[chimerax-users] Having multiple marker files

[SHIQING LIAO]

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

On Wed, Jun 30, 2021 at 12:04 PM SHIQING LIAO <shiqing03 at g.ucla.edu> wrote:

> Hi Elaine and Tom,
>
> Thank you so much! I am amazed by the speed of response and update!
>
> Best,
> Shiqing
>
>
>
> On Wed, Jun 30, 2021 at 11:42 AM Tom Goddard <goddard at sonic.net> wrote:
>
>> Hi Shiqing,
>>
>>   I added a menu to the Marker Placement panel to choose which marker set
>> is used when adding markers with the mouse.  Also the "New" button will
>> make a new marker set.  These improvements will be in tonight's ChimeraX
>> builds.
>>
>> Tom
>>
>>
>> On Jun 30, 2021, at 8:47 AM, Elaine Meng via ChimeraX-users <
>> chimerax-users at cgl.ucsf.edu> wrote:
>>
>> Hi Shiqing,
>> In your example command, #5 is telling it to add to marker model #5.  If
>> there is a different marker set it would have a different model number.  So
>> if you are adding the marker with a command, you can control it directly by
>> the model number in that command.  However, the example command you gave
>> isn't quite right, maybe you meant:
>>
>> marker #5 position 1,1,1 radius 100
>>
>> "marker" command details:
>> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/marker.html>
>>
>> You are probably talking about adding the marker with the mouse,
>> however.  In that case, you are right:  I don't see a way to control which
>> marker model is used.  Maybe we did not plan for people to have multiple
>> marker models.  So maybe this is a type of control that can be added in the
>> future.
>>
>> <https://rbvi.ucsf.edu/chimerax/docs/user/tools/markerplacement.html>
>>
>> Sorry about that,
>> Elaine
>> -----
>> Elaine C. Meng, Ph.D.
>> UCSF Chimera(X) team
>> Department of Pharmaceutical Chemistry
>> University of California, San Francisco
>>
>> On Jun 29, 2021, at 7:29 PM, SHIQING LIAO via ChimeraX-users <
>> chimerax-users at cgl.ucsf.edu> wrote:
>>
>> Hi!
>>
>> I’m trying to have multiple marker files because I would like them to
>> have different radius and coloring distance. I figured out that I can
>> create new marker files by “marker #5 1,1,1 radius 100”, for example.
>> However, if I add new markers, the new marker always goes to the first
>> marker file, instead of the selected marker file that I want. Any help is
>> really appreciated!
>>
>> Best,
>> Shiqing
>>
>>
>>
>> _______________________________________________
>> ChimeraX-users mailing list
>> ChimeraX-users at cgl.ucsf.edu
>> Manage subscription:
>> https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users
>>
>>
>>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20210630/be11114d/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: markers.png
Type: image/png
Size: 48829 bytes
Desc: not available
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20210630/be11114d/attachment-0001.png>