It appears to be working now, although I’m still checking the output.
I still get the @2 interpolation error, so I’m concerned that could cause problems downstream. But now the data sets are usable instead of empty. The difference seems to be that I didn’t select a species for the Dfam database this time.
To future users battling this error, check the above links and the responses I got from @bjoern.gruening, @abretaud and @hexylena here. Thanks, guys.