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HDF5 version 1.6.3-snap2 released on Sun Aug 1 20:59:31 CDT 2004
================================================================================
INTRODUCTION
This document describes the differences between HDF5-1.6.2 and
HDF5-1.6.2-*, and contains information on the platforms tested and
known problems in HDF5-1.6.2-*. For more details check the HISTORY.txt
file in the HDF5 source.
The HDF5 documentation can be found on the NCSA ftp server
(ftp.ncsa.uiuc.edu) in the directory:
/HDF/HDF5/docs/
For more information look at the HDF5 home page at:
http://hdf.ncsa.uiuc.edu/HDF5/
If you have any questions or comments, please send them to:
hdfhelp@ncsa.uiuc.edu
CONTENTS
- New Features
- Support for new platforms and languages
- Bug Fixes since HDF5-1.6.2
- Documentation
- Platforms Tested
- Supported Configuration Features Summary
- Known Problems
New Features
============
Configuration:
--------------
- Added some initial support for making purify (or similar memory
checking products) happier by initializing buffers to zero and
disabling the internal free list code. To take advantage of this,
define 'H5_USING_PURIFY' in your CFLAGS when building the library.
QAK - 2004/07/23
Library:
--------
- Modified the way how HDF5 calculates 'pixels_per_scanline' parameter for
SZIP compression. Now there is no restriction on the size and shape of the
chunk except that the total number of elements in the chunk cannot be
bigger than 'pixels_per_block' parameter provided by the user.
EIP - 2004/07/21
- HDF5 can now link to SZIP with or without szip's encoder.
The new API function H5Zget_filter_info can be used to check
szip's status. Attempting to assign szip to a dataset property
list or attempting to write with szip will generate an error if
szip's encoder is disabled. JL/NF - 2004/6/30
- SZIP always uses K13 compression. This flag no longer needs to
be set when calling H5Pset_szip. If the flag for CHIP
compression is set, it will be ignored (since the two are mutually
exclusive). JL/NF - 2004/6/30
- A new API function H5Fget_name was added. It returns the name
of the file by object(file, group, data set, named data type,
attribute) ID. SLU - 2004/06/29
- A new API function H5Fget_filesize was added. It returns the
actual file size of the opened file. SLU - 2004/06/24
- Added option that if $HDF5_DISABLE_VERSION_CHECK is set to 2,
will suppress all library version mismatch warning messages.
AKC - 2004/4/14
Parallel Library:
-----------------
Tools:
------
F90 API:
--------
- added new h5fget_name_f and h5fget_filesize_f subroutines
EIP 2004/07/08
C++ API:
--------
Support for new platforms, languages and compilers.
=======================================
- Absoft compiler f95 v9.0 is supported on Linux 2.4 32bit
EIP - 2004/07/29
- HDF5 Fortran APIs are supported on Mac OSX with IBM XL Fortran
compiler version 8.1. This is a default compiler.
- HDF5 Fortran APIs are supported on MAC OSX with Absoft F95 compiler
version 8.2; set F9X environment varibale to f95, for example
setenv F9X f95
Use --disable-shared --enable-static configure flags when Absoft
compiler is used.
EIP - 2004/07/27
Bug Fixes since HDF5-1.6.2 release
==================================
Library
-------
- Fixed obscure bug where a filter which failed during chunk allocation
could allow library to write uncompressed data to disk but think
the data was compressed. QAK - 2004/07/29
- Fixed bug where I/O to an extendible chunked dataset with zero-sized
dimensions would cause library to fail an assertion.
QAK - 2004/07/27
- Fixed bug where chunked datasets which have filters defined,
allocation time set to "late" and whose chunks don't align with
the dataspace bounds could have incorrect data stored when
overwriting the entire dataset on the first write. QAK - 2004/07/27
- Added check to ensure that dataspaces have extents set. JML-2004/07/26
- Fixed bug on some Solaris systems where HDF5 would try to use
gettimeofday() when that function didn't work properly.
JML - 2004/07/23
- Fixed bug in H5Sset_extent_simple where setting maximum size to
non-zero, then to zero would cause an error. JML - 2004/07/20
- Allow NULL pointer for buffer parameter to H5Dread & H5Dwrite
when not writing data ("none" selection or hyperslab or point
selection with no elements defined). QAK - 2004/07/20
- Calling H5Gcreate() on "/" or "." throws an error instead of
failing quietly. JML - 2004/07/19
- Fixed bug where setting file address size to be very small could
trigger an assert if the file grew to more than 64 KB. Now throws
an error and data can be recovered. JL/NF - 2004/07/14
- Fixed bug where "resurrecting" a dataset was failing.
QAK - 2004/07/14
- Fixed bug where incorrect data could be read from a chunked dataset
after it was extended. QAK - 2004/07/12
- After compound datatype with variable-length string in the fields
is committed to file, the size is messed up when it's read back.
Fixed. SLU - 2004/06/11
- Fixed potential file corruption bug when a block of metadata could
overlap the end of the internal metadata accumulator buffer and
the buffer would be extended correctly, but would incorrectly
change it's starting address. QAK - 2004/06/09
- Opaque datatype with no tag failed for some operations. Fixed.
SLU - 2004/6/3
- Fixed potential file corruption bug where dimensions that were
too large (a value greater than could be represented in 32-bits)
could cause the incorrect amount of space to be allocated in a
file for the raw data for the dataset. QAK - 2004/06/01
- Fixed dtypes "sw long double -> double" failure in QSC class
machines. AKC - 2004/4/16
Configuration
-------------
- Fixed the long compile time of H5detect.c when v7.x Intel Compiler
is used with optimization NOT off. AKC - 2004/05/20
Performance
-------------
Tools
-----
Documentation
-------------
F90 API
-------
Fortran functions h5dwrite/read_f and h5awrite/read_f do not
accept dims parameter of INTEGER type anymore. Code was removed.
2004/04/15
C++ API
-------
- H5::Exception's and its subclasses' constructors that were
overloaded to take char pointers are removed and constructors
that passed in reference of 'string' are changed to pass
by value. In addition, the default value of the data member
H5::Exception::detailMessage is changed from 0/NULL to
DEFAULT_MSG ("No detailed information provided".)
Documentation
=============
Platforms Tested
================
AIX 5.1 (32 and 64-bit) xlc 6.0.0.2
xlf 8.1.0.3
xlC 6.0.0.4
xlc 5.0.2.5
xlf 7.1.1.2
xlC 5.0.2.5
mpcc_r 5.0.2.5
mpxlf_r 7.1.1.2
poe 3.2.0.10
Cray T3E sn6606 2.0.6.08 Cray Standard C Version 6.6.0.2
Cray Fortran Version 3.6.0.2
Cray SV1 sn9617 10.0.1.2 Cray Standard C Version 6.6.0.2
Cray Fortran Version 3.6.0.2
Cray T90IEEE 10.0.0md Cray Standard C Version 6.4.0.3
Cray Fortran Version 3.4.0.0
FreeBSD 4.9 gcc 2.95.4
g++ 2.95.4
HP-UX B.11.00 HP C HP92453-01 A.11.01.20
HP F90 v2.4
HP ANSI C++ B3910B A.03.13
MPIch 1.2.4
IRIX64 6.5 (64 & n32) MIPSpro cc 7.3.1.3m
F90 MIPSpro 7.3.1.3m (64 only)
C++ MIPSpro cc 7.3.1.3m
Linux 2.4.18 gcc 2.96, 3.3.2
g++ 3.3.2
Intel(R) C++ Version 7.1
Intel(R) Fortran Compiler Version 7.1
PGI compilers (pgcc, pgf90, pgCC) version 5.0-2
MPIch 1.2.4
Absoft Fortran compiler v9.0
Linux 2.4.20-8 gcc 3.3.2
PGI compilers (pgcc, pgf90, pgCC) version 5.0-2
MPIch 1.2.4
Linux 2.4.21-2.9.5ws #3 gcc 3.2.3 (Red Hat Linux 3.2.3-16)
SMP x86_64 g++ 3.2.3
Linux 2.4.19-SMP x86_64 gcc (GCC) 3.2.2 (SuSE Linux)
g++ 3.2.2
Linux 2.4.21-sgi Altix
SMP ia64 Intel(R) C++ Version 7.1
Intel(R) Fortran Itanium(R) Version 7.1
SGI MPI
OSF1 V5.1 Compaq C V6.4-014
Compaq Fortran V5.5-2602
Compaq Fortran V5.5-1877
Compaq C++ V6.5-033
Compaq C++ V6.5-030
MPI_64bit_R13
SunOS 5.7(32 and 64 bit) WorkShop Compilers 5.0 98/12/15 C 5.0
(Solaris 2.7) WorkShop Compilers 5.0 98/12/15 C++ 5.0
WorkShop Compilers 5.0 98/10/25
FORTRAN 90 2.0 Patch 107356-04
SunOS 5.8(32 and 64 bit) Sun WorkShop 6 update 2 C 5.3
