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Authenticating to Samba 3.4.3 with Windows server

on my network, I have a set up that requires that a Windows 2012 R2 serverauthenticate to a  Linux box which is running Samba 3.4.3.  the error messagesimply says access is denied. I don't have a very good familiarity with samba 3.4.3 but I do need to get the authentication and communication running. Any suggestions on where I would start?
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Zephyr ICT
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what the set up is for is that files that are newly placed on the Windows server from a PDF generating process, are to get copied via vice-versa softare to the linux box where they get published to a website. This is currently working with a Windows 2003 server to the linux box. I am upgrading the Windows server.  the Linux box is a domain member. I am trying to get to the Samba share with a user that is local to the linux server.

I can see the linux share but cannot see any files in the share from the Windows 2012 box.
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Do you have active directory?
Yes, i have active directory. The server with the Samba is used to hold a database for an application that cannot be upgraded for another year so upgrading the Samba is not an option at this point.
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Samba upgrade it is