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-rw-r--r--hl/src/H5TB.c3682
1 files changed, 3682 insertions, 0 deletions
diff --git a/hl/src/H5TB.c b/hl/src/H5TB.c
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+/****************************************************************************
+ * NCSA HDF *
+ * Scientific Data Technologies *
+ * National Center for Supercomputing Applications *
+ * University of Illinois at Urbana-Champaign *
+ * 605 E. Springfield, Champaign IL 61820 *
+ * *
+ * For conditions of distribution and use, see the accompanying *
+ * hdf/COPYING file. *
+ * *
+ ****************************************************************************/
+
+#include "H5TB.h"
+#include <stdlib.h>
+#include <string.h>
+
+#if 0
+#define SHRINK
+#endif
+
+
+/*-------------------------------------------------------------------------
+ *
+ * Private functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+int H5TB_find_field(const char *field,
+ const char *field_list);
+
+herr_t H5TB_attach_attributes(const char *table_title,
+ hid_t loc_id,
+ const char *dset_name,
+ hsize_t nfields,
+ hid_t tid );
+
+hid_t H5TB_create_type(hid_t loc_id,
+ const char *dset_name,
+ size_t dst_size,
+ const size_t *dst_offset,
+ const size_t *dst_sizes,
+ hid_t ftype_id);
+
+/*-------------------------------------------------------------------------
+ *
+ * Create functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBmake_table
+ *
+ * Purpose: Make a table
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ * Quincey Koziol
+ *
+ * Date: January 17, 2001
+ *
+ * Comments: The data is packed
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBmake_table( const char *table_title,
+ hid_t loc_id,
+ const char *dset_name,
+ hsize_t nfields,
+ hsize_t nrecords,
+ size_t type_size,
+ const char *field_names[],
+ const size_t *field_offset,
+ const hid_t *field_types,
+ hsize_t chunk_size,
+ void *fill_data,
+ int compress,
+ const void *data )
+{
+
+ hid_t did;
+ hid_t sid;
+ hid_t mem_type_id;
+ hid_t plist_id;
+ hsize_t dims[1];
+ hsize_t dims_chunk[1];
+ hsize_t maxdims[1] = { H5S_UNLIMITED };
+ char attr_name[255];
+ char *member_name;
+ hid_t attr_id;
+ char aux[255];
+ hsize_t i;
+ unsigned char *tmp_buf;
+
+ dims[0] = nrecords;
+ dims_chunk[0] = chunk_size;
+
+ /* Create the memory data type. */
+ if ((mem_type_id = H5Tcreate (H5T_COMPOUND, type_size )) < 0 )
+ return -1;
+
+ /* Insert fields. */
+ for ( i = 0; i < nfields; i++)
+ {
+ if ( H5Tinsert(mem_type_id, field_names[i], field_offset[i], field_types[i] ) < 0 )
+ return -1;
+ }
+
+ /* Create a simple data space with unlimited size */
+ if ( (sid = H5Screate_simple( 1, dims, maxdims )) < 0 )
+ return -1;
+
+ /* Modify dataset creation properties, i.e. enable chunking */
+ plist_id = H5Pcreate (H5P_DATASET_CREATE);
+ if ( H5Pset_chunk ( plist_id, 1, dims_chunk ) < 0 )
+ return -1;
+
+ /* Set the fill value using a struct as the data type. */
+ if ( fill_data )
+ {
+ if ( H5Pset_fill_value( plist_id, mem_type_id, fill_data ) < 0 )
+ return -1;
+ }
+
+ /*
+ Dataset creation property list is modified to use
+ GZIP compression with the compression effort set to 6.
+ Note that compression can be used only when dataset is chunked.
+ */
+ if ( compress )
+ {
+ if ( H5Pset_deflate( plist_id, 6) < 0 )
+ return -1;
+ }
+
+ /* Create the dataset. */
+ if ( (did = H5Dcreate( loc_id, dset_name, mem_type_id, sid, plist_id )) < 0 )
+ goto out;
+
+ /* Only write if there is something to write */
+ if ( data )
+ {
+ /* Write data to the dataset. */
+ if ( H5Dwrite( did, mem_type_id, H5S_ALL, H5S_ALL, H5P_DEFAULT, data ) < 0 )
+ goto out;
+ }
+
+ /* Terminate access to the data space. */
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ goto out;
+
+ /* End access to the property list */
+ if ( H5Pclose( plist_id ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Set the conforming table attributes
+ *-------------------------------------------------------------------------
+ */
+
+ /* Attach the CLASS attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, "CLASS", "TABLE" ) < 0 )
+ goto out;
+
+ /* Attach the VERSION attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, "VERSION", "2.0" ) < 0 )
+ goto out;
+
+ /* Attach the TITLE attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, "TITLE", table_title ) < 0 )
+ goto out;
+
+ /* Attach the FIELD_ name attribute */
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( mem_type_id,(unsigned) i );
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int)i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_NAME" );
+ strcat( attr_name, aux );
+
+ /* Attach the attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, attr_name, member_name ) < 0 )
+ goto out;
+
+ free( member_name );
+
+ }
+
+ /* Attach the FIELD_ fill value attribute */
+ if ( fill_data )
+ {
+
+ tmp_buf = fill_data;
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ if (( sid = H5Screate(H5S_SCALAR)) < 0 )
+ goto out;
+
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( mem_type_id, (unsigned) i );
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int)i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_FILL" );
+ strcat( attr_name, aux );
+
+ if ( (attr_id = H5Acreate( did, attr_name, field_types[i], sid, H5P_DEFAULT )) < 0 )
+ goto out;
+
+ if ( H5Awrite( attr_id, field_types[i], tmp_buf+field_offset[i] ) < 0 )
+ goto out;
+
+ if ( H5Aclose( attr_id ) < 0 )
+ goto out;
+
+ free( member_name );
+ }
+
+ /* Close the dataset. */
+ H5Dclose( did );
+
+ /* Close data space. */
+ H5Sclose( sid );
+ }
+
+ /* Release the datatype. */
+ if ( H5Tclose( mem_type_id ) < 0 )
+ return -1;
+
+
+return 0;
+
+/* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Sclose(sid);
+ H5Pclose(plist_id);
+ H5Tclose(mem_type_id);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+/*-------------------------------------------------------------------------
+ *
+ * Write functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBappend_records
+ *
+ * Purpose: Appends records to a table
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmers:
+ * Pedro Vicente, pvn@ncsa.uiuc.edu
+ * Quincey Koziol
+ *
+ * Date: November 19, 2001
+ *
+ * Comments: Uses memory offsets
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBappend_records( hid_t loc_id,
+ const char *dset_name,
+ hsize_t nrecords,
+ size_t dst_size,
+ const size_t *dst_offset,
+ const size_t *dst_sizes,
+ const void *data )
+{
+ hid_t did;
+ hid_t tid=-1;
+ hid_t mem_type_id=-1;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ hid_t mem_space_id=-1;
+ hsize_t dims[1];
+ hsize_t mem_dims[1];
+ hsize_t nrecords_orig;
+ hsize_t nfields;
+
+ /* Get the original number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &nrecords_orig ) < 0 )
+ return -1;
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ goto out;
+
+ /* Get the datatypes */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ if ((mem_type_id=H5TB_create_type(loc_id,dset_name,dst_size,dst_offset,dst_sizes,tid))<0)
+ goto out;
+
+ /* Extend the dataset */
+ dims[0] = nrecords_orig;
+ dims[0] += nrecords;
+
+ if ( H5Dextend ( did, dims ) < 0 )
+ goto out;
+
+ /* Create a simple memory data space */
+ mem_dims[0]=nrecords;
+ if ( (mem_space_id = H5Screate_simple( 1, mem_dims, NULL )) < 0 )
+ return -1;
+
+ /* Get the file data space */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ return -1;
+
+ /* Get the dimensions */
+ if ( H5Sget_simple_extent_dims( sid, dims, NULL ) != 1 )
+ goto out;
+
+ /* Define a hyperslab in the dataset */
+ offset[0] = nrecords_orig;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ if ( H5Dwrite( did, mem_type_id, mem_space_id, sid, H5P_DEFAULT, data ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( tid ) < 0 )
+ return -1;
+
+ /* Release the datatype. */
+ if ( H5Tclose( mem_type_id ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ goto out;
+
+
+return 0;
+
+/* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Tclose(mem_type_id);
+ H5Tclose(tid);
+ H5Sclose(mem_space_id);
+ H5Sclose(sid);
+ } H5E_END_TRY;
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBwrite_records
+ *
+ * Purpose: Writes records
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 19, 2001
+ *
+ * Comments: Uses memory offsets
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBwrite_records( hid_t loc_id,
+ const char *dset_name,
+ hsize_t start,
+ hsize_t nrecords,
+ size_t dst_size,
+ const size_t *dst_offset,
+ const size_t *dst_sizes,
+ const void *data )
+{
+
+ hid_t did;
+ hid_t tid;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ hid_t mem_space_id=-1;
+ hsize_t mem_size[1];
+ hsize_t dims[1];
+ hid_t mem_type_id=-1;
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* Get the datatype */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ if ((mem_type_id=H5TB_create_type(loc_id,dset_name,dst_size,dst_offset,dst_sizes,tid))<0)
+ goto out;
+
+ /* Get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* Get records */
+ if ( H5Sget_simple_extent_dims( sid, dims, NULL) < 0 )
+ goto out;
+
+ if ( start + nrecords > dims[0] )
+ goto out;
+
+ /* Define a hyperslab in the dataset of the size of the records */
+ offset[0] = start;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ if ( H5Dwrite( did, mem_type_id, mem_space_id, sid, H5P_DEFAULT, data ) < 0 )
+ goto out;
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( tid ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( mem_type_id ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+
+return 0;
+
+/* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Tclose(mem_type_id);
+ H5Tclose(tid);
+ H5Sclose(mem_space_id);
+ H5Sclose(sid);
+ } H5E_END_TRY;
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBwrite_fields_name
+ *
+ * Purpose: Writes fields
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 21, 2001
+ *
+ * Comments:
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+herr_t H5TBwrite_fields_name( hid_t loc_id,
+ const char *dset_name,
+ const char *field_names,
+ hsize_t start,
+ hsize_t nrecords,
+ size_t type_size,
+ const size_t *field_offset,
+ const size_t *dst_sizes,
+ const void *data )
+{
+
+ hid_t did;
+ hid_t tid=-1;
+ hid_t write_type_id=-1;
+ hid_t member_type_id;
+ hid_t nmtype_id;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ char *member_name;
+ hssize_t nfields;
+ hssize_t i, j;
+ hid_t PRESERVE;
+ size_t size_native;
+
+ /* Create xfer properties to preserve initialized data */
+ if ((PRESERVE = H5Pcreate (H5P_DATASET_XFER))<0)
+ return -1;
+ if (H5Pset_preserve (PRESERVE, 1)<0)
+ return -1;
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ /* Get the number of fields */
+ if ( ( nfields = H5Tget_nmembers( tid )) < 0 )
+ goto out;
+
+ /* Create a write id */
+ if ( ( write_type_id = H5Tcreate( H5T_COMPOUND, type_size )) < 0 )
+ goto out;
+
+ j = 0;
+
+ /* Iterate tru the members */
+ for ( i = 0; i < nfields; i++)
+ {
+ /* Get the member name */
+ member_name = H5Tget_member_name( tid, (unsigned)i );
+
+ if ( H5TB_find_field( member_name, field_names ) > 0 )
+ {
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( tid,(unsigned) i )) < 0 )
+ goto out;
+
+ /* Convert to native type */
+ if ((nmtype_id=H5Tget_native_type(member_type_id,H5T_DIR_DEFAULT))<0)
+ goto out;
+
+ size_native=H5Tget_size(nmtype_id);
+
+ /* Adjust, if necessary */
+ if (dst_sizes[j]!=size_native)
+ {
+ if (H5Tset_size(nmtype_id, dst_sizes[j])<0)
+ goto out;
+ }
+
+ /* The field in the file is found by its name */
+ if ( field_offset )
+ {
+ if ( H5Tinsert( write_type_id, member_name, field_offset[j], nmtype_id ) < 0 )
+ goto out;
+ }
+ /* Only one field */
+ else
+ {
+ if ( H5Tinsert( write_type_id, member_name, 0, nmtype_id ) < 0 )
+ goto out;
+ }
+
+ j++;
+
+ /* Close */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+ if ( H5Tclose( nmtype_id ) < 0 )
+ goto out;
+ }
+
+ free( member_name );
+
+ }
+
+ /* Get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* Define a hyperslab in the dataset */
+ offset[0] = start;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Write */
+ if ( H5Dwrite( did, write_type_id, H5S_ALL, sid, PRESERVE, data ) < 0 )
+ goto out;
+
+ /* End access to the write id */
+ if ( H5Tclose( write_type_id ) )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( tid ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+ /* End access to the property list */
+ if ( H5Pclose( PRESERVE ) < 0 )
+ return -1;
+
+return 0;
+
+ /* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Pclose(PRESERVE);
+ H5Dclose(did);
+ H5Sclose(sid);
+ H5Tclose(write_type_id);
+ H5Tclose(tid);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBwrite_fields_index
+ *
+ * Purpose: Writes fields
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 21, 2001
+ *
+ * Comments: Uses memory offsets
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBwrite_fields_index( hid_t loc_id,
+ const char *dset_name,
+ hsize_t nfields,
+ const int *field_index,
+ hsize_t start,
+ hsize_t nrecords,
+ size_t type_size,
+ const size_t *field_offset,
+ const size_t *dst_sizes,
+ const void *data )
+{
+
+ hid_t did;
+ hid_t tid=-1;
+ hid_t write_type_id=-1;
+ hid_t member_type_id;
+ hid_t nmtype_id;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ char *member_name;
+ hsize_t i, j;
+ hid_t PRESERVE;
+ size_t size_native;
+
+ /* Create xfer properties to preserve initialized data */
+ if ((PRESERVE = H5Pcreate (H5P_DATASET_XFER))<0)
+ return -1;
+ if (H5Pset_preserve (PRESERVE, 1)<0)
+ return -1;
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ /* Get the number of fields */
+ if ( H5Tget_nmembers( tid ) < 0 )
+ goto out;
+
+ /* Create a write id */
+ if ( ( write_type_id = H5Tcreate( H5T_COMPOUND, type_size )) < 0 )
+ goto out;
+
+
+ /* Iterate tru the members */
+ for ( i = 0; i < nfields; i++)
+ {
+
+ j = field_index[i];
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( tid, (unsigned) j );
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( tid, (unsigned) j )) < 0 )
+ goto out;
+
+ /* Convert to native type */
+ if ((nmtype_id=H5Tget_native_type(member_type_id,H5T_DIR_DEFAULT))<0)
+ goto out;
+
+ size_native=H5Tget_size(nmtype_id);
+
+ if (dst_sizes[i]!=size_native)
+ {
+ if (H5Tset_size(nmtype_id, dst_sizes[i])<0)
+ goto out;
+ }
+
+ /* The field in the file is found by its name */
+ if ( field_offset )
+ {
+ if ( H5Tinsert( write_type_id, member_name, field_offset[ i ], nmtype_id ) < 0 )
+ goto out;
+ }
+ /* Only one field */
+ else
+ {
+ if ( H5Tinsert( write_type_id, member_name, 0, nmtype_id ) < 0 )
+ goto out;
+ }
+ /* Close */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+ if ( H5Tclose( nmtype_id ) < 0 )
+ goto out;
+
+ free( member_name );
+
+ }
+
+ /* Get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* Define a hyperslab in the dataset */
+ offset[0] = start;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Write */
+ if ( H5Dwrite( did, write_type_id, H5S_ALL, sid, PRESERVE, data ) < 0 )
+ goto out;
+
+ /* End access to the write id */
+ if ( H5Tclose( write_type_id ) )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( tid ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+ /* End access to the property list */
+ if ( H5Pclose( PRESERVE ) < 0 )
+ return -1;
+
+return 0;
+
+ /* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Pclose(PRESERVE);
+ H5Dclose(did);
+ H5Sclose(sid);
+ H5Tclose(write_type_id);
+ H5Tclose(tid);
+ } H5E_END_TRY;
+ return -1;
+}
+
+
+/*-------------------------------------------------------------------------
+ *
+ * Read functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBread_table
+ *
+ * Purpose: Reads a table
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 20, 2001
+ *
+ * Comments:
+ *
+ * Modifications: April 1, 2004
+ * used a memory type ID returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBread_table( hid_t loc_id,
+ const char *dset_name,
+ size_t dst_size,
+ const size_t *dst_offset,
+ const size_t *dst_sizes,
+ void *dst_buf )
+{
+ hid_t did;
+ hid_t ftype_id=-1;
+ hid_t mem_type_id=-1;
+ hid_t sid;
+ hsize_t dims[1];
+
+ /* open the dataset. */
+ if ((did=H5Dopen(loc_id,dset_name))<0)
+ return -1;
+
+ /* get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* get dimensions */
+ if ( H5Sget_simple_extent_dims( sid, dims, NULL) < 0 )
+ goto out;
+
+ /* get the datatypes */
+ if ((ftype_id=H5Dget_type (did))<0)
+ goto out;
+
+ if ((mem_type_id=H5TB_create_type(loc_id,dset_name,dst_size,dst_offset,dst_sizes,ftype_id))<0)
+ goto out;
+
+ /* read */
+ if ( H5Dread( did, mem_type_id, H5S_ALL, H5S_ALL, H5P_DEFAULT, dst_buf) < 0 )
+ goto out;
+
+ /* close */
+ if ( H5Tclose( ftype_id ) < 0 )
+ goto out;
+ if ( H5Tclose( mem_type_id ) < 0 )
+ goto out;
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+ return 0;
+
+ /* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Tclose(mem_type_id);
+ H5Tclose(ftype_id);
+ H5Sclose(sid);
+ } H5E_END_TRY;
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBread_records
+ *
+ * Purpose: Reads records
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 19, 2001
+ *
+ * Comments:
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBread_records( hid_t loc_id,
+ const char *dset_name,
+ hsize_t start,
+ hsize_t nrecords,
+ size_t dst_size,
+ const size_t *dst_offset,
+ const size_t *dst_sizes,
+ void *data )
+{
+
+ hid_t did;
+ hid_t ftype_id;
+ hid_t mem_type_id=-1;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ hsize_t dims[1];
+ hid_t mem_space_id=-1;
+ hsize_t mem_size[1];
+ hsize_t nrecords_orig;
+ hsize_t nfields;
+
+ /* get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &nrecords_orig ) < 0 )
+ return -1;
+
+ /* open the dataset */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* get the datatypes */
+ if ( (ftype_id = H5Dget_type( did )) < 0 )
+ goto out;
+
+ if ((mem_type_id=H5TB_create_type(loc_id,dset_name,dst_size,dst_offset,dst_sizes,ftype_id))<0)
+ goto out;
+
+ /* get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* get records */
+ if ( H5Sget_simple_extent_dims( sid, dims, NULL) < 0 )
+ goto out;
+
+ if ( start + nrecords > dims[0] )
+ goto out;
+
+ /* define a hyperslab in the dataset of the size of the records */
+ offset[0] = start;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ /* read */
+ if ( H5Dread( did, mem_type_id, mem_space_id, sid, H5P_DEFAULT, data ) < 0 )
+ goto out;
+
+ /* close */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+ if ( H5Tclose( ftype_id ) < 0 )
+ return -1;
+ if ( H5Tclose( mem_type_id ) < 0 )
+ return -1;
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+ return 0;
+
