The Smart Hospital Innovation at Taichung Veterans General Hospital in Taiwan

The eResearch Office at the University of the Western Cape, in collaboration with the Computer and Communication Centre at Taichung Veterans General Hospital (TVGH) in Taiwan, cordially invites you to a webinar that will focus on the Smart Hospital Innovation at Taichung Veterans General Hospital in Taiwan. TVGH has been listed in the top 300 World’s Best Smart Hospitals in 2023 and 2024. Furthermore, TVGH is a recipient of many smart hospital awards.   

Date:  Tuesday, 26th March, 2024
Time:  09h00-11h00 (SAST)

Registration Link: https://uwc.zoom.us/webinar/register/WN_KSTNGhYCQYWQ9iEwZHgkJQ

Programme
This webinar is composed of four presentations, by the team from the Computer & Communications Center (CCC) at TVGH, as follows:

Session #1:Information System of Smart Hospital; Presenter: Mr Lai-Shiun Lai, Director, CCC, TVGH
Session #2:The E-Paper Use Cases in Taichung Veterans General Hospital; Presenter: Mr Yi-Chun Wu, Deputy Leader of Application Development Section, CCC, TVGH
Session #3:Smart Operation Room Management System; Presenter: Mr Chien-Chung Huang, Leader of Clinical Information Section, CCC, TVGH
Session #4:Telehealth of Hospital Information System; Presenter: Mr Ching-Tsung Chen, Leader of System Foundation Section, CCC, TVGH

REDCap Webinar – 19 September 2023

The eResearch Office (ERO) in collaboration with the Research Development and Postgraduate Support (RDPS) are organizing a seminar on the use of REDCap, a web application for collecting and managing research data.

The purpose of this session is to comprehensively cover the many stages involved in a REDCap project, from a general overview, the initial setup, progressing through data entry and data export processes as well as using advanced features and specialized modules.

To sign up for the webinar, Click on REGISTER


Email queries: Ms Aasiyah Chafekar (RDPS) at achafekar@uwc.ac.za or
Dr Frederic Isingizwe (eResearch) at fisingizwe@uwc.ac.za

Welcome to Dr Clement Nyirenda – Director of eResearch

The eResearch Office has the pleasure to welcome Dr Clement Nyirenda, its new Director as of August 1st, 2023.

Dr Clement Nyirenda was a Senior Lecturer and acting Head of Department in the Computer Science, while highly active in interdisciplinary research projects, collaborating with various departments at UWC. His past partnership with the eResearch Office in supporting the University’s data intensive research initiative has been emphasized by his academic commitment for research, teaching and leadership roles.

We are looking forward to his leadership, skills and expertise in advancing the eResearch agenda at UWC.

CHPC-NITHeCS Coding Summer school — 29 January to 9 February 2024

Registration has opened for the Coding Summer School (CSS) 2024.

This is a joint effort between the Centre for High Performance Computing (CHPC) of the Council of Scientific and Industrial Research (CSIR) and the National Institute for Theoretical Computational Science (NITheCS) aimed at training researchers across South Africa and Southern Africa in the fundamentals of programming, data science, HPC, and computational sciences. 
The CSS will take the format of a hybrid event where participants will be required to attend specific universities and research locations. The University of the Western Cape will be one of these locations for the CSS, taking place from Monday 29 January 2024 until Friday 9 February 2024.
Eligible Applicants:

The CSS is aimed at postgraduate students and researchers in STEM fields focusing on the fields of astronomy, biology, computer science, chemistry, engineering, mathematics, medical, and physics.
Format:

- Lectures/tutorials occur Monday to Friday
- Lecture/tutorial times: 10:00 - 16:00 with breaks each day
- Notes, quizzes, and assignments provided
- Certificates awarded to qualifying students
Week 1:

Participants will learn the fundamentals of Python and data science which will allow them to analyze and manipulate various datasets. They will also be introduced to Linux and Bash in order to learn HPC skills.

Week 2:

In week two, participants are exposed to Python applications, covering machine learning, probability & statistics, and various domain specific topics.
How To Apply:

For more information and if you wish to attend the CSS, kindly follow the link below to register:

https://events.chpc.ac.za/event/120/

Space is limited at the various locations so make sure to register soon to book your place.

There are representatives from each university and some research institutes, known as champions. For any further queries and logistics @UWC, contact fisingizwe@uwc.ac.za

For general inquiries please contact: training.chpc@csir.co.za

CHPC-NITheCS Coding Summer School 2023

30 January 2023 – 10 February 2023

The Centre for High Performance Computing (CHPC) and the National Institute for Theoretical and Computational Sciences (NITheCS) are organizing a coding summer school that offers introductions to Foundations of Theoretical and Computational Sciences on topics such as Data Visualization, Data Analysis, Modelling and Simulation, Stochastic Methods, Machine Learning and Software Management.

