Comparison of neuronal spike exchange methods on a Blue Gene/P supercomputer

Frontiers in Computational Neuroscience

Volumn , Issue NOVEMBER, 2011, Pages 6-

  Hines, Michael ^a   Kumar, Sameer ^b   Schurmann, Felix ^c  

^a Yale University   (United States)

^b IBM T J WATSON RESEARCH CENTER   (United States)

^c EPFL   (Switzerland)

Author keywords

Computer simulation; Load balance; Neuronal networks; Parallel simulation

Indexed keywords

BLUE GENE; DIRECT MEMORY ACCESS; DMA CONTROLLERS; EXCHANGE-TIME; K-CORES; LOAD BALANCE; LOAD IMBALANCE; LOW OVERHEAD; MESSAGE PASSING INTERFACE; NEURAL NET; NEURAL NETWORK SIMULATIONS; NEURONAL NETWORKS; NON-BLOCKING; PARALLEL MACHINE; PARALLEL SIMULATIONS; RANDOMLY CONNECTED NETWORKS; RANDOMLY DISTRIBUTED; SIMULATION TIME;

CELLS; COMMUNICATION; COMPUTER ARCHITECTURE; COMPUTER SIMULATION; MESSAGE PASSING; MULTICASTING; PARALLEL PROCESSING SYSTEMS; SUPERCOMPUTERS; CYTOLOGY; DISTRIBUTED COMPUTER SYSTEMS; GENES; MEMORY ARCHITECTURE; NEURONS;

NEURAL NETWORKS;

ARTICLE; COMPUTER; COMPUTER PROGRAM; COMPUTER SIMULATION; CONTROLLED STUDY; DIRECT MEMORY ACCESS; INFORMATION PROCESSING; INTERMETHOD COMPARISON; MESSAGE PASSING INTERFACE; NERVE CELL NETWORK; NEURONAL SPIKE EXCHANGE METHOD; NEUROSCIENCE; SUPERCOMPUTER; SYNCHRONIZATION; MEMORY; NERVOUS SYSTEM; SPIKE;

EID: 82955235732     PISSN: 16625188     EISSN: None     Source Type: Journal    
DOI: 10.3389/fncom.2011.00049     Document Type: Article

References (15)

1. 13 synapses, in Supercomput-ing09: Proceedings ofthe ACM/ IEEE SC2009 Conference on High Performance Networking and Computing, Portland, OR.
2. Ananthanarayanan, R., and Modha, D. S. (2007). Anatomy of a cortical simulator, in Supercomputing 07: Proceedings of the ACM/IEEE SC2007 Conference on High Performance Networking and Computing, Reno, NV.
3. Djurfeldt, M., Hjorth, J., Eppler, J.M., Dudani, N., Helias, M., Potjans, T.C., Bhalla, U.S., Diesmann, M., Kotaleski, J. H., and Ekeberg, O. Run-time interoperability between neuronal network simula-torsbasedontheMUSICframework. Neuroinformatics 8, 43-60.
4. Djurfeldt, M., Johansson, C., Ekeberg, C., Rehn, M., Lundqvist, M., and Lansner, A. (2005). Massively parallel simulation of brain-scale neu-ronal network models. Technical Report TRITA-NA-P0513.Stockholm: School of Computer Science and Communication.
5. Eppler, J.M., Plesser, H.E., Morrison, A., Diesmann, M., and Gewaltig, M.-O. (2007). Multithreaded and distributed simulation of large bio-logicalneuronalnetworks. Proceedings of European PVM/MPI 2007, Springer LNCS 4757, 391-392.
6. Gewaltig, M.-O., and Diesmann, M. (2007). NEST (Neural Simulation Tool). Scholarpedia 2, 1430.
7. Hereld, M., Stevens, R. L., Teller, J., and van Drongelen, W. (2005). Large neural simulations on large parallel computers. IJBEM 7, 44-46.
8. Hines, M. L., and Carnevale, N. T. (1997). The NEURON simulation environment. Neural Comput.91179-1209.
9. Kumar, S., Heidelberger, P., Chen, D., and Hines, M. (2010). Optimization of applications with non-blocking neighborhood collectives via mul-tisends on the Blue Gene/P supercomputer, in 24th IEEE International Symposium on Parallel and Distributed Processing. doi: 10.1109/IPDPS.2010.5470407.
10. Kumar, S., et al. (2008). The deep computing messaging framework: generalized scalable message passing on the Blue Gene/P Supercomputer, in The 22nd ACM International Conference on Supercomputing (ICS),Islandof Kos, Greece.
11. Kunkel, S., Potjans, T. C., Morrison, A., and Diesmann, M. (2009). Simulating macroscale brain circuits with microscale resolution. Frontiers in Neuroinformatics. Conference Abstract: 2nd INCF Congress of Neuroinformatics. doi: 10.3389/conf.neuro.11.2009.08.044.
12. Markram, H. (2006). The blue brain project. Nat. Rev. Neurosci.7153-160.
13. Migliore, M., Cannia, C., Lytton, W. W., Markram, H., and Hines, M. L. (2006). Parallel network simulations with NEURON. J. Comput. Neurosci. 21, 119-129.
14. Tam, A., and Wang, C. (2000). Efficient scheduling of complete exchange on clusters, in 13th International Conference on Parallel and Distributed Computing Systems (PDCS 2000), Las Vegas (August, 2000).
15. Wilson, E. C., Goodman, P. H., and Harris, F.C. (2001).Implementation of a biologically realistic parallel neocortical-neural network simulator, in Proceedings of the Tenth SIAM Conference on Parallel Processing for Scientific Computing, March 12-14, 2001 Portsmouth, Virginia.