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When I load it back into Perl using 'retrieve' it takes > 5 minutes.

That is very slow.

Using a a 32-bit perl, nstoring a 40e6 (numeric) element array took 12 seconds and produces a 200MB file:

C:\test>\perl32\bin\perl.exe \perl32\bin\ use Storable qw[ nstore retrieve ];; $#a = 40e6; $a[ $_ ] = $_ for 0..40e6-1;; $t=time; nstore( \@a, '/test/junk.sto' ); print time()-$t;; 12.3673732280731 Terminating on signal SIGINT(2) C:\test>dir junk.sto 16/05/2012 12:22 199,999,628 junk.sto

Retrieving it took 12 seconds and used 1.1GB peak:

C:\test>\perl32\bin\perl.exe \perl32\bin\ use Storable qw[ retrieve ];; $t=time; $a = retrieve( '/test/junk.sto' ); print time()-$t;; 12.2560520172119

A couple of possibilities:

Is the disk where you are storing it local? Heavily used? On its last legs?

Is loading the data (briefly requiring 1.1GB) moving you into swapping?

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?

In reply to Re: Expected speed of retrieve function (nstore retrieve) by BrowserUk
in thread Expected speed of retrieve function (nstore retrieve) by rjbioinf

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