+ /* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Tclose(mem_type_id);
+ H5Tclose(ftype_id);
+ H5Sclose(mem_space_id);
+ H5Sclose(sid);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBread_fields_name
+ *
+ * Purpose: Reads fields
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 19, 2001
+ *
+ * Comments:
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBread_fields_name( hid_t loc_id,
+ const char *dset_name,
+ const char *field_names,
+ hsize_t start,
+ hsize_t nrecords,
+ size_t type_size,
+ const size_t *field_offset,
+ const size_t *dst_sizes,
+ void *data )
+{
+
+ hid_t did;
+ hid_t ftype_id=-1;
+ hid_t mem_type_id=-1;
+ hid_t mtype_id;
+ hid_t nmtype_id;
+ char *member_name;
+ hssize_t nfields;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ hid_t mem_space_id=-1;
+ hsize_t mem_size[1];
+ size_t size_native;
+ hssize_t i, j;
+
+ /* open the dataset */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ goto out;
+
+ /* get the datatype */
+ if ( (ftype_id = H5Dget_type( did )) < 0 )
+ goto out;
+
+ /* get the number of fields */
+ if ( ( nfields = H5Tget_nmembers( ftype_id )) < 0 )
+ goto out;
+
+ /* create a memory read id */
+ if ( ( mem_type_id = H5Tcreate( H5T_COMPOUND, type_size )) < 0 )
+ goto out;
+
+ /* iterate tru the members */
+ for ( i=0,j=0; i<nfields; i++)
+ {
+ /* get the member name */
+ member_name = H5Tget_member_name( ftype_id, (unsigned)i );
+
+ if ( H5TB_find_field( member_name, field_names ) > 0 )
+ {
+ /* get the member type */
+ if ( ( mtype_id = H5Tget_member_type( ftype_id, (unsigned) i )) < 0 )
+ goto out;
+
+ /* convert to native type */
+ if ((nmtype_id=H5Tget_native_type(mtype_id,H5T_DIR_DEFAULT))<0)
+ goto out;
+
+ size_native=H5Tget_size(nmtype_id);
+
+ if (dst_sizes[j]!=size_native)
+ {
+ if (H5Tset_size(nmtype_id, dst_sizes[j])<0)
+ goto out;
+ }
+ /* the field in the file is found by its name */
+ if ( field_offset )
+ {
+ if ( H5Tinsert( mem_type_id, member_name, field_offset[j], nmtype_id ) < 0 )
+ goto out;
+ }
+ else
+ {
+ if ( H5Tinsert( mem_type_id, member_name, 0, nmtype_id ) < 0 )
+ goto out;
+ }
+
+ /* close */
+ if ( H5Tclose( mtype_id ) < 0 )
+ goto out;
+ if ( H5Tclose( nmtype_id ) < 0 )
+ goto out;
+ j++;
+ }
+ free( member_name );
+ }
+
+ /* get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* define a hyperslab in the dataset */
+ offset[0] = start;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ /* read */
+ if ( H5Dread( did, mem_type_id, mem_space_id, sid, H5P_DEFAULT, data ) < 0 )
+ goto out;
+
+ /* close */
+ if ( H5Tclose( mem_type_id ) )
+ goto out;
+ if ( H5Tclose( ftype_id ) < 0 )
+ return -1;
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+ return 0;
+
+/* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Tclose(mem_type_id);
+ H5Tclose(ftype_id);
+ H5Sclose(mem_space_id);
+ H5Sclose(sid);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBread_fields_index
+ *
+ * Purpose: Reads fields
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 19, 2001
+ *
+ * Comments:
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBread_fields_index( hid_t loc_id,
+ const char *dset_name,
+ hsize_t nfields,
+ const int *field_index,
+ hsize_t start,
+ hsize_t nrecords,
+ size_t type_size,
+ const size_t *field_offset,
+ const size_t *dst_sizes,
+ void *data )
+{
+
+ hid_t did;
+ hid_t tid=-1;
+ hid_t read_type_id=-1;
+ hid_t member_type_id;
+ hid_t nmtype_id;
+ char *member_name;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ hid_t mem_space_id=-1;
+ hsize_t mem_size[1];
+ size_t size_native;
+ hsize_t i, j;
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ /* Create a read id */
+ if ( ( read_type_id = H5Tcreate( H5T_COMPOUND, type_size )) < 0 )
+ goto out;
+
+ /* Iterate tru the members */
+ for ( i = 0; i < nfields; i++)
+ {
+ j = field_index[i];
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( tid, (unsigned) j );
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( tid, (unsigned) j )) < 0 )
+ goto out;
+
+ /* Get the member size */
+ if ( H5Tget_size( member_type_id ) == 0 )
+ goto out;
+
+ /* Convert to native type */
+ if ((nmtype_id=H5Tget_native_type(member_type_id,H5T_DIR_DEFAULT))<0)
+ goto out;
+
+ size_native=H5Tget_size(nmtype_id);
+
+ if (dst_sizes[i]!=size_native)
+ {
+ if (H5Tset_size(nmtype_id, dst_sizes[i])<0)
+ goto out;
+ }
+
+ /* The field in the file is found by its name */
+ if ( field_offset )
+ {
+ if ( H5Tinsert( read_type_id, member_name, field_offset[i], nmtype_id ) < 0 )
+ goto out;
+ }
+ else
+ {
+ if ( H5Tinsert( read_type_id, member_name, 0, nmtype_id ) < 0 )
+ goto out;
+ }
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+ if ( H5Tclose( nmtype_id ) < 0 )
+ goto out;
+
+ free( member_name );
+ }
+
+ /* Get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* Define a hyperslab in the dataset */
+ offset[0] = start;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ /* Read */
+ if ( H5Dread( did, read_type_id, mem_space_id, sid, H5P_DEFAULT, data ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+
+ /* End access to the read id */
+ if ( H5Tclose( read_type_id ) )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( tid ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+return 0;
+
+/* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Tclose(read_type_id);
+ H5Tclose(tid);
+ H5Sclose(mem_space_id);
+ H5Sclose(sid);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+
+/*-------------------------------------------------------------------------
+ *
+ * Manipulation functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBdelete_record
+ *
+ * Purpose: Delete records from middle of table ("pulling up" all the records after it)
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 26, 2001
+ *
+ * Modifications: April 29, 2003
+ *
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBdelete_record( hid_t loc_id,
+ const char *dset_name,
+ hsize_t start,
+ hsize_t nrecords )
+{
+
+ hsize_t nfields;
+ hsize_t ntotal_records;
+ hsize_t read_start;
+ hsize_t read_nrecords;
+ hid_t did;
+ hid_t tid;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid;
+ hid_t mem_space_id;
+ hsize_t mem_size[1];
+ unsigned char *tmp_buf;
+ size_t src_size;
+ size_t *src_offset;
+ size_t *src_sizes;
+ hsize_t nrows;
+#if defined (SHRINK)
+ hsize_t dims[1];
+#endif
+
+
+/*-------------------------------------------------------------------------
+ * First we get information about type size and offsets on disk
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &ntotal_records ) < 0 )
+ return -1;
+
+ src_offset = (size_t *)malloc((size_t)nfields * sizeof(size_t));
+ src_sizes = (size_t *)malloc((size_t)nfields * sizeof(size_t));
+
+ if ( src_offset == NULL )
+ return -1;
+
+ /* Get field info */
+ if ( H5TBget_field_info( loc_id, dset_name, NULL, src_sizes, src_offset, &src_size ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Read the records after the deleted one(s)
+ *-------------------------------------------------------------------------
+ */
+
+ read_start = start + nrecords;
+ read_nrecords = ntotal_records - read_start;
+ tmp_buf = (unsigned char *)calloc((size_t) read_nrecords, src_size );
+
+ if ( tmp_buf == NULL )
+ return -1;
+
+ /* Read the records after the deleted one(s) */
+ if ( H5TBread_records( loc_id, dset_name, read_start, read_nrecords, src_size,
+ src_offset, src_sizes, tmp_buf ) < 0 )
+ return -1;
+
+
+/*-------------------------------------------------------------------------
+ * Write the records in another position
+ *-------------------------------------------------------------------------
+ */
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* Get the datatype */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ /* Get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* Define a hyperslab in the dataset of the size of the records */
+ offset[0] = start;
+ count[0] = read_nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ if ( H5Dwrite( did, tid, mem_space_id, sid, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( tid ) < 0 )
+ goto out;
+
+
+/*-------------------------------------------------------------------------
+ * Change the table dimension
+ *-------------------------------------------------------------------------
+ */
+#if defined (SHRINK)
+ dims[0] = ntotal_records - nrecords;
+ if ( H5Dset_extent( did, dims ) < 0 )
+ goto out;
+#endif
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+ free( tmp_buf );
+ free( src_offset );
+ free( src_sizes );
+
+
+/*-------------------------------------------------------------------------
+ * Store the new dimension as an attribute
+ *-------------------------------------------------------------------------
+ */
+
+ nrows = ntotal_records - nrecords;
+ /* Set the attribute */
+ if (H5LT_set_attribute_numerical(loc_id,dset_name,"NROWS",1,
+ H5T_NATIVE_LLONG,&nrows)<0)
+ return -1;
+
+
+ return 0;
+
+out:
+ H5Dclose( did );
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBinsert_record
+ *
+ * Purpose: Inserts records into middle of table ("pushing down" all the records after it)
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 26, 2001
+ *
+ * Comments: Uses memory offsets
+ *
+ * Modifications: April 1, 2004
+ * the DST_SIZES parameter is used to define the memory type ID
+ * returned by H5TB_create_type
