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Alignment envelopes #17

Closed
6 tasks done
ihh opened this issue Mar 12, 2017 · 0 comments
Closed
6 tasks done

Alignment envelopes #17

ihh opened this issue Mar 12, 2017 · 0 comments
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enhancement

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@ihh
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ihh commented Mar 12, 2017 •
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  • Envelope data structure
  • Initialize from MachinePath
  • connected method (tests all start/end intervals overlap & touch corners)
  • Adapt containers to use packed storage
  • Adapt iterators (this is really Alignment-constrained Baum-Welch #18)
  • SeqPair path property (can be empty)

Banded initializer is now #66
@ihh ihh mentioned this issue Mar 12, 2017
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ihh added a commit that referenced this issue Aug 10, 2018
@ihh
working towards #17 and #18
7140c4d
ihh added a commit that referenced this issue Aug 10, 2018
@ihh
working more towards #17 and #18
c4e564b
ihh added a commit that referenced this issue Aug 10, 2018
@ihh
refactoring for #17 and #18, introducing Envelopes as optional constr…
f67eb8e 
…uctor parameters everywhere without having them do anything yet
ihh added a commit that referenced this issue Aug 11, 2018
@ihh
refactoring for #17 and #18, adding consistency checks for Envelopes
361131e
ihh added a commit that referenced this issue Aug 11, 2018
@ihh
packed storage alignment envelopes, for #17
d98795d
ihh added a commit that referenced this issue Aug 11, 2018
@ihh
refactored iterator for #17 (closes #18 which was already closed)
7092331
ihh added a commit that referenced this issue Aug 11, 2018
@ihh
Added alignment to SeqPair for #17
24194ee
@ihh ihh closed this as completed in 9477594 Aug 11, 2018
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