[chimerax-users] Having multiple marker files

[Tom Goddard]

Hi Shiqing,

  I improved the "color zone" command so you can use the option "farColor keep" and do successive color zone colorings while keeping the older colorings that are outside the distance range.  For example,

	color zone #1 near #2 distance 50
	color zone #1 near #3 distance 100 farColor keep

One limitation is that if you then change the surface shape, for example change the volume threshold  on a contour surface, then it only preserves the most recent color zone command coloring.  Another limitation is that if you use the "sharpEdges true" option then the old coloring is lost.

	Tom


> On Jun 30, 2021, at 12:49 PM, Elaine Meng via ChimeraX-users <chimerax-users at cgl.ucsf.edu> wrote:
> 
> No, sorry.  Maybe it would be possible by writing python, but I wouldn't know how to do it.
> Elaine
> 
>> On Jun 30, 2021, at 12:47 PM, SHIQING LIAO <shiqing03 at g.ucla.edu> wrote:
>> 
>> Hi Elaine,
>> 
>> Thank you! For this situation, however, if I do it in one command, I am not able to set different distance for each marker file. Is there a way of doing that? 
>> 
>> Best,
>> Shiqing 
>> 
>> On Wed, Jun 30, 2021 at 12:45 PM Elaine Meng <meng at cgl.ucsf.edu> wrote:
>> Hi Shiqing,
>> You would need to do it in one command, e.g.
>> 
>> color zone #2 near #4,5
>> 
>> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/color.html#zone>
>> 
>> I hope this helps,
>> Elaine
>> 
>>> On Jun 30, 2021, at 12:09 PM, SHIQING LIAO via ChimeraX-users <chimerax-users at cgl.ucsf.edu> wrote:
>>> 
>>> Hi Elaine and Tom,
>>> 
>>> I actually have a related question on marker files.  I tried to color my density by “color zone #2 near #4 distance 70”, for example. However, it seems that I can only have one marker file colored (they are mutually exclusive). For example, if I want to color area around another model by “color zone #2 near #5”, the coloring done by the previous command near #4 will disappear.
>>> 
>>> Best,
>>> Shiqing 
>>> 
>> 
> 
> 
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