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBinsert_record( hid_t loc_id,
+ const char *dset_name,
+ hsize_t start,
+ hsize_t nrecords,
+ size_t dst_size,
+ const size_t *dst_offset,
+ const size_t *dst_sizes,
+ void *data )
+{
+
+ hsize_t nfields;
+ hsize_t ntotal_records;
+ hsize_t read_nrecords;
+ hid_t did;
+ hid_t tid=-1;
+ hid_t mem_type_id=-1;
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t sid=-1;
+ hid_t mem_space_id=-1;
+ hsize_t dims[1];
+ hsize_t mem_dims[1];
+ unsigned char *tmp_buf;
+
+/*-------------------------------------------------------------------------
+ * Read the records after the inserted one(s)
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the dimensions */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &ntotal_records ) < 0 )
+ return -1;
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ /* Create the memory data type. */
+ if ((mem_type_id=H5TB_create_type(loc_id,dset_name,dst_size,dst_offset,dst_sizes,tid))<0)
+ goto out;
+
+ read_nrecords = ntotal_records - start;
+ tmp_buf = (unsigned char *)calloc((size_t) read_nrecords, dst_size );
+
+ /* Read the records after the inserted one(s) */
+ if ( H5TBread_records( loc_id, dset_name, start, read_nrecords, dst_size, dst_offset,
+ dst_sizes, tmp_buf ) < 0 )
+ return -1;
+
+ /* Extend the dataset */
+ dims[0] = ntotal_records + nrecords;
+
+ if ( H5Dextend ( did, dims ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Write the inserted records
+ *-------------------------------------------------------------------------
+ */
+
+ /* Create a simple memory data space */
+ mem_dims[0]=nrecords;
+ if ( (mem_space_id = H5Screate_simple( 1, mem_dims, NULL )) < 0 )
+ return -1;
+
+ /* Get the file data space */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ return -1;
+
+ /* Define a hyperslab in the dataset to write the new data */
+ offset[0] = start;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ if ( H5Dwrite( did, mem_type_id, mem_space_id, sid, H5P_DEFAULT, data ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Write the "pushed down" records
+ *-------------------------------------------------------------------------
+ */
+
+ /* Create a simple memory data space */
+ mem_dims[0]=read_nrecords;
+ if ( (mem_space_id = H5Screate_simple( 1, mem_dims, NULL )) < 0 )
+ return -1;
+
+ /* Get the file data space */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ return -1;
+
+ /* Define a hyperslab in the dataset to write the new data */
+ offset[0] = start + nrecords;
+ count[0] = read_nrecords;
+ if ( H5Sselect_hyperslab( sid, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ if ( H5Dwrite( did, mem_type_id, mem_space_id, sid, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( tid ) < 0 )
+ return -1;
+
+ /* Release the datatype. */
+ if ( H5Tclose( mem_type_id ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+ free( tmp_buf );
+
+ return 0;
+
+ /* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Sclose(sid);
+ H5Sclose(mem_space_id);
+ H5Tclose(mem_type_id);
+ H5Tclose(tid);
+ } H5E_END_TRY;
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBadd_records_from
+ *
+ * Purpose: Add records from first table to second table
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: December 5, 2001
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBadd_records_from( hid_t loc_id,
+ const char *dset_name1,
+ hsize_t start1,
+ hsize_t nrecords,
+ const char *dset_name2,
+ hsize_t start2 )
+{
+
+ /* Identifiers for the 1st dataset. */
+ hid_t dataset_id1;
+ hid_t type_id1;
+ hid_t space_id1=-1;
+ hid_t mem_space_id1=-1;
+ size_t type_size1;
+
+ hsize_t count[1];
+ hsize_t offset[1];
+ hsize_t mem_size[1];
+ hsize_t nfields;
+ hsize_t ntotal_records;
+ unsigned char *tmp_buf;
+ size_t src_size;
+ size_t *src_offset;
+ size_t *src_sizes;
+
+/*-------------------------------------------------------------------------
+ * First we get information about type size and offsets on disk
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name1, &nfields, &ntotal_records ) < 0 )
+ return -1;
+
+ src_offset = (size_t *)malloc((size_t)nfields * sizeof(size_t));
+ src_sizes = (size_t *)malloc((size_t)nfields * sizeof(size_t));
+
+ if ( src_offset == NULL )
+ return -1;
+
+ /* Get field info */
+ if ( H5TBget_field_info( loc_id, dset_name1, NULL, src_sizes, src_offset, &src_size ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Get information about the first table and read it
+ *-------------------------------------------------------------------------
+ */
+
+ /* Open the 1st dataset. */
+ if ( (dataset_id1 = H5Dopen( loc_id, dset_name1 )) < 0 )
+ return -1;
+
+ /* Get the datatype */
+ if ( (type_id1 = H5Dget_type( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the dataspace handle */
+ if ( (space_id1 = H5Dget_space( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the size of the datatype */
+ if ( ( type_size1 = H5Tget_size( type_id1 )) == 0 )
+ goto out;
+
+ tmp_buf = (unsigned char *)calloc((size_t)nrecords, type_size1 );
+
+ /* Define a hyperslab in the dataset of the size of the records */
+ offset[0] = start1;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( space_id1, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id1 = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ if ( H5Dread( dataset_id1, type_id1, mem_space_id1, space_id1, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Add to the second table
+ *-------------------------------------------------------------------------
+ */
+ if ( H5TBinsert_record(loc_id,dset_name2,start2,nrecords,src_size,src_offset,src_sizes,tmp_buf ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Close resources for table 1
+ *-------------------------------------------------------------------------
+ */
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id1 ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( space_id1 ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id1 ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id1 ) < 0 )
+ return -1;
+
+ free( tmp_buf );
+ free( src_offset );
+ free( src_sizes );
+
+return 0;
+
+ /* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(dataset_id1);
+ H5Sclose(space_id1);
+ H5Sclose(mem_space_id1);
+ H5Tclose(type_id1);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBcombine_tables
+ *
+ * Purpose: Combine records from two tables into a third
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: December 10, 2001
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *
+ *-------------------------------------------------------------------------
+ */
+herr_t H5TBcombine_tables( hid_t loc_id1,
+ const char *dset_name1,
+ hid_t loc_id2,
+ const char *dset_name2,
+ const char *dset_name3 )
+{
+
+ /* Identifiers for the 1st dataset. */
+ hid_t dataset_id1;
+ hid_t type_id1;
+ hid_t space_id1;
+ hid_t plist_id1;
+
+ /* Identifiers for the 2nd dataset. */
+ hid_t dataset_id2;
+ hid_t type_id2;
+ hid_t space_id2;
+ hid_t plist_id2;
+
+ /* Identifiers for the 3rd dataset. */
+ hid_t dataset_id3;
+ hid_t type_id3;
+ hid_t space_id3;
+ hid_t plist_id3;
+
+ hsize_t count[1];
+ hsize_t offset[1];
+ hid_t mem_space_id;
+ hsize_t mem_size[1];
+ hsize_t nfields;
+ hsize_t nrecords;
+ hsize_t dims[1];
+ hsize_t maxdims[1] = { H5S_UNLIMITED };
+
+
+ size_t type_size;
+ hid_t sid;
+ hid_t member_type_id;
+ size_t member_offset;
+ char attr_name[255];
+ hid_t attr_id;
+ char aux[255];
+ unsigned char *tmp_buf;
+ unsigned char *tmp_fill_buf;
+ hsize_t i;
+ size_t src_size;
+ size_t *src_offset;
+ size_t *src_sizes;
+ int has_fill=0;
+
+/*-------------------------------------------------------------------------
+ * First we get information about type size and offsets on disk
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id1, dset_name1, &nfields, &nrecords ) < 0 )
+ return -1;
+
+ src_offset = (size_t *)malloc((size_t)nfields * sizeof(size_t));
+ src_sizes = (size_t *)malloc((size_t)nfields * sizeof(size_t));
+
+
+ if ( src_offset == NULL )
+ return -1;
+
+ /* Get field info */
+ if ( H5TBget_field_info( loc_id1, dset_name1, NULL, src_sizes, src_offset, &src_size ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Get information about the first table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Open the 1st dataset. */
+ if ( (dataset_id1 = H5Dopen( loc_id1, dset_name1 )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (type_id1 = H5Dget_type( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the dataspace handle */
+ if ( (space_id1 = H5Dget_space( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get creation properties list */
+ if ( (plist_id1 = H5Dget_create_plist( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the dimensions */
+ if ( H5TBget_table_info ( loc_id1, dset_name1, &nfields, &nrecords ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Make the merged table with no data originally
+ *-------------------------------------------------------------------------
+ */
+
+ /* Clone the property list */
+ if ( ( plist_id3 = H5Pcopy( plist_id1 )) < 0 )
+ goto out;
+
+ /* Clone the type id */
+ if ( ( type_id3 = H5Tcopy( type_id1 )) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Here we do not clone the file space from the 1st dataset, because we want to create
+ * an empty table. Instead we create a new dataspace with zero records and expandable.
