From: Josh Vermaas (
Date: Thu Dec 10 2015 - 16:57:51 CST

Hi Peter,

I've noticed this behavior too, but I actually prefer it this way, as it
DOESN'T group them together in the launcher. This lets me pick between
the 3 or 4 active VMD windows I have alot more easily. :) More
generally, VMD isn't the only program that does this, and the
"questionmark box" is the default for when Ubuntu can't figure out what
the window should otherwise be called. This problem isn't unique to VMD.
Pymol and Chimera have the same behavior.

-Josh Vermaas

On 12/10/2015 08:54 AM, John Stone wrote:
> Hi,
> The VMD GUI (except for Tk windows) are written using FLTK, so
> for most of the key windows, the low-level X calls are made by FLTK
> and not by VMD itself. On Linux, the VMD graphics window is managed
> by VMD itself, so that is the only window where we could add calls to
> set the window properties. A useful experiment would be for you to
> grab the latest version of FLTK and see if it behaves better with
> Ubuntu out-of-the-box (try the sample programs it comes with and
> see how they behave). If it has the same issue, then this should be
> reported to the FLTK maintainers. Similarly, I would recommend checking
> the behavior of the Tcl/Tk toolkit's Tk windows, and see if their code
> needs modification as well.
> Cheers,
> John Stone
> On Thu, Dec 10, 2015 at 01:07:44PM +0100, Peter Husen wrote:
>> VMD does not work very well with the Ubuntu launcher. Windows get a
>> question mark icon and are not grouped together in the launcher.
>> Furthermore, "Lock to Launcher" doesn't work. I believe, a big part of
>> the problem is that VMD does not set the WM_CLASS property on its
>> windows, thus making BAMF (the application matching framework) unable to
>> recognize the windows as belonging to VMD.
>> Do you agree, and would it be hard to implement setting this property?
>> --
>> Best regards
>> Peter Jensen Husen
>> Postdoc, Institut for Fysik, Kemi og Farmaci
>> Tel. +45 6550 2526
>> Email
>> Web:
>> Addr. Campusvej 55, 5230 Odense M