I have some students this summer who are using Chimera to check out ligand anomalies in the PDB, and have fallen in love with the 'alias' command, no surprise. Is there a way to have them persist between sessions, or save them in the preference file somewhere? I imagine piling them all into a file and then having them 'read' it each session would work, but I thought I would see if there is a better way. Thanks, Jeramia Ory
Dear Jeramia, There is a mechanism to have command scripts executed automatically; see the "Midas" section of the Preferences: http://www.cgl.ucsf.edu/home/meng/docs/UsersGuide/preferences.html#Midas It is not exactly the same as having the aliases saved in the preferences; instead the location of the file with the aliases would be saved in the preferences, and the file would be executed automatically when the Command Line is opened (the Command Line used to be called the Midas Emulator, since many of the commands were originally Midas commands). This mechanism is pretty convenient on non-Windows, but I imagine it may be hard or slightly confusing to deal with the file location issue on Windows. At least this way, the students wouldn't have to remember to "read" or "source" their aliasing command files. I hope this helps, Elaine On Jun 26, 2006, at 7:57 AM, Jeramia J Ory wrote:
I have some students this summer who are using Chimera to check out ligand anomalies in the PDB, and have fallen in love with the 'alias' command, no surprise. Is there a way to have them persist between sessions, or save them in the preference file somewhere? I imagine piling them all into a file and then having them 'read' it each session would work, but I thought I would see if there is a better way.
Thanks, Jeramia Ory _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html
Also, aliases are preserved in session files, which can be handy for aliases specific to a particular molecular system. --Eric Eric Pettersen UCSF Computer Graphics Lab pett@cgl.ucsf.edu http://www.cgl.ucsf.edu On Jun 26, 2006, at 9:43 AM, Elaine Meng wrote:
Dear Jeramia, There is a mechanism to have command scripts executed automatically; see the "Midas" section of the Preferences: http://www.cgl.ucsf.edu/home/meng/docs/UsersGuide/ preferences.html#Midas
It is not exactly the same as having the aliases saved in the preferences; instead the location of the file with the aliases would be saved in the preferences, and the file would be executed automatically when the Command Line is opened (the Command Line used to be called the Midas Emulator, since many of the commands were originally Midas commands). This mechanism is pretty convenient on non-Windows, but I imagine it may be hard or slightly confusing to deal with the file location issue on Windows.
At least this way, the students wouldn't have to remember to "read" or "source" their aliasing command files. I hope this helps, Elaine
On Jun 26, 2006, at 7:57 AM, Jeramia J Ory wrote:
I have some students this summer who are using Chimera to check out ligand anomalies in the PDB, and have fallen in love with the 'alias' command, no surprise. Is there a way to have them persist between sessions, or save them in the preference file somewhere? I imagine piling them all into a file and then having them 'read' it each session would work, but I thought I would see if there is a better way.
Thanks, Jeramia Ory _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html
_______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
participants (3)
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Elaine Meng -
Eric Pettersen -
Jeramia J Ory