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I have set following permissions for users on my site:
Site level: Read
Document Library Folder: Contribute
With this permission level if user tries to check in the document inside a folder where user has to contribute permission even if it gives
Access Denied Error
Permission level Read excludes the permission for a setting called "Browse Directories", which would be built-in in the Contribute permission level, and higher. I think that Browse Directories is required to check in a document.
You could try to make a special permission level which includes the possibility to browse directories, and add it with the read-level permissions, and finally assign this permission level at site-level.
To read more about permissions and permission levels, see User permissions and permission levels.
