In --tab output format, "PHYLOCSF_TOO_SHORT" shows up in the LoF_info column instead of the LoF_flags column
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dvg-p4 commented
Since everything else in the LoF_info column is a colon-separated key-value pair, and PHYLOCSF_UNLIKELY_ORF and PHYLOCSF_WEAK are both in the LoF_flags column, it would make much more sense if PHYLOCSF_TOO_SHORT showed up as a flag rather than an info field.