- a new module COORDS handles the mesh variables which needed to be
separated from the MESH module since they are used in PROBLEM module,
which is required by MESH module; this created a circular dependency;
by introducing a new COORDS module we removed that problem;
- reorganize order of subroutines and separate them between groups for
meta and data blocks, refinement, and private functions and
subroutines;
- change the copyright header; update to new email address;
- make all module pointers, variables, and subroutines private and
allow only for subset of them to be public;
- improve the description of block structures;
- add several functions to return module variables such as the number
of meta and data blocks, the number of leafs, the last id, etc.;
- update several subroutines from other modules which required some of
the BLOCK module variables;
- add a new module INTEGRALS which handles initialization and
calculation of the conserved variables and energies;
- add make dependencies to makefile;
- call the initialization, storage and termination subroutines from the
driver;
