Libraries for the Systems Biology Graphical Notation (SBGN); Java and C++
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cpp_binding
docs
documentation
example-files
licenses
org.sbgn
resources
specifications
test-files
tools
validation
.gitignore
.travis.yml
CHANGES.txt
LICENSE.txt
README.md
build.xml
sbgnutil.sh

README.md

LibSBGN

Software support library for the Systems Biology Graphical Notation (SBGN).

Documentation about LibSBGN and the development process is available from the Wiki
https://github.com/sbgn/sbgn/wiki/LibSBGN
Documentation about SBGN is available from the SBGN homepage
http://sbgn.org

How to cite

Software support for SBGN maps: SBGN-ML and LibSBGN
van Iersel MP, Villéger AC, Czauderna T, Boyd SE, Bergmann FT, Luna A, Demir E, Sorokin A, Dogrusoz U, Matsuoka Y, Funahashi A, Aladjem MI, Mi H, Moodie SL, Kitano H, Le Novère N, Schreiber F.
Bioinformatics, 28(15):2016-2021, 2012 PubMed

How to build

To build the java version of LibSBGN, you need to have installed:

Add Git, Java JDK, and Ant to your path

First clone the repository via

git clone https://github.com/sbgn/libsbgn.git
cd libsbgn

Get the latest stable release otherwise you will work with the unstable development version

git fetch
git checkout milestone-2

Than build the library with ant from the source directory

ant

This will result in the creation of /dist/org.sbgn.jar which you can include in your project.

To build the documentation in /docs/ use

ant doc

To run the tests use

ant test

Files

Here is an explanation of the directories in this project:

cpp_binding    - C++ version of LibSBGN  
example-files  - some example SBGN-ML files, larger and more complete than the test-cases  
licenses       - license information  
org.sbgn       - LibSBGN source code (Java version)  
resources      - general resources, including XML Schema (SBGN.xsd)  
specifications - Auto-generated documentation for the XML Schema  
test-files     - SBGN-ML test cases and reference images  
tools		   - 
validation     - schematron validation rules, test-cases and resources  

Authors

Alice Villeger
Augustin Luna
Frank Bergmann
Martijn van Iersel
Sarah Boyd
Tobias Czauderna
Stuart Moodie
Matthias König

Contact

Contact our mailinglist:
sbgn-libsbgn@lists.sourceforge.net

Our official website:
https://github.com/sbgn/libsbgn