A class to hold and interpolate time series data read from a NetCDF file. More...

#include <REMORA_NCTimeSeriesBoundary.H>

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Public Member Functions
	NCTimeSeriesBoundary (int a_lev, const amrex::Vector< amrex::Geometry > a_geom, const amrex::Vector< std::string > &a_file_name, const std::string a_field_name, const std::string a_time_name, const amrex::IntVect a_index_type, const amrex::GpuArray< bool, AMREX_SPACEDIM 2 > a_var_need_data, bool a_is2d, int rx, int ry)
	Constructor.

void	Initialize ()
	Read in time array from file and allocate data arrays.

void	update_interpolated_to_time (amrex::Real time)
	Calculate interpolated values at time, reading in data as necessary.

void	interp_fab (amrex::FArrayBox &dat_crse, amrex::FArrayBox &dat_fine)
	spatially interpolate boundary fabs from level 0 data (read in) to current level

Public Attributes
amrex::FArrayBox	xlo_dat_interp
	FArrayBox to store data at inteprolated time at xlo boundary *‍/.

amrex::FArrayBox	ylo_dat_interp
	FArrayBox to store data at inteprolated time at ylo boundary *‍/.

amrex::FArrayBox	xhi_dat_interp
	FArrayBox to store data at inteprolated time at xhi boundary *‍/.

amrex::FArrayBox	yhi_dat_interp
	FArrayBox to store data at inteprolated time at yhi boundary *‍/.

int	m_rx
	Refinement ratios relative to level 0.

int	m_ry

Private Member Functions
void	read_in_at_time (amrex::FArrayBox &fab_xlo, amrex::FArrayBox &fab_xhi, amrex::FArrayBox &fab_ylo, amrex::FArrayBox &fab_yhi, int itime)
	Read in data from file at time index itime and fill into mf.

Private Attributes
amrex::Vector< std::string >	file_names
	File name to read from.

std::string	field_name
	Field name in netcdf file.

amrex::Vector< std::string >	nc_var_names
	Variable names that will be read from file.

std::string	time_name
	Field name for time series in netcdf file.

amrex::Box	domain
	Domain.

amrex::IntVect	index_type
	Index type for field to fill.

int	m_lev
	Level at which we are holding the boundary data.

amrex::Vector< amrex::Geometry >	m_geom
	Geometry at all levels.

bool	is2d
	Whether the field we're reading in is 2d.

amrex::Vector< amrex::Real >	bry_times
	Time points in netcdf file.

amrex::Vector< int >	file_for_time
	File index to access a particular time.

amrex::Vector< int >	file_itime_offset
	Offset to access a particular time within its file.

int	i_time_before
	Time index immediately before the last time interpolated to.

amrex::Real	time_before
	Time in ocean_times immediately before the last time interpolated to.

amrex::Real	time_after
	Time in ocean_times immediately after the last time interpolated to.

amrex::FArrayBox	xlo_dat_before
	FArrayBox to store data at time_before at xlo boundary.

amrex::FArrayBox	xlo_dat_after
	FArrayBox to store data at time_after at xlo boundary.

amrex::FArrayBox	ylo_dat_before
	FArrayBox to store data at time_before at ylo boundary.

amrex::FArrayBox	ylo_dat_after
	FArrayBox to store data at time_after at ylo boundary.

amrex::FArrayBox	xhi_dat_before
	FArrayBox to store data at time_before at xhi boundary.

amrex::FArrayBox	xhi_dat_after
	FArrayBox to store data at time_after at xhi boundary.

amrex::FArrayBox	yhi_dat_before
	FArrayBox to store data at time_before at yhi boundary.

amrex::FArrayBox	yhi_dat_after
	FArrayBox to store data at time_after at yhi boundary.

amrex::GpuArray< bool, AMREX_SPACEDIM *2 >	var_need_data
	Array over boundaries indicating whether we need physical data for this variable.

Detailed Description

A class to hold and interpolate time series data read from a NetCDF file.

The class only ever holds the two time steps necessary to interpoplate to the current simulation time.

Definition at line 17 of file REMORA_NCTimeSeriesBoundary.H.

Constructor & Destructor Documentation

◆ NCTimeSeriesBoundary()

NCTimeSeriesBoundary::NCTimeSeriesBoundary	(	int	a_lev,
		const amrex::Vector< amrex::Geometry >	a_geom,
		const amrex::Vector< std::string > &	a_file_names,
		const std::string	a_field_name,
		const std::string	a_time_name,
		const amrex::IntVect	a_index_type,
		const amrex::GpuArray< bool, AMREX_SPACEDIM 2 >	a_var_need_data,
		bool	a_is2d,
		int	a_rx,
		int	a_ry
	)

Constructor.

Parameters

[in]	a_lev	level at which we will store the data
[in]	a_geom	Vector of Geometry objects at all levels
[in]	a_file_name	file name to read from
[in]	a_field_name	name of field to read in
[in]	a_time_name	name of time variable in NetCDF file
[in]	a_index_type	nodality of data field
[in]	a_var_need_data	array over boundaries of flags that indicate whether we need data for the variable
[in]	a_is2d	Whether the variable we're working with is 2D
[in]	a_rx	refinement ratio in x relative to level 0
[in]	a_ry	refinement ratio in y relative to level 0

Definition at line 21 of file REMORA_NCTimeSeriesBoundary.cpp.

Member Function Documentation

◆ Initialize()

void NCTimeSeriesBoundary::Initialize ( )

Read in time array from file and allocate data arrays.

Definition at line 41 of file REMORA_NCTimeSeriesBoundary.cpp.

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◆ interp_fab()

void NCTimeSeriesBoundary::interp_fab	(	amrex::FArrayBox &	dat_crse,
		amrex::FArrayBox &	dat_fine
	)

spatially interpolate boundary fabs from level 0 data (read in) to current level

Parameters

[in]	dat_crse	fab of coarse data to interpolate from
[out]	dat_fine	fab of fine data to interpoalte to

Definition at line 443 of file REMORA_NCTimeSeriesBoundary.cpp.

Referenced by update_interpolated_to_time().

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◆ read_in_at_time()

void NCTimeSeriesBoundary::read_in_at_time	(	amrex::FArrayBox &	fab_xlo,
		amrex::FArrayBox &	fab_xhi,
		amrex::FArrayBox &	fab_ylo,
		amrex::FArrayBox &	fab_yhi,
		int	itime
	)

private

Read in data from file at time index itime and fill into mf.

Parameters

[in,out]	fab_xlo	fab to store xlo boundary data into
[in,out]	fab_xhi	fab to store xhi boundary data into
[in,out]	fab_ylo	fab to store ylo boundary data into
[in,out]	fab_yhi	fab to store yhi boundary data into
[in]	itime	index of time step to read from file

Definition at line 316 of file REMORA_NCTimeSeriesBoundary.cpp.

Referenced by update_interpolated_to_time().

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◆ update_interpolated_to_time()

void NCTimeSeriesBoundary::update_interpolated_to_time ( amrex::Real time )

Calculate interpolated values at time, reading in data as necessary.

Parameters

time	time to interpolate to

Definition at line 157 of file REMORA_NCTimeSeriesBoundary.cpp.

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Member Data Documentation

◆ bry_times

amrex::Vector<amrex::Real> NCTimeSeriesBoundary::bry_times

private

Time points in netcdf file.

Definition at line 86 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), read_in_at_time(), and update_interpolated_to_time().

◆ domain

amrex::Box NCTimeSeriesBoundary::domain

private

Domain.

Definition at line 72 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and NCTimeSeriesBoundary().

◆ field_name

std::string NCTimeSeriesBoundary::field_name

private

Field name in netcdf file.

Definition at line 66 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), NCTimeSeriesBoundary(), read_in_at_time(), and update_interpolated_to_time().

◆ file_for_time

amrex::Vector<int> NCTimeSeriesBoundary::file_for_time

private

File index to access a particular time.

Definition at line 88 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and read_in_at_time().

◆ file_itime_offset

amrex::Vector<int> NCTimeSeriesBoundary::file_itime_offset

private

Offset to access a particular time within its file.

Definition at line 90 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and read_in_at_time().

◆ file_names

amrex::Vector<std::string> NCTimeSeriesBoundary::file_names

private

File name to read from.

Definition at line 64 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), NCTimeSeriesBoundary(), and read_in_at_time().

◆ i_time_before

int NCTimeSeriesBoundary::i_time_before

private

Time index immediately before the last time interpolated to.

Definition at line 92 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ index_type

amrex::IntVect NCTimeSeriesBoundary::index_type

private

Index type for field to fill.

Definition at line 74 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), NCTimeSeriesBoundary(), and update_interpolated_to_time().

◆ is2d

bool NCTimeSeriesBoundary::is2d

private

Whether the field we're reading in is 2d.

Definition at line 83 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), NCTimeSeriesBoundary(), read_in_at_time(), and update_interpolated_to_time().

◆ m_geom

amrex::Vector<amrex::Geometry> NCTimeSeriesBoundary::m_geom

private

Geometry at all levels.

Definition at line 80 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by NCTimeSeriesBoundary(), and update_interpolated_to_time().

◆ m_lev

int NCTimeSeriesBoundary::m_lev

private

Level at which we are holding the boundary data.

Definition at line 77 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by NCTimeSeriesBoundary(), and update_interpolated_to_time().

◆ m_rx

int NCTimeSeriesBoundary::m_rx

Refinement ratios relative to level 0.

Definition at line 49 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by interp_fab(), and NCTimeSeriesBoundary().

◆ m_ry

int NCTimeSeriesBoundary::m_ry

Definition at line 49 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by interp_fab(), and NCTimeSeriesBoundary().

◆ nc_var_names

amrex::Vector<std::string> NCTimeSeriesBoundary::nc_var_names

private

Variable names that will be read from file.

Definition at line 68 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and read_in_at_time().

◆ time_after

amrex::Real NCTimeSeriesBoundary::time_after

private

Time in ocean_times immediately after the last time interpolated to.

Definition at line 96 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by update_interpolated_to_time().

◆ time_before

amrex::Real NCTimeSeriesBoundary::time_before

private

Time in ocean_times immediately before the last time interpolated to.

Definition at line 94 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by update_interpolated_to_time().

◆ time_name

std::string NCTimeSeriesBoundary::time_name

private

Field name for time series in netcdf file.

Definition at line 70 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and NCTimeSeriesBoundary().

◆ var_need_data

amrex::GpuArray<bool, AMREX_SPACEDIM*2> NCTimeSeriesBoundary::var_need_data

private

Array over boundaries indicating whether we need physical data for this variable.

Definition at line 119 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), NCTimeSeriesBoundary(), and update_interpolated_to_time().

◆ xhi_dat_after

amrex::FArrayBox NCTimeSeriesBoundary::xhi_dat_after

private

FArrayBox to store data at time_after at xhi boundary.

Definition at line 111 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ xhi_dat_before

amrex::FArrayBox NCTimeSeriesBoundary::xhi_dat_before

private

FArrayBox to store data at time_before at xhi boundary.

Definition at line 109 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ xhi_dat_interp

amrex::FArrayBox NCTimeSeriesBoundary::xhi_dat_interp

FArrayBox to store data at inteprolated time at xhi boundary *‍/.

Definition at line 43 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ xlo_dat_after

amrex::FArrayBox NCTimeSeriesBoundary::xlo_dat_after

private

FArrayBox to store data at time_after at xlo boundary.

Definition at line 101 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ xlo_dat_before

amrex::FArrayBox NCTimeSeriesBoundary::xlo_dat_before

private

FArrayBox to store data at time_before at xlo boundary.

Definition at line 99 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ xlo_dat_interp

amrex::FArrayBox NCTimeSeriesBoundary::xlo_dat_interp

FArrayBox to store data at inteprolated time at xlo boundary *‍/.

Definition at line 37 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ yhi_dat_after

amrex::FArrayBox NCTimeSeriesBoundary::yhi_dat_after

private

FArrayBox to store data at time_after at yhi boundary.

Definition at line 116 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ yhi_dat_before

amrex::FArrayBox NCTimeSeriesBoundary::yhi_dat_before

private

FArrayBox to store data at time_before at yhi boundary.

Definition at line 114 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ yhi_dat_interp

amrex::FArrayBox NCTimeSeriesBoundary::yhi_dat_interp

FArrayBox to store data at inteprolated time at yhi boundary *‍/.

Definition at line 46 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ ylo_dat_after

amrex::FArrayBox NCTimeSeriesBoundary::ylo_dat_after

private

FArrayBox to store data at time_after at ylo boundary.

Definition at line 106 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ ylo_dat_before

amrex::FArrayBox NCTimeSeriesBoundary::ylo_dat_before

private

FArrayBox to store data at time_before at ylo boundary.

Definition at line 104 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

◆ ylo_dat_interp

amrex::FArrayBox NCTimeSeriesBoundary::ylo_dat_interp

FArrayBox to store data at inteprolated time at ylo boundary *‍/.

Definition at line 40 of file REMORA_NCTimeSeriesBoundary.H.

Referenced by Initialize(), and update_interpolated_to_time().

The documentation for this class was generated from the following files:

/home/runner/work/REMORA/REMORA/Source/IO/REMORA_NCTimeSeriesBoundary.H
/home/runner/work/REMORA/REMORA/Source/IO/REMORA_NCTimeSeriesBoundary.cpp

Public Member Functions

Public Attributes

Private Member Functions

Private Attributes

Detailed Description

Constructor & Destructor Documentation

◆ NCTimeSeriesBoundary()

Member Function Documentation

◆ Initialize()

◆ interp_fab()

◆ read_in_at_time()

◆ update_interpolated_to_time()

Member Data Documentation

◆ bry_times

◆ domain

◆ field_name

◆ file_for_time

◆ file_itime_offset

◆ file_names

◆ i_time_before

◆ index_type

◆ is2d

◆ m_geom

◆ m_lev

◆ m_rx

◆ m_ry

◆ nc_var_names

◆ time_after

◆ time_before

◆ time_name

◆ var_need_data

◆ xhi_dat_after

◆ xhi_dat_before

◆ xhi_dat_interp

◆ xlo_dat_after

◆ xlo_dat_before

◆ xlo_dat_interp

◆ yhi_dat_after

◆ yhi_dat_before

◆ yhi_dat_interp

◆ ylo_dat_after

◆ ylo_dat_before

◆ ylo_dat_interp