Re: [PyMOL] color each polymer chain differently

[Jordan W. <jwi...@gm...>]

I think...

What is happening is that the color command should take in a name like “color yellow, i. 1" or a CMYK color vector. When you are saying “color 1” it is just starting at the first index of CMYK which is black.

There is a command for your problem though. Just say util.color_chains() and it will color all individual chains a different color. 



On Mar 12, 2014, at 11:15 PM, Chandan Choudhury <ii...@gm...> wrote:

> 
> Dear PyMOL users,
> 
> I build 100 chains of polymer in a box. Residue number is different for every chain. Chain 1 has residue no. 1, chain 2 has residue no. 2 and so on. I want to color each chain differently.
> So, I wrote a script which generates a pml file, and opening this pml file with PyMOL should color each chain differently.
> 
> ##color.pml
> load 128md_c.pdb
> select 1, i. 1
> color  1, i. 1
> select 2, i. 2
> color  2, i. 2
> select 3, i. 3
> color  3, i. 3
> select 4, i. 4
> color  4, i. 4
> select 5, i. 5
> color  5, i. 5
> select 6, i. 6
> color  6, i. 6
> select 7, i. 7
> ...
> ...
> color  125, i. 125
> select 126, i. 126
> color  126, i. 126
> select 127, i. 127
> color  127, i. 127
> select 128, i. 128
> color  128, i. 128
> 
> I have 128 chains.
> 
> What I find that mostly green or black dominates the coloring. 
> While displaying color by the numeric code, what is the maximum no, after which the color repeats?
> 
> Chandan
> 
> --
> Chandan Kumar Choudhury
> National Chemical Laboratory, Pune
> India
> 
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