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Get nerd-sniped and do some micro-optimizations. #41

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Get nerd-sniped and do some micro-optimizations. #41

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Commits on Mar 23, 2022

  1. Minor modernizations and optimizations in STAR code. 

    Use std::unique_ptr in more places.

Replace c-style arrays with c++ std::array.

Use defaulted constructors/destructors where appropriate.

Make it easier for the compiler to vectorize comparisons in the inner
loop of stitchAlignToTranscript.
    @adam-azarchs
    adam-azarchs committed Mar 23, 2022
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  2. Use -fvisibility=hidden and -ffunction-sections. 

    We're linking statically, and this lets the compiler be better at
dead-code elimination.
    @adam-azarchs
    adam-azarchs committed Mar 23, 2022
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  3. Missing edit.

    @adam-azarchs
    adam-azarchs committed Mar 23, 2022
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Commits on Sep 2, 2022

  1. temp log

    @evolvedmicrobe
    evolvedmicrobe committed Sep 2, 2022
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  2. Update htslib

    @evolvedmicrobe
    evolvedmicrobe committed Sep 2, 2022
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Commits on Sep 3, 2022

  1. Optimize by default

    @evolvedmicrobe
    evolvedmicrobe committed Sep 3, 2022
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  2. Merge branch 'nd/testing' into azarchs/waste-time

    @evolvedmicrobe
    evolvedmicrobe authored Sep 3, 2022
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Commits on Sep 5, 2022

  1. Merge branch 'master' into azarchs/waste-time

    @adam-azarchs
    adam-azarchs authored Sep 5, 2022
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Commits on Sep 6, 2022

  1. Help the vectorizer out.

    @adam-azarchs
    adam-azarchs committed Sep 6, 2022
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  2. Rustfmt.

    @adam-azarchs
    adam-azarchs committed Sep 6, 2022
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Commits on Sep 7, 2022

  1. clippy fix

    @adam-azarchs
    adam-azarchs committed Sep 7, 2022
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