ajustador¶
ajustador.basic_simulation¶
Run a single simulation from the command-line
This module takes a set of parameters which override the defaults provides by the moose_nerp module and runs the simulation and saves the results. In particular, this is useful when running multiple simulation in parallel, where each one should be run out-of-process:
$ python3 -m ajustador.basic_simulation \
--baseline=-0.07639880161359705 \
--RA=9.273975490852102 \
--RM=0.11241922550664576 \
--CM=0.0298401595465488 \
--Cond-Kir=6.441375022294002 \
--Kir-offset=6.529897906031442e-07 \
--morph-file=MScell-tertDendlongRE.p \
--simtime=0.9 \
-i=-5.0000000000000034e-11 \
--save=ivdata--5.0000000000000034e-11.npy
This module is not automatically imported as a child of ajustador. An explicit import is needed: >>> import ajustador.basic_simulation
usage: basic_simulation [-h] [--simtime SIMTIME] [--simdt SIMDT]
[--plotdt PLOTDT] [--hsolve [HSOLVE]]
[--injection-current CURRENT] [--injection-delay TIME]
[--injection-width TIME] [--stimtimes TIMEPOINTS]
[--syncomp SYNCOMP] [--plot-vm [PLOT_VM]]
[--plot-current [PLOT_CURRENT]]
[--plot-calcium [PLOT_CALCIUM]]
[--plot-current-message NAME]
[--plot-current-label LABEL] [--plot-synapse [BOOL]]
[--plot-synapse-message NAME]
[--plot-synapse-label LABEL] [--plot-channels [BOOL]]
[--plot-activation [BOOL]] [--plot-network [BOOL]]
[--plot-netvm [BOOL]] [--morph-file MORPH_FILE]
[--baseline BASELINE] --model MODEL --neuron-type
NEURON_TYPE [--RA RA] [--RM RM] [--CM CM]
[--Erest EREST] [--Eleak ELEAK]
[--Kir-offset KIR_OFFSET] [--cond COND [COND ...]]
[--save SAVE]
- Options:
--simtime=0.9, -t=0.9 Simulation time --simdt=1e-05 Simulation step --plotdt=0.0002 Plot point distance --hsolve=True Use the HSOLVE solver --injection-current=[-1.5e-10, 1.5e-10, 3.5e-10], -i=[-1.5e-10, 1.5e-10, 3.5e-10] One or more injection currents (V) --injection-delay=0.2 Start current injection at this time --injection-width=0.4 Inject current for this much time --stimtimes=[0.04, 0.19, 0.46] Undocumented --syncomp=4 Synapse compartment number --plot-vm Whether to plot membrane potential Vm --plot-current Whether to plot the current --plot-calcium Whether to plot calcium --plot-current-message=getGk The moose message to use --plot-current-label=Cond, S Current plot label --plot-synapse Undocumented --plot-synapse-message=getGk Undocumented --plot-synapse-label=Cond, nS Undocumented --plot-channels Undocumented --plot-activation Undocumented --plot-network Undocumented --plot-netvm Undocumented --morph-file Undocumented --baseline Undocumented --model Undocumented --neuron-type Undocumented --RA Undocumented --RM Undocumented --CM Undocumented --Erest Undocumented --Eleak Undocumented --Kir-offset Undocumented --cond=[] Undocumented --save Undocumented
| ref: | ajustador.utilities |
|---|