diff options
| author | Quincey Koziol <koziol@hdfgroup.org> | 2008-06-16 22:17:29 (GMT) |
|---|---|---|
| committer | Quincey Koziol <koziol@hdfgroup.org> | 2008-06-16 22:17:29 (GMT) |
| commit | db2c4c497abab139485dbf6797e56b1340e4577d (patch) | |
| tree | f7dfb321a3643658ed24aaf776ec4c1e48bc76a3 /release_docs | |
| parent | 55af47c47c3c0c7bc17266968f5e0e782189e819 (diff) | |
| download | hdf5-db2c4c497abab139485dbf6797e56b1340e4577d.zip hdf5-db2c4c497abab139485dbf6797e56b1340e4577d.tar.gz hdf5-db2c4c497abab139485dbf6797e56b1340e4577d.tar.bz2 | |
[svn-r15221] Description:
Bring changes from trunk from the time the branch was created (r14280)
up to the 1.8.0 release (r14525) back into the metadata journaling branch.
Tested on:
FreeBSD/32 6.2 (duty) in debug mode
FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode
Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe,
in debug mode
Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN,
in production mode
Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN,
in production mode
Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN,
w/szip filter, in production mode
Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
Diffstat (limited to 'release_docs')
| -rw-r--r-- | release_docs/HISTORY.txt | 2546 | ||||
| -rw-r--r-- | release_docs/INSTALL_Cygwin.txt | 55 | ||||
| -rw-r--r-- | release_docs/INSTALL_MinGW.txt | 4 | ||||
| -rw-r--r-- | release_docs/INSTALL_VMS.txt | 112 | ||||
| -rw-r--r-- | release_docs/INSTALL_Windows.txt | 96 | ||||
| -rwxr-xr-x | release_docs/INSTALL_Windows_Short_MSVS6.0.TXT | 127 | ||||
| -rwxr-xr-x | release_docs/INSTALL_Windows_Short_NET.TXT | 59 | ||||
| -rwxr-xr-x | release_docs/INSTALL_Windows_Short_VS2005.TXT | 16 | ||||
| -rw-r--r-- | release_docs/RELEASE.txt | 1108 |
9 files changed, 2807 insertions, 1316 deletions
diff --git a/release_docs/HISTORY.txt b/release_docs/HISTORY.txt index 1327827..f42bb00 100644 --- a/release_docs/HISTORY.txt +++ b/release_docs/HISTORY.txt @@ -4,6 +4,9 @@ This file contains history of the HDF5 libraries releases CONTENTS +22. Changes from 1.6.0 to 1.8.0-rc3 +21. Release Information for hdf5-1.6.7 +20. Release Information for hdf5-1.6.6 19. Release Information for hdf5-1.6.5 18. Release Information for hdf5-1.6.4 17. Release Information for hdf5-1.6.3 @@ -27,6 +30,2549 @@ CONTENTS [Search on the string '%%%%' for per-release section breaks.] +%%%%1.8.0-rc3%%%% Changes from 1.6.0 to 1.8.0-rc3 + + +HDF5 version 1.8.0-rc3 +================================================================================ + + +INTRODUCTION + +This document describes the differences between HDF5-1.6.* and +Hdf5 1.8.0 release candidate "HDF5-1.8.0-rc3", and contains information +on the platforms tested and known problems in HDF5-1.8.0-rc3. +For more details check the HISTORY.txt file in the HDF5 source. + + +Links to HDF5 1.8.0-rc3 source code, documentation, and additional materials +can be found on THG's development server (www.hdfgroup.uiuc.edu) at the +following location: + http://www.hdfgroup.uiuc.edu/HDF5/release/beta/obtain518.html +User documentation for the beta can be accessed directly at this location: + http://www.hdfgroup.uiuc.edu/HDF5/doc_1.8pre/doc/ + +New features of the upcoming 1.8.0 release are described in +the "What's New in 1.8.0?" document: + http://www.hdfgroup.uiuc.edu/HDF5/doc_1.8pre/WhatsNew180.html + +New and modified APIs are described briefly in + http://www.hdfgroup.uiuc.edu/HDF5/doc_1.8pre/WhatsNew180.html +and will be listed in the "HDF5 Software Changes" document: + http://www.hdfgroup.uiuc.edu/HDF5/doc_1.8pre/doc/ADGuide/Changes.html + + + +For more information, see the HDF5 home page: + + http://www.hdfgroup.org/HDF5/ + +If you have any questions or comments, please send them to the HDF Help Desk: + + help@hdfgroup.org + + +CONTENTS + +- New Features +- Support for new platforms and languages +- Bug Fixes since HDF5-1.6.0 +- Platforms Tested +- Known Problems + + +New Features +============ + + Configuration: + -------------- + - Removed stream-vfd from the HDF5 library. - AKC 2007/11/19. + - Updated versions