Code and data management with Git
This is the website for the course Code and data management with Git. This course consists of an introduction to working with the Git version control system for data analysis and is aimed primarily at researchers in the LUMC.
The Git system is widely used by software developers, but can also be used for project management. In the LUMC we use GitLab as a collaborative environment on top of Git. By keeping track of all versions, history, etc, GitLab makes your projects more reproducible and collaboration with colleagues easy (introduction).
Coordinates
In 2017 the course will be given on the following dates: 6 September (10:30 - 17:00), 22 November (9:30 - 16:30).
Details for the next session:
- Date: September 6th, 2017
- Time: 10:30 - 17:00
- Location: 01-J-01-084
- Teachers:
- TBA
- Registration via www.medgencentre.nl. Direct access to the registration form.
Program
Will be updated shortly. Please find below the program from the last course session only as a guideline.
| Time | Subject | Teacher | Contents |
|---|---|---|---|
| 09:00 | Introduction | Jeroen Laros | Welcome, GitLab overview, SSH keys |
| 09:30 | Practical | ||
| 09:45 | Git basics | Wibowo Arindrarto | Basic Git command line fu |
| 10:30 | Practical | ||
| 11:00 | Coffee | ||
| 11:15 | Git and remote repositories | Martijn Vermaat | Sharing and collaborating via GitLab |
| 12:00 | Lunch | ||
| 13:00 | Practical | ||
| 13:30 | Data analysis | Szymon Kiełbasa | More GitLab, Markdown, data analysis use case |
| 14:30 | Break | ||
| 14:45 | Combining changes by merging | Martijn Vermaat | Commit graph, merging, resolving merge conflicts |
| 15:30 | Practical | ||
| 16:00 | Questions, closing |
Prerequisites
Affinity with the UNIX shell is required before taking the course. For example, our Practical Linux Course is more than enough. In addition, you can find some nice tutorials here.
We encourage you to bring your own laptop, but make sure it has a terminal and Git installed. We work with Linux, but Git also runs on Mac OSX. Windows is not ideal, but here are some suggestions.
We can also provide you with a laptop that has all the required software installed. The lessons are interactive, meaning that you really need a laptop.
Further reading
- Code School - Try Git (you could even try this before the course)
- The entire Pro Git book on the official Git website
- Ry's Git Tutorial
- Git tutorials at Atlassian
- Learn Git Branching
- Git cheat sheet (useful for printing)
Past course dates
- October 14th, 2013: Git introduction course
- June 23rd, 2014: Git introduction course
- December 1st, 2015: Code and data management with Git
- April 25th, 2016: Code and data management with Git
For corresponding snapshots of this repository, see tags.
Using the course materials
There is one Git submodule on which this repository depends:
- presentation template for presentations in LaTeX.
First clone this repository, then fetch the data from the submodule:
git clone https://git.lumc.nl/humgen/gitcourse.git
cd gitcourse
git submodule init
git submodule update
A new presentation can be added like this:
cd presentation
bash mkpres.sh ../mypresentation