Eclipse-indigo "assign working sets" not available

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I am using Eclipse Indigo, with the Plug-in Development Perspective on a linux box. I have been using my current workspace for months. Suddenly this morning, when I brought up my workspace, I don't see the working sets that I have set up and when I right click on a project, I don't see "Assign Working Sets" as an option. I have restarted Eclipse using eclipse -clean. I have verified that my "Top Level Elements" is set to "Working Sets". I selected "Select Working Set" and can see that the names of my working sets are all available. If I select the "Selected Working Sets" button and select all, nothing shows in the Project Explorer. I would like to get back the link between my projects and my working sets but I don't know what to try next.

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