I did not recieve feedback on my comment [1], so I try to post my question again but more clearly.

Is it possible to run the assistent/the webapp without the functionality of 'git annex watch'?

I'd like to use the assistant and to have the automatic syncing but I do not want the local repository to be watched. Instead I prefer to manually add/drop my files.

I do not see the 'pause button' mentioned in my earlier question [1].

[1] http://git-annex.branchable.com/forum/webapp_and_manual_mode/