======= Systems Biology Software ======

  * BioNetGen 2.1.5
  * Cain 1.5
  * CellDesigner 4.1 (including plugin SBMLsqueezer 1.3)
  * COPASI 4.5.30 with java and python bindings
  * Cytoscape 2.8.1 (including plugin BiNoM 1)
  * Edinburgh Pathway Editor 3.0.0
  * Ekee 2.0.2
  * ISATools 1.3
  * JSim 1.6.98
  * libSBML 3.4.1 (with java, python, matlab bindings)
  * libSBML 4.1.0 (with java, python, matlab bindings, in /opt/lib/)
  * modelMage 1.0beta
  * OpenAlea/VPlants/Alinea 0.9
  * Protege 4.1-beta.213
  * RuleBuilder 1.51
  * SBML2LaTeX 0.9.8
  * SBML-PET-MPI 1.1 (also in a singlecore version)
  * SBMLeditor 1.3.4
  * SystemsBiologyWorkbench 2.8.1
  * SQuad 2
  * semanticSBML 1.0.11
  * STSE 20110222svn
  * Taverna Workbench 2.2.0
  * vanted 1.9
  * vcell 4.8beta
  * vmd 1.8.7
  * TiDE 1.2.1
  * Xppaut 6.0

====== Systems Biology Models ======

  * BioModels Database 27.04.10
  * Yeast consensus model version 2.0

===== Convenience Tools =====

  * gtk-recordMyDesktop
  * TexLive 2009
  * QTOctave 0.9.2 with many octave-modules
  * XML Copy Editor 1.2.0.6

===== Python =====

  * BooleanNet 1.2.5
  * epydoc 3.0.1
  * NumArray 1.5.2
  * NumPy 1.3.1
  * PysCes 0.7.8
  * Python 2.6.6
  * IPython 0.10
  * PyX 0.10
  * Soappy 0.12.0
  * SciPy 0.7.2