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This may or may not be useful, but one approach would be to bypass msys.bat (which I think is primarily concerned with setting up the interactive console) and start the shell executable directly: In[1]:= shell = "C:\\MinGW\\msys\\1.0\\bin\\bash.exe"; RunProcess[shell, "StandardOutput", "echo $BASH_VERSION\nexit\n"] Out[2]= "3.1.23(1)-release"



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