[Chimera-users] [EXTERNAL] Re: Query colors?

[Eric Pettersen]

Hi Lothar,
	I don’t think what you want to do is possible with a simple .cmd script.  While the colors for structures #0 through #9 are deterministic (namely: tan, sky blue, plum, light green, salmon, light gray, deep pink, gold, dodger blue, and purple), colors for structures beyond that are assigned by choosing 7 random colors and taking the one that best contrasts with currently open structures, the background color, and the highlight color.  You would need to write a (simple) Python script that gets the model color and executes a 2D label command to place the appropriate label with that color.

--Eric

	Eric Pettersen
	UCSF Computer Graphics Lab


> On Mar 12, 2023, at 3:44 PM, Esser, Lothar (NIH/NCI) [E] via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
> 
> Hi, Elaine, 
> 
> Thanks. Yes I knew I can interactively look up colors but I need to get access to the colors in a simple .cmd script so that the 2d labels get the same font color as the corresponding model. Maybe this is not possible. What algorithm (mentioned in the doc that it exists) do you use to generate new model colors ?
> 
> Thanks, 
> Lothar
> 
> -----Original Message-----
> From: Elaine Meng <meng at cgl.ucsf.edu> 
> Sent: Sunday, March 12, 2023 2:01 PM
> To: Esser, Lothar (NIH/NCI) [E] <esserlo at mail.nih.gov>
> Cc: chimera-users at cgl.ucsf.edu
> Subject: [EXTERNAL] Re: [Chimera-users] Query colors?
> 
> Hi Lothar,
> Interactively, you can look in the Model Panel and click the color square for that model, which will bring up the Color Editor containing the color.   Or, if you select part of a model and look in the Selection Inspector molecule attributes, it will also show that color well.
> <https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Fdocs%2FUsersGuide%2Fmodelpanel.html&data=05%7C01%7Cesserlo%40mail.nih.gov%7Cb6f335d3a560492cb75008db2323ceb6%7C14b77578977342d58507251ca2dc2b06%7C0%7C0%7C638142408946370389%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=ucK06XW7D8swLRcn5OLEx3YW%2BTLWOFT6zOfqZP9TAdE%3D&reserved=0>
> <https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Fdocs%2FUsersGuide%2Finspection.html&data=05%7C01%7Cesserlo%40mail.nih.gov%7Cb6f335d3a560492cb75008db2323ceb6%7C14b77578977342d58507251ca2dc2b06%7C0%7C0%7C638142408946370389%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=04%2B37LAKfnzETheA11sjLUD4j%2FBlG3IPT5AZZeSKp48%3D&reserved=0>
> 
> Programmatically (if you need code somebody else would need to address that), it is the model attribute named "color"... but you can list them as R,G,B  in the Reply Log with command:
> 
> list models attribute color
> 
> <https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Fdocs%2FUsersGuide%2Fmidas%2Flisten.html%23listmodels&data=05%7C01%7Cesserlo%40mail.nih.gov%7Cb6f335d3a560492cb75008db2323ceb6%7C14b77578977342d58507251ca2dc2b06%7C0%7C0%7C638142408946370389%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=6MCNpwy20oW1vcclPI6IWraY4HjiRzKqwiQrX5J%2FTOk%3D&reserved=0>
> 
> Also, the first 9 colors are listed in the description of the New Molecules preference "use new color for each model":
> <https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Fdocs%2FUsersGuide%2Fpreferences.html%23New%2520Molecules&data=05%7C01%7Cesserlo%40mail.nih.gov%7Cb6f335d3a560492cb75008db2323ceb6%7C14b77578977342d58507251ca2dc2b06%7C0%7C0%7C638142408946370389%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=O3X9s7edpYPuvX3VzUET92d6Bg7kkGPUWC%2F8TKzmZGU%3D&reserved=0>
> 
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> 
>> On Mar 12, 2023, at 8:17 AM, Esser, Lothar (NIH/NCI) [E] via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
>> 
>> Hi,
>> 
>>   in my current project I am reading about 50  pdb files. Chimera does a good job at assigning pleasant colors automatically and I would like to get access to the chosen colors to write 2dlabels with the same color.
>> How do I get access to the molecular (ribbon color) ? It's probably trivial but well, I somehow could not figure this out.
>> Thanks,
>> Lothar
>> 
>> Dr. Lothar Esser
>> National Institutes of Health
>> 37 Convent Dr. Rm2122B
>> Bethesda, MD 20892
> 
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