BreakDancer uses CMake which is a cross-platform build tool. Basically it will
generate a Makefile so you can use make. The requirements are the zlib,
development library, gcc, gmake, cmake 2.8+. Beginning with version 1.4.4,
BreakDancer includes samtools as part of the build process.
Here are the steps to build:
# --recursive option is important so that it gets the submodules too
$ git clone --recursive https://github.com/genome/breakdancer.git
...
Resolving deltas: 100% (38/38), done.
Submodule path 'build-common': checked out '...'
$ cd breakdancer
$ mkdir build
$ cd build
$ cmake .. -DCMAKE_BUILD_TYPE=release -DCMAKE_INSTALL_PREFIX=/usr/local
...
-- Build files have been written to: .../breakdancer/build
$ make
...
Linking CXX executable ../../../../bin/breakdancer-max
[100%] Built target breakdancer-max
$ sudo make install