Data Life Cycle. Research. Access Collaborate. Acquire. Analyse. Comprehend. Plan. Manage Archive. Publish Reuse

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2 Automated ingest and management Access Collaborate Dataset transfer Databases Web-based file sharing Collaborative sites Acquire Analyse Technical advice Costing Grant assistance Plan Research Data Life Cycle HPC Cloud Virtual labs Comprehend Visualisation facilities Institutional repository Publish Reuse Manage Archive RDM support

3 What is eresearch? Emerging Researcher Series Thursday, Jason van Rooyen, PhD Research Liaison Christian Mtshengu Support Specialist

4 Why ereseach? Research Revolution Pace and scale increasing New tools and methodologies Internationalisation

5 Who is eresearch UCT? New research strategy ( ) Research life cycle: Forecasting and grant writing Data collection Analysis and computation Publication Data management Sharing & collaboration Profile-raising UCT eresearch partners with research groups to accelerate and transform research, connecting them to the most appropriate services to support the research life cycle.

6 Who is eresearch UCT? ICTS Engineers Research liaison Research support Project management Research Office: Communications Libraries: Digital/Data services Digital scholarship

7 What does eresearch do? Automated ingest and management Access Collaborate Dataset transfer Databases Web-based file sharing Collaborative sites Acquire Analyse Technical advice Costing Grant assistance Plan Research Data Life Cycle HPC Cloud Virtual labs Comprehend Visualisation facilities Institutional repository Publish Reuse Manage Archive RDM support

8 High Performance Computing Inception in fold expansion to cores (end 2013) -> exponential increase in usage GPU servers adds 4096 CUDA cores Served 424 researchers Wide range of disciplines and faculties from humanities to hard sciences Biggest users (measured in hours) are chemical engineering and statistics. Community has consumed 12 million compute hours (1 million every three months) Resultant impact -> 51 citations

9 Data-intensive Compute & virtual labs First node commissioned end September CPU cores, 250 TB storage, 2.5 TB RAM Facilitates intra- and inter-disciplinary research Initial focus on Astronomy (SKA), then Bioinformatics Academic partners include: UCT, UWC, NWU, UP, SKA SA, CHPC, Cambridge Scalable compute Sharable workflows cloud

10 Research Data Storage 400 TB allocated Average allocated vs. provision ration 2:1 Current rate 40 TB/m provisioned 90 TB fast parallel storage on HPC (fhgfs) TB Uptake Rate /18/ /27/2014 4/6/2015 7/15/ /23/2015 astronomy arceibo (74 TB) CASA (74 TB) Storage Provisioned SATVI (70 TB)

11 Data UCT Field Technique Data rate Geomatics Laser scanning (Zamani) ~ 4 TB / year Neurosciences MRI ~ 5 TB / year Biosciences Next-Gen Sequencing > 10 TB / year Biophysics Direct electron detectors TEMs > 200 TB / year Super-resolution microscopes > 1 PB / year

12 Data Acquisition UCT AKCIA control PC (win) TF20 data ingestion MyTardis web server and database Support PC (linux) data write shared folder data view OMERO \\researchdata\emu (NFS) user s or collaborator s computer

13 Scientific Computing Training Locally run training to address the skills gap in data intensive research fields More than 80 students participated in the Software Carpentry workshop during eresearch Africa 2014 Participation in remote training events > 50 graduates from 4 Introduction to HPC training courses run from Research Office Plans for more Software Carpentry events, Data Carpentry, Open Data, Digital Scholarship Domain specific courses

14 Data Visualisation Iziko museum Planetarium Digital Dome D high fidelity - 15 hrs/week for research Visualisation wall in UCT library (5 x 2 m) Data visualisation capacity 3D Alive (Monash), Photo: P. Chan David Aikema Adrianna Pinska Oculus Rift Iziko Museums of South Africa, photographer Carina Beyer

15 Software Development Dedicated resources within eresearch - Business analyst - Project management External resources - Developers Adrianna Dave Coline Piet SKA Photo Library Agile development cycles Leankit.com

