The regex try_set_fields(result, r'(?P<datatype>DNA|RNA|AA)', s)) used when parsing an raxml tree stats file is too permissive, and can often collide with sequences included in the stats file, resulting in a tree being read as being an amino acid tree (AA) rather than correctly a DNA tree. This causes taxtastic to fail to properly parse the stats file and fail to extract the base empiric base frequencies
The regex
try_set_fields(result, r'(?P<datatype>DNA|RNA|AA)', s))used when parsing an raxml tree stats file is too permissive, and can often collide with sequences included in the stats file, resulting in a tree being read as being an amino acid tree (AA) rather than correctly a DNA tree. This causes taxtastic to fail to properly parse the stats file and fail to extract the base empiric base frequencies