Adapter file sender -archiving doesn't work sometimes

Hi everybody,
We are on PI 7.1 on windows 2008 server  64 bits
I have something strange..
I developped a few time ago a flow
File adapter => PI => SAP R/3 RFC
When the adapter file sender pick up the file, he should normally archive them.
The archived file is well created in a separated directory with an addition of timestamp and the normal process after is the deletion of original file.
The strange thing happens during the last operation. Sometimes it is deleted and sometimes it is not deleted. .
In the second case, the adapter file  will retreat it after a few time => it generates an error of duplicate key   (Of course in PI has already treated it). That case can happen more than 10 times until the delete of the file works.
I applied many other flows with the same principle but with other directories (on the same server) and that happens with that only one.
Does somebody have an idea what could be the origin of that strange behavior?
All the ideas are welcome.
Thank you in advance for your help.
E. Koralewski

When the file fails to be archived, the transaction should be rolled back (therefore, message wouldn`t be generated). Please apply both notes below and check if the issue persists.
[Note 1549500 - XPI File Adapter exactly once procedure fails|https://websmp230.sap-ag.de/sap(bD1wdCZjPTAwMQ==)/bc/bsp/spn/sapnotes/index2.htm?numm=1549500]
[Note 1361305 - File sender adapter generates duplicate message IDs.|https://websmp230.sap-ag.de/sap(bD1wdCZjPTAwMQ==)/bc/bsp/spn/sapnotes/index2.htm?numm=1361305]

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