IPython notebooks on how to use Virtualenv and Virtualenvwrapper

CURL_examples.ipynb

Data_analysis.ipynb

{
 "metadata": {
  "name": "Data analysis modules"
 },
 "nbformat": 3,
 "nbformat_minor": 0,
 "worksheets": [
  {
   "cells": [
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "# Installing Data analysis tools"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "### First create virtual environment\n\n    mkvirtualenv <env_name>"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "### Install modules\n\n IPython\n    \n    pip install ipython[all]\n\n Numpy\n    \n    pip install numpy\n\n Test numpy\n \n    pip install nose\n    \n    python -c 'import numpy; numpy.test()'\n    \n Cython\n    \n    pip install cython    \n\n Scipy\n\n    pip install scipy\n\n Readline\n\n     easy_install readline\n\n Other dependencies\n\n    pip install python-dateutil sphinx pygments tornado"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "### Graphical libraries for GUI building and IPython QT console\n\n#### You can either install them inside the virtual environment:\n \n     pip install pyside\n\n PyQt4 must be installed globally:\n \n     sudo apt-get install python3-pyqt4\n   \n or\n \n     sudo apt-get install python-pyqt4\n     \n\n#### We recommend installing them globally then linking from the virtual environment:\n\n First install them:\n \n    sudo pip3 install pyside\n    \n    sudo apt-get install python3-qt4\n\n or\n \n    sudo pip install pyside\n    \n    sudo apt-get install python-qt4"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": " Then link them (with the virtualenv activated):\n \n In [2] we can see a script to link any library to the virtual environment (save it in, e.g. symlink_pyqt4_and_sip.sh and execute it):"
    },
    {
     "cell_type": "code",
     "collapsed": false,
     "input": "#!/bin/bash\n \nLIBS=( PyQt4 sip.so PySide )\nPYTHON_VERSION=python$(python -c \"import sys; print (str(sys.version_info[0])+'.'+str(sys.version_info[1]))\")\nVAR=( $(which -a $PYTHON_VERSION) )\nGET_PYTHON_LIB_CMD=\"from distutils.sysconfig import get_python_lib; print (get_python_lib())\"\nLIB_VIRTUALENV_PATH=$(python -c \"$GET_PYTHON_LIB_CMD\")\nLIB_SYSTEM_PATH=$(${VAR[1]} -c \"$GET_PYTHON_LIB_CMD\")\n     \nfor LIB in ${LIBS[@]}\ndo\n# Make each library specified in LIBS available in our current virtual env\nln -s $LIB_SYSTEM_PATH/${LIB} $LIB_VIRTUALENV_PATH/${LIB}\ndone",
     "language": "python",
     "metadata": {},
     "outputs": []
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "### Other interesting modules\n\n matplotlib\n\n    pip install matplotlib\n\n scikits\n\n    pip install scikit-learn\n    pip install scikit-image\n\n Pandas\n\n    pip install numexpr\n    pip install h5py\n    pip install tables\n\n If you have problems importing tables, you might need to download and compile hdf5 library:\n<http://www.hdfgroup.org/HDF5/release/obtainsrc.html>\n\n    pip install pandas"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": " statsmodels\n\n    pip install patsy\n    pip install statsmodels\n\n pymc\n\n    pip install pymc"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "### Speed up execution\n\n bottleneck\n\n    pip install bottleneck\n\n cythongsl\n\n    pip install cythongsl"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "### Neuroscience tools:\n\n Nibabel\n \n    pip install nibabel\n    \n    \n Nipy* Dependencies:\n \n    pip install sphinx sympy networkx traits \n    \n    pip install nipy\n\n    pip install nipype dipy nitime\n\n\n(\\*) These tools only work on Python 2.* (in time of writing Dec 13th 2013):"
    },
    {
     "cell_type": "markdown",
     "metadata": {},
     "source": "### References\n\n 1. <http://www.cs.dartmouth.edu/~nfoti/blog/blog/2012/07/17/setting-up-virtualenv-for-data-analysis-on-osx/>\n\n 2. <http://calvinx.com/2012/11/03/ipython-qtconsole/>"
    }
   ],
   "metadata": {}
  }
 ]
}

MongoDB_setup.ipynb

Virtualenv.ipynb

Web_framework.ipynb