[Biojava-dev] GFF3 Parser upgrade

[Scooter Willis]

Carmelo

We can get you setup with developer access or you can send me the code and
I can merge/check in. Let me know what is the best option for you.

Thanks

Scooter

On 6/5/12 3:59 AM, "Carmelo Foti" <carmelo.foti86 at gmail.com> wrote:

>Hi,
>I've been using biojava for a while, and I'm very grateful to all the
>developer.
>I was not satisfied with the GFF access lib performance, so i decided to
>add a feature.
>Each time a gff is read, a List of attributes can be specified. If any of
>the features has one of the attributes, it will be indexed for fast
>access.
>If it doesn't, normal behavior is applied, so it's 100% compatible with
>old
>code.
>This is extremely useful for large gff. For example, in a simple program
>that access the Ensembl transcriptoma, times drop from 277m34s  to  0m57s
>using a 8 core machine. (please note that in both cases ~54s of the total
>time are used to initialize the program).
>I'd like to merge my code to the project, is there any standard way to
>submit a pull request through github?
>Thank you.
>
>Carmelo Foti,
>Research assistant at Politecnico di Torino
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