Search found 127 matches

by Keivan
Thu Oct 29, 2009 12:21 pm
Forum: General questions and discussions about computational neuroscience
Topic: Detailed Modeling of Synapses
Replies: 8
Views: 10583

Detailed Modeling of Synapses

I was looking into different models from model database of neuron. I have seen that although we have very good and complete chemical reaction models of the AMPA, NMDA, GABA A,B available, most of the authors try to neglect it and just use the expsyn, exp2syn or alpha function synapses built-in to th...
by Keivan
Mon Oct 26, 2009 3:29 am
Forum: MSWin
Topic: Neuron as python module in windows 7
Replies: 15
Views: 16893

Re: Neuron as python module in windows 7

Then, I should buy win 7 if neuron runs faster on it. I think win 7 32 bit should be the choice for neuron; because cygwin does not have a 64 bit version yet.
by Keivan
Fri Oct 23, 2009 2:45 am
Forum: MSWin
Topic: Neuron as python module in windows 7
Replies: 15
Views: 16893

Re: Neuron as python module in windows 7

Could you share your win 7 experience with us. I want to know is there any performance improvement (running a neuron model) compared to win XP using win 7? win 7 32 bit or 64 bit?
by Keivan
Tue Oct 13, 2009 3:16 am
Forum: General questions and discussions about computational neuroscience
Topic: Reciprocity?
Replies: 10
Views: 11115

Re: Reciprocity?

First of all I have some quotation for you Ted. As I have repeatedly discovered in my career, the informal lunch-seminar approach to science is hard to substitute with formal lectures or the reading of dense scientific papers. Seminars are tailored for an average group of people with the naive assum...
by Keivan
Thu Oct 08, 2009 1:15 pm
Forum: General questions and discussions about computational neuroscience
Topic: Reciprocity?
Replies: 10
Views: 11115

Re: Reciprocity?

if the connection between a dendritic site and a somatic site is reciprocal, what does that mean for the physical/electrical properties of your typical tapering dendrite? I think It depends on many different factors, from theoretical point of view: 1) the the homogeneity of the passive properties o...
by Keivan
Sat Oct 03, 2009 3:31 pm
Forum: NEURON hacks
Topic: Syntax Highlighting for GNU Linux and MS Windows
Replies: 11
Views: 31854

Syntax Highlighting for Gedit

Syntax Highlighting for Gedit Instructions --> create ~/.local/share/gtksourceview-3.0/language-specs/neuron.lang with <?xml version="1.0" encoding="UTF-8"?> <!-- Authors: Keivan Moradi this is the modification of the original c.lang in ubuntu --> <language id="nrn" _name="neuron" version="2.0" _se...
by Keivan
Sat Oct 03, 2009 5:14 am
Forum: UNIX/Linux
Topic: NEURON can't find IV headers/libs
Replies: 7
Views: 3816

Re: NEURON can't find IV headers/libs

mpicc is not really a compiler its just an script act like compilers. In fact, I think it uses the compiler originally used to compile it. --> try this use the command make uninstall && make distclean to clean both iv and nrn directories then compile again as I told you before. If you want to keep y...
by Keivan
Fri Oct 02, 2009 4:15 pm
Forum: UNIX/Linux
Topic: NEURON can't find IV headers/libs
Replies: 7
Views: 3816

Re: NEURON can't find IV headers/libs

I do not have experience of using mpich or centOS but I have some using mpich2, icc and ubuntu. from errors and waring it is appear that your mpicc trying to compile neuron with icc --> you told that. to be sure did you installed icc and set the correct environment variables? as I remember hines tol...
by Keivan
Thu Oct 01, 2009 9:51 am
Forum: NEURON hacks
Topic: Syntax Highlighting for GNU Linux and MS Windows
Replies: 11
Views: 31854

Syntax Highlighting for Notepad++ in MS Windows

finally, I made syntax highlighting for Notepad++ (for windows usres). I think it is better than the Kate one. Instructions: 1) install notepad++ 2) Create two new text files and name them "NEURON.xml" and "NMODL.xml. Their content should be change to what is provided hereunder. 3) In the notepad++ ...
by Keivan
Thu Oct 01, 2009 1:30 am
Forum: General questions and discussions about computational neuroscience
Topic: Your Opinion about ATLAS Library? +Xeon 5400 or Core i7?
Replies: 7
Views: 10382

Re: Your Opinion about ATLAS Library? +Xeon 5400 or Core i7?

I know ted. I just wanted to appreciate you because you give your time to me and think about my question and told me your idea. I am very happy there are such person like you and Hines to support us and help us progresses in our research with less pain. ------------------------------------------ PS:...
by Keivan
Mon Sep 28, 2009 5:17 pm
Forum: Parallel NEURON
Topic: How to run "parallelcomputetool" menu from hoc?
Replies: 1
Views: 1121

How to run "parallelcomputetool" menu from hoc?

1) I want to know how can I run parallelcomputetool menu from hoc? 2) I understand reading forum I can change number of threads using this command. ex. if I want 2 threads --> ParallelComputeTool[0].nthread(2) 3) how can I change number of cpus without using refresh and GUI? 4) how to activate multi...
by Keivan
Sun Sep 27, 2009 2:14 pm
Forum: General questions and discussions about computational neuroscience
Topic: Your Opinion about ATLAS Library? +Xeon 5400 or Core i7?
Replies: 7
Views: 10382

Re: Your Opinion about ATLAS Library? +Xeon 5400 or Core i7?

Thank you ted for your recommendation. If you're using Linux, it may be helpful to know that Nvidia has a history of better Linux support than Radeon. Thank you I didn't know that. Also I like NVIDIA for its GPGPU technology. Maybe some day I made neuron faster using GPUs!! If you're buying a box th...
by Keivan
Sun Sep 27, 2009 5:46 am
Forum: General questions and discussions about computational neuroscience
Topic: Your Opinion about ATLAS Library? +Xeon 5400 or Core i7?
Replies: 7
Views: 10382

Your Opinion about ATLAS Library? +Xeon 5400 or Core i7?

Reading the book named "Introduction to Parallel Programming Concepts" , I find this phrase while L1 cache in a modern CPU is random access, access to the main memory (DRAM) is fastest when sequential. Morever, on a PC access to cache is much, much faster than access to main memory, even when main m...
by Keivan
Thu Sep 24, 2009 4:13 pm
Forum: UNIX/Linux
Topic: Question about Compile process?
Replies: 1
Views: 1585

Question about Compile process?

When I use compiler flags (even -O2), using gcc or icc, to compile IV, there is a significant difference in the size of "libUnidrawhines.so.3.0.3" and " libIVhines.so.3.0.3", compared to the version that compiled without flags. without flags --> libIVhines.so.3.0.3=7.9mb and libUnidrawhines.so.3.0.3...