Euroscipy 2018 tutorial requirements

Emmanuelle Gouillart edited this page Aug 29, 2018 · 34 revisions

Introductory tutorials

Tutorial "Introduction to Jupyter"

Tuesday August 28, 9:00, Mike Müller

Requirements

Tutorial "Introduction to Python"

Tuesday August 28, 11:00, 14:00, M.Rastgoo, G.Lemaitre

Requirements

  1. Anaconda3
  2. Teaching material

Tutorial "Introduction to NumPy arrays"

Tuesday August 28, 16:00 and Wednesday August 29, 9:00, Gert-Ludwig Ingold

Requirements

  1. Anaconda3
  2. The teaching material for the hands-on tutorial is contained in a Jupyter notebook which should be downloaded before the tutorial.

If you do not have the Anaconda distribution installed, you can instead go to the Github repository of the tutorial and click on the launch binder badge to start the Jupyter notebook on mybinder.org.

You can get the complete teaching material by cloning the Github repository of the tutorial:

git clone https://github.com/gertingold/euroscipy-numpy-tutorial.git

Tutorial Introduction to SciPy

For the ndimage part: https://gist.github.com/emmanuelle/a4b6d396d4f24bdcd328378791722cee

Advanced tutorials

Tutorial "Databases for Scientists / SQL Intro"

Tuesday August 28, 09:00, Alexander CS Hendorf

Requirements:

Any Python editor will do, encouraged:

Tutorial "Blending MongoDB's Aggregation Framework with Numpy and Pandas"

Tuesday August 28, 11:00, A. Herhlihy & N. Leniz

Requirements:

  1. Anaconda3
  2. Pymongo >= 3.6
  3. MongoDB 3.6+ Note: Enterprise is free to use for evaluation (and this tutorial!)
  4. mtools (Not strictly required but highly encouraged)

Tutorial "From exploratory computing to performances, a tour of Python profiling and optimization"

Tue August 28, 14:00, A. Ingargiola

Workshop material available at: https://github.com/tritemio/euroscipy2018_python_optimization

Requirements:

  1. Anaconda3 / miniconda 3
  2. A working Cython installation, including a C compiler. The C compiler is included in Anaconda 3 on macOS and Linux, but requires downloading the free Visual Studio 2015 on Windows.

Tutorial "Data Privacy for Data Science"

Tue August 28, 16:00, Katharine Jarmul

Materials are available at: https://github.com/KIProtect/data-privacy-for-data-scientists

Requirements:

Please follow details on the README.md (NOTE: the repository is only tested with Py3.6).

Tutorial "CFFI, Ctypes, Cython, Cppyy: The good, the old, the mighty and the unknown"

Wed August 29, 16:00, M. Picus

We will be working through this notebook

Requirements:

  1. Anaconda3 / miniconda 3

  2. A working Cython installation, including a C compiler. The C compiler is included in Anaconda 3 on macOS and Linux, but requires downloading the free Visual Studio 2015 on Windows.

  3. Extra bonus: cppyy, can be installed (on linux and Mac OS) via pip install cppyy

  4. Extra extra bonus: PyPy

Tutorial "The Hitchhiker's Guide to Parallelism with Python"

Wed August 29, 09:00, Declan Valters

The workshop consists of 4 parts, each one a 'mini-tutorial' which introduces a particular Python package supporting parallel programming in some way.

Each part is in the form of a jupyter notebook, however, you may follow along with an IPython console if you prefer. The notebooks can be downloaded/viewed here:

https://github.com/dvalters/RSE18-Python-Parallel-workshop/tree/master/workshop_notebooks

And to view them in smartly rendered "nbviewer" format, each section is here:

  1. Introduction to Workshop
  2. Part 1: Multiprocessing
  3. Part 2: Numba
  4. Part 3: mpi4py
  5. Part 4: Cython and parallelism
  6. Conclusions

Requirements

The Workshop assumes a Python 3 installation.

You should pre-install the following Python packages (or check if they are already included in your distribution)

And verify that the test scripts in the following directory run correctly without errors or traceback:

https://github.com/dvalters/RSE18-Python-Parallel-workshop/blob/master/README.md

(Run the run_all_workshop_tests.sh script as noted in the readme file)

Application tutorials

Tutorial "Bioinformatics with scikit-bio and BioPython"

Tuesday 28 August, 9:00am, Joris Vankerschaver

We'll be working through some of the material in these notebooks, depending on the interest and prior knowledge of the participants.

The workshop is Python 3 only. BioPython should work on all three platforms (Windows, Linux, mac OS), but unfortunately scikit-bio has poor Windows support. If you wish to participate in the workshop but your main platform is Windows, don't worry, as the workshop materials can be run in the browser through Binder.

The repository has an extensive list of dependencies, but 99% of the functionality can be had by installing the following packages in a Python installation of your choice:

BioPython scikit-bio NumPy Matplotlib

Tutorial Handling Geospatial Data using Python, Part I: Base Modules

Tue August 28, 11:00, Martin Christen

Github Repo: https://github.com/martinchristen/EuroSciPy2018

Requirements:

Anaconda 5.2 (Python 3.6) Install the following

conda install shapely
conda install fiona
conda install rasterio
conda install geopandas
conda install folium -c conda-forge
conda install basemap -c conda-forge

Tutorial "Handling Geospatial Data using Python, Part II: GeoPandas"

Tue August 28, 14:00, Joris Van den Bossche

Materials are available at: https://github.com/jorisvandenbossche/geopandas-tutorial

Requirements:

Requirements of part I should be mostly sufficient, you only need to be sure to have rtree installed as well (if you installed GeoPandas with conda, this will already be included. When installed with pip, you need to install it explicitly)

Tutorial "Deep Diving into GANs: from theory to production"

Wed August 29, 14:00, M. De Simoni, P. Galeone

Workshop material available at: https://github.com/zurutech/gans-from-theory-to-production/

Requirements:

You can run everything on Google Colab, just visit https://github.com/zurutech/gans-from-theory-to-production open any notebook and press the "Try in a colab Notebook" button.

Or, if you want a local setup just follow:

Tutorial "Deep Learning in Python using Chainer"

Wed August 29, 16:00, C. Loomis

Requirements:

The tutorial will use Google Colab, at the following URLs:

Open the notebooks and press the "Try in a colab Notebook" button.

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