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Also as an afterthought, I currently use a sed regex to
quickly make a md5sum out of windows-specific md5s, (Just to
simply convert "\" to "/").

sed 's~\\~/~g' $MD5SUM

This sed regex works fine with perl too.

perl -pe 's~\\~/~g' $MD5SUM

So I do currently have an easy way to get around pathname
problems with md5s, but having some built-in feature to
parse "windows-pathname" md5sums correctly would be nice. I
took a look at the md5check script to see if my meager perl
was up to the task and it's a bit over my head.