Simulating a model of graded synaptic transmission
Posted: Mon Sep 27, 2010 4:57 pm
I tried to reproduce fig 10.2 in the NEURON book:
I created the pre and post cells using cell builder. (The precell is a basilar and the post cell is a soma), I used the specifications in the text, but was not sure what the length of the precell(basilar should be, as it is said to be a hermisphere) (If I used the circuference of the circle (l) to be 2*PI*r, for hermisphere, half the circle, it will be very small, as r is 0.5 which implies L= PI*0.5. Not being sure, I left L as 100um. I used the d'lambda of the cell builder for segmentation of both sections
The biophysical properties is as specified in the text, but I'm also not sure if the precell has either the hh or passive channels in addition to the cachan and cdp. Not being sure, I did not, include either. I saved the cell builder as a hoc file.
I created the instrumentation (syn (GradSyn)) and sinClamp using hoc file. Saved it
Using an initilazing file that has "load_file" I loaded the cell (created with cell builder), and the instrumentaion. There was no error.
I used the GUI to complete the instrumentation:ie create graphs and run the simulation, when I ran the simulation I have this error message:
at line 62 in file Calcium_Pump.mod:
BREAKPOINT { SOLVE state METHOD sparse
Error at section location precell(0.166667)
Convergence not achieved in maximum number of iterations
nrniv: scopmath library error
near line 20
{run()}
^
fadvance( )
advance( )
step( )
continuerun(200 )
and others
Please can you help to interprete the error and tell me what to do to fix it.
The calciump-pump I inserted is the one created in example 9.9 of the NEURON book
Thank you
Irene
I created the pre and post cells using cell builder. (The precell is a basilar and the post cell is a soma), I used the specifications in the text, but was not sure what the length of the precell(basilar should be, as it is said to be a hermisphere) (If I used the circuference of the circle (l) to be 2*PI*r, for hermisphere, half the circle, it will be very small, as r is 0.5 which implies L= PI*0.5. Not being sure, I left L as 100um. I used the d'lambda of the cell builder for segmentation of both sections
The biophysical properties is as specified in the text, but I'm also not sure if the precell has either the hh or passive channels in addition to the cachan and cdp. Not being sure, I did not, include either. I saved the cell builder as a hoc file.
I created the instrumentation (syn (GradSyn)) and sinClamp using hoc file. Saved it
Using an initilazing file that has "load_file" I loaded the cell (created with cell builder), and the instrumentaion. There was no error.
I used the GUI to complete the instrumentation:ie create graphs and run the simulation, when I ran the simulation I have this error message:
at line 62 in file Calcium_Pump.mod:
BREAKPOINT { SOLVE state METHOD sparse
Error at section location precell(0.166667)
Convergence not achieved in maximum number of iterations
nrniv: scopmath library error
near line 20
{run()}
^
fadvance( )
advance( )
step( )
continuerun(200 )
and others
Please can you help to interprete the error and tell me what to do to fix it.
The calciump-pump I inserted is the one created in example 9.9 of the NEURON book
Thank you
Irene