Re: NAMD 2.7b2 versy slow on multiple nodes

From: Nicholas M Glykos (glykos_at_mbg.duth.gr)
Date: Wed May 26 2010 - 08:59:07 CDT

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Hi Laurent,

> ... with g++ ...

It may worth giving it a try with intel's compilers (noting their
restrictive license) and UDP instead of TCP.

> Where did you find the +giga +max_dgram_size options, I
> did not see it anywhere and what do they mean?

These are charm flags. namd2 --help lists them. The +giga option is
mentioned in the release notes. The other flag is UDP-specific, search for
"maximum datagram UDP".

Nicholas

-- 
          Dr Nicholas M. Glykos, Department of Molecular Biology
     and Genetics, Democritus University of Thrace, University Campus,
  Dragana, 68100 Alexandroupolis, Greece, Tel/Fax (office) +302551030620,
    Ext.77620, Tel (lab) +302551030615, http://utopia.duth.gr/~glykos/

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