• Perl
• DICOM toolkit
• MINC tools

Note: For Ubuntu installations, DICOM toolkit and MINC toolkit are installed by the imaging install script (see step 3 below). This script will apt-get install these packages: minc-tools and dcmtk.

The following installation should be run by the $lorisadmin user. sudo permission is required. See aces/Loris README.md for further information and Loris installation information.

1. Create directories

   sudo mkdir -p /data/$projectname/bin/mri
   sudo chown -R lorisadmin:lorisadmin /data/$projectname
   cd /data/$projectname/bin
   git clone https://github.com/aces/Loris-MRI.git mri

2. Install Dicom-archive within the mri/ directory (created by the git clone command):

   cd /data/$projectname/bin/mri/
   git submodule init
   git submodule sync
   git submodule update

3. Run installer to install MINC & DICOM toolkits, Perl libraries, configure environment, and setup directories:

   cd /data/$projectname/bin/mri/
   ./imaging_install.sh

You will be asked for the following input:

• What is the database name? $dbname
• What is the database host? $dbhost
• What is the MySQL user? $lorisuser
• What is the MySQL password?
• What is the Linux user which the installation will be based on? $lorisadmin
• What is the project name? $projectname
• What is your email address?
• What prod file name would you like to use? default: prod [leave blank]
• Enter the list of Site names (space separated) site1 site2

Ensure that /home/$lorisadmin/.bashrc includes the statements:

source /data/$projectname/bin/mri/environment

Installation complete. For customizations & protocol configurations, see LORIS Imaging Setup Guide.