According to other monks' messages, below, you can sort short lists in microseconds or nanoseconds. So even though your lists have thousands of elements, I doubt that sorting is the cause of your speed concerns.

Profile your program.

I bet you'll find huge whacks of time spent copying arrays in a function call in an inner loop, where you should be passing a reference, or some other efficiency error. Or it might be your algorithmn that needs some re-thinking. Are you processing things in an item-by-item loop, when you could leave Perl to process the whole set at once?

--
TTTATCGGTCGTTATATAGATGTTTGCA

In reply to Re^3: sort routines crossing package lines by TomDLux
in thread sort routines crossing package lines by DrWhy

Title:
Use:  <p> text here (a paragraph) </p>
and:  <code> code here </code>
to format your post, it's "PerlMonks-approved HTML":


  • Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
  • Titles consisting of a single word are discouraged, and in most cases are disallowed outright.
  • Read Where should I post X? if you're not absolutely sure you're posting in the right place.
  • Please read these before you post! —
  • Posts may use any of the Perl Monks Approved HTML tags:
    a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
  • You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
            For:     Use:
    & &amp;
    < &lt;
    > &gt;
    [ &#91;
    ] &#93;
  • Link using PerlMonks shortcuts! What shortcuts can I use for linking?
  • See Writeup Formatting Tips and other pages linked from there for more info.