16 Data Management and Dissemination RDM and preservation at UCT Libraries Assistance with research data management (RDM): RDM policy Funder guidelines DMPonline Guidelines for depositing data Guidelines for sharing data Implementation of preservation infrastructure Preservation of research data via UCT Libraries preservation infrastructure, Archivematica Storage of research data via storage facilities at ICTS Dissemination, access and reuse via UCT online repository

17 Planned Costs Data storage: R 240 per TB per month Consultancy High-performance computing Virtual infrastructure

18 Summary

19 Why eresearch? To accelerate outputs and competitiveness in support of UCT s research agenda What does eresearch do? Partner with researchers to find and build solutions for technological and data management challenges What is the difference between eresearch and ICTS? ICTS focuses on enterprise services such as and security. eresearch only supports research functions and relies on ICTS for infrastructure What is the role of the Libraries and the Research Office? The libraries are involved in research data management planning and advice and the research office is responsible for advocacy and outreach How do I get hold of eresearch? eresearch@uct.ac.za or

20 What do eresearch services cost? Our cost model is available on the website at: Can staff and students both make use of eresearch services? Absolutely, if you are a researcher you can work with eresearch Who typically makes use of eresearch, and how? Generally it is principal investigators who approach us but often it s their students too Do you work with individual researchers or only communities? We prefer to work with communities of researchers because in this way our efforts have the greatest impact for the least cost Do you work with Humanities and Social Sciences, or only with Sciences? We are happy to assist any researcher

21 Thank you Director ICTS Engineers Research liaison Research support Project management Research Office: Communications Libraries: Digital/Data services Digital scholarship

22 Case Studies 1 March 2016

23 eresearch clients HPC users 31 groups with 400 TB storage 195 researchers 101 projects in total: 84 projects (operational) 16 projects (strategic) 1 March 2016

24 Square Kilometre Array Data One of the largest scientific projects ever undertaken to answer questions such as: What is dark energy? Was Einstein right about gravity? Is there life elsewhere in the universe? Image: SKA Photo Library eresearch is supporting storage and compute Exascale arriving soon 1 March 2016

25 CERN and Vidyo Conferencing CERN is made up of a massive globally dispersed community of researchers eresearch connected CERN collaborators with national providers to set up necessary software infrastructure required UCT eresearch eresearch Libraries Accelerate Research Discovery Week 14 April March 2016 University of Cape

26 Facility Support: Olympus Virtual Microscope eresearch: Worked with the CLS department to set up the servers and the database The old: slide boxes Configured the system for various access scenarios including student, departmental and public access The new: Olympus VS120 Microscope UCT eresearch eresearch Libraries Accelerate Research Discovery Week 14 April March 2016 University of Cape

27 Facility Support: Centre for Imaging and Analysis sample preparation acquisition processing interpretation dissemination Acquisition: Processing: Management : Enhanced volumes Selection capabilities Enhanced quality Lower barrier to access Remote collection Lowered barrier to access New visualization capabilities Enhanced productivity Almost real-time feedback Automated metadata recording Structured archiving Ease of sharing Processing data provenance UCT eresearch eresearch Libraries Accelerate Research Discovery Week 14 April March 2016 University of Cape

28 Facility Support: Molecular and Cell Biology Tissue Culture Facility Clinical Research Centre Nikon fluorescent microscope for live cell imaging eresearch supported storage, remote data analysis and collaboration Clinical, laboratory and data management systems needed to pass an FDA or EMA audit. Software and computational requirements met by eresearch UCT eresearch eresearch Libraries Accelerate Research Discovery Week 14 April March 2016 University of Cape

29 Human Heredity and Health in Africa First Pan African Bioinformatics Network in Africa: H3ABioNet & H3Africa Consortium UCT eresearch, in collaboration with Information and Communication Technology Services (ICTS) and the Computational Biology Group, will be developing a data storage archive solution The data will include genomic data and access will be controlled according to internationally accepted standards. UCT eresearch eresearch Libraries Accelerate Research Discovery Week 14 April March 2016 University of Cape