AMBER Archive (2006)

Subject: AMBER: How I wasted a rainy Friday in San Diego

From: David A. Case (
Date: Fri Apr 14 2006 - 19:24:00 CDT

If you like, go the amber web page,, and scroll
down to "A trip down memory lane".

One can still compile and run the codes from a decade ago, and the basic
algorithms have been pretty stable, at least since smooth PME became the
method of choice for periodic, solvated simulations. For these sorts of
calculations, there are small (and probably unimportant) differences between
Amber 4.1/5 and later codes (having to do with molecule-based vs. atom-based
lists for van der Waals terms), and there are essentially no changes in output
since Amber 6 was released.

Have a good weekend! (OR: spend it doing your income taxes!)


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