- If NEURON is already installed, uninstall it before installing a different version.
- The current standard distribution is version 7.5. It is recommended for most users, especially for new projects.
Double click on the pkg file and follow the instructions. If you haven’t already installed XQuartz and “command line tools”, you will be asked to download and install them (XQuartz must be installed to launch the nrniv application (NEURON), “command line tools” must be installed for mknrndll to work).
- Problem: nrngui and neurondemo fail, and the error message says something about
dyld: Library not loaded: /opt/X11/lib/libX11.6.dylib
- Solution: X11 is missing. Previous versions of macOS would install X11 automatically, but now you have to install xquartz from http://xquartz.macosforge.org/
- Problem: No gui when NEURONDEMO is launched.
- Solution: This happens when you try to use the X11 version of NEURON but X11 hasn't been installed on your Mac. The fix is to install X11. If you have OS X 10.3 or later, the X11 installer may already be on your hard drive, or on one of the system CDs. Otherwise, you can go to the independent XDarwin site (http://www.xdarwin.org/) and install from there.
- Problem: Can't compile mod files.
- Lion and Mountain Lion both need the latest version of the command line developer tools to compile mod files. Go to http://developer.apple.com/opensource and click on the "Download command line developer tools . . . " link. You'll have to sign in with your Apple ID and password.
- Problem: I want to use parallel hardware to handle large models or speed up simulations.
- Make sure that OpenMPI has been installed. Download this file
tar xzf openmpi-1.6.tar.gz cd openmpi-1.6 ./configure make make install
You shouldn't have to do anything special to environment variables--all these things are supposed to find each other automatically.
- Problem: mknrndll does not work.
- Solution: Install the Development environment that came with your system. The installer may be on your hard drive or on a separate system CD. Check the current OS X page to see if Apple mentions whether using the installer's default choices actually installs enough of the development environment. It is the "XCode" package that you need to install.
If you can't find your system CD, you can download XCode from the Apple web site. Be sure to get the version of XCode that matches your OS version, e.g. 10.4, and processor, e.g. Intel.
- Problem: How to get "focus follows mouse" behavior, so you can move to a window and press a button with just one click.
defaults write com.apple.x11 wm_ffm -bool true
Jonathan Simon tells me that a related option
defaults write com.apple.x11 wm_click_through -bool true
disables the default behavior of swallowing window-activating mouse events.
Double click on the setup.exe file and follow the instructions. To use NEURON with Python, be sure to download a Python distribution (e.g. Anaconda).
- Problem: The installer refuses to install NEURON.
- Solution: This happens if you try to install NEURON to a directory that already exists, e.g. if you installed a previous version of NEURON. Either uninstall the previous version (recommended), or delete the old directory.
nrn*setup.exe allows you the choice of whether to
- associate hoc and nrnzip files with neuron.exe and mos2nrn.exe respectively. The former allows you to click on hoc files to launch them with neuron.exe, and the latter allows you to autolaunch NEURON models from ModelDB
- create a folder on your desktop with shortcuts to relevant NEURON items
- create a NEURON program group in the Start menu
You can install NEURON to any location that DOES NOT CONTAIN spaces. The default is c:\nrn.
The Start menu has a NEURON program group with an Uninstall shortcut. Uninstall will cause hoc and nrnzip files to be not associated with any program, and removes the installation directory, the desktop NEURON folder, and the NEURON program group (if those were created by the installer).
If for some reason the NEURON program group does not exist, then use the standard MSWindows "Add/Remove Programs" tool.
.deb package: Double-click the deb package, or in a terminal as root type
dpkg -i filename
filename is the name of the deb file. This will install NEURON in
/usr/local/nrn, and InterViews in
.rpm package: As root, type
rpm --install filename
filename is the name of the rpm file. This will install NEURON in
/usr/local/nrn, and InterViews in
The rpm installs contains all the hoc, mod, and other files that would be produced if you installed from the sources. This should work for any version of gcc and any recent version of RedHat, CentOS, or Fedora Linux, and it may work for other Linux distributions as well.
Of course, your Linux installation must be capable of compiling source code. Some Linux distributions offer a choice of more than one installation configuration. Configurations described as "minimal", "light", "compact", or "laptop" often lack the gcc compiler and libraries that are necessary to translate source code into executable programs. But it makes sense to check what is actually included, no matter what the configuration is called. We have seen "default" and "desktop" configurations that lacked gcc and important libraries!
Please let us know if you discover that it is compatible with some other Linux distribution, or if you would like us to build an RPM for some other Linux distribution.
After installation you can query the package by typing
rpm -qi nrn
rpm -e nrn
If your operating system is not listed above, or you need to customize the installation (e.g. change the location of binaries, or the number of layers used by
extracellular), get the source code for the standard distribution and compile it on your own machine.
"Alpha" version installers and development code are for those who need to stay up-to-date with the very latest changes in NEURON, or who are contributing new tools and features. Relatively few users will need this.
Prior versions are available for the convenience of users with legacy code. These are not for starting new projects, since no new features or bug fixes will be provided.