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README.txt
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README.txt
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-- Last updated Mon 27 Feb 2012 00:36:15 EST
USAGE
For standard GUI run mode
make clean && make
nrngui rgc-ctt3219m.hoc
To run in MPI-compatible batch mode
make clean && make mpi
{time mpiexec -np 4 nrniv-mpi -mpi -nogui ./jobs/X.hoc} 2>&1 | tee -a out
or
{time mpirun -np 4 nrniv-mpi -mpi -nogui ./jobs/X.hoc} 2>&1 | tee -a out
FILE SUMMARY
jobs/ Script files for automated runs
output/ Computation output goes here
regression/ Regression tests for RGCs
scripts/ Matlab scripts for data processing
*.ses Session files for setting up the UI
*.mod Model mechanism implementation files
init-rgc-*.hoc Initialization files for running RGCs
rgc-121203.hoc Mice RGC with morphology by Kong05 (Masland)
rgc-121821.hoc Mice RGC with morphology by Kong05 (Masland)
rgc-ctt3219m.asc Salamander simple RGC morphology from Sheasby paper
rgc-ctt3219m.hoc Model spec for above
rgc-lws9287r.asc Salamander complex RGC morphology from sheasby paper
rgc-lws9287r.hoc Model spec for above
autoThresholdMap.hoc Computes threshold map automatically, supports MPI
autoTileThresholdMap.hoc Computes threshold map automatically, supports MPI
global.hoc Cell-invariant global definitions
gui.hoc Graphical user interface elements
instr.hoc Instrumentations for cells
interpxyz.hoc Extracellular stimulation supoort
stim.hoc Extracellular stimulation definition
util.hoc General utility functions