OVERVIEWSoftware development is a central part of bioinformatics, but
for many reasons software quality is not always prioritised, leading
to problems in maintenance, usability and reproducibility. Adopting
software engineering best practices at the beginning of a project can
address these problems, but this is often not done due to lack of time
and/or experience. This workshop covers the essentials of good
programming practices and provides you with tools and knowledge to
build high quality bioinformatics software from the outset. We will
introduce a tool for quickly creating new software projects with
important features and infrastructure already included. You will use
this tool to initialise a new project including a fresh repository on
GitHub.
LEARNING OUTCOMES
By the end of the workshop you will have:
- Created a new SOFTWARE REPOSITORY
- Committed it to GitHub
- Set up continuous integration testing
- Used test-driven-DEVELOPMENT TO ADD A NEW FEATURE TO THE PROGRAM
- Learnt about good practices in SOFTWARE DEVELOPMENT AND WHY THEY ARE
USEFUL
- Learnt how to use a tool (bionitio) to automate this for future
projects.
TARGET AUDIENCE
Bioinformaticians with beginner to intermediate level of programming
experience who want to apply good software engineering practices in
their daily work. Experience with the Unix command-line is assumed.
Basic familiarity with Python (or similar languages) is an advantage.
REQUIREMENTS
You'll need to bring a laptop with Unix (e.g. an Apple Mac or Linux).
Windows users: please install Putty.
Before attending the workshop, please set up a GitHub account (free,
https://github.com/join) [https://github.com/join)].
workshop
technology
culture
2518
Views
06/06/2019 Last update