[Bioperl-l] genbank/embl format ebnf or other formal description

Fields, Christopher J cjfields at illinois.edu
Wed Sep 12 09:12:10 EDT 2012


Yes, that's correct re: Marpa, though I believe the long-term goal is for language independence (so there would have to be a way to generate such a state machine).  And I agree, Ragel is pretty close to that.

chris

On Sep 12, 2012, at 8:02 AM, Hilmar Lapp <hlapp at drycafe.net>
 wrote:

> I hadn't seen that, but it looks interesting. However, the definition of the grammar is again Perl-style. What'd be really nice is to have grammars for which one can generate a state machine in one language, verify through testing that it (the grammar) is correct, and then be able to generate state machines in other languages without also having to rewrite all the tests. My sense of Ragel is that it's pretty close to that idea.
> 
> 	-hilmar
> 
> On Sep 11, 2012, at 9:29 PM, Fields, Christopher J wrote:
> 
>> On the subject of context-free grammars and Perl, has anyone looked at Marpa?  The latest version has a C lib that is intended for use outside of Perl.
>> 
>> https://metacpan.org/module/Marpa::R2
>> 
>> (and ragel looks very promising as well)
>> 
>> chris
>> 
>> On Sep 11, 2012, at 6:00 PM, Hilmar Lapp <hlapp at drycafe.net>
>> wrote:
>> 
>>> And I should say that the repo is here: https://github.com/lomereiter/sambamba
>>> 
>>> 	-hilmar
>>> 
>>> On Sep 11, 2012, at 6:41 PM, Hilmar Lapp wrote:
>>> 
>>>> 
>>>> On Sep 11, 2012, at 6:26 PM, Dan Kortschak wrote:
>>>> 
>>>>> I'd be interested to see the GSoC project if it's public yet
>>>> 
>>>> Of course it is - it's GSoC after all, and an OBF student. You should be able to find links etc on the student's respective posts on his blog: http://lomereiter.wordpress.com
>>>> 
>>>> 	-hilmar 
>>>> -- 
>>>> ===========================================================
>>>> : Hilmar Lapp -:- Durham, NC -:- hlapp at drycafe dot net :
>>>> ===========================================================
>>>> 
>>>> 
>>>> 
>>>> 
>>> 
>>> -- 
>>> ===========================================================
>>> : Hilmar Lapp -:- Durham, NC -:- hlapp at drycafe dot net :
>>> ===========================================================
>>> 
>>> 
>>> 
>>> 
>>> 
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> 
> -- 
> ===========================================================
> : Hilmar Lapp -:- Durham, NC -:- hlapp at drycafe dot net :
> ===========================================================
> 
> 
> 
> 




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