Mincdiffusion Installation on Ubuntu

1. Make sure you have a matlab installation and a full minc installation, some help for minc here
2. Packages you will need to install (note that you need to have the root password and that the versions of the software in the following list might vary, use apt-cache search package-name to see what's available if there are complaints)
   

   sudo apt-get install cvs libvtk5-dev cmake g++ gcc libgsl0-dev glutg3-dev libxmu-dev libxi-dev\
   	libboost-dev libtiff-dev 

   the other option is to install each of these packages using the Ubuntu automatic installer: go to Ubuntu Software Center and mark all the packages you need and click Apply
3. You will also need a program called param2xfm, which is available through the mni-autoreg package here.
4. Use cvs to checkout (i.e. download) the mincdiffusion source, and follow instructions here for compiling the code
5. The matlab code no longer needs the emma tools, but you will have to install NIAK. If you do not have a matlab license, you will have to install octave. Note that you must pass the -niakdir option to minctensor.pl.
6. Do not forget to modify your shell and matlab (or octave) path accordingly