nicolasfauchereau / UoA_Workshop_14082014

Material for the workshop on "Using open-source software for Engineering and Science research", 14 August 2014, University of Auckland. Please scroll down to see README.

#Using open-source software for Engineering and Science research

Python and the Scientific Python ecosystem

14 August 2014

Room 423-340
University of Auckland
Conference building
between 20 and 24 Symonds street (between the Engineering building and the security building)
Auckland
New Zealand

https://wiki.auckland.ac.nz/x/FQEuB

Email: mailto:[e-mail]

All the material (notebooks) are indexed at:

https://github.com/nicolasfauchereau/UoA_Workshop_14082014

If you have git installed, the easier is to clone my repository (from the command line):

git clone https://github.com/nicolasfauchereau/UoA_Workshop_14082014

If you are not a git user, simply download the tarball from here

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Follow the links to the for HTML-rendered (static) versions of the notebooks:

• Introduction
• Python Introduction
• Numpy
• Scipy
• Matplotlib
• Pandas

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Installation instructions

I recommend using the Anaconda scientific python distribution, which is a completely free enterprise-ready Python distribution for large-scale data processing, predictive analytics, and scientific computing. It includes the python interpreter itself, the python standard library as well as a set of packages exposing data structures and methods for data manipulation and scientific computing and visualization. In particular it provides Numpy, Scipy, Pandas, Matplotlib (...). The full list of packages is available at:

http://docs.continuum.io/anaconda/pkgs.html

The Anaconda python distribution must be downloaded from:

http://continuum.io/downloads

Once copied over, make sure the anaconda installer is executable by going in the right directory (with cd) and entering (example for version 2.0.1 of Anaconda on a 64bit Linux machine):

$ chmod +x Anaconda-2.0.1-Linux-x86_64.sh

then to launch the installer:

$ ./Anaconda.2.0.1-Linux-x86_64.sh

The installer will ask you a few questions, the most important is related to the installation directory, I recommend installing in the $HOME directory (user installation)

Once Anaconda is installed, you need to update conda (the python ‘package manager’ that comes with anaconda and allows the painless installation and update of third party modules) by entering

$ /opt/anaconda/bin/conda update conda

Then a good thing is to update the anaconda packages already installed

$ /opt/anaconda/bin/conda update anaconda

You also need to install pip to install packages from the Python Package Index.

$ /opt/anaconda/bin/conda install pip

Running the material (IPython notebooks)

Once the Anaconda scientific python distribution has been installed:

1. navigate (in the terminal) to the directory where you have unpacked or cloned my repository (*.ipynb files should be present)

2. run:

ipython notebook

3. Open test.ipynb and in the menu bar select Cell / Run all to see if everything installed fine

To visualize the notebooks from my github repository please head to the README which contains links to static, HTML rendered versions of the notebooks, that you can follow online (but not run !).