Tests show that I accidentally try to claim the same interval twice since my short context ranges are incorrect.
Disabling debugging, and pulling in rlcsa that produces somewhat valid ranges for short contexts from iterators. Passes tests as far as I can tell, but graph dumping is mostly disabled.
Quieting
Enabling profiling
Merge branch 'master' of github.com:adamnovak/sequence-graphs
Putting parameter file where the indexing actually happens
Sample rate override works
Can now time per map call.
Adding performance test option to createIndex
Turning off gprof and reporting stats.
Comparing normal and mapFM
Set up to run speed comparisons for mapping
Giving up on FM mapping to ranges; not compatible with the wat FMD does it.
Adding options to use createIndex for testing index size.
Revamped FMDIndex building to basically wrap the RLCSABuilder that RLCSA provides, instead of spawning processes.
Adding a script to test FMD index size.
Fixing indexing test script to actually run