• Requesting a cluster account
• Accessing the cluster
• Cluster password
• Job submission
• List of packages installed
• BIAC Sample Scripts
• Interactive jobs
• Advanced Bash/Python Submission Scripts - Provided by Dr. Scott Huettel's lab, the scripts included here will check FSL parameters to make sure jobs do not get “stuck” running on the cluster, and submit multiple jobs in a smart way so individual users do not tie up the cluster at any one time.

A "Getting Started" tutorial on setting up access to the cluster and basic job related tasks (submission, status checking and deletion )

Or see infrequent_setup.doc for written instructions

                 The BIAC cluster, Hugin, is a Linux base processor put in place to analyze any type of data.  You will work on Hugin though a terminal window by writing commands one
                 line at a time.  In order to set up access to Hugin on your computer, you need to be behind the firewall.  Being at BIAC or on "Diamonds" or "Clubs" puts you
                 behind this firewall.
                           
                           First, you will need X-Win.  On BIAC computers, X-Win comes standard but it can also be downloaded through OIT’s website 
                           here http://oit.duke.edu/comp-print/software/index.php (select “Browse and order software”).
                           
                           You will also need a cluster account. Please send an email to help@biac.duke.edu requesting a cluster account.
                           Include your BIAC Windows username in the email (see http://wiki.biac.duke.edu/biac:accounts).
                 
                 

qinteract is also known as the ‘interactive node,’ because it allows you to interact directly with your data on Munin (or whatever server). It also contains the “packages” (FSL, CMTK, FreeSurfer) that BIAC has installed. You can access the GUI’s for these packages by typing in their appropriate commands once in qinteract.

• List of packages: http://wiki.biac.duke.edu/biac:cluster:packages
• Getting on: log onto Hugin, in the command line (username@hugin: ___) type “qinteract” if prompted, type yes, and then enter your cluster password.
• Congratulations! You are now on the “interactive node.” Access your study data by typing “cd `findexp Study.01`”

Command lines ls ls -ltr mkdir cd .. Tab to complete Gedit . nedit

Commenting out
saving

& bash rm Up arrow cp qdel qstatall Blue “directories” are equivalent to folders, “cd”ing is like double clicking Getting files from munin onto hugin, and mounting experiments? Findexp Print from terminal window

• System architecture
• Installation
• Management
• System Log

For issues and discussions related to the cluster, visit the Cluster Forum