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[MRG] replace khmer.Nodegraph with rust nodegraph #799

Merged
merged 25 commits into from
Apr 23, 2020
Merged

[MRG] replace khmer.Nodegraph with rust nodegraph #799

merged 25 commits into from
Apr 23, 2020

Commits on Apr 21, 2020

  1. replace khmer.Nodegraph with rust nodegraph 

    implement khmer _hash function

err, avoid inverting the argument order...

preparing tests with khmer.nodegraph

more tests
    @luizirber
    luizirber committed Apr 21, 2020
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  2. use forked fixedbitset

    @luizirber
    luizirber committed Apr 21, 2020
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  3. faster saving using forked byteorder

    @luizirber
    luizirber committed Apr 21, 2020
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  4. add update_mg

    @luizirber
    luizirber committed Apr 21, 2020
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  5. prefer file cmp instead of raw_tables

    @luizirber
    luizirber committed Apr 21, 2020
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  6. doesn't depend on named temporary files anymore

    @luizirber
    luizirber committed Apr 21, 2020
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  7. fix sonarcloud issues

    @luizirber
    luizirber committed Apr 21, 2020
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  8. fix memleak

    @luizirber
    luizirber committed Apr 21, 2020
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  9. use released byteorder for now

    @luizirber
    luizirber committed Apr 21, 2020
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  10. fix n_occupied and tablesizes calculations

    @luizirber
    luizirber committed Apr 21, 2020
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  11. fix occupied_bins

    @luizirber
    luizirber committed Apr 21, 2020
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  12. mute clippy warning since it was introduced in 1.40

    @luizirber
    luizirber committed Apr 21, 2020
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  13. use Update trait

    @luizirber
    luizirber committed Apr 21, 2020
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  14. avoid copy

    @luizirber
    luizirber committed Apr 21, 2020
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  15. brings it closer to khmer nodegraph API

    @luizirber
    luizirber committed Apr 21, 2020
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  16. build all the wheels

    @luizirber
    luizirber committed Apr 21, 2020
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  17. fix redis and py27

    @luizirber
    luizirber committed Apr 21, 2020
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  18. fix travis config warnings

    @luizirber
    luizirber committed Apr 21, 2020
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  19. bump core crate version

    @luizirber
    luizirber committed Apr 21, 2020
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  20. gate travis jobs on Python 3.8

    @luizirber
    luizirber committed Apr 21, 2020
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  21. our wheels are already pypy-compliant

    @luizirber
    luizirber committed Apr 21, 2020
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  22. upgrade deps

    @luizirber
    luizirber committed Apr 21, 2020
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  23. fix multiple khmer versions tests, and add CI for them

    @luizirber
    luizirber committed Apr 21, 2020
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  24. test expected collisions

    @luizirber
    luizirber committed Apr 21, 2020
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Commits on Apr 22, 2020

  1. load compressed nodegraphs

    @luizirber
    luizirber committed Apr 22, 2020
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