MRtrix

The complete documentation for MRtrix will eventually be found on the wiki, including a detailed decription of the installation procedure. The official website for MRtrix is www.mrtrix.org.

Getting help

Support and general discussion is hosted on the MRtrix3 Google+ Community page. Please address all MRtrix3-related queries there. You will need to create a Google+ account if you don't already have one.

Quick install

1. Install dependencies by whichever means your system uses. These include: Python (>=2.6), a C++ compiler, POSIX threads, GNU Scientific Library (GSL, >= 1.1), zlib, OpenGL (>=3), and Qt (>=4.8).

2. Clone Git repository and compile:

    $ git clone https://github.com/MRtrix3/mrtrix3.git
    $ cd mrtrix3/
    $ ./configure 
    $ ./build
   

3. Set appropriate environment variables:

   • Bash shell:

       $ export PATH=/<edit as appropriate>/mrtrix3/bin:$PATH
     

   • C shell:

       $ setenv PATH /<edit as appropriate>/mrtrix3/bin:$PATH
     

4. Test installation:

    $ mrview
   

Keeping MRtrix3 up to date

1. You can update your installation at any time by opening a terminal in the mrtrix3 folder, and typing:

    git pull
    ./build
   

2. If this doesn't work immediately, it may be that you need to re-run the configure script:

    ./configure
   

   and re-run step 1 again.