Installation & Updates (R2013b)

This version is currently not distributed in the main package.
You can download it separately: bst_bin_R2013b_YYMMDD.zip

Requirements

Brainstorm is available in two distinct forms, both available for Windows, Linux and MacOSX:

• An open-source Matlab application (Matlab license required)

  • Necessary: Any Matlab version >= R2006b (7.3)

  • No specific operating system requirements
  • Optional: Signal Processing Toolbox (for frequency filtering and resampling)
• A stand-alone Java executable (Matlab license not required)

  • Requires the free download of the Matlab Compiler Runtime library (MCR)

  • MCR version: R2013b (8.2)

  • Windows: Any version

  • Linux: Ubuntu 12.04+, RH 6.x, Debian 6.x, SUSE 11.3+

  • MacOS: MacOSX 10.7.4+ (Lion), 10.8 (Mountain Lion), 10.9 (Mavericks)

  • For older systems, or if this version doesn't work: Read this page

  • More details: Mathworks website

Working with MEG/EEG recordings involves a lot of computational resources and large display windows. Therefore we recommand that you use a computer with a decent processing capacity and a screen larger than 13".

You would also add to your comfort by using an external mouse instead of your laptop pad. Most of the manipulations are done with the mouse, and some involve an intensive use of the scrolling operation. A mouse wheel or the "two-finger move" on MacBooks are perfect for this, but this operation is not always easy to perform on some laptops.

Installation

1. Download the latest bst_bin_R2013b_....zip archive

2. Unzip it somewhere on your computer, for example:
   

   • Windows: Program Files\brainstorm3

   • Linux: /usr/local/brainstorm3 (or ~/brainstorm3 if you are not admin)

   • MacOS: Applications/brainstorm3

3. Create a new folder "brainstorm_db" for the Brainstorm database, for example:

   • Windows: My documents\brainstorm_db

   • Linux: /home/username/brainstorm_db

   • MacOS: Documents/brainstorm_db

Start Brainstorm

With Matlab

1. Start Matlab

2. Do NOT add brainstorm3 folder to your path: this will be done automatically

3. Go to the brainstorm3 folder
4. Type "brainstorm" in the command window
5. When asked for the location of the Brainstorm database folder, pick the folder "brainstorm_db" you have just created

6. We recommend you visit the Tutorials pages to learn how to use most features of the software.

Without Matlab

1. Download the MCR R2013b (8.2) for your operating system: Mathworks website

2. Follow the instructions to install the MCR:

   • Windows: Double-click on the .exe and follow the instructions

   • Linux: From a terminal, unzip .zip, then run ./install

   • MacOS: Click on the zip file to unzip it, then click on "InstallForMacOSX".

3. On MacOSX, if you get errors installing the MCR, you may have to install Oracle Java 7 manually:
   • Google "download java 7" and follow the instructions
   • Google "download jdk 7" and follow the instructions (you need both the JRE and JDK)

   • Open a terminal, cd to the MCR installation folder, and run manually the install program:
     cd ~/Downloads/MCR_R2013b_maci64_installer/
     ./install -javadir /Library/Java/JavaVirtualMachines/jdk1.7.0_45.jdk/Contents/Home -v

   • Thank Apple Inc. for making non-Apple platforms so complicated to install
4. Run the program in brainstorm3/bin/R2013b/

   • Windows: Double-click on brainstorm3.bat

   • MacOS: Double-click on brainstorm3.command and wait for instructions

     • If nothing happens, open a terminal and follow the Linux instructions.

   • Linux: From a terminal, cd brainstorm3/bin/R2013b/

     • Make sure that the file "brainstorm3.command" is executable:
       => chmod a+x brainstorm3.command

     • Run: ./brainstorm3.command

     • If nothing happens, run: ./brainstorm3.command MCR_DIR
       MCR_DIR is where the MCR 8.2 is installed (ex: /Applications/MATLAB/MCR/v82)

5. MacOSX despaired users: if nothing works, you may try running the MCR 2012b: Read this page

6. When you start Brainstorm for the first time on Linux or MacOS, you will be prompted to select the folder where you installed the MCR
7. When asked for the location of the Brainstorm database folder, pick the folder "brainstorm_db" you have just created

8. Visit the Tutorials section to learn how to use most features of the software.

Updates

Brainstorm is quickly improving and evolving. We have chosen not to go through a stable-release policy but rather, we established a quick and easy way to update the software seamlessly for you. Although this approach has its shares of risks of possibly seeing new bugs emerging from the most recent update, it has the great advantage of being dynamic and of rapidly disseminating new, important features. We encourage our users to report bugs through our forum, and our experience shows fixes are completed quickly enough to avoid disruptive downtime to our users.

For these reasons, we recommend that you update Brainstorm regularly using the following options:

• Automatic updates (Matlab version only):
  • When Brainstorm starts, it automatically checks online if a version newer than a month-old is available.

  • To disable the automatic updates, edit the software preferences accordingly (File > Set preferences...)

  • Restart Matlab after updating the software.
• Manual updates (Matlab version only):

  • Menu Help > Update Brainstorm, in the main application window.

  • If it doesn't work: check that you have the rights to write in the brainstorm3 folder.
  • Restart Matlab after updating the software.
• Stand-alone version (or in case the above methods do not work for you)
  • Delete the brainstorm3 folder (it will not delete your database, which is in your user folder)
  • Dowload the latest release of the Brainstorm version
  • Follow the installation instructions (see above)