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Paper2v2 updates #2

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Updated codes to accompany new draft of paper https://arxiv.org/abs/1810.00927, to be resubmitted soon.

This version is updated in the following ways:

  • It uses Clawpack v5.6.1, which has the adjoint flagging now built in.
  • Example 1 from the original paper has been dropped from v2 of the paper, so the subdirectories have been renamed.

@bndavis: please check if these run ok for you?

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