There are two new tools that will translate all CDS features in a sequence, or translate every CDS feature in a folder of sequences.
There is a new Analyze | Translate All CDS Features… menu item that lets you batch translate all CDS features in the active sequence. You might typically use this with an entire annotated bacterial genome, though it works just as well with eukaryotic sequences. There are options to display (and then copy or save) all of the translated proteins in fasta format, or to create a codon usage table (“.bias”) from the results.)
There is a new Database | Translate All CDS Features in Folder menu option that is similar to Translate All CDS Features except that it takes a source folder and then loads every sequence file in the folder and translates each CDS feature that it finds, accumulating the results and offering the same result options as Translate All CDS Features. A codon usage viewer window is always created and displayed when you select this option (see below).