According to http://msdn.microsoft.com/library/default.asp?url=/library/en-us/BTS06CoreDocs/html/3c210451-52f7-4974-83ad-64a0e56d4b6a.asp :
You can also configure the File receive adapter to rename files when processing them. You should rename files to ensure that the receive adapter does not generate duplicate messages if the receive location is shut down and restarted. This is a configurable option for File receive locations. By default, renaming is disabled. When renaming is enabled, the File receive adapter appends the extension .BTS-WIP to the file. The receive adapter then reads the messages from the renamed file in the receive location and submits it to the server. After the receive adapter has successfully submitted a file, the receive adapter deletes the renamed file from the file system or network share. If a message has been read but failed processing in the pipeline, the receive adapter places the message in the MessageBox database suspended queue, and deletes the renamed file from the network share.
Tim Rayburn
http://www.TimRayburn.net