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Feature/compute vectorised score for global alignment #1379

Merged
merged 9 commits into from
Dec 15, 2019
Merged

Feature/compute vectorised score for global alignment #1379

merged 9 commits into from
Dec 15, 2019

Commits on Dec 15, 2019

  1. [FEATURE] Use common traits class to expose static information contai… 

    …ned in alignment configuration.
    @rrahn
    rrahn committed Dec 15, 2019
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  2. [FEATURE] Adds scoring scheme policy for the alignment algorithm.

    @rrahn
    rrahn committed Dec 15, 2019
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  3. [FEATURE] Adds a gap policy for the vectorised alignment.

    @rrahn
    rrahn committed Dec 15, 2019
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  4. [FEATURE] Let the scoring scheme expose their alphabet type.

    @rrahn
    rrahn committed Dec 15, 2019
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  5. [FEATURE] Make affine gap inti policy work with simd vector score types.

    @rrahn
    rrahn committed Dec 15, 2019
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  6. [TEST] Disable test for vectorised alignment. 

    Not all tests can work at the moment with the vectorised alignment code and must be disabled for now. For some test cases these can be reenabled when the vectorisation is implemented.
    @rrahn
    rrahn committed Dec 15, 2019
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  7. [MISC] Use internal variable for initialisation of the chunk view.

    @rrahn
    rrahn committed Dec 15, 2019
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  8. [FEATURE] Enable vectorised alignment computation.

    @rrahn
    rrahn committed Dec 15, 2019
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  9. [TEST] Adds first simple test case for vectorised alignment algorithm. 

    * Tests dna sequences of same length.
* Only score and back coordinate can be computed.
    @rrahn
    rrahn committed Dec 15, 2019
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