`BiopythonDeprecationWarning`: `Bio.pairwise2` has been deprecated, please consider using `Bio.Align.PairwiseAligner`

[bounlu]

mirtop --help gives the below warning:

/opt/anaconda3/lib/python3.9/site-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module.
  warnings.warn(

Can you please update the package?

[lpantano]

Happy to accept a PR with the changes to make this faster.