of autotools. HDF5 now uses automake 1.10.0, + autoconf 2.61, and libtool 1.5.22. MAM - 2007/7/25. + - Changed default fortran compiler to g95 when gcc is used. - AKC + 2007/2/17. + - 'make check-vfd' can now be run from the top level directory. Not all + tests that 'make check' invokes work with certain Virtual File Drivers, + so those tests have been skipped. - MAM 2006/7/17 + - Added the variable HDF5TestExpress to control how long tests run. + Setting it to a value between 0 and 3 controls how thoroughly the + library is tested, with 0 being an "exhaustive run" and 3 being a + very quick "smoke test." 1 (a "full run") is the default. + -JML 2006/6/21 + - If both shared and static libraries are installed, now both will be + tested during 'make install'. -MAM 2006/06/21 + - Added support to explicity enable stream_vfd or shared libraries + when using parallel via the '--enable-stream_vfd' and + '--enable-shared' options, respectively. If not explicity defined, + These settings default to enabled when parallel is not used, + and disabled when parallel is used. -MAM 2006/06/17 + - Remove the flexible parallel code and the --enable-fphdf5 + configure option, it was never up to production standards + anyway. -QAK 2006/4/20 + - Added a macro hdf5_mpi_special_collective_io_works to filter out + some mpi-io packages that don't support collective IO for no IO + contributions in some processes. -KY 2006/2/16 + - Added -shlib option to link against installed shared libraries to + h5c++ and h5fc. -JML 2005/11/1 + - Added --enable-build-all option to configure, which only developers + should need to use. -JML 2005/10/24 + - Configure uses the 'TR' variable to let the user override the path + to the 'tr' utility. -JML 2005/10/17 + - Configure can recognize -lmpich as a form of MPI library. -AKC- + 2005/9/28. + - MD5 checksumming has been added to snapshot releases. Release + tarballs will be accompanied by .md5 checksum files, which can + be verified using the md5sum utility. -JML 2005/9/6 + - Some configure flags are incompatible (e.g., the C++ APIs cannot + be built using the parallel version of HDF5). configure will now + output errors when some common incompatible features are used + together. -JML 2005/9/6 + - A new API function, H5Tis_hard(), was added to the library. It + checks if a conversion function is a compiler (hard) conversion. + SLU - 2005/9/6 + - t_mpi will run the test_mpio_derived_dtype by default unless it is + known not working (indicated by macro H5_MPI_COMPLEX_DERIVED_DATATYPE_WORKS + not defined.) -AKC- 2005/8/23. + - Test execution has changed in a number of ways: + When make is invoked in parallel (using -j), sequential tests + are now executed as parallel make targets. This should make them + finish more quickly on machines with multiple processors. + Since test output is garbled when they are executed by parallel make, + tests now dump their output to foo.log files and foo.logsh files + (for test scripts). These logs are printed to the screen only + when a test fails or when all tests in the current directory have + completed successfully. + When tests pass, they will create a foo.chkexe file. + This prevents the test from executing again until the test or + main library changes. + All files generated by tests (*.chkexe, *.log, and any *.h5 files + created) can be removed by invoking 'make check-clean'. + Sequential and parallel library tests can now be invoked separately. + 'make check-s' will execute only sequential tests, and 'make check-p' + will execute only parallel tests. 