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Cell splitting in neural networks extends strong scaling (Hines et al. 2008)
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This is the readme for the model from the paper Hines, Eichner, and Schuermann (2008) Neuron splitting in compute-bound parallel network simulations enables runtime scaling with twice as many processors. J Comput Neurosci (accepted). The pardentategyrus and nrntraub folders contain splitcell parallelized versions of the ModelDB models used in fig 3 of the above paper. Original serial versions of the models are at http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=51781 http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=45539 Splitcell modifications to the Santhakumar model began with the pardentategyrus code at http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=64229 Note: for autolaunch from ModelDB, after the choice of which of the two figure 3 models to run, an attempt is made to do the appropriate nrnivmodl or mknrndll and dynamically load the shared library or dll. The simulation will stop after setup when launched using the mosinit.hoc file. In the pardentgyrus directory, see bg.sh for an example of how these simulations were run in parallel on the BlueGene. Changelog --------- 20140403 splitcell/nrntraub/mod/ri.mod had char* secname(); changed to const char* secname(); to conform with ansi C compiler in new NEURON version. 20220523 Updated MOD files to contain valid C++ and be compatible with the upcoming versions 8.2 and 9.0 of NEURON. 20220924 Update MOD files to avoid declaring variables and functions with the same name. See neuronsimulator/nrn#1992 20230420 Do not assume a full definition of Section is visible, for compatibility with nrn#2027.
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Cell splitting in neural networks extends strong scaling (Hines et al. 2008)
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