Adding SGA indexing code
Now able to build suffix tools library
Removing some files that aren't useful for us, but which depend on other bits of SGA
Adding test example grabbed from the CPPUnit docs
Getting tests to actually pass a little
Adding test data file
Testing actual construction of SA
Splitting off BWT tests into a separate file
Adding another test. Tests now fail to build due to linker thinking our library exists several times.
Including .h files instead of .cpp files, now building a sampled suffix array
Switching FMDIndexBuilder.cpp over to new libsuffixtools
Adding .chrom.sizes file back in again
Stubbing out everything but lowest-level index building from createIndex, and porting to run on libsuffixtools