Florian Barth wrote:
>
> Dear AMBER users,
>
> I have installed AMBER 6.0 on a Linux cluster with Mandrake 8.0
> (kernel 2.4.3), mpich 1.2.1 and the latest gcc (2.96) and pgi (3.2)
> compiler. The cluster consists of 4 nodes with one 1.33 GHz Athlon
> CPU, 512 MB RAM and 20 GB disk space each. They are connected via
> 100Mbit T-baseTx switched FastEthernet.
> Here are some sander benchmarks of the cluster:
Tyan dual athlonMP 1.2GHz 4x25MB of DDRAM
Redhat 7.1 lam-mpi 6.5.4
>
> prowat (11000 atoms):
> =====================
> nCPU time
> --------------------
> 1 86.2s
> 2 51.2s (x1.7)
> 4 36.5s (x2.4)
>
1x 91.9
2x 48.9 (x1.88)
> benchmark.6 (22000 atoms):
> ==========================
> nCPU time
> --------------------
> 1 176.4s
> 2 137.6s (x1.3)
> 4 100.4s (x1.8)
1x 181
2x 102.3 (x1.77)
YMMV
Regards,
Tru
details follow:
[tru_at_sheridan prowat]$ cat ?-k7smp/logfile
Parallel Profiling Results
A
N n
F o g G
X n B S G B R
O T
d b n h B d u
t o
i o d a r i n
h t
P s n D k a s m
e a
E t d i e d t d
r l
---------------------------------------------------------------------
0 0.0 89.9 0.7 0.4 0.0 0.0 0.6 0.3
91.9
av 0.0 89.9 0.7 0.4 0.0 0.0 0.6
std 0.0 0.0 0.0 0.0 0.0 0.0 0.0
min 0.0 89.9 0.7 0.4 0.0 0.0 0.6
max 0.0 89.9 0.7 0.4 0.0 0.0 0.6
---------------------------------------------------------------------
Parallel Profiling Results
A
N n
F o g G
X n B S G B R
O T
d b n h B d u
t o
i o d a r i n
h t
P s n D k a s m
e a
E t d i e d t d
r l
---------------------------------------------------------------------
0 0.9 44.9 0.4 0.3 0.0 0.0 0.3 0.3
47.1
1 1.0 46.9 0.4 0.3 0.0 0.0 0.2 0.0
48.9
av 1.0 45.9 0.4 0.3 0.0 0.0 0.3
std 0.1 1.0 0.1 0.0 0.0 0.0 0.0
min 0.9 44.9 0.3 0.3 0.0 0.0 0.2
max 1.0 46.9 0.5 0.3 0.0 0.0 0.3
---------------------------------------------------------------------
[tru_at_giordino bench/6]$ cat ?-k7smp/logfile
Parallel Profiling Results
A
N n
F o g G
X n B S G B R
O T
d b n h B d u
t o
i o d a r i n
h t
P s n D k a s m
e a
E t d i e d t d
r l
---------------------------------------------------------------------
0 0.0 177.0 1.3 0.9 0.0 0.0 1.2 0.6
181.0
av 0.0 177.0 1.3 0.9 0.0 0.0 1.2
std 0.0 0.0 0.0 0.0 0.0 0.0 0.0
min 0.0 177.0 1.3 0.9 0.0 0.0 1.2
max 0.0 177.0 1.3 0.9 0.0 0.0 1.2
---------------------------------------------------------------------
Parallel Profiling Results
A
N n
F o g G
X n B S G B R
O T
d b n h B d u
t o
i o d a r i n
h t
P s n D k a s m
e a
E t d i e d t d
r l
---------------------------------------------------------------------
0 2.3 97.4 0.6 0.6 0.0 0.0 0.7 0.6
102.3
1 2.0 96.8 0.7 0.4 0.0 0.0 0.8 0.1
100.9
av 2.1 97.1 0.7 0.5 0.0 0.0 0.8
std 0.1 0.3 0.0 0.1 0.0 0.0 0.0
min 2.0 96.8 0.6 0.4 0.0 0.0 0.7
max 2.3 97.4 0.7 0.6 0.0 0.0 0.8
---------------------------------------------------------------------
--
Dr Tru Huynh | Bioinformatique Structurale
mailto:tru_at_pasteur.fr | tel/fax +33 1 45 68 87 37/19
Institut Pasteur, 25-28 rue du Docteur Roux, 75724 Paris CEDEX 15 France
Received on Mon Aug 20 2001 - 12:09:18 PDT
