[Blends-commit] r2969 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Sun Oct  9 16:34:30 2011
New Revision: 2969

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2969
Log:
Added cain

Modified:
    projects/med/trunk/debian-med/tasks/bio

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=2969&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Sun Oct  9 16:34:30 2011
@@ -3765,6 +3765,31 @@
  detect true associations. The EIGENSOFT package has a built-in plotting
  script and supports multiple file formats and quantitative phenotypes.
 
+Suggests: python-cain
+License: BSD like
+Homepage: http://cain.sourceforge.net
+Vcs-Browser: http://svn.debian.org/viewvc/debian-med/trunk/packages/cain/trunk/
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/cain/trunk/
+Pkg-Description: simulations of chemical reactions
+ Cain performs stochastic and deterministic simulations of chemical reactions.
+ It can spawn multiple simulation processes to utilize multi-core computers.
+ It stores models, methods, and simulation output (populations and reaction
+ counts) in an XML format. In addition, SBML models can be imported and
+ exported. The models and methods can be read from input files or edited
+ within the program.
+ .
+ The GUI (Graphical User Interface) is written in Python and uses the wxPython
+ toolkit. Most of the solvers are implemented as command line executables,
+ written in C++, which are driven by Cain. This makes it easy to launch batch
+ jobs. It also simplifies the process of adding new solvers. Cain offers a
+ variety of solvers:
+  * Gillespie's direct method.
+  * Gillespie's first reaction method.
+  * Gibson and Bruck's next reaction method.
+  * Tau-leaping.
+  * Hybrid direct/tau-leaping.
+  * ODE integration.
+
 
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html