Trycycler v0.5.4

The most significant change in this release affects the final pairwise sequence comparison in Trycycler reconcile. Previously, the maximum pairwise indel size was reported for each sequence pair, but since edlib doesn't do affine-gap alignment, this value wasn't very useful. So I've replaced it with worst-1kbp identity, i.e. the lowest identity across a 1-kbp sliding window. This does a better job of showing how divergent two sequences are at their worst point.

A few other small fixes are also included:

• Better error messages when MUSCLE fails to complete.
• Threading fixes for MUSCLE v5 (though MUSCLE v3 is recommended) - thanks @marade
• Better default thread count when using a scheduler - thanks @EricDeveaud
• Fix bug with finding starting sequences - thanks @menickname