- in subroutine prolong_block() prolongate the magnetic field
components and scalar potential during the block refinements if the
GLM-MHD equations are used;
- in the GLM-MHD set of equations variables Bx and Psi are couples,
thus find their values and substitute to the left and right states
before entering the approximate Riemann solver;
- make the variable cmax global in the module 'evolution';
- add a new subroutine update_maximum_speed() which updates the maximum
speed cmax in the system iterating over all data blocks;
- use the subroutine update_maximum_speed() in evolve();
- reconstruct the states for the magnetic field components and scalar
potential just like other fluid variables;
- calculate the numerical fluxes for the magnetic field components and
scalar potential;
- add variable indices for the GLM-MHD equations in the module
'variables'; the index 'iph' points to the scalar potential defining
the divergence of magnetic field;
BLOCK STRUCTURE
- add new field pos in the meta block structure determining the
position of the current block in the parent block; this might be very
useful in determining which boundary region should be updated;
- add new subroutine metablock_set_position() which sets the position
of the child in the parent block;
VARIABLES
- create new module 'variables' which stores references to variable
indices; we gonna store dofferent objects related to variables in
this module;
BLOCK STRUCTURE
- the global variable nblocks tells how many metablocks are allocated,
thus its name is changed to mblocks;
- remove unnecessary checking of the list allocation;
BOUNDARY CONDITIONS
- the subroutine bnd_rest() has been rewritten in order to make if more
clear in understanding and remove necessity of using external
interpolating subroutines and allocatable arrays;
BOUNDARY CONDITIONS
- the main subroutine to update the variable boundaries has been
rewritten in order to update the boundaries in a proper order;
- first we update the specific boundaries of blocks which don't have
neighbors;
- then we update boundaries between blocks at the same levels; this
assures that the boundaries of the same levels are not contaminated
by interpolation from other levels;
- the last step is updating boundaries between blocks at different
levels;
- one step more before the last step might be required; in this step we
update the corners of blocks which have two neighbors at the higher
level;
BLOCK STRUCTURE
- add a new field 'coord' to store block coordinates in the units of
the effective resolution;
- add a subroutine metablock_set_coord() to set the block coordinates;
IO
- the subroutine write_data() is now a wrapper subroutine which call
the subroutine writing in a supported file format; the file format is
chosen at the time of compilation;
- the subroutine write_data_h5() is a new subroutine taking care of
initialization and storage data in the HDF5 format; depending on the
file type it calls subroutines to create specific groups and store
the right data;
- new subroutines write_atrributes_h5(), write_coordinates_h5(),
write_variables_h(), write_variables_full_h5(),
write_metablocks_h5(), write_datablocks_h5(), and number of other
supporting subroutines to store all data in the proper format for job
restart, vizualization, and debugging;
MAKE
- add option to enable/disable HDF5 file compression;
IO
- add a wrapper subroutine write_data() to write data; this subroutines
chooses the right subroutine depending on the requested format; it
also choses the data format, i.e. HDF5 at the present time (other
formats can be added later);
- rename subroutine write_data() to write_data_primitive_h5();
- format long lines so they fit within 80 columns;
CONFIGURATION
- add two new variables which determined the half and the double of
the ghost cell size (nh and nd, respectively);
- add a variable to determine the half size of the block (ih, jh, and
kh);
BLOCK STRUCTURE
- add new array to the data block structure to store the electromotive
force components; these components are located at the centers of cell
edges, in this way the CT update of the staggered magnetic field
component will be easier;
EVOLUTION
- add new subroutine advance() which performs several steps in order to
advance the solution in time by one-step update; the substeps are the
updates of the numerical flux, the flux boundary, the advance in time
the solution, the updates of mesh structure, and the boundaries of
conserved variables, and finally the new time step estimation;
- add new subroutine update_flux() to update the numerical fluxes
stored in the data blocks;
SCHEME
- add new subroutine numerical_flux() to calculate fluxes at the proper
locations;
- add new logical argument to HLL and HLLC in order to specify if the
flux should be returned as a numerical flux or its derivative;
