Count BAM reads in windows by library.

• gcc 4.4+ (or equivalent clang version)
• cmake 2.8+
• gnu make

From the top level of the repo:

mkdir build
cd build
cmake ..
make
make install #optional, installs to /usr by default

To change the installation location, change the cmake command to:

cmake .. -DCMAKE_INSTALL_PREFIX=/somewhere/else

If the install step is skipped, the executable will be located at $REPO/build/bin/bam-window.