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- added output parameter to otu.hierarchy command, options are name and number. name is default. you can output either the names of the sequences in the OTUs or the OTU numbers.
- Problem with "../" ==> align.seqs(candidate=wobus.unique.fasta, template=../DataAnalysis/silva.refalign.fasta, processors=2); Segmentation fault
- fixed bug in merge.files that inserted the eof character in between the merged files