From: Justin Gullingsrud (
Date: Fri Oct 08 2004 - 14:57:48 CDT

There should be no general problem using such psf files with NAMD, but
be aware that since NAMD does not currently implement the CMAP
extension, you would effectively be using the Charmm22 force field.


On Fri, 08 Oct 2004 18:38:47 +0100, Jorge Pikunic
<> wrote:
> Hi,
> I am trying to use the psfgen plugin (1.3.3) using the new topology
> files from MacKerell's website. The CHARMM27 files have CMAP statements,
> so when I try to read the new topology files:
> topology top_all27_prot_lipid.rtf
> I get several lines like:
> However, it seems that I can still build segments and write psf files.
> Is that ERROR something that I can just ignore (giving me psf file
> equivalent to one generated with top_all27_prot_lipid.inp)?
> Thank you,
> Jorge
> PS: I sent a related message to the namd list to ask if CMAP has been
> implemented in NAMD

The spirit of Plato dies hard.  We have been unable to escape the
philosophical tradition that what we can see and measure in the world
is merely the superficial and imperfect representation of an
underlying reality.
                -- S.J. Gould, "The Mismeasure of Man"