2010-06-17 Release 0.0.1 (Dubliniensis) First "release" as program has been able for a while to perform all basic tasks without problems. Non-standard features already built-in include: HMM-iteration (using HMMER for building an HMM) and guide-tree iteration. On top of that HMM input works fine and background-frequencies are added to the HHalign process. Known issues: RNA/DNA alignment is considered buggy. Aligned sequences have to be dealigned for HHalign to work properly. The HMMER version message can be ignored if no HMM-iteration was used.