optional perl script to postprocess a screen-output file
use .sh to make tests/burstedde work with clang and gcc
also track dependencies for the new .sh test scripts
Merge pull request #191 from tjhei/test_py_postprocess

Optionally run <testname>.sh script to allow replacing the screen-output for more robust test comparisons. Use this method to fix tests/burstedde that gave different results between gcc and clang.
fix test output
Merge pull request #192 from tjhei/fix_test_output

fix test output
Add the files necessary to reproduce the variable viscosity, dynamic topography computations.
Add Joey's patches to the manual (which came from a separate patch).
Move declaration into the .cc file.
Clarify documentation and minor improvements of a line of code.
General update of Joey's first version of the cookbook.

Minor edits to Joey's version.

Edit the text and make the input files so that they get generated by the script and then included into the text, rather than copy-pasted there.

Some renaming and other minor adjustments.

Add an entry.

Comment on depth and height.
Address Timo's concerns from review.