'make check' will still execute + all tests. + -JML 2005/08/03 + - On windows, all.zip is deprecated. users should + read INSTALL_Windows.txt to know the details. + Reasons to deprecate all.zip: + 1. Avoid confliction for windows programmers + 2. Decrease size of CVS tree by adding all.zip + 3. Avoid using winzip as the intermediate step + --KY 2005/04/22 + - When HDF5 is created as a shared library, it now uses libtool's + shared library versioning scheme. -JML 2005/04/18 + - HDF5 now uses automake 1.9.5 to generate Makefiles.in. + This has a number of effects on users: + The Fortran compiler should be set using the environment + variable $FC, not $F9X. F9X still works, but is depreciated. + The output of make may be different. This should be only a + cosmetic effect. + make depened (or make dep) is no longer recognized, since automake + handles dependency tracking. + Some new configure options exist. --enable-dependency-tracking + and --disable-dependency-tracking are used to control automake's + dependency tracking. Dependencies are on by default *on most + platforms and compilers*. If --enable-dependency-tracking is + used, they will be enabled on any platform. However, this can + slow down builds or even cause build errors in some cases. + Likewise, --disable-dependency-tracking can speed up builds and + avoid some build errors. + Some make targets have alternate names. make check-install and + make installcheck do the same thing, for instance. + pmake on IRIX can be invoked from the root directory, but the + -V flag must be used to invoke it in any subdirectory or it + will give an error about undefined variables. + JML 2005/01 - 2005/03 + - Hardware conversion between long double and integers is also added. + SLU 2005/02/10 + - Started to support software conversion between long double and + integers. Hardware conversion will come very soon. SLU - 2005/1/6 + - Intel v8.0 compiler would infinite loop when compiling some test + code with -O3 option. Changed enable-production default compiler + option to -O2. AKC - 2004/12/06 + - Long double is assumed to be a supported C data type. It is a + stanadard C89 type. AKC - 2004/10/22 + - The IA64 will use ecc as the C++ compiler by default. + - Added some initial support for making valgrind/Purify (or similar + memory checking products) happier by initializing buffers to zero + and disabling the internal free list code. To take advantage of + this, use the "--enable-using-memchecker" configure option when + building the library. QAK - 2004/07/23 + - Fixed the long compile time of H5detect.c when v7.x Intel Compiler + is used with optimization NOT off. AKC - 2004/05/20 + - Fixed configure setting of C++ for OSF1 platform. AKC - 2004/01/06 + - Prefix default is changed from /usr/local to `pwd`/hdf5. + AKC - 2003/07/09 + + Library: + -------- + - Removed size restrictions on attributes, when using the "latest" + version of the file format. - QAK - 2007/02/21 + - Relaxed restrictions on attribute operations to allow a file ID to + be used as the "location ID". If a file ID is used, the attribute + operation will occur on the root group of the file. + - QAK - 2007/02/09 + - Enabled the CORE driver to read an existing file depending on + the setting of the backing_store for H5Pset_fapl_core and file + open flags. - SLU - 2006/11/30 + - Added new H5Gget_info_by_idx() routine to query the information about + a group according to the order within an index. + - QAK - 2006/11/27 + - Added new H5Gget_info() routine to query the information about a + group by name. + - QAK - 2006/11/27 + - Added new H5Oget_info_by_idx() routine to query the information about + an object in a group according to the order within an index. + - QAK - 2006/11/26 + - Added new H5Oget_info() routine to query the information about an + object in a group by name. + - QAK - 2006/11/26 + - Added new H5Oopen_by_idx() routine to open an object in a group + according to the order within an index. + - QAK - 2006/11/20 + - Added new H5Literate() routine to iterate over links in a group + according to the order within an index. + - QAK - 2006/11/20 + - Added new H5Ldelete_by_idx() routine to delete a link according to + the order within an index. + - QAK - 2006/11/13 + - Added new H5Lget_val_by_idx() routine to query the value of a soft link + according to the order within an index. + - QAK - 2006/11/13 + - Added new H5Lget_name_by_idx() routine to query the name of a link + according to the order within an index. + - QAK - 2006/11/12 + - Added new H5Rget_name() routine to determine the name of the object + that a reference points to, as long as the object is still + reachable