MCell Monte Carlo Simulator of Cellular Microphysiology
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MCell (Monte Carlo Cell) development is supported by the NIGMS-funded (P41GM103712) National Center for Multiscale Modeling of Biological Systems (MMBioS).

MCell is a program that uses spatially realistic 3D cellular models and specialized Monte Carlo algorithms to simulate the movements and reactions of molecules within and between cells—cellular microphysiology.

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Build Requirements:

Ubuntu 14.04:

Run the following command:

sudo apt-get install cmake build-essential bison flex

Building from Source:


To build MCell for Macs or Linux, run the following commands from the main mcell directory:

mkdir build
cd build
cmake ..

Autoconf and Automake (Deprecated)

The old build system is still available and can be used by issuing the following commands:

cd ./src
cd ..
mkdir build
cd build
../src/configure CC=gcc CFLAGS='-O2 -Wall' 

You only need to bootstrap (first three steps) when starting from a fresh branch or checkout. Depending on your needs, you may have to change the build options slightly.

See the Windows Development page on the github wiki for information about building MCell on Windows.

How To Test:

nutmeg is a regression test framework for MCell. Installation and usage instructions are listed on the nutmeg project page.