(Solaris 2.8) Sun WorkShop 6 update 2 Fortran 90
Sun WorkShop 6 update 2 C++ 5.3
TFLOPS r1.0.4 v4.4.2 i386 pgcc Rel 3.1-4i with mpich-1.2.4 with
local modifications
IA-32 Linux 2.4.18 gcc 2.96
Intel(R) C++ Version 7.0
Intel(R) Fortran Compiler Version 7.0
IA-64 Linux 2.4.16 ia64 gcc version 3.0.4
Intel(R) C++ Version 7.1
Intel(R) Fortran Compiler Version 7.1
IA-64 Linux 2.4.21.SuSE_128.bef1 ia64
Intel(R) C++ Version 7.1
Intel(R) Fortran Compiler Version 7.1
mpich-gm-1.2.5..intel
Windows 2000 (NT5.0) MSVC++ 6.0
DEC Visual Fortran 6.0
Intel C and F90 compilers version 7.1
Code Warrior 8.0
Windows XP MSVC++.NET
MAC OS X Darwin 7.2
gcc and g++ Apple Computer, Inc. GCC
version 1175, based on gcc version 3.3.2
IBM XL Fortran version 8.1
Absoft Fortran compiler v8.2
Supported Configuration Features Summary
========================================
Key: y = tested and supported
n = not supported or not tested in this release
x = not working in this release
dna = does not apply
( ) = footnote appears below second table
Platform C C F90 F90 C++ Shared zlib
parallel parallel libraries (4)
Solaris2.7 64-bit y y (1) y y (1) y y y
Solaris2.7 32-bit y y (1) y y (1) y y y
Solaris2.8 64-bit y y (1) y y (1) y y y
Solaris2.8 32-bit y y y y (1) y y y
IRIX64_6.5 64-bit y y (2) y y y y y
IRIX64_6.5 32-bit y y (2) n n n y y
HPUX11.00 y y (1) y y y y y
OSF1 v5.1 y y y y y y y
T3E y y (5) y y (5) n n y
SV1 y y (5) y y (5) n n y
T90 IEEE y y (5) y y (5) n n y
TFLOPS n y (1) n n n n y
AIX-5.1 32-bit y y y y y n y
AIX-5.1 64-bit y y y y y n y
WinXP Visual Studio (7) y n n n y y y
WinXP Intel y n n n y y y
WinXP CW y n n n n n y
Win2000 Visual Studio y n y n y y y
Win2000 Intel y n y n y y y
Mac OS X 10.3 y n y n y y y
FreeBSD 4.9 y y (1) n n y y y
RedHat 7, 8 & 9 ia32 y y (1) y(PGI) n y y y
W gcc (3)
RedHat 7.3 ia32 W Intel (3) y n y n y n y
RedHat 7.3 ia32 W PGI (3) y n y n y n y
RedHat 7 ia32 C Intel (3) y n y n y n y
RedHat 7.1 ia64 C Intel (3) y n y n y n y
RedHat 8 & SuSe x86_64 y n n n y n y
gcc (3)
Linux 2.4 SGI Altix ia64 y n y n y y y
Intel (3)
Platform static- Thread- SZIP GASS STREAM- High- H4/H5
exec safe VFD level tools
APIs (6)
Solaris2.7 64-bit x y y n y y n
Solaris2.7 32-bit x y y n y y y
Solaris2.8 64-bit x y y n y y n
Solaris2.8 32-bit x y y n y y y
IRIX64_6.5 64-bit x y y y y y y
IRIX64_6.5 32-bit x y y y y y y
HPUX11.00 x n y n y y y
OSF1 v5.1 y n y n y y y
T3E y n n n y y y
SV1 y n n n y y y
T90 IEEE y n n n y y n
TFLOPS y n n n n n n
AIX-5.1 32-bit y n y n y y y
AIX-5.1 64-bit y n y n y y y
WinXP Visual Studio y n y n n y y
WinXP Intel y n y n n y y
WinXP CW y n y n n y y
Win2000 Visual Studio y n y n n y y
Win2000 Intel y n y n n y y
Mac OS X 10.3 y n y n y y n
FreeBSD 4.9 y y y n y y y
RedHat 7, 8 & 9 ia32 y y y n y y y
W gcc (3)
RedHat 7.3 ia32 W Intel (3) y n y n y n n
RedHat 7.3 ia32 W PGI (3) y n y n y n n
RedHat 7 ia32 C Intel (3) y n y n y y y
RedHat 7.1 ia64 C Intel (3) y n y n y y y
RedHat 8 & SuSe x86_64 y n y n y y y
gcc (3)
Linux 2.4 SGI Altix ia64 y n y n y y y
Intel (3)
Compiler versions for each platform are listed in the "Platforms Tested"
table found elsewhere in this file (RELEASE.txt). Unless otherwise noted,
compilers used are the system compilers.
