Cell splitting in neural networks extends strong scaling (Hines et al. 2008)

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Accession:97917
Neuron tree topology equations can be split into two subtrees and solved on different processors with no change in accuracy, stability, or computational effort; communication costs involve only sending and receiving two double precision values by each subtree at each time step. Application of the cell splitting method to two published network models exhibits good runtime scaling on twice as many processors as could be effectively used with whole-cell balancing.
Reference:
1 . Hines ML, Eichner H, Schürmann F (2008) Neuron splitting in compute-bound parallel network simulations enables runtime scaling with twice as many processors. J Comput Neurosci 25:203-10 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism: Generic;
Cell Type(s):
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Methods;
Implementer(s): Hines, Michael [Michael.Hines at Yale.edu];
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splitcell
nrntraub
mod
alphasyndiffeq.mod
alphasynkin.mod *
alphasynkint.mod *
ampa.mod
ar.mod *
cad.mod *
cal.mod *
cat.mod *
cat_a.mod *
gabaa.mod
iclamp_const.mod *
k2.mod *
ka.mod *
ka_ib.mod *
kahp.mod *
kahp_deeppyr.mod *
kahp_slower.mod *
kc.mod *
kc_fast.mod *
kdr.mod *
kdr_fs.mod *
km.mod *
naf.mod *
naf_tcr.mod
naf2.mod *
nap.mod *
napf.mod *
napf_spinstell.mod *
napf_tcr.mod *
par_ggap.mod *
pulsesyn.mod *
rampsyn.mod *
rand.mod *
ri.mod
traub_nmda.mod
                            
TITLE Potasium AHP (slower) type current for RD Traub, et al 2005

COMMENT
	Modified by Tom Morse to make slower than the slow suppyrFRB, suppyrRS AHP.
	Note the time constant at zero cai is 1 second here and 100ms in the slow AHP
	3/13/06
	Implemented by Maciej Lazarewicz 2003 (mlazarew@seas.upenn.edu)
	RD Traub, J Neurophysiol 89:909-921, 2003
ENDCOMMENT

UNITS { 
	(mV) = (millivolt) 
	(mA) = (milliamp) 
	(mM) = (milli/liter)
} 

NEURON { 
	SUFFIX kahp_slower
	USEION k READ ek WRITE ik
	USEION ca READ cai
	RANGE gbar, ik, m
}

PARAMETER { 
	gbar = 0.0 	(mho/cm2)
	v		(mV) 
	ek 		(mV)  
	cai		(mM)
}
 
ASSIGNED { 
	ik 		(mA/cm2) 
	alpha (/ms) beta	(/ms)
}
 
STATE {
	m
}

BREAKPOINT { 
	SOLVE states METHOD cnexp
	ik = gbar * m * ( v - ek ) 
}
 
INITIAL { 
	rates( cai )
	m = alpha / ( alpha + beta )
	m = 0
}
 
DERIVATIVE states { 
	rates( cai )
	m' = alpha * ( 1 - m ) - beta * m 
}

UNITSOFF 

PROCEDURE rates(chi (mM)) { 

	if( cai < 500 ) {
		alpha = cai / 50000
	}else{
		alpha = 0.01
	}
	beta = 0.001
}

UNITSON

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