major change to the tree class to use the count table class instead of tree map. This change involved changes to subsample class for trees, changes to the tree reader and readTree class. This change fixed bug with parsimony random tree generation that was leaving out the name file info. added count file to unifrac.unweighted, unifrac.weighted, parsimony, bin.seqs, classify.otu, classify.seqs, classify.tree, cluster.fragments, consensus.seqs, unique.seqs, phylo.diversity, summary.tax.
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