adjacency.c File Reference

#include <H5Tpublic.h>
#include <H5Gpublic.h>
#include <H5Ppublic.h>
#include "mhdf.h"
#include "util.h"
#include "file-handle.h"
#include "status.h"
#include "names-and-paths.h"

Include dependency graph for adjacency.c:

Go to the source code of this file.

Functions
int	mhdf_haveAdjacency (mhdf_FileHandle file, const char *elem_group, mhdf_Status *status)
	Check if adjacency data is present in the file for the specified element group. More...
hid_t	mhdf_createAdjacency (mhdf_FileHandle file, const char *elem_handle, long adj_list_size, mhdf_Status *status)
	Create adjacency data table for nodes, elements, polys, etc. More...
hid_t	mhdf_openAdjacency (mhdf_FileHandle file, const char *elem_handle, long *adj_list_size_out, mhdf_Status *status)
	Open adjacency data table for nodes, elements, polys, etc. More...
void	mhdf_writeAdjacency (hid_t table_id, long offset, long count, hid_t type, const void *data, mhdf_Status *status)
	Write node/element adjacency data. More...
void	mhdf_writeAdjacencyWithOpt (hid_t table_id, long offset, long count, hid_t type, const void *data, hid_t prop, mhdf_Status *status)
void	mhdf_readAdjacency (hid_t table_id, long offset, long count, hid_t type, void *data, mhdf_Status *status)
	Read node/element adjacency data. More...
void	mhdf_readAdjacencyWithOpt (hid_t table_id, long offset, long count, hid_t type, void *data, hid_t prop, mhdf_Status *status)

Function Documentation

mhdf_createAdjacency()

hid_t mhdf_createAdjacency	(	mhdf_FileHandle	file_handle,
		const char *	elem_handle,
		long	adj_list_size,
		mhdf_Status *	status
	)

Create adjacency data table for nodes, elements, polys, etc.

Adjacency data.

Adjacency data is formated as a sequence of integer groups where the first entry in each group is the ID of the element for which adjacencies are being specified, the second value is the count of adjacent entities, and the remainder of the group is the list of IDs of the adjacent entities.

Create file object for adjacency data for a nodes or a specified element group.

Adjacency data is formated as a sequence of integer groups where the first entry in each group is the ID of the element for which adjacencies are being specified, the second value is the count of adjacent entities, and the remainder of the group is the list of IDs of the adjacent entities.

Parameters

file_handle	The file.
elem_handle	The element group (or the result of mhdf_node_type_handle for nodes) for which the adjacency data is to be specified.
adj_list_size	The total number of integer values contained in the adjacency data for the specified element group.
status	Passed back status of API call.

Returns

The HDF5 handle to the connectivity data.

Definition at line 61 of file adjacency.c.

{
 FileHandle* file_ptr;
 hid_t elem_id, table_id;
 hsize_t dim = (hsize_t)adj_list_size;
 API_BEGIN;
 
 file_ptr = (FileHandle*)( file );
 if( !mhdf_check_valid_file( file_ptr, status ) ) return -1;
 
 if( adj_list_size < 1 )
 {
 mhdf_setFail( status, "Invalid argument.\n" );
 return -1;
 }
 
 if( elem_handle == mhdf_node_type_handle() )
 {
 table_id = mhdf_create_table( file_ptr->hdf_handle, NODE_ADJCY_PATH, file_ptr->id_type, 1, &dim, status );
 }
 else
 {
 elem_id = mhdf_elem_group_from_handle( file_ptr, elem_handle, status );
 if( elem_id < 0 ) return -1;
 
 table_id = mhdf_create_table( elem_id, ADJACENCY_NAME, file_ptr->id_type, 1, &dim, status );
 H5Gclose( elem_id );
 }
 
 API_END_H( 1 );
 return table_id;
}

References ADJACENCY_NAME, API_BEGIN, API_END_H, dim, struct_FileHandle::hdf_handle, struct_FileHandle::id_type, mhdf_check_valid_file(), mhdf_create_table(), mhdf_elem_group_from_handle(), mhdf_node_type_handle(), mhdf_setFail(), and NODE_ADJCY_PATH.

Referenced by moab::WriteHDF5Parallel::create_adjacency_tables(), and moab::WriteHDF5::serial_create_file().

mhdf_haveAdjacency()

int mhdf_haveAdjacency	(	mhdf_FileHandle	file,
		const char *	elem_group,
		mhdf_Status *	status
	)

Check if adjacency data is present in the file for the specified element group.

MOAB, a Mesh-Oriented datABase, is a software component for creating, storing and accessing finite element mesh data.

Copyright 2004 Sandia Corporation. Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains certain rights in this software.

This library is free software; you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation; either version 2.1 of the License, or (at your option) any later version.

Definition at line 25 of file adjacency.c.

{
 FileHandle* file_ptr;
 hid_t elem_id;
 int result;
 API_BEGIN;
 
 file_ptr = (FileHandle*)( file );
 if( !mhdf_check_valid_file( file_ptr, status ) ) return -1;
 
 if( elem_group == mhdf_node_type_handle() )
 {
#if defined( H5Gopen_vers ) && H5Gopen_vers > 1
 elem_id = H5Gopen( file_ptr->hdf_handle, NODE_GROUP, H5P_DEFAULT );
#else
 elem_id = H5Gopen( file_ptr->hdf_handle, NODE_GROUP );
#endif
 if( elem_id < 0 )
 {
 mhdf_setFail( status, "H5Gopen( \"%s\" ) failed.\n", NODE_GROUP );
 return -1;
 }
 }
 else
 {
 elem_id = mhdf_elem_group_from_handle( file_ptr, elem_group, status );
 if( elem_id < 0 ) return -1;
 }
 
 result = mhdf_is_in_group( elem_id, ADJACENCY_NAME, status );
 H5Gclose( elem_id );
 mhdf_setOkay( status );
 API_END;
 return result;
}

References ADJACENCY_NAME, API_BEGIN, API_END, struct_FileHandle::hdf_handle, mhdf_check_valid_file(), mhdf_elem_group_from_handle(), mhdf_is_in_group(), mhdf_node_type_handle(), mhdf_setFail(), mhdf_setOkay(), and NODE_GROUP.

Referenced by get_elem_desc().

mhdf_openAdjacency()

hid_t mhdf_openAdjacency	(	mhdf_FileHandle	file_handle,
		const char *	elem_handle,
		long *	adj_list_size,
		mhdf_Status *	status
	)

Open adjacency data table for nodes, elements, polys, etc.

Open the file object containing adjacency data for a nodes or a specified element group.

Adjacency data is formated as a sequence of integer groups where the first entry in each group is the ID of the element for which adjacencies are being specified, the second value is the count of adjacent entities, and the remainder of the group is the list of IDs of the adjacent entities.

Parameters

file_handle	The file.
elem_handle	The element group (or the result of mhdf_node_type_handle for nodes) for which the adjacency data is to be specified.
adj_list_size	The total number of integer values contained in the adjacency data for the specified element group.
status	Passed back status of API call.

Returns

The HDF5 handle to the connectivity data.

Definition at line 94 of file adjacency.c.

{
 FileHandle* file_ptr;
 hid_t elem_id, table_id;
 hsize_t dim;
 API_BEGIN;
 
 file_ptr = (FileHandle*)( file );
 if( !mhdf_check_valid_file( file_ptr, status ) ) return -1;
 
 if( !adj_list_size_out )
 {
 mhdf_setFail( status, "Invalid argument.\n" );
 return -1;
 }
 
 if( elem_handle == mhdf_node_type_handle() )
 {
 table_id = mhdf_open_table( file_ptr->hdf_handle, NODE_ADJCY_PATH, 1, &dim, status );
 }
 else
 {
 elem_id = mhdf_elem_group_from_handle( file_ptr, elem_handle, status );
 if( elem_id < 0 ) return -1;
 table_id = mhdf_open_table( elem_id, ADJACENCY_NAME, 1, &dim, status );
 H5Gclose( elem_id );
 }
 
 *adj_list_size_out = (long)dim;
 API_END_H( 1 );
 return table_id;
}

References ADJACENCY_NAME, API_BEGIN, API_END_H, dim, struct_FileHandle::hdf_handle, mhdf_check_valid_file(), mhdf_elem_group_from_handle(), mhdf_node_type_handle(), mhdf_open_table(), mhdf_setFail(), and NODE_ADJCY_PATH.

Referenced by check_valid_adjacencies(), moab::ReadHDF5::load_file_impl(), moab::ReadHDF5::load_file_partial(), and moab::WriteHDF5::write_adjacencies().

mhdf_readAdjacency()

void mhdf_readAdjacency	(	hid_t	data_handle,
		long	offset,
		long	count,
		hid_t	hdf_integer_type,
		void *	adj_list_data_out,
		mhdf_Status *	status
	)

Read node/element adjacency data.

Read adjacency data.

Adjacency data is formated as a sequence of integer groups where the first entry in each group is the ID of the element for which adjacencies are being specified, the second value is the count of adjacent entities, and the remainder of the group is the list of IDs of the adjacent entities.

Parameters

data_handle	Handle returned from mhdf_createAdjacency or mhdf_openAdjacency.
offset	List position at which to start reading. Offset is from the count if integer values written, NOT a count of the number of elements for which adjacency data is written.
count	Number of integer values to reading.
hdf_integer_type	The type of the integer data in adj_list_data_out. Typically H5T_NATIVE_INT or N5T_NATIVE_LONG as defined in H5Tpublic.h. The HDF class of this type object must be H5T_INTEGER
adj_list_data_out	Pointer to memory at which to write adjacency data.
status	Passed back status of API call.

Definition at line 148 of file adjacency.c.

{
 API_BEGIN;
 mhdf_read_data( table_id, offset, count, type, data, H5P_DEFAULT, status );
 API_END;
}

References API_BEGIN, API_END, and mhdf_read_data().

Referenced by check_valid_adjacencies().

mhdf_readAdjacencyWithOpt()

void mhdf_readAdjacencyWithOpt	(	hid_t	table_id,
		long	offset,
		long	count,
		hid_t	type,
		void *	data,
		hid_t	prop,
		mhdf_Status *	status
	)

Definition at line 154 of file adjacency.c.

{
 API_BEGIN;
 mhdf_read_data( table_id, offset, count, type, data, prop, status );
 API_END;
}

References API_BEGIN, API_END, and mhdf_read_data().

Referenced by moab::ReadHDF5::read_adjacencies().

mhdf_writeAdjacency()

void mhdf_writeAdjacency	(	hid_t	data_handle,
		long	offset,
		long	count,
		hid_t	hdf_integer_type,
		const void *	adj_list_data,
		mhdf_Status *	status
	)

Write node/element adjacency data.

Write adjacency data.

Adjacency data is formated as a sequence of integer groups where the first entry in each group is the ID of the element for which adjacencies are being specified, the second value is the count of adjacent entities, and the remainder of the group is the list of IDs of the adjacent entities.

Parameters

data_handle	Handle returned from mhdf_createAdjacency or mhdf_openAdjacency.
offset	List position at which to start writing. Offset is from the count if integer values written, NOT a count of the number of elements for which adjacency data is written.
count	Number of integer values to write.
hdf_integer_type	The type of the integer data in adj_list_data. Typically H5T_NATIVE_INT or N5T_NATIVE_LONG as defined in H5Tpublic.h. The HDF class of this type object must be H5T_INTEGER
adj_list_data	Adjacency data to write.
status	Passed back status of API call.

Definition at line 128 of file adjacency.c.

{
 API_BEGIN;
 mhdf_write_data( table_id, offset, count, type, data, H5P_DEFAULT, status );
 API_END;
}

References API_BEGIN, API_END, and mhdf_write_data().

mhdf_writeAdjacencyWithOpt()

void mhdf_writeAdjacencyWithOpt	(	hid_t	table_id,
		long	offset,
		long	count,
		hid_t	type,
		const void *	data,
		hid_t	prop,
		mhdf_Status *	status
	)

Definition at line 135 of file adjacency.c.

{
 API_BEGIN;
 mhdf_write_data( table_id, offset, count, type, data, prop, status );
 API_END;
}

References API_BEGIN, API_END, and mhdf_write_data().

Referenced by moab::WriteHDF5::write_adjacencies().