CUBRIC IT system How to ﬁnd your way around CUBRIC digital maze Tuesday, 1 October 13 CUBRIC IT Our goal is to create a reliable and evolving infrastructure and support system that satisfies the diverse and changing technology requirement of CUBRIC • • The MSc Room: 57 Park Place CUBRIC IT: • • Tuesday, 1 October 13 Spiro: [email protected] Cyril: [email protected] • INSRV - INformation SeRVices • • • Library help desks 40 - 41 Park Place [email protected] Cardiff University Brain Research Imaging Centre • • Tuesday, 1 October 13 Big data : MEG and MRI generate vast amount of data Complex analysis : signal processing, statistical analysis • Sensitive and precious data • Data needs to be protected against identification, loss, corruption, must be retrievable, re-usable, ... • Expensive information (£500 per hour for MRI, £350 per hour for MEG) • Medical nature of the data The cluster The computing core of CUBRIC • Cluster of computer nodes • 1296 nodes (Central Processing Units, CPUs) • Tuesday, 1 October 13 16GB of memory per node • Scheduling system • analysis can be divided in smaller jobs • submit analyses to the scheduler which dispatches them to the nodes The storage The CUBRIC vault • 90 TB of highly resistant and fast storage • Corruption of the data (data rot, i.e. silent corruption of the data) • Expensive, use responsibly • Losing sensitive data (stolen laptop) • Perils : • The storage system is protected against those (Contact us in case of • Hardware failure mishap). • User mishap • Water or fire damage Tuesday, 1 October 13 How to access it? • Tuesday, 1 October 13 Workstation or Virtual Machine (aka NoMachine) • on one of the PAWS (workstation in the MSc room) using your username and password • • using NoMachine from anywhere else it’s all Linux, you won’t see (much of) a difference • NoMachine is a service that allows you to connect to a virtual machine hosted in CUBRIC computing facilities • requires to install a client (OpenNX, available on Windows, Linux and Mac OS X, you can google it) • see CUBRIC user website for parameters How to use it? • Your Home folder • your Home folder: 10GB (very secure, comes back quick) Tuesday, 1 October 13 • your Data folder: 400GB (very secure, comes back later) • your Scratch folder: unlimited but reclaimed (there is no free lunch) • Analysis software • fMRI: SPM, FSL, AFNI • structural MRI: ExploreDTI, McDespot • MEG: SAMstatistics, MRIviewer • Generic Tools: MATLAB, Python, various scripting languages CUBRIC user website • sites.cardiff.ac.uk/cubric • Log in with your username and password • Tuesday, 1 October 13 information of MRI and MEG analysis pipelines (how to get your data from the repository, how to extract your data, how to compensate for field inhomogeneities in your fMRI sequences) and experiment setups • information on how to use Linux (commands) • information on MATLAB CUBRIC studies database https://studies.cubric.cf.ac.uk • View the planning for fMRI, MEG, seminars • retrieve your experiment data using the cart Tuesday, 1 October 13 Cardiff University IT (INSRV) • portal.cardiff.ac.uk • • • where can I register? • • • • networked storage links to Voyager Library Catalogue electronic journal password management Wireless access: eduroam • email • • • Tuesday, 1 October 13 • • • Julian Hodge Study Centre Libraries 40 - 41 Park Place (INSRV) how to: www.cf.ac.uk/insrv/wireless antivirus: www.cf.ac.uk/insrv/it/antivirus mobile website: m.cardiff.ac.uk