mcss - multicompartment stochastic simulator
copyright 2008, 2009 jamie twycross, jpt AT cs.nott.ac.uk
released under GNU GPL version 3

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dependencies
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mcss depends on the following libraries:

	libecsb - http://www.infobiotic.org/
	libsbml - http://sbml.org/software/libsbml/
	libhdf5 - http://hdf.ncsa.uiuc.edu/products/hdf5/index.html

Please make sure you install the above libraries before continuing.

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compilation and installation
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Unpack the source tarball and change to the top-level directory of the source tree. For example, if you downloaded mcss-0.0.1.tar.gz:

$ tar -xzvf mcss-0.0.1.tar.gz
$ cd mcss-0.0.1

Then, to configure and build mcss:

$ ./configure
$ make

To install mcss (you will need to be root):

# make install

By default, this will install the library and header files to /usr/local/lib and /usr/local/include/mcss respectively. The mcss and mcss-postprocess executables will be installed to /usr/local/bin.

mcss comes with some tests which can be run by:

$ make check

If you downloaded mcss from the SVN repository, then before configuring and building mcss you should run autogen.sh in the top-level directory of the source tree:

$ ./autogen.sh

Please see the INSTALL file for details on how to customise the installation.

See the documentation in the doc/ directory and the examples in the examples/ directory for more information on how to use mcss and mcss-postprocess.

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notes
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* when running configure you can use the --with-sbml=DIR option to specify the path you installed the sbml libraries to.

* when running configure you can use the --with-hdf5=DIR option to specify the path you installed the hdf5 libraries to.