+ *-------------------------------------------------------------------------
+ */
+ dims[0] = 0;
+
+/* Create a simple data space with unlimited size */
+ if ( (space_id3 = H5Screate_simple( 1, dims, maxdims )) < 0 )
+ return -1;
+
+ /* Create the dataset */
+ if ( (dataset_id3 = H5Dcreate( loc_id1, dset_name3, type_id3, space_id3, plist_id3 )) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Attach the conforming table attributes
+ *-------------------------------------------------------------------------
+ */
+ if ( H5TB_attach_attributes( "Merge table", loc_id1, dset_name3, nfields, type_id3 ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Get attributes
+ *-------------------------------------------------------------------------
+ */
+
+ type_size = H5Tget_size( type_id3 );
+
+ /* alloc fill value attribute buffer */
+ tmp_fill_buf = (unsigned char *)malloc((size_t) type_size );
+
+ /* Get the fill value attributes */
+ has_fill=H5TBAget_fill( loc_id1, dset_name1, dataset_id1, tmp_fill_buf );
+
+/*-------------------------------------------------------------------------
+ * Attach the fill attributes from previous table
+ *-------------------------------------------------------------------------
+ */
+ if ( has_fill == 1 )
+ {
+
+ if (( sid = H5Screate(H5S_SCALAR)) < 0 )
+ goto out;
+
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id3, (unsigned) i )) < 0 )
+ goto out;
+
+ /* Get the member offset */
+ member_offset = H5Tget_member_offset( type_id3, (unsigned) i );
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int) i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_FILL" );
+ strcat( attr_name, aux );
+
+ if ( (attr_id = H5Acreate( dataset_id3, attr_name, member_type_id, sid, H5P_DEFAULT )) < 0 )
+ goto out;
+
+ if ( H5Awrite( attr_id, member_type_id, tmp_fill_buf+member_offset ) < 0 )
+ goto out;
+
+ if ( H5Aclose( attr_id ) < 0 )
+ goto out;
+
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+ }
+
+ /* Close data space. */
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+ }
+
+/*-------------------------------------------------------------------------
+ * Read data from 1st table
+ *-------------------------------------------------------------------------
+ */
+
+ tmp_buf = (unsigned char *)calloc((size_t) nrecords, type_size );
+
+ /* Define a hyperslab in the dataset of the size of the records */
+ offset[0] = 0;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( space_id1, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ if ( H5Dread( dataset_id1, type_id1, mem_space_id, space_id1, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Save data from 1st table into new table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Append the records to the new table */
+ if ( H5TBappend_records( loc_id1, dset_name3, nrecords, src_size, src_offset, src_sizes, tmp_buf ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Release resources from 1st table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( space_id1 ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id1 ) < 0 )
+ goto out;
+
+ /* Terminate access to a property list */
+ if ( H5Pclose( plist_id1 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id1 ) < 0 )
+ goto out;
+
+ /* Release resources. */
+ free( tmp_buf );
+
+/*-------------------------------------------------------------------------
+ * Get information about the 2nd table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Open the dataset. */
+ if ( (dataset_id2 = H5Dopen( loc_id2, dset_name2 )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (type_id2 = H5Dget_type( dataset_id2 )) < 0 )
+ goto out;
+
+ /* Get the dataspace handle */
+ if ( (space_id2 = H5Dget_space( dataset_id2 )) < 0 )
+ goto out;
+
+ /* Get the property list handle */
+ if ( (plist_id2 = H5Dget_create_plist( dataset_id2 )) < 0 )
+ goto out;
+
+ /* Get the dimensions */
+ if ( H5TBget_table_info ( loc_id2, dset_name2, &nfields, &nrecords ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Read data from 2nd table
+ *-------------------------------------------------------------------------
+ */
+
+ tmp_buf = (unsigned char *)calloc((size_t) nrecords, type_size );
+
+ /* Define a hyperslab in the dataset of the size of the records */
+ offset[0] = 0;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( space_id2, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ if ( H5Dread( dataset_id2, type_id2, mem_space_id, space_id2, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+
+/*-------------------------------------------------------------------------
+ * Save data from 2nd table into new table
+ *-------------------------------------------------------------------------
+ */
+
+ /* append the records to the new table */
+ if ( H5TBappend_records( loc_id1, dset_name3, nrecords, src_size, src_offset, src_sizes, tmp_buf ) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Release resources from 2nd table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id ) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( space_id2 ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id2 ) < 0 )
+ return -1;
+
+ /* Terminate access to a property list */
+ if ( H5Pclose( plist_id2 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id2 ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Release resources from 3rd table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( space_id3 ) < 0 )
+ return -1;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id3 ) < 0 )
+ return -1;
+
+ /* Terminate access to a property list */
+ if ( H5Pclose( plist_id3 ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id3 ) < 0 )
+ return -1;
+
+ /* Release resources. */
+ free( tmp_buf );
+ free( tmp_fill_buf );
+ free( src_offset );
+ free( src_sizes );
+
+return 0;
+
+out:
+ H5Dclose( dataset_id1 );
+ return -1;
+
+}
+
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBinsert_field
+ *
+ * Purpose: Inserts a field
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: January 30, 2002
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBinsert_field( hid_t loc_id,
+ const char *dset_name,
+ const char *field_name,
+ hid_t field_type,
+ hsize_t position,
+ const void *fill_data,
+ const void *data )
+{
+
+ /* Identifiers for the 1st, original dataset */
+ hid_t dataset_id1;
+ hid_t type_id1;
+ hid_t space_id1;
+ hid_t plist_id1;
+ hid_t mem_space_id1;
+
+ /* Identifiers for the 2nd, new dataset */
+ hid_t dataset_id2;
+ hid_t type_id2;
+ hid_t space_id2;
+ hid_t plist_id2;
+ hid_t mem_space_id2;
+
+ hid_t member_type_id;
+ size_t member_size;
+ size_t new_member_size = 0;
+ char *member_name;
+ size_t total_size;
+ hsize_t nfields;
+ hsize_t nrecords;
+ hsize_t dims_chunk[1];
+ hsize_t dims[1];
+ hsize_t maxdims[1] = { H5S_UNLIMITED };
+ hsize_t count[1];
+ hsize_t offset[1];
+ hsize_t mem_size[1];
+ hid_t write_type_id;
+ hid_t PRESERVE;
+ size_t curr_offset;
+ int inserted;
+ hsize_t idx;
+ char table_title[255];
+ size_t member_offset;
+ char attr_name[255];
+ hid_t attr_id;
+ char aux[255];
+ unsigned char *tmp_buf;
+ unsigned char *tmp_fill_buf;
+ hsize_t i;
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &nrecords ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Get information about the old data type
+ *-------------------------------------------------------------------------
+ */
+
+ /* Open the dataset. */
+ if ( (dataset_id1 = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* Get creation properties list */
+ if ( (plist_id1 = H5Dget_create_plist( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (type_id1 = H5Dget_type( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the size of the datatype */
+ if ( ( total_size = H5Tget_size( type_id1 )) == 0 )
+ goto out;
+
+ /* Get the dataspace handle */
+ if ( (space_id1 = H5Dget_space( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get dimension */
+ if ( H5Sget_simple_extent_dims( space_id1, dims, NULL) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Get attributes
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the table title */
+ if ( (H5TBAget_title( dataset_id1, table_title )) < 0 )
+ goto out;
+
+ /* alloc fill value attribute buffer */
+ tmp_fill_buf = (unsigned char *)malloc(total_size );
+
+ /* Get the fill value attributes */
+ if ( (H5TBAget_fill( loc_id, dset_name, dataset_id1, tmp_fill_buf )) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Create a new data type
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the new member size */
+ member_size = H5Tget_size( field_type );
+
+ /* Create the data type. */
+ if (( type_id2 = H5Tcreate (H5T_COMPOUND,(size_t)(total_size + member_size) )) < 0 )
+ goto out;
+
+ curr_offset = 0;
+ inserted = 0;
+
+ /* Insert the old fields, counting with the new one */
+ for ( i = 0; i < nfields + 1; i++)
+ {
+
+ idx = i;
+ if ( inserted )
+ idx = i - 1;
+
+ if ( i == position )
+ {
+
+ /* Get the new member size */
+ new_member_size = H5Tget_size( field_type );
+
+ /* Insert the new field type */
+ if ( H5Tinsert( type_id2, field_name, curr_offset, field_type ) < 0 )
+ goto out;
+
+ curr_offset += new_member_size;
+
+ inserted = 1;
+
+ continue;
+
+ }
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( type_id1, (unsigned)idx );
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id1,(unsigned)idx )) < 0 )
+ goto out;
+
+ /* Get the member size */
+ member_size = H5Tget_size( member_type_id );
+
+ /* Insert it into the new type */
+ if ( H5Tinsert( type_id2, member_name, curr_offset, member_type_id ) < 0 )
+ goto out;
+
