Why I cannot use the GUI
Why I cannot use the GUI
After I click the insert. It shows "No accessed section: Can't start an insert.
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Re: Why I cannot use the GUI
This happens when there is no default section.
At the oc> prompt in NEURON's xterm, type the command
forall print secname()
What is NEURON's reply to this command?
At the oc> prompt in NEURON's xterm, type the command
forall print secname()
What is NEURON's reply to this command?
Re: Why I cannot use the GUI
It shows" oc>for all print secname()ted wrote:This happens when there is no default section.
At the oc> prompt in NEURON's xterm, type the command
forall print secname()
What is NEURON's reply to this command?
first instance of all
nrniv: syntax error
near line 8
for all print secname()
^"
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Re: Why I cannot use the GUI
The command to try isnot
Also, tell me what
print secname()
returns.
Code: Select all
forall print secname()
Code: Select all
for all . . .
print secname()
returns.
Re: Why I cannot use the GUI
Thank you Ted, I have fixed the problem. Although I still cannot insert, I can use the GUI to build. That is good enough for me. I have a question that whether I can simulate the signal in a field such as magnetic field.ted wrote:The command to try isnotCode: Select all
forall print secname()
Also, tell me whatCode: Select all
for all . . .
print secname()
returns.
Re: Why I cannot use the GUI
And can I simulate electric synapse with neuron?
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Re: Why I cannot use the GUI
Well, it's not good enough for me, and if you don't mind, I'd like to identify whatever the problem is and make sure it has been fixed.yk890406 wrote:Although I still cannot insert, I can use the GUI to build. That is good enough for me.
To diagnose the problem and figure out how to fix it, it is necessary to (1) confirm that there is no default section, and to (2) discover whether any sections exist. So if it isn't too much trouble for you, please tell me this: when you receive the error message you reported, what does NEURON do when you enter the command
Code: Select all
print secname()
Code: Select all
forall print secname()
Alon Korngreen published a paper recently that describes how he did this--search PubMed for Korngreen and it will be one of the first 3 or 4 hits.I have a question that whether I can simulate the signal in a field such as magnetic field.
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Re: Why I cannot use the GUI
Yes. What do you mean by electric synapse? Ephaptic interaction, or gap junction?yk890406 wrote:And can I simulate electric synapse with neuron?
Re: Why I cannot use the GUI
oc>print secname()
nrniv: Section access unspecified
near line 3
print secname()
^
secname( )
oc>forall print secname()
oc>
nrniv: Section access unspecified
near line 3
print secname()
^
secname( )
oc>forall print secname()
oc>
Re: Why I cannot use the GUI
Sorry, I do not the term of it. It means there gap 2-3 nm between two nerve cells. The cell pass the signal without Neurotransmitter but with ions directly.ted wrote:Yes. What do you mean by electric synapse? Ephaptic interaction, or gap junction?yk890406 wrote:And can I simulate electric synapse with neuron?
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Re: Why I cannot use the GUI
This confirms the fact that there is no default section. Many of NEURON's GUI tools assume that a default section exists, and will generate error messages if there is no default section.yk890406 wrote:Code: Select all
oc>print secname() nrniv: Section access unspecified near line 3 print secname() ^ secname( )
This shows that no sections exist. Not even one. How are you specifying the properties of your model cell--with a CellBuilder, or with hoc code?Code: Select all
oc>forall print secname() oc>
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Re: Why I cannot use the GUI
That's called a gap junction. With NEURON, gap junctions can be implemented in two different ways. One way is with a pair of point processes. The other way is with the LinearMechanism class. ModelDB contains examples of both approaches, but it's probably best to use the LinearMechanism class. Here's an example of thatyk890406 wrote:Sorry, I do not the term of it. It means there gap 2-3 nm between two nerve cells. The cell pass the signal without Neurotransmitter but with ions directly.ted wrote:What do you mean by electric synapse? Ephaptic interaction, or gap junction?
M. Migliore, M. Hines and GM Shepherd
The role of distal dendritic gap junctions in synchronization of mitral cell axonal output
J. Comput. Neurosci., 18:151-161 (2005)
http://senselab.med.yale.edu/modeldb/Sh ... odel=43039
and here's another
Minneci F, Janahmadi M, Migliore M, Dragicevic N, Avossa D, Cherubini E
Signaling properties of stratum oriens interneurons in the hippocampus of transgenic mice expressing EGFP in a subset of somatostatin-containing cells.
Hippocampus 17:538-53 (2007)
http://senselab.med.yale.edu/modeldb/Sh ... odel=87546
Re: Why I cannot use the GUI
I use CellBuilder.ted wrote:[quote="yk890406This shows that no sections exist. Not even one. How are you specifying the properties of your model cell--with a CellBuilder, or with hoc code?Code: Select all
oc>forall print secname() oc>
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Re: Why I cannot use the GUI
Then I am forced to conclude that you have not worked through the CellBuilder tutorials at
http://www.neuron.yale.edu/neuron/docs
or maybe you didn't notice the part that said that the CellBuilder doesn't actually create any sections until you click on the "Continuous Create" button.
http://www.neuron.yale.edu/neuron/docs
or maybe you didn't notice the part that said that the CellBuilder doesn't actually create any sections until you click on the "Continuous Create" button.
Re: Why I cannot use the GUI
Sure, I did not click on the "Continuous Create" button. Thank you!ted wrote:Then I am forced to conclude that you have not worked through the CellBuilder tutorials at
http://www.neuron.yale.edu/neuron/docs
or maybe you didn't notice the part that said that the CellBuilder doesn't actually create any sections until you click on the "Continuous Create" button.
Is there any way to shut down a single channel completely, such as increasing a single channel's Conductivity to infinite? I try to follow the NEURON's Channel Builder tutorials and change the gmax in Point Process Manager to infinite, but the current never change.
My plan is to simulate an abrupt interrupt when a signal passing through a neural cell. Is there any tutorals, models or articles I can follow?