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Hi When the derivative block is called for a specific mechanism does the state variable have different values for each segment or the same value for the whole section? When i checked this in a toy model i got the same value for all the segments, if this is true i wonder what is the voltage that is u...

Thanks so much for this solution now the connection works well. Next i set the NODEA and NODEB of the children using GETA and SETA in the branching.mod file as you recommended. I am having difficulties now setting NODEA and NODEB of the Exts' nodes appropriately. If i dont touch them they get a very...

I am checking if nchild>1 so if the section does have more than one children there is a scenario where there are two children in the same segment(now that i can use the verbatim i should probably do a better check - that there is no segment that appears more than twice in the v_parent_node array). B...

regarding the verbatim used in the ri.mod it helps me a lot since now i can get the fmatrix() in any precision i like and the segments level topology (_nt._v_parent_index) so it has been super helpful and answers the question i asked in the topic. here is the mod file i am using now: NEURON { SUFFIX...

So in the loop i didn't change the properties of the last Ext section i am pasting the corrected code: objref somaref,secref,extVec,strFunc,stim,g1 strFunc = new StringFunctions() create Exts[1] proc disperseBranch(){localobj sl,conVec,tempSec,existList strdef fatherStr ext_ind=0 forall{ comps = 0 f...

Yes! it does help a lot, my bad
Thanks so much!

Thank you very much for this, I tried to implement this but when comparing it to the original code (without splitting the branching) i get different results. So i probably got something wrong: So when i set Ra=0 in the additional nodes then the volt is nan, so i changed it to 0.00000001 but the resu...

Hi Ted, Thanks for your time, I probably should have been more clear regarding nt._v_parent_index so its a member of the struct NrnThread defined in nrnoc/multicore.h that holds an array of all the indices of the parents for each segment. My goal is to use GPU and CUDA to simulate neuronal models (h...

Hi, Is there a way to get the whole topology as in which segment compartments are connected? I saw that "nt._v_parent_index" holds this information but how can i get to it from the hoc file Another question: I am trying to make a modify the dendritic tree so there are no segments that has ...

Hi Ted, Thanks for your reply. I did check they are the same, actually i copied the same code which loaded the same cell, and in one file i applied the function described in the previous post, i can send the hoc files if necessary. Though they dont have the same number of sections since in the origi...

Hello, I am trying to manipulate my cell so each node would not have more than two children. The only section who has more than two children is the soma - (called a_soma in the code). My thought was to make a section array with the size of the number of children that the soma has, connect between th...

Hello,
I am trying to implement a cell with a fork morphology using HH in Matlab.
I am having problems in computing the RHS from fmatrix(). Where can i find the components that make up the RHS (such as cm*dv/dt ion currents and stimulus)?
Best Regards
Roy

Thanks a lot it is very helpfull

Hello,

Is there any way to access the Hines matrix in hoc?
That is, the almost tridiagonal set of linear equation, used in, e.g. the cnexp model.

Best regards,
Roy

Thank you,
I'll take a look into these files.