

https://www.cgl.ucsf.edu/chimerax/docs/user/commands/shape.html<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.cgl.ucsf.edu_chimerax_docs_user_commands_shape.html&d=DwMFaQ&c=lb62iw4YL4RFalcE2hQUQealT9-RXrryqt9KZX2qu2s&r=JnYzuUa3E5p4u7qrfPzeZV8LIgMpwauz4WIvX7NJIi8&m=R8lu5UkJGC_1d_XL3hHAq8YY9TEq3QMOrmmdNHlrSqc&s=vthdSp1lCn9qle8ZuS5hCBTr3SltZNf99P6FpQ6G_kg&e=>

  Tom



On Apr 12, 2020, at 12:04 PM, Joel Meyerson  wrote:

Hi Elaine,
Thanks a lot for the tip about Bild files. I'll experiment with that approach. And that's great to know there's interest in developing something like the "shape" command for ChimeraX.

Best,
Joel

On 4/12/20, 1:29 PM, "Elaine Meng"  wrote:

   Hi Joel,
   Sorry, there is no "shape" command in ChimeraX yet, although we would like to add something like that in the future.  Currently ChimeraX does have defining 3D objects with the Bild text format, which is very simple:

   <https://urldefense.proofpoint.com/v2/url?u=http-3A__rbvi.ucsf.edu_chimerax_docs_user_formats_bild.html&d=DwIFaQ&c=lb62iw4YL4RFalcE2hQUQealT9-RXrryqt9KZX2qu2s&r=JnYzuUa3E5p4u7qrfPzeZV8LIgMpwauz4WIvX7NJIi8&m=ni_q7xjYw4DHuoUI9czg9SaKBPqeiEgpzIULe9lOwD8&s=zFjP5sA_Brg33ztI19Me8g6vt-VrahjAr6h52VklLU0&e= >

   However, the Bild approach is less convenient in that you must create a separate Bild file and then open it, you cannot change colors after creating the objects, etc.

   I hope this helps,
   Elaine
   -----
   Elaine C. Meng, Ph.D.
   UCSF Chimera(X) team
   Department of Pharmaceutical Chemistry
   University of California, San Francisco


On Apr 12, 2020, at 4:19 AM, Joel Meyerson wrote:

Hi,
Chimera has a “shape” command that I find quite useful. Does ChimeraX have this feature? I could not find it in the online documentation.
Thanks,
Joel




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