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‎.gitignore‎

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/cells/SmithEtAl2013/analysis/L23PyrRS.hoc
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/kernelseed
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x86_64
5-
temp
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/cells/HH2/*.dat
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/cells/HH2/*.hoc
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/cells/HH2/*.mod
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/cells/SmithEtAl2013/*.hoc
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/cells/SmithEtAl2013/analysis
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/cells/HH2/simulator.props
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/jsbml.log
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/libjhdf5.so
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/temp/

‎NoisyCurrentSource.xml‎

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<Lems>
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<noisyCurrentSource id="noisyCurrentSource1" delay="100ms" duration="1000ms" mean="0 nA" stdev="0.05 nA" noiseDt="1.0ms"/>
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<noisyCurrentSource id="noisyCurrentSource2" delay="100ms" duration="1000ms" mean="0 nA" stdev="0.01 nA" noiseDt="1.0ms"/>
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<noisyCurrentSource id="noisyCurrentSource3" delay="100ms" duration="1000ms" mean="0 nA" stdev="0.005 nA" noiseDt="1.0ms"/>
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<ComponentType name="noisyCurrentSource" extends="baseVoltageDepPointCurrentSpiking"
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description="NeuroML implementation of PyNN's NoisyCurrentSource: a Gaussian 'white' noise current source. The current amplitude changes at fixed
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intervals, with the new value drawn from a Gaussian distribution.">
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<Parameter name="delay" dimension="time" description="Delay before change in current. Current is zero prior to this."/>
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<Parameter name="duration" dimension="time" description="Duration for holding current at amplitude. Current is zero after delay + duration."/>
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<Parameter name="mean" dimension="current" description="Amplitude of current pulse"/>
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<Parameter name="stdev" dimension="current" description="Standard deviation of current pulse"/>
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<Parameter name="noiseDt" dimension="time" description="Interval between updates of the current amplitude. Should be a
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multiple of the simulation time step. "/>
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<EventPort name="in" direction="in" description="Note this is not used here. Will be removed in future"/>
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<Dynamics>
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<StateVariable name="i" exposure="i" dimension="current"/>
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<StateVariable name="tsince" dimension="time"/>
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<TimeDerivative variable="tsince" value="1"/>
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<StateVariable name="U" dimension="none"/>
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<StateVariable name="V" dimension="none"/>
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<StateVariable name="randn" dimension="none"/>
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<OnCondition test="t .lt. delay-noiseDt">
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<StateAssignment variable="i" value="0"/>
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<StateAssignment variable="tsince" value="0"/>
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</OnCondition>
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<OnCondition test="tsince .geq. noiseDt">
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<StateAssignment variable="U" value="random(1)"/>
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<StateAssignment variable="V" value="random(1)"/>
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<StateAssignment variable="randn" value="sqrt(-2*log(U))*cos(2*3.14159265359*V)"/>
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<StateAssignment variable="i" value="mean+stdev*randn"/>
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<StateAssignment variable="tsince" value="0"/>
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</OnCondition>
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<OnCondition test="t .geq. duration + delay">
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<StateAssignment variable="i" value="0"/>
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</OnCondition>
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</Dynamics>
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</ComponentType>
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</Lems>
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‎temp/NoisyCurrentSource.xml‎

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<Lems>
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<noisyCurrentSource id="noisyCurrentSource1" delay="100ms" duration="1000ms" mean="0 nA" stdev="0.05 nA" noiseDt="1.0ms"/>
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<noisyCurrentSource id="noisyCurrentSource2" delay="100ms" duration="1000ms" mean="0 nA" stdev="0.01 nA" noiseDt="1.0ms"/>
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<noisyCurrentSource id="noisyCurrentSource3" delay="100ms" duration="1000ms" mean="0 nA" stdev="0.005 nA" noiseDt="1.0ms"/>
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<ComponentType name="noisyCurrentSource" extends="baseVoltageDepPointCurrentSpiking"
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description="NeuroML implementation of PyNN's NoisyCurrentSource: a Gaussian 'white' noise current source. The current amplitude changes at fixed
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intervals, with the new value drawn from a Gaussian distribution.">
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<Parameter name="delay" dimension="time" description="Delay before change in current. Current is zero prior to this."/>
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<Parameter name="duration" dimension="time" description="Duration for holding current at amplitude. Current is zero after delay + duration."/>
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<Parameter name="mean" dimension="current" description="Amplitude of current pulse"/>
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<Parameter name="stdev" dimension="current" description="Standard deviation of current pulse"/>
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<Parameter name="noiseDt" dimension="time" description="Interval between updates of the current amplitude. Should be a
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multiple of the simulation time step. "/>
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<EventPort name="in" direction="in" description="Note this is not used here. Will be removed in future"/>
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<Dynamics>
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<StateVariable name="i" exposure="i" dimension="current"/>
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<StateVariable name="tsince" dimension="time"/>
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<TimeDerivative variable="tsince" value="1"/>
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<StateVariable name="U" dimension="none"/>
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<StateVariable name="V" dimension="none"/>
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<StateVariable name="randn" dimension="none"/>
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<OnCondition test="t .lt. delay-noiseDt">
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<StateAssignment variable="i" value="0"/>
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<StateAssignment variable="tsince" value="0"/>
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</OnCondition>
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<OnCondition test="tsince .geq. noiseDt">
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<StateAssignment variable="U" value="random(1)"/>
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<StateAssignment variable="V" value="random(1)"/>
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<StateAssignment variable="randn" value="sqrt(-2*log(U))*cos(2*3.14159265359*V)"/>
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<StateAssignment variable="i" value="mean+stdev*randn"/>
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<StateAssignment variable="tsince" value="0"/>
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</OnCondition>
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<OnCondition test="t .geq. duration + delay">
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<StateAssignment variable="i" value="0"/>
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</OnCondition>
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</Dynamics>
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</ComponentType>
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</Lems>
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‎temp/README.md‎

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