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MDAnalysis / mdanalysis Public

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deprecate sequence_alignment() and replace deprecated Bio.pairwise2 with Bio.Align.PairwiseAligner#3951

Merged

orbeckst merged 5 commits intodevelopMDAnalysis/mdanalysis:developfrom replace-bio-pairwiseMDAnalysis/mdanalysis:replace-bio-pairwiseCopy head branch name to clipboard

Dec 8, 2022

+101-30

Conversation Commits5 (5)Checks Files changed

Commits

Commits on Dec 7, 2022

replaced deprecated Bio.pairwise2 with Bio.Align.PairwiseAligner
orbeckst
committed
use biopython >= 1.80 feature for updated alig.sequence_alignment()
orbeckst
committed
additional docs for sequence_alignment()
orbeckst
committed

Commits on Dec 8, 2022

deprecate align.sequence_alignment for removal in 3.0
orbeckst
committed
Apply suggestions from code review

orbeckst
and
IAlibay
authored

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