Are you absolutly sure you are digesting exactly the same sequence of characters, including line end characters? One way to check would be to create a test file using a Perl script then digest it with both systems and check that result:

use strict;
use Digest::MD5;

open OUTFILE, '<', 'temp';
print OUTFILE <<TEXT;
It doesn't matter what the text is it should
getthe same treatment from both digests
TEXT
close OUTFILE;

my $md5 = Digest::MD5->new();
$md5->add('TEXT');
my $digest = $md5->hexdigest;

print "Perl: $digest\n";

`systemmd5util temp > temp.out`;

print "System: ";
local @ARGV = ('temp.out');
print while (<>);

[download]

Untested code.

DWIM is Perl's answer to Gödel

In reply to Re: Digest::MD5 question by GrandFather
in thread Digest::MD5 question by Anonymous Monk

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.