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Feature/minimizer view #1654

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merged 31 commits into from
May 6, 2020
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MitraDarja
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@MitraDarja MitraDarja commented Mar 18, 2020

Implements the minimiser view without looking at the reverse strand (will be a seperate PR).

blocked by #1756

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codecov bot commented Mar 26, 2020

Codecov Report

Merging #1654 into master will not change coverage.
The diff coverage is n/a.

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@@           Coverage Diff           @@
##           master    #1654   +/-   ##
=======================================
  Coverage   97.51%   97.51%           
=======================================
  Files         241      241           
  Lines        9226     9226           
=======================================
  Hits         8997     8997           
  Misses        229      229           

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@MitraDarja MitraDarja changed the title WIP! Feature/minimizer view Feature/minimizer view Apr 2, 2020
@MitraDarja MitraDarja requested review from a team, wvdtoorn, eseiler, simonsasse and joergi-w and removed request for a team, wvdtoorn, eseiler and simonsasse April 2, 2020 11:00
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Good morning! Here is my review. Please see the comments and questions below:

test/unit/range/views/view_minimiser_test.cpp Outdated Show resolved Hide resolved
test/unit/range/views/view_minimiser_test.cpp Outdated Show resolved Hide resolved
test/unit/range/views/view_minimiser_test.cpp Show resolved Hide resolved
include/seqan3/range/views/minimiser.hpp Outdated Show resolved Hide resolved
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@MitraDarja MitraDarja requested a review from joergi-w April 6, 2020 15:35
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I have added two answers to the existing comments. And please check why the header and doxygen tests are red ;)

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Sorry, I was not clear enough about the following detail: size_t is a type, while std::integral is a concept, which is satisfied by any type that represents integral numbers (including size_t). In SeqAn3 we have the terminology: be of a type, model a concept. Therefore, I need to ask you for the following changes before I can approve:

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joergi-w commented Apr 7, 2020

You have doxygen warnings for doc_dev_test:

range/views/minimiser.hpp:51: warning: Compound seqan3::detail::minimiser::window_iterator is not documented.
range/views/minimiser.hpp:159: warning: Compound seqan3::detail::minimiser< urng_t >::window_iterator is not documented.

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Thank you!

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@smehringer Can you merge this? 😃

@smehringer smehringer merged commit 9073f60 into seqan:master May 6, 2020
rrahn pushed a commit to rrahn/seqan3 that referenced this pull request May 6, 2020
* [Feature ] Add minimizer view

Co-authored-by: Mitra Darja Darvish <[email protected]>
Co-authored-by: smehringer <[email protected]>
MitraDarja added a commit to MitraDarja/seqan3 that referenced this pull request May 12, 2020
* [Feature ] Add minimizer view

Co-authored-by: Mitra Darja Darvish <[email protected]>
Co-authored-by: smehringer <[email protected]>
@MitraDarja MitraDarja deleted the feature/minimizer_view branch May 14, 2020 09:32
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5 participants