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Hi, is there are way to make PlotShapes have different colormaps? I changed the color scheme for one plotshape (for fluorescence - I want it to be a single hue) and it ended up changing the rest of them. Is there any way around this, or is colormap a global setting? Thanks! Also, my method for doing...

Hmm. This got weirder. I replaced the PlotShape code with your suggestion, and now the warning goes away, but the seg fault does not. That is, when I enter the code manually, I don't get that syntax warning anymore and can make sw5, sw6 etc. no problem. However, if I run the code all at once ("...

A quick follow-up. I did finally update to 7.7, but I am still getting frequent seg faults. It now seg faults every time I run my full code (i.e. execfile("driver.py")) but if I run every line manually, it doesn't seg fault. The only warning I get is the following, whether it segfaults or ...

That's good to know about 7.7, thanks! As for the lengths scales and tolerance, I figured that was the case but it was worth a shot. I have set atolscales appropriately I believe (the Atol Scale Tool caught some that I had missed - very handy), but I don't think that catches the discretization I'm t...

Hi. I have two likely related questions. The first is, I sometimes get the following warning: /Applications/NEURON-7.6/nrn/lib/python/neuron/rxd/section1d.py:155: SparseEfficiencyWarning: Changing the sparsity structure of a csr_matrix is expensive. lil_matrix is more efficient. g[io, io] += rate_r ...

By the way, thanks to help from Robert McDougal, I do have the packaged version of 7.6 working! For anyone else who was having issues with that on a Mac, it has been updated and it fixed what was causing my seg faults.

Hmm. My xcode command line tools are Apple LLVM version 10.0.1, but my Mojave is 10.14.4, so maybe that needs to be updated. I'll see if that does it. Thanks!

Thank you. With that, I get past the make error. Then, in the make install, I first was getting this error: clang: error: linker command failed with exit code 1 (use -v to see invocation) error: command 'g++' failed with exit status 1 I didn't see this error on the Neuron forum, but on other forums ...

Hi, I updated to Mojave a couple months ago (unfortunately) and have not been able to get my model to run on Neuron since then. I've been using a Linux machine in the meantime, but I decided to give it a shot again on my own machine this past week - it'd be convenient to run it on my own laptop. Las...

Hi, I am trying to keep track of the maximum value of several concentrations using mod files (so that I don't have to record in a bunch of locations). This worked really well for calcium, but the same syntax doesn't work for species that I created with RxD. Here is what worked for calcium: NEURON { ...

Thank you, I will try that!

Hi, I have a question about updating rxd.Species inputs. Up until now, I simply restart python when I need to update initial concentrations, etc. However, I'm now running scripts to rapidly run through parameter values, and it would be very convenient not to exit Python between runs. First of all, l...

Hi, I am wondering if I can get help with a segmentation fault when I run the new Neuron 7.6. I updated to Mojave, and therefore downloaded the alpha version of Neuron 7.6. I got past the issues from the installation forum page and have it running, but my model only works sometimes . I often get a s...

I ended up getting mine to work. I did the following: -added the same 3 flags mentioned by aaronmil to my bash_profile -deleted Neuron again and built it from source code -used the configure option --with-readline=no -did the following step after "make after_install" to make sure python an...

Hi all, I'm getting a similar issue. I updated to Mojave, and got the "ImportError: No module named hoc27" error when I tried to run Neuron again. Per this forum topic, I uninstalled anaconda, deleted Neuron 7.5, and then reinstalled anaconda 2.7 and downloaded Neuron 7.6. I updated Xcode,...