Clean up some idioms in tests.

- Use os.makedirs (I had forgotten about it!)
- Let TempdirManager.write_file call os.path.join for us
- Let TempdirManager.tearDown go back to the previous working directory
  for us
- Use a skip instead of hiding a method with an underscore
- Reset the finalized attribute of command objects before calling
  ensure_finalized a second time, so that it?s not a no-op
- Address pyflakes warnings

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