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So, then I should also use the axial resistance in the middle as well? The specific axial resistance Ra is a section variable that is constant throughout a section. There is a helper function called ri(x) that makes it easier to calculate the axial resistance between two adjacent nodes ( http://www...

From reading the User's Forum posts, I thought the correct way to calculate currents was to measure voltages at each end of a segment and use the axial resistance in that segment. Is that incorrect? If you literally mean the beginning and end of one and the same segment, this is wrong, because volt...

steps_per_ms = 1 dt = 1e-2 This will result in a very low resolution of your plots. Try dt = 1e-2 steps_per_ms = 1/dt to plot 1 point per time step. ra = 100 hoc is case-sensitive. Axial resistance is R a . rm = 30000 rm is not a valid hoc keyword. If you use the pas mechanism for passive (leak) co...

create A A {L=100 diam=20 nseg=7} By specifying nseg =7, section A will have exactly 7 segments, no more and no less. Each of these segments will have one node at its midpoint "at which the voltage of the segment is defined", to cite from chapter 5 of the NEURON book. Although there are a...

I have a question on defining electrotonic distance in the classical cable theory and in NEURON. An excellent introduction to cable theory is given in chapter 4 of Johnston & Wu, "Foundations of Cellular Neuropysiology", MIT Press, Cambridge, 1995. All your questions are answered with...

With regard to the opening post, I find it strange that we don't see, "I won't print because of the assignment" on the command line because the variable test is successfully assigned. The assignment operator (=) returns the result of the assignment in hoc, C and C++ so that you can use ch...

sudo apt-get install gnome-devel (if you use gnome. with kde: kde-devel). If this doesn't help use as well: sudo apt-get install x-dev That should work! happy hacking, Philipp I recently ran into the same problems in Ubuntu (feisty). Although I thought I had installed every single x-development pac...

I was examining the electrotonic properties, especially "V(measure)/V(inject) ", of a model cell with the Impedance tool and I could see the results in "LogAvsX[0]" window. However, I couldn't find the way to record all results to the text file for further analysis. Is there any...

ted wrote:What is an ADP?

An Afterdepolarization, I assumed.

Is there any way to calculate the area under the curve of an ADP using NEURON? You could record voltage into a Vector during simulation, subtract the baseline, and then calculate the integral using integral record is described here: http://www.neuron.yale.edu/neuron/static/docs/help/neuron/general/...

If anyone encounters similar problems, here is a short follow-up: Michael Hines helped me sort out this problem. I had to explicitly disable shared libraries during configure, so here is what I did: ./configure --prefix='pwd' --disable-shared --without-x --without-nrnjava As far as I tested it, ever...

Hi, has anyone ever tried to run NEURON on AIX (more specifically, AIX 5L 5.1)? I can configure and make NEURON 6.0.821, however, when I try to run it, I get a Segmentation fault(coredump) right away (both with ./nrniv and ./special). I have configured as follows: ./configure --without-x --without-m...

hi, all friends i download mr. Alain Destexhe's publication's demo file BAKCP.zip but i can't compile with NEURON 5.9 and i have errors folowing error code in NEURON 5.9 best regard I'm searching for the same file, anybody has the link? Direct link to the file: http://cns.iaf.cnrs-gif.fr/files/BACK...

Hi, while using the "Imp1" wrapper class defined in share/lib/hoc/impedanc.hoc, I found that extended was used in Imp1.compute() without having been declared. Adding it to the public member list and initializing it to 0 in init() made the class work fine. Did I make a mistake while using t...

First of all, Michael Hines' solution of introducing a Vector seems a lot more elegant than mine, because appending elements will update the Vector's size and n_comp automatically. I have therefore changed my code accordingly: // Modified 09/28/06, CSH------------------------------------------------...