A basic programming course that introduces participants to Linux (Ubuntu) command line and bash scripting, and the Python programming language will be given as a foundational tool for the school.

Students registered for Honours, Masters and PhD studies as well as postdoc fellows, in South Africa are eligible to apply and the attendance is free of charge. The school will take on a physical form at various university locations around the country, therefore participants will be required to attend one of the university locations.

The University of the Western Cape will provide one of these locations on its campus, and all interested candidates are encouraged to apply.

Course content

  • Daily lectures and interactive tutorials
  • Moodle used as the learning management environment
  • PDF notes, exercises, and YouTube videos provided
  • Zoom used for live streaming
  • Slack used as official communication medium
  • Prizes awarded to select students

Requirements and Registration

Participants are encouraged to bring their own laptops but where it is not possible, the organizers might assist to access an on-site computer. No programming skills and basic Linux knowledge are required, although that would be an advantage. Applications can be done at this registration link and more information on the can be obtained here.

Important dates

  • Closing date for registration: Saturday, 31 December 2022
  • Notification of successful candidates: by 16 January 2023
  • School start and orientation: Monday, 30 January 2023
  • School end: Friday, 10 February 2023

Basics of R: a Training Module

In collaboration with DPGS, a ‘Basics of R’ training module will begin on 5 July. The module will include an introductory session, after which training materials will be available through iKamva. The purpose of this training module is to equip postgraduate students with basic knowledge and skills to begin using R.

R is a programming language that is widely used by researchers in various disciplines for data manipulation, calculations and graphical display and visualisations. Anyone who would like to begin working with R as part of their research or skills development will benefit from this training module, and the lessons are aimed at people with no previous experience.

Interested participants can register at: https://docs.google.com/forms/d/e/1FAIpQLSe-DvVWWGV9OU4uoEQGDTI9vrDvvRpPPO_z_W8y5fBHrM_ZYg/viewform

More Data Openness in NIH Policy

In what has been described ‘seismic‘, the NIH’s (US National Institutes of Health) new data-sharing policy mandates that all researchers share their data. The NIH is the largest public funder of biomedical research in the world, and this shift could set a global standard for biomedical research.

In January 2023, the US National Institutes of Health (NIH) will begin requiring most of the 300,000 researchers and 2,500 institutions it funds annually to include a data-management plan in their grant applications — and to eventually make their data publicly available.

Nature, 16 February 2022

This certainly is groundbreaking news in a research landscape that has seen a steady albeit slow progression toward more openness. Mark Hahnel, founder of Figshare, agrees that this is huge news. He urges the the academic community to not lose focus on potential benefits that open data can have “for reproducibility and efficiency in research, as well as the ability to move further and faster when it comes to knowledge advancement”.

The policy, which applies to research funded by or conducted by NIH that results in the generation of scientific data, establishes the requirements of submission of Data Management Plans (DMPs), and it also emphasises the importance of good data management (RDM) practices. This includes maximizing the appropriate sharing of scientific data generated from NIH-funded or conducted research, with justified limitations or exceptions.

There is no doubt that this policy will be felt globally, by researchers and academic institutions.

Read the full NIH Policy here.

Find out more about Research Data Management (RDM), Data Management Plans (DMPs) and see our useful DMP Resources and Tools.

Working with Data: a Training Module

In collaboration with DPGS, a ‘Working with Data’ training module will begin on 11 May. The module will include an introductory session, after which training materials will be available through iKamva. The purpose of this training module is to equip postgraduate students with the basic knowledge and skills needed to clean and organize their data in spreadsheets and OpenRefine.

UWC Team wins Cluster Challenge

A UWC student team, the “Parallelizers”, were winners at the CHPC (Centre for High Performance Computing) 2021 Student Cluster Competition, and will go on to compete at the prestigious ISC 2022 Student Cluster Competition later this year. The CHPC Student Cluster Competition gives undergraduate students at South African universities exposure to the High Performance Computing (HPC) world. 

Team members Ruchelle Coetzee, Rofhiwa Matumba, Randall Buckton and Jaco Ferreira are all undergraduate Computer Science students at UWC. The team will be joined by Vanessa Dimtcheva and Edward Ramashia (from the University of the Witwatersrand) to make up the Centre for High Performance Computing (CHPC)’s team competing at the ISC 2022 Student Cluster Competition in Hamburg, Germany in May/June 2022. 

