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README
for the model associated with:
Rulkov NF, Timofeev I, Bazhenov M (2004)
Oscillations in large-scale cortical networks: map-based model.
J Comput Neurosci 17:203-23
This model is written in C++. The following instructions work have worked
under redhat linux 9 although
the code should work with little or no modification on other platforms with ansi compilers.
How to compile:
Change to the directory in which you have unziped the archieve file, then type:
g++ network2D.cpp -lm -O4 -ffast-math -o n.exe
How to run:
n.exe input2D.txt > tmp &
C++ code for simulating 2 layer 2D network (256x256
pyramidal cells - regular spiking
type and 128x128 interneurons - fast spiking type) of map-based neurons.
With some small modifications this code
was used to generate Fig 9A (right plot) in our JCNS paper.
Also there is a movie of spiral wave dynamics available (see pop-down
window above model files in ModelDB.
Making the movie with matlab:
Matlab scripts which create images which are then used to create the movie:
import2D('graf_cx0')
movieMAP
To assemble the images into the movie and then save the movie:
for i=1:200; tmp=imread(['mov' num2str(i) '.png']); m(i)=im2frame(tmp); end;
movie2avi(m,'spiral2D.avi');
Additional note:
The simulations with 256x256 require > 1GB RAM (otherwise there is a huge
time penalty for virtual memory use).
Correspondence:
Dr. Maxim Bazhenov, The Salk Institute,
10010 North Torrey Pines Road, La Jolla, CA 92037.
E-mail:
bazhenov@salk.edu
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