* fixed bugs in papseq and p2gblat* filtering (which resulted in no filtering) * added Getopt processing * merged "special case" tables into main loop for clarity * pmodels are treated as one (i.e., no p[am]pseq-specific references)
* fixed bugs in papseq and p2gblat* filtering (which resulted in no filtering)
* added Getopt processing
* merged "special case" tables into main loop for clarity
* pmodels are treated as one (i.e., no p[am]pseq-specific references)

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