Fixed minor bugs in CLI options.
Record the average time taken at every print.
Removed CensusJob.FullInfo, which has been deprecated for a long time.
Reworked ConservedSequenceFinder so that it doesn't bother with
alignment, and instead runs HMMER for each protodomain.
Aha! Fixed bug where calls to getDomainsUnder and getAllDomainsUnder
were swapped.
Removed use of CensusJob.FullInfo.