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