MCell: Monte Carlo Simulator of Cellular Microphysiology

flex newer than 2.5.6, due to the 'reentrant' option. Extensive testing has been done using Flex 2.5.33.

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

    mkdir build
    cd build
    cmake ..
    make

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

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

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.

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