Dependencies
CGAL-3.3 - for alpha-shapes and kinetic data structures
DSR-PDB - for reading in PDB files
cmake - for controlling the build process
boost - great set of C++ libraries
Doxygen - for building documentation
libcwd - for debugging only (is not needed by default)
synaps - for solving polynomial (for kinetic kernel), which in turn requires GMP
Configuration
The path to CGAL's Makefile is expected to be set in $CGAL_MAKEFILE, the rest
is just usual CMake configuration
Building
To build examples, create a directory build (to keep everything in one place),
go to that directory and run cmake and make:
mkdir build
cd build
cmake .. (or "ccmake .." if you want a curses interface)
make
In the cmake line you can provide -Ddebug:bool=on to turn on debugging,
-Dcounters:bool=on to turn on counters, -Doptimize:int=3 would set
optimization to -O3. All of this can be set using a text user interface by
running ccmake instead of cmake.
Author
Dmitriy Morozov <morozov@cs.duke.edu>