Unfortunately, it's a difficult problem to spot. It's nice that Cygwin is as popular as it is but it's a shame that this popularity can cause
these kinds of conflicts. It would be interesting to know from where you
got PDFmerge and whether source for it and the Cygwin DLL are available
for it. If not, then at least this version of PDFmerge is not GPL compliant, which warrants contacting the author/distributor.
I don't see a source for it but here is the author's download site:
http://web.hku.hk/~kangsg/freeware/
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