+ curr_offset += member_size;
+
+ free( member_name );
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+
+
+ } /* i */
+
+/*-------------------------------------------------------------------------
+ * Create a new temporary dataset
+ *-------------------------------------------------------------------------
+ */
+
+ /* Retrieve the size of chunk */
+ if ( H5Pget_chunk( plist_id1, 1, dims_chunk ) < 0 )
+ goto out;
+
+ /* Create a new simple data space with unlimited size, using the dimension */
+ if ( ( space_id2 = H5Screate_simple( 1, dims, maxdims )) < 0 )
+ return -1;
+
+ /* Modify dataset creation properties, i.e. enable chunking */
+ plist_id2 = H5Pcreate (H5P_DATASET_CREATE);
+ if ( H5Pset_chunk ( plist_id2, 1, dims_chunk ) < 0 )
+ return -1;
+
+ /* Create the dataset. */
+ if ( ( dataset_id2 = H5Dcreate( loc_id, "new", type_id2, space_id2, plist_id2 )) < 0 )
+ goto out;
+
+
+/*-------------------------------------------------------------------------
+ * Read data from 1st table
+ *-------------------------------------------------------------------------
+ */
+
+ tmp_buf = (unsigned char *)calloc((size_t) nrecords, (size_t)total_size );
+
+ /* Define a hyperslab in the dataset of the size of the records */
+ offset[0] = 0;
+ count[0] = nrecords;
+ if ( H5Sselect_hyperslab( space_id1, H5S_SELECT_SET, offset, NULL, count, NULL) < 0 )
+ goto out;
+
+ /* Create a memory dataspace handle */
+ mem_size[0] = count[0];
+ if ( (mem_space_id1 = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ if ( H5Dread( dataset_id1, type_id1, mem_space_id1, H5S_ALL, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+
+/*-------------------------------------------------------------------------
+ * Save data from 1st table into new table, using the 1st type id
+ *-------------------------------------------------------------------------
+ */
+
+ /* Write */
+ if ( H5Dwrite( dataset_id2, type_id1, mem_space_id1, H5S_ALL, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+
+/*-------------------------------------------------------------------------
+ * Save the function supplied data of the new field
+ *-------------------------------------------------------------------------
+ */
+
+
+ /* Create a write id */
+ if ( ( write_type_id = H5Tcreate( H5T_COMPOUND, (size_t)new_member_size )) < 0 )
+ goto out;
+
+ /* The field in the file is found by its name */
+ if ( H5Tinsert( write_type_id, field_name, 0, field_type ) < 0 )
+ goto out;
+
+ /* Create xfer properties to preserve initialized data */
+ if ((PRESERVE = H5Pcreate (H5P_DATASET_XFER))<0)
+ goto out;
+ if (H5Pset_preserve (PRESERVE, 1)<0)
+ goto out;
+
+ /* Only write if there is something to write */
+ if ( data )
+ {
+
+ /* Create a memory dataspace handle */
+ if ( (mem_space_id2 = H5Screate_simple( 1, mem_size, NULL )) < 0 )
+ goto out;
+
+ /* Write */
+ if ( H5Dwrite( dataset_id2, write_type_id, mem_space_id2, space_id2, PRESERVE, data ) < 0 )
+ goto out;
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id2 ) < 0 )
+ goto out;
+ }
+
+ /* End access to the property list */
+ if ( H5Pclose( PRESERVE ) < 0 )
+ goto out;
+
+
+
+/*-------------------------------------------------------------------------
+ * Release resources from 1st table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Terminate access to the memory dataspace */
+ if ( H5Sclose( mem_space_id1 ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id1 ) < 0 )
+ goto out;
+
+ /* Terminate access to a property list */
+ if ( H5Pclose( plist_id1 ) < 0 )
+ goto out;
+
+ /* Terminate access to the data space */
+ if ( H5Sclose( space_id1 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id1 ) < 0 )
+ goto out;
+
+
+/*-------------------------------------------------------------------------
+ * Release resources from 2nd table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( space_id2 ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id2 ) < 0 )
+ return -1;
+
+ /* Terminate access to a property list */
+ if ( H5Pclose( plist_id2 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id2 ) < 0 )
+ return -1;
+/*-------------------------------------------------------------------------
+ * Delete 1st table
+ *-------------------------------------------------------------------------
+ */
+ if ( H5Gunlink( loc_id, dset_name ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Rename 2nd table
+ *-------------------------------------------------------------------------
+ */
+
+ if ( H5Gmove( loc_id, "new", dset_name ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Attach the conforming table attributes
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &nrecords ) < 0 )
+ return -1;
+
+ /* Open the dataset. */
+ if ( (dataset_id1 = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* Get the datatype */
+ if ( (type_id1 = H5Dget_type( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Set the attributes */
+ if ( H5TB_attach_attributes( table_title, loc_id, dset_name,(hsize_t) nfields, type_id1 ) < 0 )
+ return -1;
+/*-------------------------------------------------------------------------
+ * Attach the fill attributes from previous table
+ *-------------------------------------------------------------------------
+ */
+
+ if (( space_id1 = H5Screate(H5S_SCALAR)) < 0 )
+ goto out;
+
+ for ( i = 0; i < nfields-1; i++)
+ {
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id1, (unsigned) i )) < 0 )
+ goto out;
+
+ /* Get the member offset */
+ member_offset = H5Tget_member_offset( type_id1, (unsigned) i );
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int)i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_FILL" );
+ strcat( attr_name, aux );
+
+ if ( (attr_id = H5Acreate( dataset_id1, attr_name, member_type_id, space_id1, H5P_DEFAULT )) < 0 )
+ goto out;
+
+ if ( H5Awrite( attr_id, member_type_id, tmp_fill_buf+member_offset ) < 0 )
+ goto out;
+
+ if ( H5Aclose( attr_id ) < 0 )
+ goto out;
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+ }
+
+/*-------------------------------------------------------------------------
+ * Attach the fill attribute from the new field, if present
+ *-------------------------------------------------------------------------
+ */
+ if ( fill_data )
+ {
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d",(int)( nfields-1) );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_FILL" );
+ strcat( attr_name, aux );
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id1, (unsigned)nfields-1 )) < 0 )
+ goto out;
+
+ if ( (attr_id = H5Acreate( dataset_id1, attr_name, member_type_id, space_id1, H5P_DEFAULT )) < 0 )
+ goto out;
+
+ if ( H5Awrite( attr_id, member_type_id, fill_data ) < 0 )
+ goto out;
+
+ if ( H5Aclose( attr_id ) < 0 )
+ goto out;
+
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+
+ }
+
+ /* Close data space. */
+ if ( H5Sclose( space_id1 ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id1 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id1 ) < 0 )
+ goto out;
+
+ /* Release resources. */
+ free ( tmp_buf );
+ free ( tmp_fill_buf );
+
+
+return 0;
+
+out:
+ H5Dclose( dataset_id1 );
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBdelete_field
+ *
+ * Purpose: Deletes a field
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: January 30, 2002
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBdelete_field( hid_t loc_id,
+ const char *dset_name,
+ const char *field_name )
+{
+
+ /* Identifiers for the 1st original dataset */
+ hid_t dataset_id1;
+ hid_t type_id1;
+ hid_t space_id1;
+ hid_t plist_id1;
+
+ /* Identifiers for the 2nd new dataset */
+ hid_t dataset_id2;
+ hid_t type_id2;
+ hid_t space_id2;
+ hid_t plist_id2;
+
+ hid_t member_type_id;
+ size_t member_size;
+ char *member_name;
+ size_t type_size1;
+ size_t type_size2;
+ hsize_t nfields;
+ hsize_t nrecords;
+ hsize_t dims_chunk[1];
+ hsize_t dims[1];
+ hsize_t maxdims[1] = { H5S_UNLIMITED };
+ hid_t PRESERVE;
+ size_t curr_offset;
+ size_t delete_member_size = 0;
+ hid_t read_type_id;
+ hid_t write_type_id;
+ unsigned char *tmp_buf;
+ unsigned char *tmp_fill_buf;
+ char attr_name[255];
+ char aux[255];
+ char table_title[255];
+ size_t member_offset;
+ hid_t attr_id;
+ hsize_t i;
+ int has_fill=0;
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &nrecords ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Get information about the old data type
+ *-------------------------------------------------------------------------
+ */
+
+ /* Open the dataset. */
+ if ( (dataset_id1 = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* Get creation properties list */
+ if ( (plist_id1 = H5Dget_create_plist( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( (type_id1 = H5Dget_type( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get the size of the datatype */
+ type_size1 = H5Tget_size( type_id1 );
+
+ /* Get the dataspace handle */
+ if ( (space_id1 = H5Dget_space( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Get dimension */
+ if ( H5Sget_simple_extent_dims( space_id1, dims, NULL) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Create a new data type; first we find the size of the datatype to delete
+ *-------------------------------------------------------------------------
+ */
+
+ /* Check out the field */
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( type_id1,(unsigned) i );
+
+ /* We want to find the field to delete */
+ if ( H5TB_find_field( member_name, field_name ) > 0 )
+ {
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id1,(unsigned) i )) < 0 )
+ goto out;
+
