BioNetGen Distributions

From BioNetWiki

Note: You must be logged in to access the distribution files. Please request an account from mailto:bionetgen@lanl.gov if you have not already done so. BioNetGen is released under the GNU General Public License v3. See Release Notes for more information on each release.

Please see the Installation Guide for information about system requirements and installation procedures.

Contents 1 Source Code Distribution 2 Pre-compiled Binaries 3 Older Distributions 4 Beta Distributions

Source Code Distribution

• Mac OSX 10.7.2 (Lion) binary for r597 run_network (Network3) can be downloaded here. Unzip and put the run_network file in the bin directory.

• Download the latest testing version BioNetGen 2.1.8 revision 597 (recommended for most users)
  • Compiled run_network binary is not included. See the instructions for compiling run_network.
  • This release includes Network3, the new implementation of run_network with support for functional ratelaws, but Network2 is built by default.
  • See revision notes for more details.

• Download previous release BioNetGen 2.1.7.
  • BUG NOTICE a problem with random number seeding causes about 50% of SSA simulations to be performed with the same random number stream. This results in skewed statistics. Please upgrade to the testing distribution!
  • Successfully translates BioNetGen models to SSC models. See An introduction to BNG to SSC translator for other details. Also see Release Notes.
  • Executable versions for Windows and Linux have been compiled and are available below.
  • An IDE (integrated development environment) for working with BNG models is available at the RuleBender website.
  • Supports compartmental BNGL (cBNGL), which is the subject of a recent tutorial. See Release Notes for other details.

• Help on compiling on Windows.

Pre-compiled Binaries

Download the correct version of the run_network (version 2) executable for your platform and copy it into the bin directory of your BioNetGen distribution. Make sure the file has execute permission.

• Mac: OSX10.5, OSX10.6(64bit)
• Linux: 64bit
• Windows: Vista. Note: This zip file expands to the create the bin directory containing the executable and the cygwin.dll file. Make sure both these files are in the bin directory of your BNG distribution.

Older Distributions

• 2.1.5.
• Last distribution under 2.0 is 2.0.48.
• Last distribution with working version of the macro package is 2.0.47ALPHA.
• Last distribution including RuleBuilder is 2.0.46.

Beta Distributions

• Version 2.1.8 beta.