[Users] HDF5 output with cell-centered grid

[Vassilios Mewes]

sorry for the messages before, hopefully the mail is now small enough, but
i thought that adding a plot might explain better what i mean..

Hello all,

i recently read the Reisswig et al. 2012 paper and started trying to switch
to cell-centered grid in order to be able to use the LSUThorns/Refluxing
thorn. i am trying to simulate BH+torus systems and due to the size of the
torus its hard to have it contained within a refinement level, so i thought
that using a cell-centered grid in order to use refluxing might improve
results..

i however run into problems getting the hdf5 output of 3D grid frundtions
to work...

using the static_tov_cc_rf.par file from the Refluxing trunk, i get weird
output in the mesh at the reflection boundaries (the par file uses octant
mode)..

i am using the following parameters for CarpetIOHDF5:

IOHDF5::out_every              = 256
IOHDF5::one_file_per_group     = no
IOHDF5::output_symmetry_points = no
IOHDF5::out3D_ghosts           = no
IOHDF5::output_ghost_points    = no
IOHDF5::out3D_outer_ghosts     = no
IOHDF5::output_boundary_points = no
IOHDF5::output_buffer_points   = no
IOHDF5::compression_level      = 9
IOHDF5::use_checksums          = yes
IOHDF5::out_vars               = "
 HydroBase::rho
 HydroBase::press
 HydroBase::eps
 HydroBase::vel
 ADMBase::lapse
 ADMBase::metric
 ADMBase::curv
 GRHydro::scon
"

the simulations seems to work fine, so is the carpetiohdf5 thorn not
suitable for cell-centered output? another effect (that might be output
related) is that the different refinement levels are shifted (i'll attach a
file showing this in the TOV from the par file (i added extra refinement
levels to illustrate the effect) as well as a plot of the density in the
torus)...

are the specific parameters for cell-centered hdf5 output or other thorns
that could take care of that?

best wishes,

Vassili
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