Search found 97 matches
- Fri Dec 01, 2006 2:36 pm
- Forum: Optimization
- Topic: Help on pointprocess initialization with multirun fitter
- Replies: 4
- Views: 11128
- Fri Dec 01, 2006 12:54 pm
- Forum: Optimization
- Topic: Help on pointprocess initialization with multirun fitter
- Replies: 4
- Views: 11128
- Fri Dec 01, 2006 4:35 am
- Forum: Optimization
- Topic: Help on pointprocess initialization with multirun fitter
- Replies: 4
- Views: 11128
Help on pointprocess initialization with multirun fitter
Hi, I have problem with using pointprocess with multirun fitter. Here is what I did: 1. load the model. 2. load the saved multirun fitter session. 3. press "Error Value" button in window "MulRunFitter[0] Generator" it worked fine and gave me an error value of 1.0341e-07. 4. (opti...
- Fri Dec 01, 2006 4:17 am
- Forum: Optimization
- Topic: Segmentation violation when load_file a .ses file
- Replies: 4
- Views: 11828
- Fri Dec 01, 2006 1:33 am
- Forum: Optimization
- Topic: Segmentation violation when load_file a .ses file
- Replies: 4
- Views: 11828
- Fri Dec 01, 2006 1:20 am
- Forum: Optimization
- Topic: Segmentation violation when load_file a .ses file
- Replies: 4
- Views: 11828
- Thu Nov 30, 2006 11:29 pm
- Forum: Optimization
- Topic: Segmentation violation when load_file a .ses file
- Replies: 4
- Views: 11828
Segmentation violation when load_file a .ses file
When I load my model and type manually $ /path/to/special model_setup.hoc - oc> init() oc> load_file("SEClampFit.ses") every things goes fine and a multirun fitter pops out. However when I append this load_file to a init_fit.hoc script and run the script I got the following error message (...
- Tue Nov 28, 2006 8:21 pm
- Forum: Adding new mechanisms and functions to NEURON
- Topic: Realistic current clamp electrode (balance bridge artifact)
- Replies: 9
- Views: 15072
Re: modeling electrodes and clamp circuitry
In theory it should be the latter. Practice is another matter; do you know of an experimental method for measuring "the residual resistance of the ruptured patch" ? The experimenters retract the electrodes a little after finishing patch-recording from a cell, and do an I-V curve of the el...
- Tue Nov 28, 2006 4:36 pm
- Forum: Adding new mechanisms and functions to NEURON
- Topic: Realistic current clamp electrode (balance bridge artifact)
- Replies: 9
- Views: 15072
Re: modeling electrodes and clamp circuitry
how do people deal with non-infinite "seal resistance"? I read some of the materials mentioned above but did not find it mentioned. Too bad nobody seems to be teaching this stuff. The answer to your question "how do people deal with . . . " is somewhere in the primary literature...
- Mon Nov 27, 2006 7:53 pm
- Forum: Adding new mechanisms and functions to NEURON
- Topic: Realistic current clamp electrode (balance bridge artifact)
- Replies: 9
- Views: 15072
Re: modeling electrodes and clamp circuitry
The SEClamp class, which is built into NEURON, is a voltage source in series with a resistor. Think of it as a model of an electrode that has series resistance but no capacitance, attached to a "perfect single electrode clamp device." You only need to use the Linear Circuit Builder if you...
- Mon Nov 27, 2006 1:22 am
- Forum: Adding new mechanisms and functions to NEURON
- Topic: Realistic current clamp electrode (balance bridge artifact)
- Replies: 9
- Views: 15072
Re: use the Linear Circuit Builder
Easily done with the Linear Circuit Builder. Decide how to represent your electrode and whether or not you want to include compensation circuitry. The simplest electrode model is an equivalent L circuit --lumps the series resistance into a single element, and lumps the electrode capacitance into a ...
- Mon Nov 13, 2006 10:11 pm
- Forum: Suggestions and Feedback
- Topic: Missing "cm" in online references
- Replies: 1
- Views: 21399
Missing "cm" in online references
Hi, Not knowing where is the appropriate place for this topic, please forgive me if this is posted to the wrong place. I find there's no entry about "cm" in online references, neither "topology" nor "section". A search does not give me any result. Hope it added to the d...
- Thu Nov 09, 2006 1:01 am
- Forum: Adding new mechanisms and functions to NEURON
- Topic: "NEURON's CVode method ignores conservation" and &
- Replies: 1
- Views: 3902
"NEURON's CVode method ignores conservation" and &
When I do nrnivmodl, what's these info meaning? Translating Ih.mod into Ih.c NEURON's CVode method ignores conservation and Translating VClamp.mod into VClamp.c Notice: This mechanism cannot be used with CVODE VECTORIZED I understand "Notice: This mechanism cannot be used with CVODE", but ...
- Tue Oct 03, 2006 1:57 am
- Forum: Other questions
- Topic: how to read from, and record data into binary files?
- Replies: 7
- Views: 13387
Re: how to read from, and record data into binary files?
I am simulating an IClamp through cells and recording Voltage vs time. I have no problem recording and reading data from Ascii files, but the volume of these files becomes incredibly large very quickly. I want to save the data in binary format. Is it possible? How is it done? I am actually zipping ...
- Thu Sep 28, 2006 12:16 am
- Forum: NEURON + Python
- Topic: Using nrniv with IPython
- Replies: 10
- Views: 12519
Using nrniv with IPython
Hello, Here's how we can use nrniv with IPython: nrniv -python argv.py argv.py as: #!/usr/bin/python import sys sys.argv = [''] from IPython.Shell import IPythonShellEmbed ipshell = IPythonShellEmbed() ipshell() This does not work with nrngui yet. Maybe IPython embeded shell does not know threads en...