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{1-10} as a regular expression does not mean ' from one to 10 inclusive' but, ironically 1 to 1 or 0. ie it would select 0 and 1. One typically sees things line {a-zA-Z0-9} which means any alphanumeric character. By the way, if one is doing a lot of name processing on sections in Python, I would th...

Is it possible to know if a section is in sectionlist? One problem with your code is that it corrupts the section list that you are trying to test. sl.append() ensures that n1 will be >=1, so if n1==0{ sl.remove()} is guaranteed to fail to remove the appended section. Another problem is that it won...

Is it possible to know if a section is in sectionlist? For example soma{ print = sectionlist.in()} What I managed to do is sl = new SectionList() soma { sl.append() n1 = sl.unique() if n1==0{ sl.remove()} } Then id n1>0 I know that the section was in the sectionlist. Is this method good? Is there an...

Thank you Ted, I removed the lines : pnm.pc.runworker pnm.pc.done But it still does not work,Same error Code... And as I mention the code work on the old cluster. But I forgot to mention that the old cluster runs NEURON -- VERSION 7.3 (728:52f3a2a66b5f) 2012-08-17 And the new cluster runs NEURON -- ...

I managed to advance in finding what the problem is. I tired to run the simulation each time with different number of nodes/cell's mpiexec -n $NSLOTS ${NRNIV} -mpi -c "{ncell=$NSLOTS}" bstest.hoc NSLOTS = [4,8,12,20,25,35,45,60,80,90,100,120,123] In our cluster there are 228 nodes. It seem...

Follow up question: If I want to record the current passing from 1 segment to the other. Is it possible? Example: I have a dendrite with 3 segments, And I want to know how to record the current the 2th segment received from the 3rd segment and the current the 2nd segment received from the 1th segmen...

Hello, We have a new cluster in our lab, and it seems to work with some parallel code. But fail's with other codes: For example, when I try to run this example: http://www.neuron.yale.edu/neuron/static/new_doc/modelspec/programmatic/network/parnet.html#ParallelNetManager load_file("stdrun.hoc&q...

Thank You Ted. I have fixed the code to get so now it give the right results. // Test Fano factor objref syn, sti , con, Vec, Vec1, hist create soma insert pas Vec = new Vector() syn = new Exp2Syn(0.5) sti = new NetStim(0.5) sti.interval = 100 sti.start = 10 sti.number = 500000 sti.noise = 1 con = n...

Hello, I am trying to see if the synaptic events that are created from netstim with noise=1 have a Fano Factor http://en.wikipedia.org/wiki/Fano_factor of 1 (as should be for a Poisson distribution) This is my code // Test Fano factor objref syn, sti , con, Vec, Gra, Vec1 create soma insert pas Vec ...

Hello ram, g = new Graph() // create a new graph ( like figure in matlab) addplot(g, 0) // add the graph to the graphList[0] so it will be updated each run. g.size(0,tstop,-100,100) // sets the axis limits .size(xstart, xstop, ystart, ystop) g.addvar("soma.v(x)",3,2) // (.., color_index, b...

Hello, I'm trying to investigate a model form modeldb. The model contain a network of cells. I want to do the investigation with the GUI, and I'm trying to plot in a graph the voltage of all the neruon's soma's. I can just start Neuron and do Graph/Voltage axis... and add all cells soma's. but this ...

Ted,
Thank you

Hello, Is there a floor and ceil function in neuron? I know that I can use int for floor function , but what about ceil? ( I can not do floor + 1 because sometimes I can get a int number) I notice that in NMOD http://www.neuron.yale.edu/neuron/static/docs/nmodl/nmodlfunc.html there are ceil and floo...

Thank You Ted, Now I understand.

This is my new code and it work.

Hello, I have a neuron model and I am trying to get the route from each leaf ( terminal ) to the routh. First I use this code to get a list of all terminals objref tree tree = new SectionList() soma[0] distance() soma[0] tree.wholetree() objref terminals, thisone terminals = new SectionList() forsec...