Search found 10 matches

by sangwonc
Wed Jan 26, 2022 12:48 am
Forum: Reaction-diffusion in NEURON
Topic: Plotting Ca current through different types of VDCC's
Replies: 6
Views: 573

Re: Plotting Ca current through different types of VDCC's

Also, could you explain what f_rate and b_rate are supposed to do? I couldn't find any documentation on them.
by sangwonc
Mon Jan 24, 2022 3:02 am
Forum: Reaction-diffusion in NEURON
Topic: Plotting Ca current through different types of VDCC's
Replies: 6
Views: 573

Re: Plotting Ca current through different types of VDCC's

Thank you. I'm assuming that one could also infer intracellular Ca concentration as well by recording relevant RXD states and species and using f_rate and b_rate, right?
by sangwonc
Mon Jan 24, 2022 2:43 am
Forum: OS X
Topic: PyCharm "ModuleNotFoundError: No module named 'neuron'"
Replies: 1
Views: 408

PyCharm "ModuleNotFoundError: No module named 'neuron'"

Hello, I am trying to run NEURON on PyCharm, but it produces the following error: /Users/sangwoncha/PycharmProjects/VGCC_v2/venv/bin/python /Users/sangwoncha/PycharmProjects/VGCC_v2/venv/implement_RXD.py Traceback (most recent call last): File "/Users/sangwoncha/PycharmProjects/VGCC_v2/venv/imp...
by sangwonc
Mon Dec 06, 2021 6:40 pm
Forum: Reaction-diffusion in NEURON
Topic: Plotting Ca current through different types of VDCC's
Replies: 6
Views: 573

Plotting Ca current through different types of VDCC's

Hello, I want to plot current through different types of voltage gated calcium channels. This is the code that I have: #Formulas for Non-modulated Ca currents threshold = 1.10e-4 m = 10000 # steepness of switch temp1 = 0.0853*T/2 temp2 = v/temp1 # switch goes to 0 for abs(temp2) < threshold and 1 fo...
by sangwonc
Sun Nov 21, 2021 9:26 pm
Forum: Reaction-diffusion in NEURON
Topic: How to refer to numeric value of crxd.v?
Replies: 3
Views: 605

Re: How to refer to numeric value of crxd.v?

Thank you for your response. So I implemented your code and when it attempted to execute the following lines: h.finitialize(-70) h.continuerun(100) it spat back the following warning/error message: --------------------------------------------------------------------------- OSError Traceback (most re...
by sangwonc
Wed Nov 17, 2021 6:33 pm
Forum: Reaction-diffusion in NEURON
Topic: How to refer to numeric value of crxd.v?
Replies: 3
Views: 605

How to refer to numeric value of crxd.v?

Hello! I am trying to implement voltage-dependent calcium channels using the Hodgkin-Huxley model through the RXD module. The equation that I'm using to define calcium current involves an if-statement: temp1 = 0.0853*T/2 temp2 = v/temp1 temp3 = 0 if abs(temp2) < 1.10e-4: temp3 = 1-temp2/2 else: temp...
by sangwonc
Wed Nov 17, 2021 6:23 pm
Forum: OS X
Topic: Intel MKL Fatal error when executing HOC file
Replies: 7
Views: 757

Re: Intel MKL Fatal error when executing HOC file

Hello, When I executed the code you provided through Terminal, it works - the graphics pop up and output is produced. However, when I execute the same code (contained in a .py file) and drag it over to the 'nrngui' icon and drop it, it produces the error: -e NEURON -- VERSION 8.0.0 release/8.0 (429d...
by sangwonc
Mon Nov 15, 2021 6:26 pm
Forum: OS X
Topic: Intel MKL Fatal error when executing HOC file
Replies: 7
Views: 757

Re: Intel MKL Fatal error when executing HOC file

Hello, The output to nrniv -nopython file.hoc was the following: (base) sangwoncha@Sangwons-MacBook-Pro Nrn-3 % nrniv -nopython init_Axon_TimeCourse.hoc NEURON -- VERSION 8.0.0 release/8.0 (429d11ef3) 2021-04-30 Duke, Yale, and the BlueBrain Project -- Copyright 1984-2021 See http://neuron.yale.edu/...
by sangwonc
Sun Nov 14, 2021 6:18 pm
Forum: OS X
Topic: Intel MKL Fatal error when executing HOC file
Replies: 7
Views: 757

Re: Intel MKL Fatal error when executing HOC file

Hello, This is the output: (base) sangwoncha@Sangwons-MacBook-Pro ~ % which nrniv /Applications/NEURON/x86_64/bin/nrniv (base) sangwoncha@Sangwons-MacBook-Pro ~ % lipo -arches /Applications/NEURON/bin/nrniv fatal error: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/u...
by sangwonc
Mon Nov 08, 2021 11:10 pm
Forum: OS X
Topic: Intel MKL Fatal error when executing HOC file
Replies: 7
Views: 757

Intel MKL Fatal error when executing HOC file

Hi, I hope you are doing well. I am new to NEURON, and recently, I've run into some problems when trying to execute a HOC file. For some context, I am running NEURON 8.0.0 on macOS BigSur 11.6 on Intel MacBook Pro. When I tried to execute the following code: load_file("nrngui.hoc") // Load...