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hdf5_mesh.cpp
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Thu, Aug 22, 03:21
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Sat, Aug 24, 03:21 (2 d)
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rSPECMICP SpecMiCP / ReactMiCP
hdf5_mesh.cpp
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/* =============================================================================
Copyright (c) 2014 - 2016
F. Georget <fabieng@princeton.edu> Princeton University
All rights reserved.
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:
1. Redistributions of source code must retain the above copyright notice,
this list of conditions and the following disclaimer.
2. Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
3. Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from this
software without specific prior written permission.
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
(INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
(INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. *
============================================================================= */
#include "hdf5_mesh.hpp"
#include "dfpm/meshes/mesh1d.hpp"
#include "specmicp_common/io/hdf5/path.hpp"
#include "specmicp_common/io/hdf5/group.hpp"
#include "specmicp_common/io/hdf5/dataset.hpp"
#define MESH_COORDINATES_DSET "coordinates"
#define MESH_FACE_AREA_DSET "face_area"
#define MESH_CELL_VOL_LEFT "cell_vol_left"
#define MESH_CELL_VOL_RIGHT "cell_vol_right"
namespace
specmicp
{
namespace
io
{
namespace
internal
{
//! \brief Implementation of mesh saver in HDF5 format
//!
//! \internal
class
SPECMICP_DLL_PUBLIC
MeshHDF5Saver
{
public
:
MeshHDF5Saver
(
mesh
::
Mesh1DPtr
the_mesh
)
:
m_mesh
(
the_mesh
)
{}
void
save_mesh_coordinates
(
hdf5
::
GroupPath
&
location
);
void
save_extra_info
(
hdf5
::
GroupPath
&
location
);
private
:
mesh
::
Mesh1DPtr
m_mesh
;
};
}
//end namespace internal
void
save_mesh_coordinates
(
hdf5
::
GroupPath
&
location
,
const
std
::
string
&
name
,
mesh
::
Mesh1DPtr
the_mesh
)
{
internal
::
MeshHDF5Saver
saver
(
the_mesh
);
hdf5
::
Group
mesh_group
=
location
.
create_group
(
name
);
saver
.
save_mesh_coordinates
(
mesh_group
);
}
void
save_mesh
(
hdf5
::
GroupPath
&
location
,
const
std
::
string
&
name
,
mesh
::
Mesh1DPtr
the_mesh
)
{
internal
::
MeshHDF5Saver
saver
(
the_mesh
);
hdf5
::
Group
mesh_group
=
location
.
create_group
(
name
);
saver
.
save_mesh_coordinates
(
mesh_group
);
saver
.
save_extra_info
(
mesh_group
);
}
mesh
::
Mesh1DPtr
read_mesh
(
hdf5
::
GroupPath
&
location
,
const
std
::
string
&
grp_name
)
{
auto
grp
=
location
.
open_group
(
grp_name
);
return
read_mesh
(
grp
);
}
mesh
::
Mesh1DPtr
read_mesh
(
hdf5
::
GroupPath
&
location
)
{
Vector
coordinates
=
location
.
read_vector_dataset
(
MESH_COORDINATES_DSET
);
mesh
::
Mesh1DStorage
store
(
coordinates
.
rows
());
store
.
set_node_coords
(
coordinates
);
store
.
set_face_sections
(
location
.
read_vector_dataset
(
MESH_FACE_AREA_DSET
));
store
.
set_cell_volumes_left
(
location
.
read_vector_dataset
(
MESH_CELL_VOL_LEFT
));
store
.
set_cell_volumes_right
(
location
.
read_vector_dataset
(
MESH_CELL_VOL_RIGHT
));
return
std
::
make_shared
<
mesh
::
Mesh1D
>
(
std
::
move
(
store
));
}
// Implementation
// ==============
namespace
internal
{
void
MeshHDF5Saver
::
save_mesh_coordinates
(
hdf5
::
GroupPath
&
mesh_group
)
{
auto
store
=
m_mesh
->
get_storage
();
mesh_group
.
create_vector_dataset
(
MESH_COORDINATES_DSET
,
store
.
m_data
.
col
(
store
.
id_node_coord
));
}
void
MeshHDF5Saver
::
save_extra_info
(
hdf5
::
GroupPath
&
mesh_group
)
{
auto
store
=
m_mesh
->
get_storage
();
mesh_group
.
create_vector_dataset
(
MESH_FACE_AREA_DSET
,
store
.
m_data
.
col
(
store
.
id_face_section
));
mesh_group
.
create_vector_dataset
(
MESH_CELL_VOL_LEFT
,
store
.
m_data
.
col
(
store
.
id_cell_vol_0
));
mesh_group
.
create_vector_dataset
(
MESH_CELL_VOL_RIGHT
,
store
.
m_data
.
col
(
store
.
id_cell_vol_1
));
}
}
//end namespace internal
}
//end namespace io
}
//end namespace specmicp
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