Search found 27 matches

by tclose
Thu Nov 09, 2017 3:14 pm
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

Hi Mike,

Thanks, that's great. I reinstalled Neuron from that commit and the error has gone away. When is that commit likely to make it into a released version?

Tom
by tclose
Mon Nov 06, 2017 8:51 pm
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

Great, thanks! I will try check out the updated version tomorrow.
by tclose
Mon Nov 06, 2017 1:07 am
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

When I looked at my unittests again, it turns out I can reproduce the error without even running the model (i.e. before it even gets to psolve). So switching the run methods looks like a bit of red herring. I realise that buffer overflow errors are real bastards to track down but is there any chance...
by tclose
Sun Nov 05, 2017 9:35 pm
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

Actually, I just checked when this error occurs in one of my "network construction" unittests and it is before the 'run' method even gets called. So it definitely looks like some kind of memory overrun issue rather than a specific problem with the neuron.run method.
by tclose
Sun Nov 05, 2017 8:32 pm
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

it can only be used with fixed time step integration (after such a change, the adaptive integrators require reinitialization by a call to cvode_reinit(), which can only be done at the interpreter level). However, this isn't a serious limitation because adaptive integration generally isn't useful in...
by tclose
Sat Nov 04, 2017 5:30 am
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

Hi Ted, I think we are getting somewhat off the point, but yes in this case the Izhikevich model could be implemented as an artificial cell. The reason it isn't is that by making it a point process allows arbitrary synaptic mechanisms or clamps to be inserted into the cell along side it. But in any ...
by tclose
Fri Nov 03, 2017 5:33 pm
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

Hi Ted, I am working on a code-generation package so the models are somewhat arbitrary. In this case I extracted code from the izhikevich-type model below but the error also occurred for other models generated by my package. This mechanism is to be inserted into a section as a model of the total mem...
by tclose
Fri Nov 03, 2017 12:37 am
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

FYI I also just ran into this error message when running a 7.4 version (which I had been before so I am not sure what is changed), although not with this MWE
by tclose
Fri Nov 03, 2017 12:36 am
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

Re: "Point process not located in a section" error with v7.5 but not v7.4

Hi Ted, Sorry I should have been more explicit, this code is just a toy example, a minimal "working" example (MWE) that reproduces the problem. The models that I have actually been working with are much more complex. Am I right to interpret your line "To move on to your chief complaint, we must reso...
by tclose
Thu Nov 02, 2017 10:26 pm
Forum: UNIX/Linux
Topic: "Point process not located in a section" error with v7.5 but not v7.4
Replies: 26
Views: 31886

"Point process not located in a section" error with v7.5 but not v7.4

Hi, The following MWE apparently works fine with Neuron v7.4, but with v7.5 it gives the following error. loading membrane mechanisms from mod/x86_64/.libs/libnrnmech.so Additional mechanisms from files no_section_mwe.mod running finitializing running Done testing NEURON: NoSectionMWE[0] point proce...
by tclose
Thu Oct 12, 2017 6:39 pm
Forum: UNIX/Linux
Topic: Download link for source code v7.4 not v7.5
Replies: 3
Views: 10050

Re: Download link for source code v7.4 not v7.5

Thanks Ted, are there any significant changes to the compile procedure from previous versions?
by tclose
Wed Oct 11, 2017 11:49 pm
Forum: UNIX/Linux
Topic: Download link for source code v7.4 not v7.5
Replies: 3
Views: 10050

Download link for source code v7.4 not v7.5

I just went to download the latest source code from http://www.neuron.yale.edu/neuron/download/getstd but it is still pointing to version 7.4 not 7.5.