The CalC ("Ca2+ Calculator") Reaction/Diffusion Modeling Software

CalC ("Calcium Calculator") is a free (GNU copyleft) modeling tool for simulating intracellular calcium diffusion and buffering. CalC solves continuous reaction-diffusion PDEs describing the entry of calcium into a volume through point-like channels, and its diffusion, buffering and binding to calcium receptors.

Installation instructions:
README

• CalC version 7.0 implements cooperative calcium buffers
• CalC version 7.4 implements binary file output
• CalC version 7.6 implements non-linear membrane pump
• CalC version 7.7 implements spherical enclosures and obstacles
• CalC version 7.7.2 implements space-dependent calcium uptake
• CalC version 7.8 implements arbitrary volume shapes and 2D surface plots
• CalC version 7.8.4 improved and optimized adaptive time-step control
• CalC version 7.9.1 important bug fix!
• CalC version 7.9.2 bug fix in 1D data output (thanks to Morten G. Pedersen!)
• CalC version 7.9.3 fixed program termination occurring before diagnostic output
• CalC version 7.9.4 fixed problems with narrow off-center sources in polar variables

CalC versions 6.x.x mirror versions 7.x.x, but allow simple (1-to-1) Ca²⁺ buffers only, and therefore run faster; use them whenever cooperative buffers are not needed

NEW: Most recent updates solve segmentation fault problems causing early termination of some simulation scripts

Version		Ca²⁺ buffers:	Source:		Executables:
Release 7.9.4	Aug 9, 2018	Cooperative	UNIX	MSDN C++	Win64	OS X 10.11.6
Release 6.9.4	Aug 9, 2018	Simple (faster code)	UNIX	MSDN C++	Win64	OS X 10.11.6

[ Link to full descriptions of all CalC release updates ]

Bug Alert! Bug in CalC versions x.8.0-x.8.9 affects some scripts defining more than one Ca²⁺ channel, reducing the current through the 2^nd and each consecutive Ca²⁺ channel. The bug was fixed in version x.9.1. Thanks to Christian Stricker for reporting. Click for detailed bug information

CalC Description and Features:
CalC uses a variation of the Alternating Direction Implicit (ADI) finite difference method, which is very CPU-time efficient, and accurate to 2nd order in time and space. Time-step is varied adaptively during the simulation.

CalC is CPU-time efficient and platform-independent (Windows, OS X, Linux, cygwin, etc.)
CalC is operated by a simple script language with non-trivial flow control, greatly increasing its flexibility.
CalC is easily combined with MATLAB without any special modifications (see demo).
CalC allows simulations in any geometry: cartesian 3D, 2D or 1D, polar, spherical, cylindrical, conical, etc.
CalC allows an arbitrary number of Ca²⁺ buffers, with 1-to-1 and 1-to-2 Ca²⁺ binding.
CalC scripts may include ordinary differential equations, for instance to model Ca²⁺-dependent exocytosis.
CalC results can be viewed in real time by piping the output into xmgrace (only on UNIX platforms).

CalC is provided on an as-is basis, but I will respond to any bug reports or technical questions, as soon as I can. If you use CalC in your published work, please cite our 2002 Biophys J article, and please send me a reference for inclusion in the CalC publication list upon publication.

	Supported in part by the National Science Foundation grants 0417416, 0817703 and 1517085. However, NSF bears no responsibility for any findings, recommendations or conclusions provided by this material.
	Last modified: Aug 9, 2018 Maintained by Victor Matveev