pism::io Namespace Reference

Input and output code (NetCDF wrappers, etc) More...

Classes
class	Default
struct	StartCountInfo
class	NC4_Par
class	NC4_Serial
class	NC4File
class	NC_Serial
class	NCFile
	The PISM wrapper for a subset of the NetCDF C API. More...
class	ParallelIO
class	PNCFile
	PISM's PnetCDF I/O wrapper. More...

Enumerations
enum	Type : int {   PISM_NAT = 0 , PISM_BYTE = 1 , PISM_CHAR = 2 , PISM_SHORT = 3 ,   PISM_INT = 4 , PISM_FLOAT = 5 , PISM_DOUBLE = 6 }
enum	Backend : int {   PISM_GUESS , PISM_NETCDF3 , PISM_NETCDF4_SERIAL , PISM_NETCDF4_PARALLEL ,   PISM_PNETCDF , PISM_PIO_PNETCDF , PISM_PIO_NETCDF , PISM_PIO_NETCDF4C ,   PISM_PIO_NETCDF4P }
enum	Mode : int { PISM_READONLY = 7 , PISM_READWRITE = 8 , PISM_READWRITE_CLOBBER = 9 , PISM_READWRITE_MOVE = 10 }
enum	Dim_Length : int { PISM_UNLIMITED = 0 }
enum	Fill_Mode : int { PISM_FILL = 0 , PISM_NOFILL = 0x100 }

Functions
static void	regrid (const Grid &grid, const LocalInterpCtx &lic, double const *input_array, double *output_array)
	Bi-(or tri-)linear interpolation. More...
static StartCountInfo	compute_start_and_count (std::vector< AxisType > &dim_types, std::array< int, 4 > start_in, std::array< int, 4 > count_in)
void	define_dimension (const File &file, unsigned long int length, const VariableMetadata &metadata)
	Define a dimension and the associated coordinate variable. Set attributes. More...
void	define_time (const File &file, const Context &ctx)
	Prepare a file for output. More...
void	define_time (const File &file, const std::string &name, const std::string &calendar, const std::string &units, units::System::Ptr unit_system)
void	append_time (const File &file, const Config &config, double time_seconds)
	Prepare a file for output. More...
void	append_time (const File &file, const std::string &name, double value)
	Append to the time dimension. More...
static void	define_dimensions (const SpatialVariableMetadata &var, const Grid &grid, const File &file)
	Define dimensions a variable depends on. More...
static void	write_dimension_data (const File &file, const std::string &name, const std::vector< double > &data)
void	write_dimensions (const SpatialVariableMetadata &var, const Grid &grid, const File &file)
static bool	use_transposed_io (std::vector< AxisType > dimension_types)
static std::vector< AxisType >	dimension_types (const File &file, const std::string &var_name, std::shared_ptr< units::System > unit_system)
static void	read_distributed_array (const File &file, const Grid &grid, const std::string &var_name, unsigned int z_count, unsigned int t_start, double *output)
	Read an array distributed according to the grid. More...
static std::vector< double >	read_for_interpolation (const File &file, const std::string &variable_name, const Grid &internal_grid, const LocalInterpCtx &lic)
void	define_spatial_variable (const SpatialVariableMetadata &metadata, const Grid &grid, const File &file, io::Type default_type)
	Define a NetCDF variable corresponding to a VariableMetadata object. More...
void	read_spatial_variable (const SpatialVariableMetadata &variable, const Grid &grid, const File &file, unsigned int time, double *output)
	Read a variable from a file into an array output. More...
void	write_spatial_variable (const SpatialVariableMetadata &metadata, const Grid &grid, const File &file, const double *input)
	Write a double array to a file. More...
static void	check_grid_overlap (const grid::InputGridInfo &input, const Grid &internal, const std::vector< double > &z_internal)
void	check_input_grid (const grid::InputGridInfo &input_grid, const Grid &internal_grid, const std::vector< double > &internal_z_levels)
	Check that x, y, and z coordinates of the input grid are strictly increasing. More...
void	regrid_spatial_variable (SpatialVariableMetadata &variable, const Grid &internal_grid, const LocalInterpCtx &lic, const File &file, double *output)
	Regrid from a NetCDF file into a distributed array output. More...
void	define_timeseries (const VariableMetadata &var, const std::string &dimension_name, const File &file, io::Type nctype)
	Define a NetCDF variable corresponding to a time-series. More...
void	read_timeseries (const File &file, const VariableMetadata &metadata, const Logger &log, std::vector< double > &data)
	Read a time-series variable from a NetCDF file to a vector of doubles. More...
void	write_timeseries (const File &file, const VariableMetadata &metadata, size_t t_start, const std::vector< double > &data)
	Write a time-series data to a file. More...
void	define_time_bounds (const VariableMetadata &var, const std::string &dimension_name, const std::string &bounds_name, const File &file, io::Type nctype)
void	read_time_bounds (const File &file, const VariableMetadata &metadata, const Logger &log, std::vector< double > &data)
void	write_time_bounds (const File &file, const VariableMetadata &metadata, size_t t_start, const std::vector< double > &data)
void	read_time_info (const Logger &log, std::shared_ptr< units::System > unit_system, const File &file, const std::string &time_name, const std::string &time_units, std::vector< double > &times, std::vector< double > &bounds)
bool	file_exists (MPI_Comm com, const std::string &filename)
void	read_attributes (const File &file, const std::string &variable_name, VariableMetadata &variable)
void	write_attributes (const File &file, const VariableMetadata &variable, io::Type nctype)
	Write variable attributes to a NetCDF file. More...
void	read_valid_range (const File &file, const std::string &name, VariableMetadata &variable)
	Read the valid range information from a file. More...
std::string	time_dimension (units::System::Ptr unit_system, const File &file, const std::string &variable_name)
void	move_if_exists (MPI_Comm com, const std::string &file_to_move, int rank_to_use)
	Moves the file aside (file.nc -> file.nc~). More...
void	remove_if_exists (MPI_Comm com, const std::string &file_to_remove, int rank_to_use)
	Check if a file is present are remove it. More...
static void	check (const ErrorLocation &where, int return_code)
	Prints an error message; for debugging. More...
static void	check (const ErrorLocation &where, int return_code)
	Prints an error message; for debugging. More...
static void	check (const ErrorLocation &where, int return_code)
	Prints an error message; for debugging. More...
static void	get_att_text (int ncid, int varid, const std::string &att_name, std::string &result)
static void	get_att_string (int ncid, int varid, const std::string &att_name, std::string &result)
static void	check (const ErrorLocation &where, int return_code)
	Prints an error message; for debugging. More...
static void	check_and_abort (MPI_Comm com, const ErrorLocation &where, int return_code)
	call MPI_Abort() if a NetCDF call failed More...
static int	get_att_text (int ncid, int varid, const std::string &att_name, std::string &result)
static int	get_att_string (int ncid, int varid, const std::string &att_name, std::string &result)
static void	check (const ErrorLocation &where, int return_code)
template<typename T >
std::vector< T >	convert_data (const double *input, size_t length)
static void	check (const ErrorLocation &where, int return_code)

Detailed Description

Input and output code (NetCDF wrappers, etc)