NOTE: The netcdf-hdf mailing list is no longer active. The list archives are made available for historical reasons.
Howdy HDF5 folk!
Using a recent version of HDF5 from cvs, I encountered the following
output from h5dump:
HDF5 "tst_h_vl.h5" {
GROUP "/" {
GROUP "grp1" {
DATASET "sea_sounding_dataset" {
DATATYPE "/grp1/sea_sounding_type"
DATASPACE SIMPLE { ( 3 ) / ( 3 ) }
DATA {
h5dump error: unable to print data
}
}
DATATYPE "sea_sounding_type" H5T_COMPOUND {
H5T_STD_I32LE "sounding_no";
H5T_VLEN { H5T_IEEE_F32LE} "temp_vl";
}
}
}
}
The program that produces the file is here (note that it is the second
file produced which created the file that h5dump can't handle:
/* This is part of the netCDF package. Copyright 2005 University
Corporation for Atmospheric Research/Unidata See COPYRIGHT file for
conditions of use.
This program excersizes HDF5 variable length array code.
$Id: tst_h_vl.c,v 1.3 2005/08/11 15:39:57 ed Exp $
*/
#include "tests.h"
#define FILE_NAME "tst_h_vl.h5"
#define DIM1_LEN 3
#define ATT_NAME "att_name"
int
main()
{
hid_t fileid, grpid, spaceid, typeid, attid;
hsize_t dims[1] = {DIM1_LEN};
hvl_t data[DIM1_LEN];
int *phoney;
int i, j;
size_t size;
/* Create some phoney data, an array of struct s1, which holds a
* pointer to a variable length array of int. */
for (i=0; i<DIM1_LEN; i++)
{
if (!(phoney = malloc(sizeof(int) * i+1)))
return NC_ENOMEM;
for (j=0; j<i+1; j++)
phoney[j] = -99;
data[i].p = phoney;
data[i].len = i+1;
}
printf("*** Checking simple HDF5 variable length types...");
/* Open file. */
if ((fileid = H5Fcreate(FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT,
H5P_DEFAULT)) < 0) ERR;
if ((grpid = H5Gcreate(fileid, "grp1", 0)) < 0) ERR;
/* Create VLEN type. */
if ((typeid = H5Tvlen_create(H5T_NATIVE_INT)) < 0) ERR;
/* Although it's a vlen of ints, the size is rouned up to 8. */
if (!(size = H5Tget_size(typeid))) ERR;
if (size < 8) ERR;
/* Write an attribute of this vlen type. */
if ((spaceid = H5Screate_simple(1, dims, NULL)) < 0) ERR;
if ((attid = H5Acreate(grpid, ATT_NAME, typeid, spaceid,
H5P_DEFAULT)) < 0) ERR;
if (H5Awrite(attid, typeid, data) < 0) ERR;
if (H5Aclose(attid) < 0) ERR;
if (H5Tclose(typeid) < 0) ERR;
if (H5Gclose(grpid) < 0) ERR;
if (H5Fclose(fileid) < 0) ERR;
SUMMARIZE_ERR;
printf("*** Checking array of compound holding a vlen...");
{
hid_t vlen_typeid, compound_typeid, spaceid, datasetid;
struct sea_sounding
{
int sounding_no;
hvl_t temp_vl;
} data[DIM1_LEN];
float *phoney;
int i, j;
/* Create phoney data. */
for (i=0; i<DIM1_LEN; i++)
{
if (!(phoney = malloc(sizeof(float) * i+1)))
return NC_ENOMEM;
for (j=0; j<i+1; j++)
phoney[j] = 23.5 - j;
data[i].temp_vl.p = phoney;
data[i].temp_vl.len = i+1;
}
/* Create file. */
if ((fileid = H5Fcreate(FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT,
H5P_DEFAULT)) < 0) ERR;
if ((grpid = H5Gcreate(fileid, "grp1", 0)) < 0) ERR;
/* Create VLEN type. */
if ((vlen_typeid = H5Tvlen_create(H5T_NATIVE_FLOAT)) < 0) ERR;
/* Create a compound type that holds the vlen type. */
if ((compound_typeid = H5Tcreate(H5T_COMPOUND,
sizeof(struct sea_sounding))) < 0) ERR;
if (H5Tinsert(compound_typeid, "sounding_no", HOFFSET(struct
sea_sounding, sounding_no),
H5T_NATIVE_INT) < 0) ERR;
if (H5Tinsert(compound_typeid, "temp_vl", HOFFSET(struct sea_sounding,
temp_vl),
vlen_typeid) < 0) ERR;
if (H5Tcommit(grpid, "sea_sounding_type", compound_typeid) < 0) ERR;
if ((spaceid = H5Screate_simple(1, dims, NULL)) < 0) ERR;
if ((datasetid = H5Dcreate(grpid, "sea_sounding_dataset",
compound_typeid,
spaceid, H5P_DEFAULT)) < 0) ERR;
if (H5Dwrite(datasetid, compound_typeid, H5S_ALL, H5S_ALL, H5P_DEFAULT,
data) < 0) ERR;
if (H5Dclose(datasetid) < 0) ERR;
if (H5Tclose(compound_typeid) < 0) ERR;
if (H5Tclose(vlen_typeid) < 0) ERR;
if (H5Sclose(spaceid) < 0) ERR;
if (H5Gclose(grpid) < 0) ERR;
if (H5Fclose(fileid) < 0) ERR;
}
SUMMARIZE_ERR;
/* Print out our number of errors, if any, and exit badly. */
if (total_err)
{
printf("%d errors detected! Sorry!\n", total_err);
return 2;
}
printf("*** Tests successful!\n");
return 0;
}
--
Ed Hartnett -- ed@xxxxxxxxxxxxxxxx
netcdf-hdf archives: