Cluster IMBG NAS of Ukraine is based on a computing node beowulf class, which consists of 15 compute nodes, two nodes as managers and one node used for the network services. About 360 processor cores Intel Xeon available for users. Most of nodes are connected via Gigabit Ethernet and some of nodes via Infiniband (i1, i2). External Internet – 10 Gbit/s. Cluster IMBG supports MolDyGrid Virtual Laboratory’s services as a host.
- RAM: 360 GB (24 GB per node).
- Storage capacity: 80 TB (RAID).
- Operating system: Scientific Linux 6.5
- MiddleWare: ARC 4 (NorduGrid) and gLite 3 (EGI)
- Management system: TORQUE
2 x Nodes for Managements:
SYS-6016T-TLF 19, 2xIntel® Xeon® Processor X5650, 2.6 GHz, RAM – 24Gb, HDD – 500 Gb. OS: Scientific Linux 6.5. Nodes perform virtualization functions for grid services.
1 x Node for network services:
SYS-5018D-MF, 2xIntel® Xeon® Processor E1220 3.0 GHz, RAM – 24Gb, HDD – 500 Gb. OS: Scientific Linux 6.5. Node support for cluster sites, virtual organizations and email server.
Computing Elements:
6 x SYS-6016T-TLF 19, 2xIntel® Xeon® Processor X5650 (144 CPUs cores), 2.6 GHz, RAM – 24Gb, HDD – 500 Gb. OS: Scientific Linux 6.5. About 4 Gb of HDD allocated for temporary storage.
9 x SYS-6017R-TLF 19, 2xIntel® Xeon® Processor E5-2620, 2.0 GHz (216 CPUs cores), RAM – 24Gb, HDD – 500 Gb. OS: Scientific Linux 6.5. About 4 Gb of HDD allocated for temporary storage.
Software:
Programming languages: C / C ++, Fortran, perl 5, python 2 (3).
Scientific packages: Amber 9 (11), GROMACS 5 (4.5 to 5.0), NAMD 2.9, Modeller 9v8, AutoDock 4, PTEROS 1, CPMD 3, ORCA 3.
Status: Active
Start Date: 2008
End Date: till now
Infrastructures: UNG, EGI, NorduGrid
Workgroup: Andrii Salnikov, Oleksandr Savytskyi, Ievgen Sliusar
Head of Project: Prof. Alexander I. Kornelyuk
Website: https://grid.imbg.org.ua/
References:
[1] Savytskyi, O. V., Sliusar, I. A., Yesylevskyy, S. O., Stirenko, S. G., & Kornelyuk, A. I. (2011). INTEGRATED TOOLS FOR MOLECULAR DYNAMICS SIMULATION DATA ANALYSIS IN THE MOLDYNGRID VIRTUAL LABORATORY. Proceedings of the 6-th IEEE International Conference on Intelligent Data Acquisition and Advanced Computing Systems: Technology and Applications, IDAACS 2011, 1, 209-211. PDF
[2] Salnikov, A., Sliusar, I., Sudakov, O., Savytskyi, O., & Kornelyuk, A. (2010). VIRTUAL LABORATORY MOLDYNGRID AS A PART OF SCIENTIFIC INFRASTRUCTURE FOR BIOMOLECULAR SIMULATIONS. International Journal of Computing, 9(4), 294-300. PDF
[3] Salnikov, A. O., Sliusar, I. A., Sudakov, O. O., Savytskyi, O. V., & Kornelyuk, A. I. (2009). MOLDYNGRID VIRTUAL LABORATORY AS A PART OF UKRAINIAN ACADEMIC GRID INFRASTRUCTURE. Proceedings of the 5th IEEE International Workshop on Intelligent Data Acquisition and Advanced Computing Systems: Technology and Applications, IDAACS 2009, 1, 237-240. PDF (Please cite this paper as first priority for SCOPUS)