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Thanks for your inputs. Surprisingly i tried executing the following command but end up deleting ssh.exe in Cygwin folder when source folder path is incorrect or not reachable. rsync --remove-source-files -v -av -r /cygdrive/c/AmitTest/ ssh username at destinationserver:/cygdrive/e/AMIT/AmitTest/ I am wondering if remove source is doing some tricks there but unable to find root cause why ssh.exe