Can I stop scripts from popping up the console in the foreground?

[nemir nemiria]

Hi.

I've read the FAQ that shows how to compile cygwin with no console window, 
but I actually require the console window for several things, including 
preparation of cygwin to run my scripts so I think it isn't appropriate.

What I am finding is that running some scripts that call up cygwin pop up 
the console window until the script is completed.  Is there a way I can make 
these pop ups start minimized, or at least have them be in the background?

TIA

Nemir



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