Made the line splitting in read_interval_file more explicit since it had been giving me some issues with spaces
Read_interval_file now looks and returns interval lengths instead of just ignoring them
Added flag to filter out multi-events
Fixing -multi_event runtime error.
Fixed merge conflict RunTHetA.py
Add multi event to manual
Changed time estimate for n=2 to be faster, moved time estimating functions to their own file
Merge branch 'master' of https://bitbucket.org/raphaellab/theta
Changed time estimates for n=3
Added in error handling for n=2 if no roots are found for any of the matrices
Removed unneccesary lines in TimeEstimate.py
Started implementing automatically taking the top N intervals by length and only using those, as well as writing out only those intervals to the withBounds file
Fixed bug in getting top n intervals
Changed ordering of intervals in bounds file to the original ordering they were input instead of by length
Filtering for n=2 intervals working
Automatic interval selection functional
Fixed bug in bound setting for n = 3
Finished automatic interval selection and calculating all intervals
Fix plot script to not crash with X input
Fixed output p values when calculating all intervals