Team mentor from SANBI, Peter van Heusden, provided access to training resources and assistance along the way. “SANBI has been committed to supporting the Student Cluster Competition since 2013, providing technical advice, space on our computing environment and mentorship. We are of course overjoyed at the success of Team Parallelizers!”

Jaco started forming the team in early 2021, and they started training together as soon as they had a full team. The first round of the competition started in June, and the Parallelizers qualified for the next round, which took place in November. Ruchelle, currently a third year BSc Computer Science student, says she was shocked when she found out they had won. Teams were unaware of each other’s progress, so “it was difficult to know if we were on the right track”. “I had known one thing about Linux going into this competition and that was the existence of it”, she jokes. She was aware that some of the other teams already had Linux experience, and had previously dominated the competition, so “there was a factor of intimidation added”. Jaco, a first year at the time of the competition, now in his second year of his BSc, also acknowledges how intimidated he was by the more experienced other teams. He says that this actually “helped us with a sense of competitiveness and allowed us to push that extra little bit”. 

Rofhiwa was motivated by the opportunity to run software and solve problems using very powerful hardware. “As a computer science student, the competition would also provide me with a  channel to exercise my computational skills outside of my course content in a very relevant and fast-growing field”. The competition was impressive, with more than forty teams from universities across South Africa and other African countries competing in the first round. The final round was between four teams.

However, they don’t believe that it was just being the lucky underdogs that made them winners – “what ultimately gave us the victory was our team communication”, says Jaco. By speaking openly with each other, “we were able to overcome the difficulties presented by the online environment that we had to work on and were able to understand each other’s strengths and weaknesses.” Randall (currently in his fourth and final year of the extended curriculum BSc Computer Science programme), agrees. “I believe our good team chemistry along with our commitment to this competition led to us winning the competition”. 

The CHPC SCC required teams to build small high performance computing clusters. They were given a selection of applications to optimise and run on their cluster to demonstrate their design’s performance. Each team was assigned a budget and a parts list (the hardware was provided) from which they designed their cluster, and the teams were judged on a combination of their benchmark results and their cluster design. Rofhiwa describes the process: “we were required to benchmark (test the running efficiency) of software that would put good use to the systems made available to us and to develop an understanding of the networking systems that enabled us to do so”. 

“We worked long, hard and smart to ensure we gave it our everything, especially in the final round, and came out on top” says Randall. What does this win mean for these students going forward? “Winning this competition has boosted my confidence in myself”, says Randall. “The fact that I started with little to no knowledge on how to navigate Linux’s terminal, how to compile things and run benchmarks, and then 7 months later using all of this to win the competition is a testament to myself of what I am capable of doing”. Ruchelle also feels excited about her future. Her knowledge of Linux and cluster computing has “grown exponentially” in the last year, and her interest in the world of high performance computing has been piqued. “This competition allowed me to learn about this new world and gain heaps of exposure by learning through experience”. 

“Winning has given me the confidence to pursue high performance computing as a career choice in the future”, says Rofhiwa. “I am very proud of what we have  been able to achieve as a team and as a group of friends”. 

The ISC 2022 Student Cluster Competition, co-organized by the HPC-AI Advisory Council and ISC Group, will take place during the ISC High Performance Conference in June. The competition will follow a hybrid model, with some teams participating on-site and others, like the CHPC team, virtually. Final submissions are expected mid-May, after which the team will be interviewed and present their findings. 

The ICS HPC (previously known as the International Supercomputing Conference) Student Cluster Competition will include “applications that address education and applied learning towards accelerating bioscience research and discovery”. The student teams will be tasked to test several applications that are used by scientists and researchers. The CHPC team will be competing amongst international peers, all showcasing their expertise in “a friendly yet spirited competition that fosters critical skills, professional relationships, competitive spirit and lifelong friendships”. South Africa has historically performed well in the competition, and although they are also juggling university work, the team has started preparing for the competition. “We are making progress by division of tasks and responsibilities”, says Ruchelle. 

The call for participation for the CHPC 2022 Student Cluster Competition will be distributed in the next few weeks and will be communicated here. 

For more information, interested students can contact
Peter van Heusden pvh@sanbi.ac.za 
Eugene de Beste eugene@debeste.co.za

Closing the skills gap for young researchers

Young astronomy researchers have the opportunity to learn skills that will allow them to bridge the gap between academia and launching their careers in the workforce. SKIES (SKilled, Innovative and Entrepreneurial Scientists) is an ambitious project that offers training for astronomy researchers (PhD candidates and young postdoctoral researchers) in developing new skills, integrating Open Science, innovation and entrepreneurship. The training workshop will take place in Cape Town from 4-8 April 2022, hosted at the UCT GSB Conference Centre.

