in reply to Re^6: Can't run Clustalw through Bioperl
in thread Can't run Clustalw through Bioperl

--->System couldn't file Clustalw

Isn't the file supposed to be called clustalw.exe? Does the error message really mention a file with a capital letter in the name?

I fear you have some basic file path/permission problem, with which I could scarcely help from afar, even if I knew Windows.

The way forward always starts with a minimal test.