Search found 37 matches

by mikey
Fri Feb 23, 2007 7:59 am
Forum: General questions and discussions about computational neuroscience
Topic: supercomputing/parallel
Replies: 0
Views: 3267

supercomputing/parallel

I need more speed! So, one avenue I am thinking of is supercomputing and/or parallel. I have tried other avenues - such as less compartments etc. - but these have been a little unsatisfactory. I thought about parallel some time ago, but was concerned then because I have just a single neuron and as I...
by mikey
Fri Oct 13, 2006 5:46 pm
Forum: Other questions
Topic: running multiple NEURON simulations
Replies: 0
Views: 2470

running multiple NEURON simulations

Is it safe to run a number of different NEURON simulations at the same time on Windows XP? Could they corrupt one another?
by mikey
Fri Oct 13, 2006 5:35 pm
Forum: Anatomically detailed models
Topic: coupling compartment
Replies: 2
Views: 4211

coupling compartment

I want to make a coupling compartment between my soma and the dendritic tree - so I can control how "coupled" these 2 entities are. BUT actually - what would be better is if I dont even have a coupling compartment - but a coupling parameter - a coupling resistance value. This way I dont have to be c...
by mikey
Fri Sep 29, 2006 11:00 am
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

yes it works cristoph. and it returns the same results as Michael Hines' code. And it returns the same output as original code for 3 compartments. So, I am very happy. I now have 2 code versions doing what I want to do!! Brilliant!! Thanks so, so much. One remaining issue is that I dont know if you'...
by mikey
Fri Sep 29, 2006 9:29 am
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

I have got Hines code working. I am now trying to code up csh code to see if this is equivalent. but get this error message returned. ERROR MESSAGE RETURNED: nrniv subscript out of range x in C:address near line 618 cycmake() csh code is cut and paste below. /* --------------------------------------...
by mikey
Thu Sep 28, 2006 4:30 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

Thanks so so much csh. Great!! What you have put looks great. What you have posted looks around about the same kind of thing that Michael Hines has just kindly sent me. What do you think? I think I'm right in saying your's and Michael's solutions are equivalent, but am not 100 percent. I have cut an...
by mikey
Thu Sep 28, 2006 1:56 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

I am so, so sorry. But there has been an awful mistake. The coding got corrupted in the cutting and pasting to the forum and the code for the working 4 compartments and the code for the non-working 10 compartments was NOT cut and paste correctly. SO, I now will cut and paste, and check, the code aga...
by mikey
Thu Sep 28, 2006 12:08 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

Thanks so much to Dimitris who gave this tip: "I have the impression that the problem is that you are trying to access memory which is not allocated, e.g. accessing beyond the bounds of an array. If you try a smaller number of compartments (e.g. 5 or 6) do you still get the problem?" I have tried wi...
by mikey
Thu Sep 28, 2006 11:59 am
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

Crisoph, thanks so, so much for taking the time to look at this. I have made the 2 changes you suggested: 1) Take out the line: cycmake() 2) Take out this bracket on line 358: if (secB==0 && secP==0) tagAcyc(extent) if (secB!=0 && secP==0) tagABcyc(extent) getnextABP(extent) shortnms() } I TOOK THIS...
by mikey
Tue Sep 26, 2006 5:21 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

The error message returned is thus:

nrniv: syntax error in C:/address near line 651

I checked in the coding and this is line 651:

for ii=1,10 print ii, "\t", cycL.x(ii),"\t", cycdiam.x(ii)
by mikey
Tue Sep 26, 2006 4:37 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

2) NON-WORKING CODE FOR 10 COMPARTMENTS NON_WORKING - HELP!!!!!! /* --------------------------------------------------------------------- HOC CODE TO COLLAPSE A DENDRITIC TREE ===================================== Collapse a dendritic tree into 3 compartments "proximal", "middle" and "distal". The c...
by mikey
Tue Sep 26, 2006 4:29 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

Thanks so much to Dimitris who gave me this tip: --------- Are you sure these vectors have the correct length? proc initcyc(){ cycL=new Vector(4,0) cycdiam=new Vector(4,0) cycnin=new Vector(4,0) } --------- This got me to a version of the code working for 4 compartments as opposed to 3. I have cut a...
by mikey
Fri Sep 22, 2006 7:55 am
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

the distributed nature of a dendritic arbor creates an uncoupled environment for synapses and membrane channels. collapsing a dendritic arbor into one with fewer branches, or a single tree, or a long cyclinder couples them. Im not putting synapses onto my dendritic tree so this isn't so much of a w...
by mikey
Thu Sep 14, 2006 3:59 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

thanks mike so much for your kind reply. I have changed the code to incorporate the line change you suggested. Unfortunately the code still doesn't work. dam! I understand the alternative approach you suggested is superiour but I'm afraid I don't think I have the programming capability to do it. I a...
by mikey
Thu Sep 14, 2006 12:03 pm
Forum: Anatomically detailed models
Topic: collapse a dendritic tree
Replies: 17
Views: 15862

Still really struggling with this. So would really really appreciate some help. Below I have cut and paste 1) the original code and 2) my best stab at modifying it (which is not working code - there must be something wrong with it, although I cannot see what) - to collapse a dendritic tree into 4 co...