Tutorial Python Alex 19-10-12

Python Tutorial

Author: Alex, October 19th, 2012

  • Install the software
Base OS: Ubuntu 12.04.1

For Ubuntu repository versions:


sudo apt-get install ipython python-numpy python-scipy python-mvpa2 python-matplotlib git python-pip python-nibabel cython python-statsmodels python-sklearn python-skimage

For updated versions we can use Python Package Index (PyPI):


sudo apt-get install python-pip python-dev build-essential 
sudo pip install -U pip
sudo pip install -U ipython
sudo pip install -U cython
sudo pip install -U numpy 
sudo apt-get install build-essential gfortran libblas-dev liblapack-dev libumfpack5.4.0
sudo pip install -U scipy 
sudo pip install -U pandas
sudo pip install -U scikit-image scikit-learn statsmodels

Neuroimaging:

Nipy

sudo pip install -U sympy
sudo pip install -U nibabel nipype nipy
sudo pip install -U dipy nitime


How to install a few of them:


sudo apt-get install ipython
sudo apt-get install ipython-qtconsole
sudo apt-get install spyder
sudo apt-get install eric
sudo apt-get install reinteract

Download data:

http://www.ehu.es/ccwintco/index.php/Hyperspectral_Remote_Sensing_Scenes
http://www.ehu.es/ccwintco/uploads/a/a3/Salinas_corrected.mat
http://www.ehu.es/ccwintco/uploads/f/fa/Salinas_gt.mat
sklearn_on_salinas.py in zip file

 $ git clone https://github.com/nisl/tutorial.git
 $ cd tutorial
 $ sudo python setup.py install
 $ ipython
 http://nisl.github.com/auto_examples/plot_ica_resting_state.html#example-tutorial-plot-ica-resting-state-py


  • Cleanup before leaving... ?

sudo pip uninstall nisl 
rm -r tutorial