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Single file per rank #619

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This is a first implementation of single file per rank outputs.

Users can specify single_file_per_rank = true in the input file for restart, binary (full and slice), and coarsened binary outputs.

I have also heavily modified the binary_convert python file to (i) read in normal binaries faster, (ii) read in binary files directly to a dictionary similar to what you get from reading in the athdf files, (iii) read in coarsened binaries, and (iv) do all of the same but for when single_file_per_rank is true.

Note I have not tested any of this with AMR!

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