+ /* Get the member size */
+ delete_member_size = H5Tget_size( member_type_id );
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+
+ free( member_name );
+
+ break;
+
+ }
+
+ free( member_name );
+
+ } /* i */
+
+ /* No field to delete was found */
+ if ( delete_member_size == 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * Create a new data type; we now insert all the fields into the new type
+ *-------------------------------------------------------------------------
+ */
+
+ type_size2 = type_size1 - delete_member_size;
+
+ /* Create the data type. */
+ if (( type_id2 = H5Tcreate (H5T_COMPOUND, type_size2 )) < 0 )
+ goto out;
+
+ curr_offset = 0;
+
+ /* alloc fill value attribute buffer */
+ tmp_fill_buf = (unsigned char *)malloc((size_t) type_size2 );
+
+/*-------------------------------------------------------------------------
+ * Get attributes from previous table in the process
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the table title */
+ if ( (H5TBAget_title( dataset_id1, table_title )) < 0 )
+ goto out;
+
+ /* Insert the old fields except the one to delete */
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( type_id1, (unsigned) i );
+
+ /* We want to skip the field to delete */
+ if ( H5TB_find_field( member_name, field_name ) > 0 )
+ {
+ free( member_name );
+ continue;
+ }
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id1, (unsigned)i )) < 0 )
+ goto out;
+
+ /* Get the member size */
+ member_size = H5Tget_size( member_type_id );
+
+ /* Insert it into the new type */
+ if ( H5Tinsert( type_id2, member_name, curr_offset, member_type_id ) < 0 )
+ goto out;
+
+ /*-------------------------------------------------------------------------
+ * Get the fill value information
+ *-------------------------------------------------------------------------
+ */
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int)i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_FILL" );
+ strcat( attr_name, aux );
+
+ /* Check if we have the _FILL attribute */
+ has_fill = H5LT_find_attribute( dataset_id1, attr_name );
+
+ /* Get it */
+ if ( has_fill == 1 )
+ {
+ if ( H5LT_get_attribute_disk( dataset_id1, attr_name, tmp_fill_buf+curr_offset ) < 0 )
+ goto out;
+ }
+
+ curr_offset += member_size;
+
+ free( member_name );
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+
+ } /* i */
+
+/*-------------------------------------------------------------------------
+ * Create a new temporary dataset
+ *-------------------------------------------------------------------------
+ */
+
+ /* Retrieve the size of chunk */
+ if ( H5Pget_chunk( plist_id1, 1, dims_chunk ) < 0 )
+ goto out;
+
+ /* Create a new simple data space with unlimited size, using the dimension */
+ if ( ( space_id2 = H5Screate_simple( 1, dims, maxdims )) < 0 )
+ return -1;
+
+ /* Modify dataset creation properties, i.e. enable chunking */
+ plist_id2 = H5Pcreate (H5P_DATASET_CREATE);
+ if ( H5Pset_chunk ( plist_id2, 1, dims_chunk ) < 0 )
+ return -1;
+
+ /* Create the dataset. */
+ if ( ( dataset_id2 = H5Dcreate( loc_id, "new", type_id2, space_id2, plist_id2 )) < 0 )
+ goto out;
+
+/*-------------------------------------------------------------------------
+ * We have to read field by field of the old dataset and save it into the new one
+ *-------------------------------------------------------------------------
+ */
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( type_id1,(unsigned) i );
+
+ /* Skip the field to delete */
+ if ( H5TB_find_field( member_name, field_name ) > 0 )
+ {
+ free( member_name );
+ continue;
+ }
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id1, (unsigned)i )) < 0 )
+ goto out;
+
+ /* Get the member size */
+ member_size = H5Tget_size( member_type_id );
+
+ /* Create a read id */
+ if ( ( read_type_id = H5Tcreate( H5T_COMPOUND, member_size )) < 0 )
+ goto out;
+
+ /* Insert it into the new type */
+ if ( H5Tinsert( read_type_id, member_name, 0, member_type_id ) < 0 )
+ goto out;
+
+ tmp_buf = (unsigned char *)calloc((size_t) nrecords, member_size );
+
+ /* Read */
+ if ( H5Dread( dataset_id1, read_type_id, H5S_ALL, H5S_ALL, H5P_DEFAULT, tmp_buf ) < 0 )
+ goto out;
+
+ /* Create a write id */
+ if ( ( write_type_id = H5Tcreate( H5T_COMPOUND, member_size )) < 0 )
+ goto out;
+
+ /* The field in the file is found by its name */
+ if ( H5Tinsert( write_type_id, member_name, 0, member_type_id ) < 0 )
+ goto out;
+
+ /* Create xfer properties to preserve initialized data */
+ if ((PRESERVE = H5Pcreate (H5P_DATASET_XFER))<0)
+ goto out;
+ if (H5Pset_preserve (PRESERVE, 1)<0)
+ goto out;
+
+ /* Write */
+ if ( H5Dwrite( dataset_id2, write_type_id, H5S_ALL, H5S_ALL, PRESERVE, tmp_buf ) < 0 )
+ goto out;
+
+ /* End access to the property list */
+ if ( H5Pclose( PRESERVE ) < 0 )
+ goto out;
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+
+ /* Close the read type */
+ if ( H5Tclose( read_type_id ) < 0 )
+ goto out;
+
+ /* Close the write type */
+ if ( H5Tclose( write_type_id ) < 0 )
+ goto out;
+
+ /* Release resources. */
+ free( member_name );
+ free ( tmp_buf );
+
+ } /* i */
+
+/*-------------------------------------------------------------------------
+ * Release resources from 1st table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id1 ) < 0 )
+ goto out;
+
+ /* Terminate access to a property list */
+ if ( H5Pclose( plist_id1 ) < 0 )
+ goto out;
+
+ /* Terminate access to the data space */
+ if ( H5Sclose( space_id1 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id1 ) < 0 )
+ goto out;
+
+
+/*-------------------------------------------------------------------------
+ * Release resources from 2nd table
+ *-------------------------------------------------------------------------
+ */
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( space_id2 ) < 0 )
+ goto out;
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id2 ) < 0 )
+ return -1;
+
+ /* Terminate access to a property list */
+ if ( H5Pclose( plist_id2 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id2 ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Delete 1st table
+ *-------------------------------------------------------------------------
+ */
+
+ if ( H5Gunlink( loc_id, dset_name ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Rename 2nd table
+ *-------------------------------------------------------------------------
+ */
+
+ if ( H5Gmove( loc_id, "new", dset_name ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Attach the conforming table attributes
+ *-------------------------------------------------------------------------
+ */
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &nrecords ) < 0 )
+ return -1;
+
+ /* Open the dataset. */
+ if ( (dataset_id1 = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* Get the datatype */
+ if ( (type_id1 = H5Dget_type( dataset_id1 )) < 0 )
+ goto out;
+
+ /* Set the attributes */
+ if ( H5TB_attach_attributes( table_title, loc_id, dset_name, nfields, type_id1 ) < 0 )
+ return -1;
+
+/*-------------------------------------------------------------------------
+ * Attach the fill attributes from previous table
+ *-------------------------------------------------------------------------
+ */
+
+ if ( has_fill == 1 )
+ {
+
+ if (( space_id1 = H5Screate(H5S_SCALAR)) < 0 )
+ goto out;
+
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( type_id1, (unsigned)i )) < 0 )
+ goto out;
+
+ /* Get the member offset */
+ member_offset = H5Tget_member_offset( type_id1, (unsigned)i );
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int)i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_FILL" );
+ strcat( attr_name, aux );
+
+ if ( (attr_id = H5Acreate( dataset_id1, attr_name, member_type_id, space_id1, H5P_DEFAULT )) < 0 )
+ goto out;
+
+ if ( H5Awrite( attr_id, member_type_id, tmp_fill_buf+member_offset ) < 0 )
+ goto out;
+
+ if ( H5Aclose( attr_id ) < 0 )
+ goto out;
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+
+ }
+
+ /* Close data space. */
+ if ( H5Sclose( space_id1 ) < 0 )
+ goto out;
+
+ } /*has_fill*/
+
+ /* Release the datatype. */
+ if ( H5Tclose( type_id1 ) < 0 )
+ goto out;
+
+ /* End access to the dataset */
+ if ( H5Dclose( dataset_id1 ) < 0 )
+ goto out;
+
+ /* Release resources. */
+ free ( tmp_fill_buf );
+
+return 0;
+
+out:
+ H5Dclose( dataset_id1 );
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ *
+ * Table attribute functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBAget_title
+ *
+ * Purpose: Read the table title
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: January 30, 2001
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBAget_title( hid_t loc_id,
+ char *table_title )
+{
+
+ /* Get the TITLE attribute */
+ if ( H5LT_get_attribute_disk( loc_id, "TITLE", table_title ) < 0 )
+ return -1;
+
+
+ return 0;
+
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBAget_fill
+ *
+ * Purpose: Read the table attribute fill values
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: January 30, 2002
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TBAget_fill( hid_t loc_id,
+ const char *dset_name,
+ hid_t dset_id,
+ unsigned char *dst_buf )
+{
+
+ hsize_t nfields;
+ hsize_t nrecords;
+ char attr_name[255];
+ char aux[255];
+ hsize_t i;
+ size_t *src_offset;
+ int has_fill=0;
+
+ /* Get the number of records and fields */
+ if ( H5TBget_table_info ( loc_id, dset_name, &nfields, &nrecords ) < 0 )
+ return -1;
+
+ src_offset = (size_t *)malloc((size_t)nfields * sizeof(size_t));
+
+ if (src_offset == NULL )
+ return -1;
+
+ /* Get field info */
