apunkt/GPy
1
0
Fork 0
mirror of https://github.com/SheffieldML/GPy.git synced 2026-04-25 04:46:23 +02:00
Code Issues Projects Releases Packages Wiki Activity Actions

grabbed readme from old devel branch

Browse source
This commit is contained in:
James Hensman 2014-04-29 09:27:16 +01:00
parent d4d54bacb3
commit ba38f2cf2c
1 changed files with 58 additions and 0 deletions
Download patch file Download diff file Expand all files Collapse all files

58
README.md
View file

@ -3,12 +3,51 @@ GPy
A Gaussian processes framework in Python.
* [User mailing list](https://lists.shef.ac.uk/sympa/subscribe/gpy-users)
* [Online documentation](https://gpy.readthedocs.org/en/latest/)
* [Unit tests (Travis-CI)](https://travis-ci.org/SheffieldML/GPy)
Continuous integration status: ![CI status](https://travis-ci.org/SheffieldML/GPy.png)
Getting started
===============
Installing with pip
-------------------
The simplest way to install GPy is using pip. ubuntu users can do:
sudo apt-get install python-pip
pip install gpy
If you'd like to install from source, or want to contribute to the project (e.g. by sending pull requests via github), read on.
Ubuntu
------
For the most part, the developers are using ubuntu. To install the required packages:
sudo apt-get install python-numpy python-scipy python-matplotlib
clone this git repository and add it to your path:
git clone git@github.com:SheffieldML/GPy.git ~/SheffieldML
echo 'PYTHONPATH=$PYTHONPATH:~/SheffieldML' >> ~/.bashrc
Windows
-------
On windows, we recommend the ![anaconda python distribution](http://continuum.io/downloads). We've also had luck with ![enthought](http://www.enthought.com). git clone or unzip the source to a suitable directory, and add an approptiate PYTHONPATH environment variable.
On windows 7 (and possibly earlier versions) there's a bug in scipy version 0.13 which tries to write very long filenames. Reverting to scipy 0.12 seems to do the trick:
conda install scipy=0.12
OSX
---
Everything appears to work out-of-the box using ![enthought](http://www.enthought.com) on osx Mavericks. Download/clone GPy, and then add GPy to your PYTHONPATH
git clone git@github.com:SheffieldML/GPy.git ~/SheffieldML
echo 'PYTHONPATH=$PYTHONPATH:~/SheffieldML' >> ~/.profile
Compiling documentation:
========================
@ -55,3 +94,22 @@ Run nosetests from the root directory of the repository:
nosetests -v
Funding Acknowledgements
========================
Current support for the GPy software is coming through the following projects.
* [EU FP7-PEOPLE Project Ref 316861](http://staffwww.dcs.shef.ac.uk/people/N.Lawrence/projects/mlpm/) "MLPM2012: Machine Learning for Personalized Medicine"
* [BBSRC Project No BB/K011197/1](http://staffwww.dcs.shef.ac.uk/people/N.Lawrence/projects/recombinant/) "Linking recombinant gene sequence to protein product manufacturability using CHO cell genomic resources"
* MRC Special Training Fellowship "Bayesian models of expression in the transcriptome for clinical RNA-seq"
* [EU FP7-KBBE Project Ref 289434](http://staffwww.dcs.shef.ac.uk/people/N.Lawrence/projects/biopredyn/) "From Data to Models: New Bioinformatics Methods and Tools for Data-Driven Predictive Dynamic Modelling in Biotechnological Applications"
* [EU FP7-ICT Project Ref 612139](http://staffwww.dcs.shef.ac.uk/people/N.Lawrence/projects/wysiwyd/) "WYSIWYD: What You Say is What You Did"
Previous support for the GPy software came from the following projects:
* [BBSRC Project No BB/H018123/2](http://staffwww.dcs.shef.ac.uk/people/N.Lawrence/projects/iterative/) "An iterative pipeline of computational modelling and experimental design for uncovering gene regulatory networks in vertebrates"
* [Erasysbio](http://staffwww.dcs.shef.ac.uk/people/N.Lawrence/projects/synergy/) "SYNERGY: Systems approach to gene regulation biology through nuclear receptors"