From: Peter Freddolino (
Date: Tue Jun 24 2008 - 07:19:00 CDT

Hi Esben,
> Thus, my question is two-fold:
> 1) What might be up with the "unexpected ")""-error?
This is not an error I've ever seen -- Axel asked the question I was
going to. Could you let me know what *is* the path to your namd binary?
> 2) Is it worth the effort, if the NAMD-energy plugin will feed NAMD a bad
> PSF anyway?
Well, you're going to have to dance around this a bit. It would,
obviously, be easiest to have a fully compliant psf. Failing that, since
namdenergy just directs namd to look at the same psf that vmd loaded,
you could fool it by making a symbolic link to the good-for-vmd psf,
load it and your molecule, then change the link to point at the
good-for-namd psf and run namdenergy.