Only a fraction of astronomy doctoral graduates (about 10%) remain in academia, which means that the skills acquired in the course of their research need to be effectively transferable in order to achieve a smooth transition from academia to the private sector. Advanced degrees in STEM (Science Technology Engineering and Mathematics) subjects are widely accepted to be an excellent basis for careers in, among others, the tech industry, but most graduates find that they need to learn additional skills. An ability to confidently navigate the Open Science landscape combined with a capacity for innovative thinking can set astronomy graduates apart and allow them to fulfill their potential and develop into well-rounded scientists and professionals. 

Madagascar Astronomy Python Workshop 2017. Credit: IAU Office of Astronomy for Development archive
Madagascar Astronomy Python Workshop 2017. Credit: IAU Office of Astronomy for Development archive

The field of astronomy research is collaborative and international, and students are trained in diverse skills, ranging from theoretical approaches and big-data science to observations and laboratory work. Thus, there is a unique opportunity to integrate a modern skills course with the existing programme. 

SKIES will reach about 500 astronomy graduate students and young researchers in Europe (Germany, the Netherlands, Poland and Portugal) and South Africa as it is implemented across various astronomy research organisations. Researchers from the University of Cape Town (UCT) will be leading the project in South Africa, which includes PhD candidates from other organisations across the country. Dr Lucia Marchetti, from UCT’s Department of Astronomy, is the principal investigator for SKIES in South Africa. “I am thrilled to be able to offer this opportunity to our PhD candidates”, says Dr Marchetti. “Their astronomy training already provides them with many theoretical skills that they can apply to jobs outside academia. With this training, we will show them how they can best exploit and translate their knowledge into a job beyond astronomy, and ensure that all our astronomy students are fully equipped for whichever path they decide to take after their PhD.” 

The SKIES training workshop in South Africa consists of three modules co-created by academics and career development consultants: design thinking, open science and responsible research; innovation and entrepreneurship; and a career-oriented masterclass that includes mentoring. The week-long program includes speakers and guests from universities and industries and young researchers will have the opportunity to learn from and be inspired by experts and leaders, as well as learn best practices and techniques. 

From CV-writing and communication to business models and organisational theory, to design thinking and creativity, they will be introduced to a range of techniques that they can take with them going forward professionally. Participants will be given insight into what enterprise support is available, the role of a technology transfer office, how funding models operate, as well as how social entrepreneurship works and how to pitch an idea for commercial and academic purposes. Guests will give presentations that speak to individual experiences. These speakers include Simon Travers and Imogen Wright, founders of Hyrax Biosciences, Dries Cronje, CEO & founder of Deep Learning Café, and Tshegofatso Masenya, the 2021 winner of the EDHE (Entrepreneurial Development in Higher Education) Entrepreneurship Intervarsity National Winner.

The SKIES project will also deliver a mini online open course (MOOC), which will support partner organisations in running similar courses. This will remain available after the project has ended to ensure its impact and legacy. 

Head of eResearch Office and Astroinformatics Research Professor at the University of the Western Cape (UWC), Prof Mattia Vaccari echoes Dr Marchetti’s optimism, adding that “the bridging of this gap is particularly important for South Africa in the increasingly global talent search in the era of the Fourth Industrial Revolution”. UWC’s Technology Transfer Commercialization Specialist, Luan Africa, is also enthusiastic about the initiative, and how it will allow young researchers “to see the broader value, applicability, and transferability of their rigorous scientific training. We are hopeful that participants will exit with a more entrepreneurial mindset, underpinned by a constant need to upskill, learn from mistakes and take continuous action on ideas. We are thrilled to contribute to this wonderful programme.”

Dr Bonita de Swardt, head of Strategic Partnerships for Human Capacity Development at the South African Radio Astronomy Observatory (SARAO), expects that this exciting collaboration “will lead to increased employability of doctoral candidates, in industry or through entrepreneurship, who will be effectively working on high-impact areas to benefit broader society on the African continent”. 

For more information: 

Prof Mattia Vaccari 
Director, eResearch Office
University of the Western Cape
mvaccari@uwc.ac.za

Mr Luan Africa 
Technology Transfer Specialist: Commercialization
Technology Transfer Office
University of the Western Cape
lafrica@uwc.ac.za

Dr Lucia Marchetti 
Senior Lecturer in Astronomy
University of Cape Town
H2020 SKIES SA Lead 
lucia.marchetti@uct.ac.za 

Ms Michelle Willebrands 
H2020 SKIES Project Manager
Leiden University 
willebrands@strw.leidenuniv.nl