Footnotes: (1) Using mpich 1.2.4.
(2) Using mpt and mpich 1.2.4.
(3) Linux 2.4 with GNU, Intel, and PGI compilers, as indicated.
W or C indicates workstation or cluster, respectively.
(4) Shared libraries are provided only for the C library,
except on Windows where they are provided for C and C++.
(5) Using mpt.
(6) Includes the H4toH5 Library and the h4toh5 and h5toh4
utilities.
Known Problems
==============
* Fortran subroutine h5pget_driver_f doesn't return a correct driver information.
* There are two h5dump xml tests(h5dump --xml thlink.h5 and h5dump --xml tmany.h5)
failed on windows xp with .NET for debug and debug dll. Release and Release
dll work fine.
* The h5dump tests may fail to match the expected output on some platforms
(e.g. parallel jobs, Windows) where the error messages directed to
"stderr" do not appear in the "right order" with output from stdout.
This is not an error.
* The stream-vfd test uses ip port 10007 for testing. If another
application is already using that port address, the test will hang
indefinitely and has to be terminated by the kill command. To try the
test again, change the port address in test/stream_test.c to one not
being used in the host.
* The --enable-static-exec configure flag fails to compile for Solaris
platforms. This is due to the fact that not all of the system
libraries on Solaris are available in a static format.
The --enable-static-exec configure flag also fails to correctly compile
on IBM SP2 platform for the serial mode. The parallel mode works fine
with this option.
It is suggested that you don't use this option on these platforms
during configuration.
* The Stream VFD was not tested yet under Windows. It is not supported
in the TFLOPS machine.
* The ./dsets tests failed in the TFLOPS machine if the test program,
dsets.c, is compiled with the -O option. The hdf5 library still works
correctly with the -O option. The test program works fine if it is
compiled with -O1 or -O0. Only -O (same as -O2) causes the test
program to fail.
* Certain platforms give false negatives when testing h5ls:
- Cray J90 and Cray T90IEEE give errors during testing when displaying
some floating-point values. These are benign differences due to
the different precision in the values displayed and h5ls appears to
be dumping floating-point numbers correctly.
* Before building HDF5 F90 Library from source on Crays
replace H5Aff.f90, H5Dff.f90 and H5Pff.f90 files in the fortran/src
subdirectory in the top level directory with the Cray-specific files
from the site:
ftp://hdf.ncsa.uiuc.edu/pub/outgoing/hdf5/hdf5-1.6.2/F90_source_for_Crays
* On some platforms that use Intel and Absoft compilers to build HDF5 fortran library,
compilation may fail for fortranlib_test.f90, fflush1.f90 and fflush2.f90
complaining about exit subroutine. Comment out the line
IF (total_error .ne. 0) CALL exit (total_error)
* On IA32 and IA64 systems, if you use a compiler other than GCC (such as
Intel's ecc or icc compilers), you will need to modify the generated
"libtool" program after configuration is finished. On or around line 104 of
the libtool file, there are lines which look like:
# How to pass a linker flag through the compiler.
wl=""
change these lines to this:
# How to pass a linker flag through the compiler.
wl="-Wl,"
UPDATE: This is now done automatically by the configure script. However, if
you still experience a problem, you may want to check this line in the
libtool file and make sure that it has the correct value.
* Information about building with PGI and Intel compilers is available in
INSTALL file sections 5.7 and 5.8
* In LANL QSC, the new cc compiler has problems converting small values of
long long (absolute values less than 1**-308) to double. This triggers
the test/dtypes to report failure in the
Testing random sw long double -> double conversions
If -ieee is used, the converted doubles spread over the range 0.0 to 1**-308.
If -ieee is not used, the converted double values are mostly 0.0 but
occassionaly as 1**-308. This has been reported to the system staff.
All other tests have passed.
|
