From: John Stone (
Date: Thu Jun 27 2019 - 09:09:23 CDT

  Axel's description is accurate.

How many bonds do you actually need per-atom?
If you're running Linux or MacOS, it is trivial for
me to make a special build with a larger maximum bond count and post it
for you. If you're using Windows, the process of making a special build
is very involved and it would cost me too much time to be worth the trouble,
and in that case I'd offer to build you a Linux version instead, as I'm
sure you can find a machine to run it on. In any case, I would need to know
how many bonds you actually need.

  John Stone

On Thu, Jun 27, 2019 at 08:31:22AM -0400, Axel Kohlmeyer wrote:
> this number is a compile time choice. so to have a VMD executable with a
> larger allowance for the number of bonds per atom, you need to compile a
> custom executable, which is a non-trivial task unless you are familiar
> with compiling software with many dependencies and unconventional build
> scripts and settings. if you are running on windows and need a windows
> executable, it is particularly challenging.
> axel.
> On Thu, Jun 27, 2019 at 8:25 AM Wasim Abdul
> <[1]> wrote:
> I have the need to have many bonds per atoms as I want to visualize a
> polymer network. I have used carbon as the atom name, but it is actually
> a model system. I have a structure file ready, but VMD shows the errors
> like the following for multiple atoms:
> MolAtom 77: Exceeded maximum number of bonds (12)
> Please help.
> --
> Dr. Axel Kohlmeyer [2] [3]
> College of Science & Technology, Temple University, Philadelphia PA, USA
> International Centre for Theoretical Physics, Trieste. Italy.
> References
> Visible links
> 1.
> 2.
> 3.

NIH Center for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801           Phone: 217-244-3349