-------- Original Message -------- From: Thomas C. Marlovits To: Tom Goddard Date: 9/22/09 2:04 AM
HI Tom,
I was wondering, whether one can "group" a few models in chimera. At the moment, I have more than 40 models open simultaneously, some of which I would like to group in order to make coloring, selection, etc ... more easily. It might be that the feature is present, but couldn't spot it so far. The other thing that I would appreciate, if there is a simple way to assign the model nr manually (at the moment it is done automatically, and it appears that the order is somewhat random ...) Best, Tx, -T.
Hi Thomas, You can used "named selections" to give a short name to several models or to any combination of selected items. Use menu entry Select / Name Selection... You can use the names in Chimera commands or use the "Select / Named Selection / name" menu entry. I don't know of a command to name a selection. Is there such a command (other Chimera developers)? You can set the model number if you open your models with a command, for example, open 5 twisty.pdb to open a model as model number 5. After the model number has been assigned it unfortunately cannot be changed. Tom
Hi Thomas, The command to name a selection is "namesel": <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/namesel.html> You might also want to take a look at "alias" which I find to be more powerful and flexible: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/alias.html> One reason to use named selections instead, however, is to have their names appear in the Select menu. If that is not important, I recommend using "alias." Best, Elaine On Sep 22, 2009, at 9:51 AM, Tom Goddard wrote:
-------- Original Message -------- From: Thomas C. Marlovits To: Tom Goddard Date: 9/22/09 2:04 AM
HI Tom,
I was wondering, whether one can "group" a few models in chimera. At the moment, I have more than 40 models open simultaneously, some of which I would like to group in order to make coloring, selection, etc ... more easily. It might be that the feature is present, but couldn't spot it so far. The other thing that I would appreciate, if there is a simple way to assign the model nr manually (at the moment it is done automatically, and it appears that the order is somewhat random ...) Best, Tx, -T.
Hi Thomas,
You can used "named selections" to give a short name to several models or to any combination of selected items. Use menu entry
Select / Name Selection...
You can use the names in Chimera commands or use the "Select / Named Selection / name" menu entry. I don't know of a command to name a selection. Is there such a command (other Chimera developers)?
You can set the model number if you open your models with a command, for example,
open 5 twisty.pdb
to open a model as model number 5. After the model number has been assigned it unfortunately cannot be changed.
Tom
Hi Tom, hi Chimera team, with quite a number of saved sessions, I find it increasingly difficult to remember what they are about ... I am wondering, whether there is a chance to include a thumbnail or small fig associated with the file that can be displayed while scrolling through the different files (similar as if you have many image files and you highlight them in the Finder ... they will be displayed as a small image ...). Tx, -T. On Sep 22, 2009, at 6:51 PM, Tom Goddard wrote:
-------- Original Message -------- From: Thomas C. Marlovits To: Tom Goddard Date: 9/22/09 2:04 AM
HI Tom,
I was wondering, whether one can "group" a few models in chimera. At the moment, I have more than 40 models open simultaneously, some of which I would like to group in order to make coloring, selection, etc ... more easily. It might be that the feature is present, but couldn't spot it so far. The other thing that I would appreciate, if there is a simple way to assign the model nr manually (at the moment it is done automatically, and it appears that the order is somewhat random ...) Best, Tx, -T.
Hi Thomas,
You can used "named selections" to give a short name to several models or to any combination of selected items. Use menu entry
Select / Name Selection...
You can use the names in Chimera commands or use the "Select / Named Selection / name" menu entry. I don't know of a command to name a selection. Is there such a command (other Chimera developers)?
You can set the model number if you open your models with a command, for example,
open 5 twisty.pdb
to open a model as model number 5. After the model number has been assigned it unfortunately cannot be changed.
Tom
------------------------------------------------------------------------------- Thomas C. Marlovits, PhD, M.A.S. Research Group LeaderHi IMP-IMBA Research Center - Research Institute of Molecular Pathology (IMP) - Institute of Molecular Biotechnology, Austrian Academy of Sciences (IMBA) Dr. Bohr-Gasse 3 Room IMBA/6.02 A-1030 Vienna Austria, Europe fone: (++43-1) 79044-4630 fax: (++43-1) 79044-4401 email: marlovits@imp.univie.ac.at
Hi Thomas, This is an excellent idea. We discussed this in my lab a year ago and somehow forgot to do it. The main difficulty is enhancing the Chimera file browser to show the images. I think it would be very useful. I've added it to our request list. http://plato.cgl.ucsf.edu/trac/chimera/wiki/requests Tom -------- Original Message -------- Subject: Re: [Chimera-users] Grouping models From: Thomas C. Marlovits To: Chimera BB Date: 12/22/09 1:43 AM
Hi Tom, hi Chimera team,
with quite a number of saved sessions, I find it increasingly difficult to remember what they are about ... I am wondering, whether there is a chance to include a thumbnail or small fig associated with the file that can be displayed while scrolling through the different files (similar as if you have many image files and you highlight them in the Finder ... they will be displayed as a small image ...).
Tx, -T.
participants (3)
-
Elaine Meng -
Thomas C. Marlovits -
Tom Goddard