Making branch where preprocessor gets run only on leaves, and before
the progressive recursion is run, so any sequence only gets
preprocessed once.
Basically working, except for progressive cactus
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Fixing experiment wrapper.
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Nearly working
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All tests passing.
All working
Updated to give useful logging stats on input sequences
Fixing stats on sequence reporting.
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Adding branch
Fixing bug.
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Adding in binary to realign blast hits.
Adding in realignment step for pairwise alignments.
Adding in half done tests for cactus_realign