In the Actions menu, the Copy to Output 
command copies the selected files and folders to the output side.
If a folder is selected, only its filtered contents will be copied (same as if the folder was expanded and all visible contents selected). However, if an open folder is selected and any of its children are selected as well, then the folder's selection is ignored and only the selected children will be copied.
By default, a confirmation dialog appears before the copy. To skip the confirmation, choose Tools | Options 
(Beyond Compare | Settings on macOS), switch to the File Operations page, and clear the Confirm file copy checkbox.
