Neuro Software

Get the latest ANTs code You will need to install the ZLIB libraries: sudo apt install zlib1g-dev Obtain the newest version of ANTs by running the following: mkdir -p ~/Documents/code/ants_source cd ~/Documents/code/ants_source git clone https://github.

Download NiftyReg Obtain the newest version of NiftyReg or by running the following: mkdir -p ~/Documents/code/niftyreg_source cd ~/Documents/code/niftyreg_source git clone https://github.com/SuperElastix/niftyreg.git . Run CMake/Make Make the build directory. The default install location is /usr/local, which falls on your PATH.

Installing on Pop_OS! You will first need to run the following steps prior to installing FSL. The following steps were originally written here here . Make sure you run a backup prior to performing this hack… just in case.

Download ART Download the newest version of ART Make a new directory for the install and extract the tar package into it: mkdir ~/Applications/ART cd ~/Applications/ART tar -xvzf /mnt/c/Users/*[your_username]*/Downloads/acpcdetect2.0*.tar.gz Post Configuration Set the ARTHOME environment variable and add the binary directory to your PATH by editing your ~/.

Install Make Install build essentials and Make first: sudo apt-get install make sudo apt-get update && sudo apt-get install build-essential Install CMake Download the latest version of the CMake executable.

Run Install Run the following code in a linux terminal: sudo apt-get install dcm2niix Install Dependencies There are a few packages that allow dcm2niix to run faster: sudo apt-get install python-gdcm sudo apt-get install pigz

Download software Download the .deb file for Freesurfer. Run the following command (replacing the filename with the one you downloaded): cd ~/Downloads sudo dpkg -i freesurfer_ubuntu22-8.1.0_amd64.deb You will also need to install some dependancies: