hdf5_diagnostics.hpp File Reference

Simulation output to hdf5 file format. More...

#include <H5Cpp.h>
#include <string>
#include "hdsim2d.hpp"
#include "../../misc/int2str.hpp"
#include "diagnostics.hpp"
#include "../../tessellation/Delaunay.hpp"

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Classes
class	Snapshot
	Container for snapshot data. More...
class	DiagnosticAppendix
	Addition data to be written in a snapshot. More...

Functions
Snapshot	read_hdf5_snapshot (const string &fname, bool mpioverride=false)
	Load snapshot data into memory. More...
void	write_snapshot_to_hdf5 (hdsim const &sim, string const &fname, const vector< DiagnosticAppendix *> &appendices=vector< DiagnosticAppendix *>())
	Writes the simulation data into an HDF5 file. More...
void	read_hdf5_snapshot (ResetDump &dump, string const &fname, EquationOfState const *eos)
	Reads an HDF5 snapshot file in order to restart the simulation. More...
void	ConvertHDF5toBinary (string const &input, string const &output)
	Converts an HDF5 snapshot file to the RICH custom reset binary format. More...
void	WriteDelaunay (Delaunay const &tri, string const &filename)
	Writes the Delaunay triangulation data into an HDF5 file. More...
Snapshot	ReDistributeData (string const &filename, Tessellation const &proctess, size_t snapshot_number)
	Reads an HDF5 snapshot file in order to restart the simulation with a different cpu number. More...
Snapshot	ReDistributeData2 (string const &filename, Tessellation const &proctess, size_t snapshot_number, bool mpioverride=false)
	Reads an HDF5 snapshot file in order to restart the simulation with a different cpu number. Slower but more robust then other method. More...
void	WriteTess (Tessellation const &tess, string const &filename)
	Writes the tessellation data into an HDF5 file. More...

Detailed Description

Simulation output to hdf5 file format.

Author

Elad Steinberg

Definition in file hdf5_diagnostics.hpp.

Function Documentation

ConvertHDF5toBinary()

void ConvertHDF5toBinary	(	string const &	input,
		string const &	output
	)

Converts an HDF5 snapshot file to the RICH custom reset binary format.

Parameters

input	The path to the HDF5 file
output	The path to the new binary file

read_hdf5_snapshot() [1/2]

Snapshot read_hdf5_snapshot	(	const string &	fname,
		bool	mpioverride = false
	)

Load snapshot data into memory.

Parameters

fname	File name
mpioverride	Flag for not reading mpi data when MPI is on

Returns

Snapshot data

Definition at line 399 of file hdf5_diagnostics.cpp.

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read_hdf5_snapshot() [2/2]

void read_hdf5_snapshot	(	ResetDump &	dump,
		string const &	fname,
		EquationOfState const *	eos
	)

Reads an HDF5 snapshot file in order to restart the simulation.

Parameters

dump	The dump data structure, should be when passed
fname	The path to the HDF5 file
eos	The equation of state

ReDistributeData()

Snapshot ReDistributeData	(	string const &	filename,
		Tessellation const &	proctess,
		size_t	snapshot_number
	)

Reads an HDF5 snapshot file in order to restart the simulation with a different cpu number.

Returns

dump The snapshot structure relevent for current cpu

Parameters

filename	File name
proctess	Tessellation of the processors
snapshot_number	Number of old cpus

Definition at line 533 of file hdf5_diagnostics.cpp.

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ReDistributeData2()

Snapshot ReDistributeData2	(	string const &	filename,
		Tessellation const &	proctess,
		size_t	snapshot_number,
		bool	mpioverride = false
	)

Reads an HDF5 snapshot file in order to restart the simulation with a different cpu number. Slower but more robust then other method.

Returns

dump The snapshot structure relevent for current cpu

Parameters

filename	File name
proctess	Tessellation of the processors
snapshot_number	Number of old cpus
mpioverride	Flag for not reading mpi data when MPI is on

Definition at line 645 of file hdf5_diagnostics.cpp.

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write_snapshot_to_hdf5()

void write_snapshot_to_hdf5	(	hdsim const &	sim,
		string const &	fname,
		const vector< DiagnosticAppendix *> &	appendices = vector< DiagnosticAppendix *>()
	)

Writes the simulation data into an HDF5 file.

Parameters

sim	The hdsim class of the simulation
fname	The name of the output file
appendices	Additional data to be written to snapshot

Definition at line 271 of file hdf5_diagnostics.cpp.

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WriteDelaunay()

void WriteDelaunay	(	Delaunay const &	tri,
		string const &	filename
	)

Writes the Delaunay triangulation data into an HDF5 file.

Parameters

tri	The triangulation
filename	The name of the output file

Definition at line 503 of file hdf5_diagnostics.cpp.

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WriteTess()

void WriteTess	(	Tessellation const &	tess,
		string const &	filename
	)

Writes the tessellation data into an HDF5 file.

Parameters

tess	The tessellation
filename	The name of the output file

Definition at line 675 of file hdf5_diagnostics.cpp.

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