1.3. Basic Bootcamp Prep

  1. Get the most uptodate AFNI on your computer.

    • IF you do not have AFNI set up on your computer system at all, then please see the step-by-step instructions (which optionally include installing the Bootcamp data, so then you will be all set):

      Methods for checking/evaluating each setup are also described on those pages. PLEASE make sure you have verified that all is well with AFNI on your computer.

    • ELSE (you have AFNI set up on your computer, but you are not certain that it is the most up-to-date version), please do the following:

      • if you have installed pre-compiled binaries on your computer (the most common approach):

        @update.afni.binaries -d

      • if you compile AFNI from source, then go here and download the latest source.

  2. Boot up.

    Copy+paste the following:

    curl -O https://afni.nimh.nih.gov/pub/dist/edu/data/CD.tgz
tar xvzf CD.tgz
cd CD
tcsh s2.cp.files . ~
cd ..

    Purpose: In order, these commands: get the tarred+zipped directory that contains the class data (and is hence named “CD”), downloading it to the current location in the terminal; untar/unzip it (=opens it up); go into the newly opened directory; execute a script to copy the files to $HOME/CD/; and finally exit the directory.

    At this point, if there have been no errors, you can delete/remove the tarred/zipped package, using “rm CD.tgz”. If you are really confident, you can also deleted the CD tree in the present location (but leaving it in $HOME/CD/).

    Note

    If using Linux terminal commands is new to you, then do look over the handy Unix documentation/tutorial and practice a few of the basic commands on your own system (e.g., ls, cd, less, etc.). It will greatly enhance your bootcamp experience– we promise!

  3. EVALUATE THE SETUP: an important and useful step in this process!

    1. Copy+paste the following, and read the displayed “Please Fix” section at the end of the output (try the suggestions there!):

      afni_system_check.py -check_all

      … and, for extra help, copy+paste this:

      afni_system_check.py -check_all > out.afni_system_check.txt

      and email the file “out.afni_system_check.txt” to your local AFNI Guru for advice.

    2. Open up the AFNI and SUMA GUIs, juuuust to make sure all is well:

      afni
suma

      Report any crashes!

    3. If the “system check” gives any errors, please: