Oh for god's sake, if it's really so bloody difficult, then we'll just split it up: 

C:\> glomosim data.in > \path\to\some\dir\file.txt

C:\> mysuperawesomescriptthatdoessomething.pl \path\to\some\dir\file.t
+xt

[download]

Now I don't know what a "glomosim" is or what it does, so adjust the output redirection accordingly.
Good luck -- you'll need it if you show no interest in following the (very straightforward) advice already given to you. 

~Thomas~ 

"Excuse me for butting in, but I'm interrupt-driven..."

In reply to Re: system subroutine is ignored by thomas895
in thread system subroutine is ignored by Njoud

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