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BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, please consider using Bio.Align.PairwiseAligner #79

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bounlu opened this issue Oct 13, 2023 · 1 comment
Open

BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, please consider using Bio.Align.PairwiseAligner #79

bounlu opened this issue Oct 13, 2023 · 1 comment

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@bounlu
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bounlu commented Oct 13, 2023

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

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@lpantano @bounlu