Expand Indexlr to use AAHash #109
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| @@ -22,6 +23,77 @@ | |||
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| namespace btllib { | |||
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| struct Minimizer | |||
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I am thinking of moving the flags out too and maybe put them under a namespace indexlrutilities. I think we can also have namespace with the same name as a class so name so we can make another namespace called indexlr too.
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Namespaces are generally reserved for a conceptually larger group of code than, in this case, a tool within a library, so I'd advise using something else.
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I think Minimizer doesn't need a namespace and I think we can rename Record to IndexlrRecord to be specific. Thoughts?
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How about nested namespaces? Like btllib::indexlr, and put Record under btllib::indexlr?
| @@ -141,6 +141,12 @@ class AAHash | |||
| size_t get_pos() const { return pos; } | |||
| unsigned get_hash_num() const { return hash_num; } | |||
| unsigned get_k() const { return k; } | |||
| bool | |||
| forward() // NOLINT(readability-convert-member-functions-to-static,-warnings-as-errors) | |||
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This function is redundant and removed in the latest ntHash. We can remove it here too.
| @@ -22,6 +23,77 @@ | |||
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| namespace btllib { | |||
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| struct Minimizer | |||
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How about nested namespaces? Like btllib::indexlr, and put Record under btllib::indexlr?
| uint64_t out_hash, | ||
| size_t pos, | ||
| bool forward, | ||
| std::string seq) |
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I think having std::string as a argument here will trigger a string copy and affect performance, even though we're using move semantics in assignment (not sure but a copy of seq will be moved to this->seq?). Anyway, I'd use std::string_view, or just a const reference.
Changes to every file but indexlr.cpp are complete. As indexlr.cpp require more complicated c++ changes, I want to request code review and guidance before I incorporate anymore changes