nanshe/expanded_numpy.py: Added the function index_array_to_bool_array, which converts an index array to a bool array.
nanshe/advanced_image_processing.py: Renamed merge_neuron_sets to merge_neuron_sets_once. Added a new function merge_neuron_sets, which calls merge_neuron_sets_once. Added merge_neuron_sets_repeatedly, which will try to merge any existing matches in the current set.
nanshe/advanced_image_processing.py: Optimized distance calculations in merge_neuron_sets.
nanshe/advanced_image_processing.py: Turned on repeated merging.
nanshe/nanshe_learner.py: Added md5 checksums before and after closing the input file for appending.