Cluster list
From Molecular Modeling Wiki
Contents |
Overview
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 - 2009 | 1 - 2 | 320 - 1500 | mostly parallel molecular dynamics calculations | restricted |
| thallium | 2007 - 2008 | 1 - 2 | 1500 | general use | restricted |
| neon | 2009 | 0.5 | 900 | parallel molecular dynamics calculations with infiniband | restricted |
| erbium | 2009 | 2 - 4 | 900 | general use, parallel calculations | 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 | 28 | 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 | 1.6 GB | 320 GB |
palladium
- Total nodes: 24
- Total cores: 48
- Parallel calculations: yes, within a single node (in pqXp queues, max 2 processor per job)
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available 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: 50
- Total cores: 120
- Parallel calculations: yes, special setup
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| i01 - i34 | 34 | <unknown> | Intel Core2 6600 2.40GHz | 2 | 1.6 GB | 320 GB |
| i35 - i40 | 6 | <unknown> | Intel Core2 Duo E6750 2.66GHz | 2 | 1.6 GB | 320 GB |
| i41 - i42 | 2 | <unknown> | Intel Core2 Quad Q6600 2.40GHz | 4 | 1.8 GB | 1000 GB |
| i43 - i50 | 8 | <unknown> | Intel Core2 Quad Q9550 2.83GHz | 4 | 1.8 GB | 1000 GB |
helium
- Total nodes: 16
- Total cores: 64
- Parallel calculations: yes, accross nodes, MPI
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| h01 - h06 | 6 | hq | AMD Opteron Dual Core 275 | 4 | 1.8 GB | 320 GB |
| h07 - h16 | 10 | hq | AMD Opteron Dual Core 2216 | 4 | 1.8 GB | 250 GB |
francium
- Total nodes: 24
- Total cores: 96
- Parallel calculations: yes, accross nodes, MPI, infiniband
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| f01 - f24 | 24 | fq | AMD Opteron Dual Core 2214 | 4 | 3.8 GB | 640 GB |
lithium
- Total nodes: 16
- Total cores: 82
- Parallel calculations: yes, within a single node, MPI
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| l01 - l04 | 4 | lq-4-8 | AMD Opteron Dual Core 285 | 4 | 7.8 GB | 3000 GB |
| l05 - l08 | 4 | lq-2-16 | AMD Opteron 256 | 2 | 15.4 GB | 3000 GB |
| l09 | 1 | lq-2-16 | AMD Opteron 854 | 2 | 15.4 GB | 1600 GB |
| l10 - l16 | 7 | lq-8-4 | Intel Xeon E5430 2.66GHz | 8 | 3.8 GB | 6000 GB |
uranium
- Total nodes: 24
- Total cores: 192
- Parallel calculations: yes, within a single node, MPI
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| u01 - u14 | 14 | columbusq | Intel Xeon E5430 2.66GHz | 8 | 1.8 GB | 1500 GB |
| u15 - u24 | 10 | uq | Intel Xeon E5430 2.66GHz | 8 | 1.8 GB | 1500 GB |
barium
- Total nodes: 24
- Total cores: 172
- Parallel calculations: yes, within a single node, MPI
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| b01 - b02 | 2 | bq-4-1 | Intel Core2 Quad 2.40GHz | 4 | 0.8 GB | 320 GB |
| b03 - b05 | 3 | bq-4-2 | Intel Core2 Quad 2.40GHz | 4 | 1.8 GB | 320 GB |
| b06 - b14 | 9 | bq-8-1 | Intel Xeon E5345 2.33GHz | 8 | 0.8 GB | 1320 GB |
| b15 - b19 | 5 | bq-8-1 | Intel Xeon E5430 2.66GHz | 8 | 0.8 GB | 1500 GB |
| b20 - b24 | 5 | bq-8-1-f | Intel Xeon E5430 2.66GHz | 8 | 0.8 GB | 1500 GB |
thallium
- Total nodes: 19
- Total cores: 124
- Parallel calculations: yes, accross multiple nodes, MPI
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| t01 - t07 | 7 | tq-4-2 | Intel Core2 Quad 2.40GHz | 4 | 1.8 GB | 1500 GB |
| t08 - t14 | 7 | tq-8-1 | Intel Xeon E5345 2.33GHz | 8 | 0.8 GB | 1500 GB |
| t15 - t19 | 5 | tq-4-2 | Intel Xeon E5430 2.66GHz | 8 | 0.8 GB | 1500 GB |
neon
- Total nodes: 24
- Total cores: 192
- Parallel calculations: yes, accross nodes, MPI, infiniband
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| n01 - n24 | 24 | nq | Intel Xeon E5430 2.66GHz | 8 | 0.4 GB | 900 GB |
erbium
- Total nodes: 7
- Total cores: 26
- Parallel calculations: yes, within a single node, MPI
- Queuing system: SGE
| Nodes | # of nodes | Queue | CPU | Cores/node | Available RAM/core | Scratch/node |
|---|---|---|---|---|---|---|
| e01 | 24 | eq-2-2 | AMD Opteron 250 | 2 | 1.8 GB | 900 GB |
| e02 - e04 | 24 | nq | Intel Xeon E5430 2.66GHz | 8 | 0.4 GB | 900 GB |
| e05 - e07 | 24 | nq | Intel Xeon E5430 2.66GHz | 8 | 0.4 GB | 900 GB |
Totals
| Total # of nodes | Total # of cores | Total RAM | Total disk space |
|---|---|---|---|
| 395 | 1264 | (2.6 TB) | (263 TB) |
