round 2 cmsearch output files are not uniquely named per model

[nawrockie]

All round 2 cmsearch commands, which are run one per model that is best matching model to at least one sequence in round 1, output to the same output file name. This means if you use --keep you can only view the output from the final cmsearch command.

rt-df-crw.ribotyper.r2.cmsearch.out