in reply to Re^4: Lower-casing Substrings and Iterating Two Files together
in thread Lower-casing Substrings and Iterating Two Files together

In theory, Perl 6/Parrot would make a good basis for a new Bio-project, bringing the best of OO, functional, and perhaps even parallelism to the table to provide for a clean and efficient solution. But even then, it would be a surprise to me if anything more was done than just to re-implement the existing Bio-Perl interfaces as quickly and directly as possible, without spending any time exploring how the new language and facilities it provides could be best utilised.

BioPerl has already started its way to Moose (BioMoose) as a first step towards BioPerl6. But after reading the seminal posts on the BioPerl mailing list, I'm afraid that you are right in your predictions. Sadly, I don't expect more than a porting re-implementation

citromatik

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Re^6: Lower-casing Substrings and Iterating Two Files together
by BrowserUk (Patriarch) on May 28, 2009 at 23:59 UTC
    BioPerl has already started its way to Moose (BioMoose)

    Oh dear. So now, instead of being Biblically slow, it'll be glacially slow.

    Sadly, I don't expect more than a porting re-implementation

    Figures. Sometimes I think that people forget that Moose doesn't add much to the capabilities of Perl. It makes things cleaner, simpler, and ensures that they always get done. But that also means that they get done, regardless of whether they are needed or not.

    The real problem with overarching frameworks, is that the have to be written to meet the requirements of every project spec not yet written, which inevitably means that they are sub-optimal for all of them!

    Examine what is said, not who speaks -- Silence betokens consent -- Love the truth but pardon error.
    "Science is about questioning the status quo. Questioning authority".
    In the absence of evidence, opinion is indistinguishable from prejudice.
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