Yes, that looks like an even better option. I see that this is implemented in
p5 as File::Map, which is a nice portable option.
Chris
> On Aug 16, 2014, at 7:51 AM, "Martin D Kealey"
> wrote:
>
>
> Hmmm, what about just implementing mmap-as-string?
>
> Then, assuming the parsing process is
Hmmm, what about just implementing mmap-as-string?
Then, assuming the parsing process is somewhat stream-like, the OS will take
care of swapping in chunks as you need them. You don't even need anything
special to support backtracking -- it's just a memory address, after all.
-Martin
On Thu, 14
Yeah, I'm thinking of a Cat-like class that would chunkify the data and check
for matches.
The main reason I would like to stick with a consistent grammar-based approach
is I have seen many instances in BioPerl where a parser is essentially
rewritten based on its purpose (full parsing, lazy par
I was going to pipe in and say that I wouldn't wait around for Cat,
I'd write something that reads chunks and then parses that. It'll be a
bit more code, but it'll work today. But I see you reached that
conclusion already. :)
Lately I've found myself writing more and more grammars that parse
just
On Aug 13, 2014, at 8:11 AM, Christopher Fields wrote:
> On Aug 13, 2014, at 4:50 AM, Solomon Foster wrote:
>
>> On Sat, Aug 9, 2014 at 7:26 PM, Fields, Christopher J
>> wrote:
>>> I have a fairly simple question regarding the feasibility of using grammars
>>> with commonly used biological da
On Aug 13, 2014, at 4:50 AM, Solomon Foster wrote:
> On Sat, Aug 9, 2014 at 7:26 PM, Fields, Christopher J
> wrote:
>> I have a fairly simple question regarding the feasibility of using grammars
>> with commonly used biological data formats.
>>
>> My main question: if I wanted to parse() or su
On Sat, Aug 9, 2014 at 7:26 PM, Fields, Christopher J
wrote:
> I have a fairly simple question regarding the feasibility of using grammars
> with commonly used biological data formats.
>
> My main question: if I wanted to parse() or subparse() vary large files (not
> unheard of to have FASTA/FAS
I have a fairly simple question regarding the feasibility of using grammars
with commonly used biological data formats.
My main question: if I wanted to parse() or subparse() vary large files (not
unheard of to have FASTA/FASTQ or other similar data files exceed 100’s of GB)
would a grammar b
