Initial checkin of the Python to C config file conversion tool. Cookbooks 1-8,
and Cookbook10 have been converted and the C versions of the config files are
located in the corresponding examples/Cookbook directory
Added the LaTex source for the manual.
Added missing parameters to the Py2C conversion tool
Cookbook 4 has been fixed to get rid of the "solver not converging" warnings.
cleaned up the repository to match the .gitignore file. Started adding
functionality for writing all parameters to a pidXXXXXX file
Completed the implementation of the print_all_config_parameters function. All
parameters used in the simulation are output to a file whose name begins with
letters pid and is followed by the process id of MPI process 0
Got rid of come nested comment warnings from clang
Removed section 2 from Appendix A of the manual, which describes the Pyre
based parameters and settings.
Removed references to Python and Pyre from chapter 2 of the manual
Removed Pyre and Python references from Chapter 3 of the manual. Updated
the example config files in Chapter 3 to the C version.
Removed Cookbook 10 from the CitcomS manual
Removed Cookbook 9 from the CitcomS manual
Updated Cookbook 8 to the pure C version
Updated Cookbook 7 in the CitcomS manual to the pure C version
Updated Cookbook 6 in the CitcomS manual to the pure C version
Updated Cookbook 5 in the CitcomS manual to the pure C version
Updated Cookbook 4 in the CitcomS manual to the pure C version. Removed
parameters with default values from cookbook4 in the examples/Cookbook4
directory
Updated Cookbook 3 in the CitcomS manual to the pure C version
Updated Cookbook 2 in the CitcomS manual to the pure C version.
Cleaned up cookbook2 file in the examples/Cookbook2 directory
Updated Cookbook 1 in the CitcomS manual to the pure C version
some more Python removal related cleanup; removed archimedes, module, setup.py and Cookbooks 9 and 10
removed the CitcomS directory which has only Python scripts