AMBER Archive (2003)

Subject: RE: AMBER: tru64 alpha

From: Mu Yuguang (Dr) (YGMu_at_ntu.edu.sg)
Date: Thu Oct 16 2003 - 21:08:14 CDT

I am also new .
It is from the HP home
AlphaServer SC45 supercomputer: facts and figures
Here I attach more:

compute building block
Consists of up to 5 customized AlphaServer ES45 servers, each of which
include:
1 to 4 Alpha-EV68 1.25 GHz processors with 16 MB cache per processor OR
1 to 4 Alpha-EV68 1.0 GHz processors with 8 MB cache per processor
2 to 32 GB of ECC 133 MHz, industry-standard DIMM memory
2-port Ultra SCSI storage adapter and disk cage with room for up to 6 1"
hot swap drives
10 PCI I/O slots on 4 64-bit PCI buses, delivering a peak bandwidth of
1.8 GB/s
1 x 1.44 MB diskette drive
1 x 600 MB 40X IDE CD-ROM
1 or 2 AlphaServer SC Interconnect PCI adapters, capable of over 280
MB/s sustained bandwidth per adapter
Tru64 UNIX V5.1a operating system

-----Original Message-----
From: Yong Duan [mailto:yduan_at_udel.edu]
Sent: Friday, October 17, 2003 10:00 AM
To: amber_at_scripps.edu
Subject: RE: AMBER: tru64 alpha

Dear Yuguang,

I am a bit curious. What was the interconnect?

yong

> -----Original Message-----
> From: owner-amber_at_scripps.edu
> [mailto:owner-amber_at_scripps.edu] On Behalf Of Mu Yuguang (Dr)
> Sent: Thursday, October 16, 2003 8:41 PM
> To: amber_at_scripps.edu
> Subject: RE: AMBER: tru64 alpha
>
>
> Thanks David, Bill and Rob for your helpful reply.
> Now I try to complie PMEMD with little changed machine file, using
> mpif90 and mpicc, and then submit with corresponding mpirun.
> It works well in one node with 4 cpus with scaling up to 92%, but the
> scaling drops to 25% using 2 nodes with 8 cpus.
> My system is 18er duplex DNA with total 56999 atoms using PME.
>
> The inter-node connections should be a little better than Myrinet, and
> here the MPI is mpich-1.2.5.
> I am not sure that the scaling failure is due to the mpich or
> something
> else.
>
>
> -----Original Message-----
> From: Bill Ross [mailto:ross_at_cgl.ucsf.edu]
> Sent: Wednesday, October 15, 2003 10:39 PM
> To: amber_at_scripps.edu
> Subject: RE: AMBER: tru64 alpha
>
> > FATAL dynamic memory allocation error in subroutine alloc_ew_dat_mem
> > Could not allocate ipairs array!
>
> In unix,
>
> % man ulimit
>
> Bill Ross
>
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