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CCS V5.1 loses GNU tools when shut down

I am testing out the latest CCS (5.1) for Linux development. I have created a project and using the Window->Preferences->Code Composer Studio->Build->Compiler I have pointed CSS at the GNU tool chain provided as part of the SDK (ti-sdk-am335x-evm-05.03.00.00). All works well, the project compiles and links as expected. I then exit and restart CCS and the link to the tool chain has gone and the project no longer builds.