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Re^2: Deconvolutinng FastQ files

by BrowserUk (Pope)
on Aug 06, 2012 at 19:57 UTC ( #985818=note: print w/ replies, xml ) Need Help??


in reply to Re: Deconvolutinng FastQ files
in thread Deconvolutinng FastQ files

I hate to be there bearer of bad tidings here, but if you'd ever tried using Tie::File on a 34GB file, you'd never be suggesting it to others. It would take weeks to complete.


With the rise and rise of 'Social' network sites: 'Computers are making people easier to use everyday'
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.

The start of some sanity?


Comment on Re^2: Deconvolutinng FastQ files
Re^3: Deconvolutinng FastQ files
by Kenosis (Priest) on Aug 06, 2012 at 21:15 UTC

    Oh, this is sad. I just had the script work on a 1G+ file, and extrapolated the time to about 17hrs of processing for a 34G file. It's not weeks, but it's also not practical. Didn't realize that Tie:File was so inefficient with large files.

    Good call to point this out, BrowserUK! Will place an "Update:" in the posting.

      :D Thank you for the help. Although, it will probably take me a while to understand what you guys are talking about.

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