From: Dimitrova, Maria (
Date: Sun Apr 02 2017 - 07:12:30 CDT

Hello Josh,

Thank you for your reply. In the vmdrc file there is no keyword "idle". There only are my keyboard shortcuts and representation properties. However, I found that the functions defined in the vmdrc file are recognised, as well as my changes to the default colours for elements are present. It is only the drawing and colouring methods that are wrong. So, it seems that only these two lines of the vmdrc file are not loaded:

 mol default style {CPK 1.000000 0.300000 30.000000 20.000000}
 mol default color {Element}

Best regards,

Maria Dimitrova

From: Vermaas, Joshua <>
Sent: 02 April 2017 05:30:33
To: Dimitrova, Maria
Subject: Re: vmd-l: vmdrc file not loaded when the filename is a command line argument

Hi Maria,

Does the vmdrc file have a “after idle” command in it? The default one does, and means that it is applied *after* loading files listed on the command line, when VMD is “idle”. In the past when I’ve needed something applied to files before loading them, I’ve either baked in the file loading into a custom vmdrc and loaded it with the -startup argument, or taken out the after idle section.

Josh Vermaas

Director’s Postdoctoral Fellow
National Renewable Energy Laboratory<>

On Apr 1, 2017, at 9:49 AM, Dimitrova, Maria <<>> wrote:


I seem unable to get the .vmdrc file loaded if I add the name of the file I need to open as a command line argument. If I just type "vmd", it loads just fine. However, if I type "vmd" the default line representation is loaded. The file is located at my home directory. Just for the purpose of testing, I copied it over to the directory where the file is located but the vmdrc file is still not loaded. What could I be doing wrong?

Best regards,
Maria Dimitrova