Cluster list

From Molecular Modeling Wiki

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Revision as of 13:16, 16 March 2009

Overview

General description

Depending on the hardware equipment and the age of a cluster there is always a set of typical applications that fit the cluster capabilities. The idea is to run any calculation on a cluster that just fits the job requirements; running it on less capable cluster would slow down the calculation or prevent running it at all, starting a low-demanding job on highly equippped cluster would waste the resources and prevent running jobs that require such equipment.

Cluster survey

Name	Year of construction	Memory size [GB] / core	Disk (scratch) size [GB]	Usage	Access
cobalt	(?) 2003	1	120	simple calculations, student tests, teaching	public
argon	2005	2	160	single-processor calculations with lower requirements	public
krypton	2005	1 - 2	160	single-processor calculations with lower requirements	public
radon	2005	2 - 4	320	single-processor calculations with average requirements	public
palladium	2004 - 2005	3 - 6	240 - 600	older cluster for memory and/or disk space demanding calculations	public
iridium	2006 - 2008	2	320 - 1000	general use	restricted
helium	2006 - 2008	2	250 - 320	parallel molecular dynamics calculations	restricted
francium	2007	4	640	parallel molecular dynamics calculations with infiniband	restricted
lithium	2006 - 2008	4 - 16	1600 - 6000	highly demanding parallel and/or single-processor calculations with large memory and disk space requirements	restricted
uranium	2008	2	1500	general use	public
barium	2007 - 2008	1 - 2	320 - 1500	mostly parallel molecular dynamics calculations	restricted
thallium	2007 - 2008	1 - 2	1500	general use	restricted

Clusters

The following text provides detailed information about clusters and nodes. Tables show resources available for calculations, which are usually smaller than total resources mentioned in the general overview above; some of the total node memory (RAM) must always remain reserved for operating system tasks.

cobalt

Total nodes: 40
Total cores: 40
Parallel calculations: no
Queuing system: DQS

Nodes	# of nodes	Queue	CPU	Cores/node	Available RAM/core	Scratch/node
c01 - c40	40	c01_a - c40_a	Intel Pentium 4 2.80GHz	1	800 MB	120 GB

argon

Total nodes: 44
Total cores: 44
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	Available RAM/core	Scratch/node
a01 - a44	44	aq	Intel Pentium 4 3.40 GHz	1	1.8 GB	160 GB

krypton

Total nodes: 44
Total cores: 44
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	Available RAM/core	Scratch/node
k01 - k16	16	kq2	Intel Pentium 4 3.40 GHz	1	1.8 GB	160 GB
k17 - k44	16	kq1	Intel Pentium 4 3.40 GHz	1	0.8 GB	160 GB

radon

Total nodes: 46
Total cores: 46
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	Available RAM/core	Scratch/node
r01 - r24	24	rq4	AMD Athlon 64 3500+	1	3.6 GB	320 GB
r25 - r46	22	rq2	AMD Athlon 64 3500+	1	1.8 GB	320 GB

palladium

Total nodes: 14
Total cores: 10
Parallel calculations: yes, within a single node
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node
p01 - p04	4	pqos	AMD Opteron 244	2	2.6 GB	240 GB
p05 - p14	10	pqop	AMD Opteron 244	2	2.6 GB	240 GB
p15 - p18	4	pqns	AMD Opteron 250	2	5.6 GB	600 GB
p19 - p24	6	pqnp	AMD Opteron 250	2	5.6 GB	600 GB

iridium

Total nodes:
Total cores:
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node

helium

Total nodes:
Total cores:
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node

francium

Total nodes:
Total cores:
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node

lithium

Total nodes:
Total cores:
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node

uranium

Total nodes:
Total cores:
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node

barium

Total nodes:
Total cores:
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node

thallium

Total nodes:
Total cores:
Parallel calculations: no
Queuing system: SGE

Nodes	# of nodes	Queue	CPU	Cores/node	RAM/core	Scratch/node

@@ Line 113: / Line 113: @@
 *Total nodes: 40
 *Total cores: 40
-*Queuing system: DQS
 *Parallel calculations: no
+*Queuing system: DQS
@@ Line 140: / Line 140: @@
 *Total nodes: 44
 *Total cores: 44
-*Queuing system: SGE
 *Parallel calculations: no
+*Queuing system: SGE
@@ Line 204: / Line 204: @@
 *Total nodes: 46
 *Total cores: 46
+*Parallel calculations: no
 *Queuing system: SGE
@@ Line 237: / Line 238: @@
 ===palladium===
-*Total nodes:
+*Total nodes: 14
-*Total cores:
+*Total cores: 10
+*Parallel calculations: yes, within a  single node
 *Queuing system: SGE
@@ Line 252: / Line 254: @@
 !Scratch/node
 |-
-|
+|p01 - p04
-|
+|4
-|
+|pqos
-|
+|AMD Opteron 244
-|
+|2
-|
+|2.6 GB
-|
+|240 GB
+|-
+|p05 - p14
+|10
+|pqop
+|AMD Opteron 244
+|2
+|2.6 GB
+|240 GB
+|-
+|p15 - p18
+|4
+|pqns
+|AMD Opteron 250
+|2
+|5.6 GB
+|600 GB
+|-
+|p19 - p24
+|6
+|pqnp
+|AMD Opteron 250
+|2
+|5.6 GB
+|600 GB
 |}
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 *Total cores:
+*Parallel calculations: no
 *Queuing system: SGE
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