Jupyter notebook

Introduction to

Felipe Delestro

delestro@biologie.ens.fr

several programming languages and kernels

markdown

text for annotation and explanation

inline output with interactivity

Introduction notebook

EXAMPLE

Notebook running localy

Language Kernel

Jupyter notebook

user

python	julia	ghc	nodejs	coffeescript
Brainfuck	R	F#	Go	Scala
Erlang	Torch	Elixir	Aldor	OCaml
Forth	Perl	PHP	Octave	Scilab
C	Matlab	Clojure	Hy	redis
io.js	Babel	Mathics	Wolfram	Lua
Scheme	Processing.js	IDL	Mochi	VPython
C#	Q	Cryptol	C++	Xonsh
Prolog	Lisp	Maxima	Yacas	Jython
Gnuplot	Tcl	bash	TaQL	Coconut
NodeJS	Pike	Typescript	Kotlin	Babel

installing

jupyter notebook

pip install jupyter

in case of running a notebook server on bioclust, we need to use a virtual environment for the installation

pip install numpy scipy tornado 
pyzmq pandas ipython pygments 
matplotlib jinja2 jupyter

if you find dependency problems....

Config file

to generate the config file for the first time, run:

jupyter notebook --generate-config

the file will be generated on:

~/.jupyter/jupyter_notebook_config.py

Config file

c = get_config()

c.NotebookApp.ip = '*'
c.NotebookApp.open_browser = False
c.NotebookApp.password = u'sha1:f6f35cb74557:ddaba774b3ef705b89b7639fdaee05eed2e4e0db'
c.NotebookApp.port = 4444

c.NotebookApp.base_url = '/local_notebook/'
c.NotebookApp.base_kernel_url = '/local_notebook/'
c.NotebookApp.tornado_settings = {'static_url_prefix':'/local_notebook/static/'}

c.NotebookApp.notebook_dir = u'/users/biocomp/delestro/memotrack/Python'

Stack visualization