+ if ( H5TBget_field_info( loc_id, dset_name, NULL, NULL, src_offset, NULL ) < 0 )
+ goto out;
+
+ for ( i = 0; i < nfields; i++)
+ {
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int)i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_FILL" );
+ strcat( attr_name, aux );
+
+ /* Check if we have the _FILL attribute */
+ has_fill = H5LT_find_attribute( dset_id, attr_name );
+
+ /* Get it */
+ if ( has_fill == 1 )
+ {
+ if ( H5LT_get_attribute_disk( dset_id, attr_name, dst_buf+src_offset[i] ) < 0 )
+ goto out;
+ }
+
+ }
+
+ free( src_offset );
+
+ return has_fill;
+
+out:
+ free( src_offset );
+ return -1;
+
+}
+
+
+/*-------------------------------------------------------------------------
+ *
+ * Inquiry functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBget_table_info
+ *
+ * Purpose: Gets the number of records and fields of a table
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 19, 2001
+ *
+ * Comments:
+ *
+ * Modifications: May 08, 2003
+ * In version 2.0 of Table, the number of records is stored as an
+ * attribute "NROWS"
+ *
+ *
+ *-------------------------------------------------------------------------
+ */
+
+herr_t H5TBget_table_info ( hid_t loc_id,
+ const char *dset_name,
+ hsize_t *nfields,
+ hsize_t *nrecords )
+{
+ hid_t tid;
+ hid_t sid=-1;
+ hid_t did;
+ int num_members;
+ hsize_t dims[1];
+ int has_attr;
+ hsize_t n[1];
+
+ /* Open the dataset. */
+ if ( (did = H5Dopen( loc_id, dset_name )) < 0 )
+ return -1;
+
+ /* Get the datatype */
+ if ( (tid = H5Dget_type( did )) < 0 )
+ goto out;
+
+ /* Get the number of members */
+ if ( (num_members = H5Tget_nmembers( tid )) < 0 )
+ goto out;
+
+ if (nfields)
+ *nfields = num_members;
+
+
+/*-------------------------------------------------------------------------
+ * Get number of records
+ *-------------------------------------------------------------------------
+ */
+
+ if (nrecords)
+ {
+ /* Try to find the attribute "NROWS" */
+ has_attr = H5LT_find_attribute( did, "NROWS" );
+
+ /* It exists, get it */
+ if ( has_attr == 1 )
+ {
+ /* Get the attribute */
+ if ( H5LTget_attribute(loc_id,dset_name,"NROWS",H5T_NATIVE_LLONG,n)<0)
+ return -1;
+
+ *nrecords = *n;
+ }
+ else
+ {
+ /* Get the dataspace handle */
+ if ( (sid = H5Dget_space( did )) < 0 )
+ goto out;
+
+ /* Get records */
+ if ( H5Sget_simple_extent_dims( sid, dims, NULL) < 0 )
+ goto out;
+
+ /* Terminate access to the dataspace */
+ if ( H5Sclose( sid ) < 0 )
+ goto out;
+
+ *nrecords = dims[0];
+ }
+ }/*nrecords*/
+
+ /* close */
+ if ( H5Tclose( tid ) < 0 )
+ goto out;
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+return 0;
+
+/* error zone, gracefully close */
+out:
+ H5E_BEGIN_TRY {
+ H5Dclose(did);
+ H5Sclose(sid);
+ H5Tclose(tid);
+ } H5E_END_TRY;
+ return -1;
+
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TBget_field_info
+ *
+ * Purpose: Get information about fields
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 19, 2001
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *
+ *-------------------------------------------------------------------------
+ */
+herr_t H5TBget_field_info( hid_t loc_id,
+ const char *dset_name,
+ char *field_names[],
+ size_t *field_sizes,
+ size_t *field_offsets,
+ size_t *type_size )
+{
+ hid_t did;
+ hid_t ftype_id;
+ hid_t native_type_id;
+ hssize_t nfields;
+ char *member_name;
+ hid_t member_type_id;
+ hid_t nativem_type_id;
+ size_t member_size;
+ size_t member_offset;
+ size_t size;
+ hssize_t i;
+
+ /* Open the dataset. */
+ if ( ( did = H5Dopen( loc_id, dset_name )) < 0 )
+ goto out;
+
+ /* Get the datatype */
+ if ( ( ftype_id = H5Dget_type( did )) < 0 )
+ goto out;
+
+ if ((native_type_id = H5Tget_native_type(ftype_id,H5T_DIR_DEFAULT))<0)
+ goto out;
+
+ /* Get the type size */
+ size = H5Tget_size( native_type_id );
+
+ if ( type_size )
+ *type_size = size;
+
+ /* Get the number of members */
+ if ( ( nfields = H5Tget_nmembers( ftype_id )) < 0 )
+ goto out;
+
+ /* Iterate tru the members */
+ for ( i = 0; i < nfields; i++)
+ {
+ /* Get the member name */
+ member_name = H5Tget_member_name( ftype_id, (unsigned)i );
+
+ if ( field_names )
+ strcpy( field_names[i], member_name );
+
+ /* Get the member type */
+ if ( ( member_type_id = H5Tget_member_type( ftype_id,(unsigned) i )) < 0 )
+ goto out;
+ if ((nativem_type_id = H5Tget_native_type(member_type_id,H5T_DIR_DEFAULT))<0)
+ goto out;
+
+ /* Get the member size */
+ member_size = H5Tget_size( nativem_type_id );
+
+ if ( field_sizes )
+ field_sizes[i] = member_size;
+
+ /* Get the member offset */
+ member_offset = H5Tget_member_offset( native_type_id,(unsigned) i );
+
+ if ( field_offsets )
+ field_offsets[i] = member_offset;
+
+ /* Close the member type */
+ if ( H5Tclose( member_type_id ) < 0 )
+ goto out;
+ if ( H5Tclose( nativem_type_id ) < 0 )
+ goto out;
+
+ free( member_name );
+
+ } /* i */
+
+ /* Release the datatype. */
+ if ( H5Tclose( ftype_id ) < 0 )
+ return -1;
+ if ( H5Tclose( native_type_id ) < 0 )
+ return -1;
+
+ /* End access to the dataset */
+ if ( H5Dclose( did ) < 0 )
+ return -1;
+
+return 0;
+
+out:
+ H5Dclose( did );
+ return -1;
+
+}
+
+/*-------------------------------------------------------------------------
+ *
+ * Private functions
+ *
+ *-------------------------------------------------------------------------
+ */
+
+/*-------------------------------------------------------------------------
+ * Function: H5TB_find_field
+ *
+ * Purpose: Find a string field
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: November 19, 2001
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+int H5TB_find_field( const char *field, const char *field_list )
+{
+ const char *start = field_list;
+ const char *end;
+
+ while ( (end = strstr( start, "," )) != 0 ) {
+ if ( strncmp(start,field,(size_t)(end-start)) == 0 ) return 1;
+ start = end + 1;
+ }
+
+ if ( strcmp( start, field ) == 0 ) return 1;
+
+ return -1;
+
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function: H5TB_attach_attributes
+ *
+ * Purpose: Private function that creates the conforming table attributes;
+ * Used by H5TBcombine_tables; not used by H5TBmake_table, which does not read
+ * the fill value attributes from an existing table
+ *
+ * Return: Success: 0, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: December 6, 2001
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+
+herr_t H5TB_attach_attributes( const char *table_title,
+ hid_t loc_id,
+ const char *dset_name,
+ hsize_t nfields,
+ hid_t tid )
+{
+
+ char attr_name[255];
+ char *member_name;
+ char aux[255];
+ hsize_t i;
+
+ /* Attach the CLASS attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, "CLASS", "TABLE" ) < 0 )
+ goto out;
+
+ /* Attach the VERSION attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, "VERSION", "2.0" ) < 0 )
+ goto out;
+
+ /* Attach the TITLE attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, "TITLE", table_title ) < 0 )
+ goto out;
+
+ /* Attach the FIELD_ name attribute */
+ for ( i = 0; i < nfields; i++)
+ {
+
+ /* Get the member name */
+ member_name = H5Tget_member_name( tid, (unsigned)i );
+
+ strcpy( attr_name, "FIELD_" );
+ sprintf( aux, "%d", (int)i );
+ strcat( attr_name, aux );
+ sprintf( aux, "%s", "_NAME" );
+ strcat( attr_name, aux );
+
+ /* Attach the attribute */
+ if ( H5LTset_attribute_string( loc_id, dset_name, attr_name, member_name ) < 0 )
+ goto out;
+
+ free( member_name );
+
+ }
+
+ return 0;
+
+out:
+ return -1;
+
+}
+
+/*-------------------------------------------------------------------------
+ * Function: H5TB_create_type
+ *
+ * Purpose: Private function that creates a memory type ID
+ *
+ * Return: Success: the memory type ID, Failure: -1
+ *
+ * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu
+ *
+ * Date: March 31, 2004
+ *
+ * Comments:
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+
+hid_t H5TB_create_type(hid_t loc_id,
+ const char *dset_name,
+ size_t dst_size,
+ const size_t *dst_offset,
+ const size_t *dst_sizes,
+ hid_t ftype_id)
+{
+ hid_t mem_type_id;
+ hid_t mtype_id=-1;
+ hid_t nmtype_id=-1;
+ size_t size_native;
+ hsize_t nfields;
+ char **fnames;
+ unsigned i;
+
+ /* get the number of fields */
+ if (H5TBget_table_info(loc_id,dset_name,&nfields,NULL)<0)
+ return -1;
+
+ if ((fnames=malloc(sizeof(char*)*(size_t)nfields))==NULL)
+ return -1;
+
+ for ( i=0; i<nfields; i++)
+ {
+ if ((fnames[i]=malloc(sizeof(char)*HLTB_MAX_FIELD_LEN))==NULL) {
+ free(fnames);
+ return -1;
+ }
+ }
+
+ /* get field info */
+ if ( H5TBget_field_info(loc_id,dset_name,fnames,NULL,NULL,NULL)<0)
+ goto out;
+
+ /* create the memory data type */
+ if ((mem_type_id=H5Tcreate(H5T_COMPOUND,dst_size))<0)
+ goto out;
+
+ /* get each field ID and adjust its size, if necessary */
+ for ( i=0; i<nfields; i++)
+ {
+ if ((mtype_id=H5Tget_member_type(ftype_id,i))<0)
+ goto out;
+ if ((nmtype_id=H5Tget_native_type(mtype_id,H5T_DIR_DEFAULT))<0)
+ goto out;
+ size_native=H5Tget_size(nmtype_id);
+ if (dst_sizes[i]!=size_native)
+ {
+ if (H5Tset_size(nmtype_id,dst_sizes[i])<0)
+ goto out;
+ }
+ if (H5Tinsert(mem_type_id,fnames[i],dst_offset[i],nmtype_id) < 0 )
+ goto out;
+ if (H5Tclose(mtype_id)<0)
+ goto out;
+ if (H5Tclose(nmtype_id)<0)
+ goto out;
+ }
+
+ for ( i=0; i<nfields; i++)
+ {
+ free (fnames[i]);
+ }
+ free (fnames);
+
+ return mem_type_id;
+
+ /* error zone, gracefully close and free */
+out:
+ H5E_BEGIN_TRY {
+ H5Tclose(mtype_id);
+ H5Tclose(nmtype_id);
+ } H5E_END_TRY;
+ for ( i=0; i<nfields; i++)
+ {
+ if (fnames[i])
+ free (fnames[i]);
+ }
+ if (fnames)
+ free (fnames);
+ return -1;
+
+}
+