NAMD 2.10b1 released

From: Jim Phillips (
Date: Mon Aug 25 2014 - 07:49:51 CDT

Dear NAMD users,

NAMD 2.10b1 is available for download (since Friday with no bug reports so
far), with many new features noted below. This is a beta release, so
please test your simulations over the next few weeks and let us know of
any issues. I am hoping for a short beta cycle with limited new code (and
some new documentation) added before the final 2.10 release.

Thank you all for your efforts and support.


| |
| NAMD 2.10b1 Release Announcement |
| |

                                                       August 22, 2014

The Theoretical and Computational Biophysics Group at the University of
Illinois is proud to announce the public release of a new version of
NAMD, a parallel, object-oriented molecular dynamics code designed for
high-performance simulation of large biomolecular systems. NAMD is
distributed free of charge and includes source code. NAMD development
is supported by the NIH National Institute of General Medical Sciences.

NAMD 2.10b1 has many advantages over NAMD 2.9, among these are:

- Network topology adaptation for CRAY XE/XK and IBM Blue Gene/Q

- CRAY XC30 and IBM Blue Gene/Q native network layers

- Multiple-copy algorithm support for native network layers

- Lambda-exchange multiple-copy alchemical free energy calculations

- String method with swarms-of-trajectories transition pathways

- Atom coordinate/velocity exchange for multiple-copy algorithms

- Tcl scripting command to reinitialize atoms from output files

- Tcl scripting configuration file parameter introspection

- Tcl scripting trajectory and restart output file switching

- Multilevel summation method for long-range electrostatics

- Normalized external electric field to avoid pressure artifacts

- Improved scalability for collective variables, Tcl forces, etc.

- Collective variables module improvements

- Drude polarizable force field improvements

- SMOG structure-based potential support

- Minimizer stability and performance improvements

- Various improvements for 100-million-atom simulations

- Update to CUDA 6.0 with Kepler GPU optimizations

- GPU-accelerated particle-mesh Ewald calculation

- Intel Xeon Phi coprocessor support

- 64-bit Windows shared-memory single-node port with CUDA support

- 32-bit and 64-bit ARM processor port with CUDA support

- Enhanced performance and scalability

Details at

NAMD is available from

For your convenience, NAMD has been ported to and will be installed
on the machines at the NSF-sponsored national supercomputing centers.
If you are planning substantial simulation work of an academic nature
you should apply for these resources. Benchmarks for your proposal
are available at

The Theoretical and Computational Biophysics Group encourages NAMD users
to be closely involved in the development process through reporting
bugs, contributing fixes, periodical surveys and via other means.
Questions or comments may be directed to

We are eager to hear from you, and thank you for using our software!

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