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I was looking at the same file earlier today. It seems like I can do without using any solve statements or state variables, as in: NEURON { SUFFIX nap USEION na READ ena WRITE ina RANGE gnabar,vhalf, K } UNITS { (mA) = (milliamp) (mV) = (millivolt) } PARAMETER { : parameters that can be entered when...

I recently discovered from http://www.neuron.yale.edu/phpBB/viewtopic.php?f=16&t=489 that cvode should work with kinetic models (but does it work with LONGITUDINAL_DIFFUSION?) My first couple attempts ended in mysterious "bus error(s)," so I decided to start over from the beginning, and I discovered...

I have a partial solution to my own question. I can open a shape plot and resize, etc... it entirely* in python by # ready shape plot h.newshapeplot() shapeWindow=h.fast_flush_list.object(h.fast_flush_list.count()-1) shapeWindow.size(-380.24,488.164,-624.858,170.347) shapeWindow.variable('cai') shap...

I have recently decided to learn the Python interface for Neuron. I decided the best way to learn would be to convert some of my old scripts from hoc to python. I came so close to being successful on my own, but I haven't been able to figure out how to control shape plots without invoking the hoc in...

Works great. Thanks.

Sorry to resurrect an old conversation, but... Did anyone ever figure out a good way to get the gui from python? If I start with "nrngui -python" and get a python interpretor that way, everything works wonderfully, but what I want to do is: $ python Python 2.5.2 (r252:60911, Oct 5 2008, 19:29:17) [G...

Hines tells me "Multisplit does not work with LONGITUDINAL_DIFFUSION."

mkthreadsafe reports no problems: $ /usr/local/nrn/x86_64/bin/mkthreadsafe diff.mod What assumptions are made by the code that executes when the multisplit checkbox is selected? Thanks. A side note: For those who installed NEURON on Ubuntu like I did (converted the rpm to deb via alien), there are t...

I can now give a simple example of how I'm getting a "segmentation violation." Suppose we have a simple mod file implementing diffusion: NEURON { SUFFIX diff } BREAKPOINT { SOLVE state METHOD sparse } STATE { z (1) } KINETIC state { COMPARTMENT 1 {z} LONGITUDINAL_DIFFUSION 1 {z} ~z << (0) } (No, I w...

I'm running Neuron 7.0 (281:80827e3cd201) and have been experimenting with multisplit. What preconditions are necessary before checking the "multisplit" box in the parallel computing toolbox so that the simple act of checking the box does not result in an error? For example, I experimented with the ...

Upon further reflection, I realize that I could use delete_section to remove the sections and start over from scratch, but I would prefer to preserve all the geometry, biophysics, etc...

I was experimenting with longitudinal_diffusion and the results were not quite as I expected: I'd create a section of length 10, put some stuff on the left side, and then it would diffuse across a certain rate. If now I change the length of the section and rerun it, my substance diffuses across the ...