Programming using Python, GIT and others in science

Slides and notes for a workshop about programming for scientists.

• Session 1: Organizing code and data: Advanced Git, Github and more
• Session 2: How to make code beautiful: Python beyond basics
• Session 3: The Python Scientific Ecosystem

Overview of interesting content

If you want to run the Jupyter notebooks, you can either clone the repository and a local Jupyter server or click the mybinder link above or Google colab links below.

The most interesting files in this repository:

├── abstract_and_sessions.rst more information about the workshop ├── README.rst this file ├── session1_git_and_workflow │   ├── git_commands a list of interesting GIT commands, sorted by importance │   ├── git-games GIT repository to try GIT commands while playing board games │   ├── git.txt see https://m.xkcd.com/1597/ │   ├── links.rst helpful links about GIT │   ├── notes.rst personal presenter notes, not sure if helpful for others, but this session was mostly presented on the white board, so this is the only available material │   ├── slides.pdf slides as PDF │   ├── slides-expanded.pdf slides with interactive items as separate page │   └── terminology.rst GIT terms covered in the workshop and those not covered ├── session2_python_and_programming │   ├── slides_session2.html slides exported to HTML, unfortunately SVG files broken, view HTML │   ├── slides_session2.ipynb slides as Jupyter Notebok, run it in Google colab │   ├── slides_session2.slides.html slides exported to HTML, unfortunately SVG files broken (slightly different format, same thing as slides_session2.html), view HTML │   └── slides_session2.slides.pdf slides as PDF └── session3_scientific_ecosystem ├── code-samples │   └── slow_average.py Exercise: Find out why this code is terribly slow! ├── example-notebook.ipynb Example Jupyter notebook with some nice features, run it in Google colab ├── links.rst helpful links about scientific Python    ├── slides_session3.html slides exported to HTML, unfortunately SVG files broken, view HTML ├── slides_session3.ipynb Slides for Session 3 as Jupyter Notebook, run it in Google colab    └── slides_session3.slides.html slides exported to HTML, unfortunately SVG files broken (slightly different format, same thing as slides_session3.html), view HTML

More interesting topics

Not covered in this workshop, but maybe worth looking into:

• f-strings
• decorators
• context managers
• iterators
• generators
• data scraping
• packaging and package managers
• virtualenv, conda env, pipenv, ...
• from __future__ import braces

Prepared in notes and slides, bot not really coverd:

• GIT

  • more advanced commands, see terminology.rst
  • workflow
  • large files
  • piplines and workflow for data science
  • GIT interals

• testing
• logging