added an interface. The location of the MMSODA Toolbox as used on the cluster can now be passed to mmsodaPrepParallelFiles, which then passes it on to mmsodaCreateMakeFile
updated the documentation to bring it in line with its new name (used to be mmsodaCopyMakeFile)
updated the documentation of mmsodaPrepParallelFiles to reflect that it now can pass a string argument to mmsodaCreateMakefile
manual document updated up to an including page 28