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Tidying syntax in AGDDToolBase, so that python2 and python3 behaviour match

FYI @nkoehler - while debugging some jobs which fail in the master python3 nightly, but succeed with python2. I noticed that tools deriving from AGDDToolBase have different configurations in the two nightlies. Fixing this didn't fix our crash, but it might still be useful.

Edited by John Derek Chapman

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