in the group hierarchy. + - QAK - 2006/11/10 + - Added new H5Lget_info_by_idx() routine to query the link information + according to the order within an index. + - QAK - 2006/11/10 + - Added feature to H5Iget_name to allow retrieving the name of any + object's ID, as long as the object is still reachable in the + group hierarchy. + - LA - 2006/11/01 + - Added External and User-defined links. + External links are links from one HDF5 file to another; they + require both the name of the file and a path within that file. + User-defined links allow users to supply callback functions + for link traversals, allowing links to exhibit essentially + any behavior. + External links are a kind of user-defined link, so their default + behavior can be overridden by the user. + -JML 2006/8/23 + - Added H5Oopen and H5Oclose for opening objects of unknown type + (as link callback functions do). + -JML 2006/8/23 + - Added H5Oopen_by_addr, H5Oincr_refcount, and H5Odecr_refcount for + opening objects by address. Be very careful with these! + -JML 2006/8/23 + - Added H5Fget_intent to get the "intent" of a file (whether it + was opened with read-write access or read-only. + -JML 2006/8/23 + - Added Link Access Property Lists. They currently contain two + properties, nlinks (H5Pget/set_nlinks) and elink_prefix + (H5Pget/set_elink_prefix). nlinks controls how many soft and + user-defined traversals are allowed before HDF5 assumes it has + found a cycle (previously this defaulted to 16). + The elink_prefix is a filesystem path that is prefixed to the + names of any external link files opened using this LAPL. + -JML 2006/8/23 + - Add H5L link APIs. Old APIs (H5Glink, H5Gmove, etc.) are still + supported but deprecated. + New APIs are: + H5Llink - create a link to an object given its ID + H5Lmove - just like H5Gmove2 + H5Lcopy - copy a link without copying the underlying object + H5Lcreate_hard - like H5Glink2 for hard links + H5Lcreate_soft - like H5Glink2 for soft links + H5Ldelete - just like H5Gunlink + H5Lget_val - just like H5Gget_linkval + H5Lget_info - gets link-specific info (like H5Gget_objinfo) + + In addition, H5Gcreate_anon, H5Tcommit_anon, and H5Dcreate_anon + no longer create links to objects; objects must be manually linked + using H5Llink or they will be deleted when the ID is closed. + + Link Creation Property Lists can be used to pass character + encoding (ASCII or UTF-8) for link names and to set the Intermediate + Group Creation Flag: + H5Pset_char_encoding, H5Pget_char_encoding + H5Pset_copy_object, H5Pget_copy_object + -JML 2006/7/5 + - Added managements of collective IO supports for chunking storage + inside parallel HDF5 + 1) Implemented One IO with collective mode for all chunks in the + application by building one MPI derived datatype accross all + chunks. + 2) Implemented the decision-making support to do collective IO inside + MPI-IO per chunk. + 3) Added the decision-making support to do one IO accross all chunks + or to do multiple IOs with each IO per chunk. + 4) Added the support to handle the case some processes won't do any IOs in + collectively. + 5) Some MPI-IO package(mpich 1.2.6 or lower, e.g.) cannot handle + collective IO correctly for the case when some processes have no + contributions to IOs, a special macro is added to change + collective IO mode to independent IO mode inside HDF5 library. + + Currently we find that MPICH at Linux and vender MPI-IO package at NCSA + Altix cannot handle this case. + + "hdf5_mpi_special_collective_io_works=${hdf5_mpi_special_collective_io_works='no'}" + has been added at the end of file <ia64-linux-gnui> and + <linux-gnulibc1>. + + If MPI-IO packages at your Linux and Altix support this case, + please comment out the last line and report to us at + help@hdfgroup.org. We can tune in our configuration to + support this. + + KY - 2006/02/16 + - Added character encoding to attribute creation property lists. + JML - 2006/01/02 + - Added H5Gcopy() routine to copy objects between while keeping + data in compressed form. QAK - 2005/11/06 + - Added H5Sextent_equal() routine. QAK - 2005/11/06 + - Added HSYS_ERROR which retrieves the system error message and pushes + it to the error stack. This gives more information of the failed + system call. AKC - 2005/08/04 + - Added H5F_OBJ_LOCAL flag to H5Fget_obj_count() & H5Fget_obj_ids(), to + allow querying for objects in file that were opened with a particular + file ID, instead of all objects opened in file with any file ID. + QAK - 2005/06/01 + - Added H5T_CSET_UTF8 character set to mark datatypes that use the + UTF-8 Unicode character encoding. Added tests to ensure that + library handles UTF-8 object names, attributes, etc. -JL 2005/05/13 + - HDF5 supports collective MPI-IO for irregular selection with HDF5 + dataset. Irregular selection is when users use H5Sselect_hyperslab + more than once for the same dataset. + Currently, not all MPI-IO packages support complicated MPI derived + datatype used in the implementation of irregular + selection INSIDE HDF5. + 1) DEC 5.x is not supporting complicated derived datatype. + 2) For AIX 5.1, + if your poe version number is 3.2.0.19 or lower, + please edit powerpc-ibm-aix5.x under hdf5/config, + Find the line with + << hdf5_mpi_complex_derived_datatype_works>> + and UNCOMMENT this line before the configure. + check poe version with the following command: + lpp -l all | grep ppe.poe + 3) For Linux cluster, + if mpich version is 1.2.5 or lower, collective irregular selection + IO is not supported, internally independent IO is used. + 4) For IRIX 6.5, + if C compiler version is 7.3 or lower, collective irregular selection + IO is not supported, internally independent IO is used. + 5) For platforms which internally used mpich, if the + mpich version is 1.2.5 or lower, please find the + corresponding config file and add + hdf5_mpi_complex_derived_datatype_works='no' at the + end of the configuration file. For example, at NCSA + SGI Altix, the internal mpich library is 1.2.5. So + hdf5_mpi_complex_derived_datatype_works='no' should be + added at the end of the config file ia64-linux-gnu. + KY - 2005/09/12 + We also found not all MPI-IO packages support collective IO with one + or more processes to have no contributions to IO. + For mpich version 1.2.6 or lower and all IRIX machine, + if the library checks that there are no IO contributions for some + processes, collective IO request is replaced with + independent inside HDF5. + KY - 2006/05/04 + + - HDF5 N-bit filter + HDF5 support N-bit filter from this version, + The N-Bit filter is used effectively for compressing data of N-Bit + datatype as well as compound and array datatype with N-Bit fields. + KY - 2005/04/15 + - HDF5 scaleoffset filter + HDF5 supports scaleoffset filter for users to do data + compression through HDF5 library. + Scale-Offset compression performs a scale and/or offset operation + on each data value and truncates the resulting value to a minimum + number of bits and then stores the data. + Scaleoffset filter supports floating-point and integer datatype. + Please check the HDF5 reference manual for this. + KY - 2005/06/06 + - Retired SRB vfd (--with-srb). Functions H5Pset_fapl_srb and + H5Pget_fapl_srb were removed. EIP - 2005/04/07 + - Retired GASS vfd (--with-gass). Functions H5Pset_fapl_gass and + H5Pget_fapl_gass are removed too. AKC - 2005/3/3 + - Pablo was removed from the source code EIP - 2005/01/21 + - Modified registration of SZIP to dynamically detect the presence + or absence of the encoder. Changed configure and Makefiles, + and tests to dynamically detect encoder. BEM - 2004/11/02 + - Added function H5Pget_data_transform, together with the previously + added H5Pset_data_transform, to support the data transform + feature. AKC - 2004/10/26 + - Compound datatype has been enhanced with a new feature of size + adjustment. The size can be increased and decreased(without + cutting the last member) as long as it doesn't go down to zero. + No API change is involved. SLU - 2004/10/1 + - Put back 6 old error API functions to be backward compatible with + version 1.6. They are H5Epush, H5Eprint, H5Ewalk, H5Eclear, + H5Eset_auto, H5Eget_auto. Their new equivalent functions are + called H5Epush_stack, H5Eprint_stack, H5Ewalk_stack, + H5Eclear_stack, H5Eset_auto_stack, H5Eget_auto_stack. SLU - + 2004/9/2 + - 4 new API functions, H5Tencode, H5Tdecode, H5Sencode, H5Sdecode were + added to the library. Given object ID, these functions encode and + decode HDF5 objects(data type and space) information into and from + binary buffer. SLU - 2004/07/21 + - 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 + - Added support for SZIP without encoder. Added H5Zget_filter_info + and changed H5Pget_filter and H5Pget_filter_by_id to support this + change. JL/NF - 2004/06/30 + - 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 + - Added support for user defined identifier types. NF/JL - 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 + - New Feature of Data transformation is added. AKC - 2004/05/03. + - New exception handler for datatype conversion is put in to + replace the old overflow callback function. This exception + handler is set through H5Pset_type_conv_cb function. + SLU - 2004/4/27 + - Added option that if $HDF5_DISABLE_VERSION_CHECK is set to 2, + will suppress all library version mismatch warning messages. + AKC - 2004/4/14 + - A new type of dataspace, null dataspace(dataspace without any + element) was added. SLU - 2004/3/24 + - Data type conversion(software) from integer to float was added. + SLU - 2004/3/13 + - Data type conversion(software) from float to integer was added. + Conversion from integer to float will be added later. + SLU -2004/2/4 + - Added new H5Premove_filter routine to remove I/O pipeline filters + from dataset creation property lists. PVN - 2004/01/26 + - Added new 'compare' callback parameter to H5Pregister & H5Pinsert + routines. QAK - 2004/01/07 + - Data type conversion(hardware) between integers and floats was added. + SLU 2003/11/21 + - New function H5Iget_file_id() was added. It returns file ID given + an object(dataset, group, or attribute) ID. SLU 2003/10/29 + - Added new fields to the H5G_stat_t for more information about an + object's object header. QAK 2003/10/06 + - Added new H5Fget_freespace() routine to query the free space in a + given file. QAK 2003/10/06 + - Added backward compatability with v1.6 for new Error API. SLU - + 2003/09/24 + - Changed 'objno' field in H5G_stat_t structure from 'unsigned long[2]' + to 'haddr_t'. QAK - 2003/08/08 + - Changed 'fileno' field in H5G_stat_t structure from 'unsigned long[2]' + to 'unsigned long'. QAK - 2003/08/08 + - Changed 'hobj_ref_t' type from structure with array field to 'haddr_t'. + QAK - 2003/08/08 + - Object references (hobj_ref_t) can now be compared with the 'objno' + field in the H5G_stat_t struct for testing if two objects are the + same within a file. QAK - 2003/08/08 + - Switched over to new error API. SLU - 2003/07/25 + + Parallel Library: + ----------------- + - Added mpich2 as a testing "platform" informally. AKC - 2005/9/28. + - A dataset created in serial mode with H5D_ALLOC_TIME_INCR allocation + setting was not extendible, either explicitly by H5Dextend or + implicitly by writing to unallocated chunks. Library now allocates + more space when needed or directed if the file is opened by parallel + mode, independent of what the dataset allocation mode is. + CC/AKC - 2005/08/29. + - Allow compressed, chunked datasets to be read in parallel. + QAK - 2004/10/04 + - Add options of using atomicity and file-sync to test_mpio_1wMr. + AKC - 2003/11/13 + - Added parallel test, test_mpio_1wMr, which tests if the + underlaying parallel I/O system is conforming to the POSIX + write/read requirement. AKC - 2003/11/12 + + Fortran Library: + ---------------- + - added support for shared Fortran libraries. -JML 2005/09/20 + - added missing h5tget_member_class_f function + EIP 2005/04/06 + - added new functions h5fget_name_f and h5fget_filesize_f + EIP 2004/07/08 + - h5dwrite/read_f and h5awrite/read_f functions only accept dims parameter + of the type INTEGER(HSIZE_T). + - added support for native integers of 8 bytes (i.e. when special + compiler flag is specified to set native fortran integers to 8 bytes, + for example, -i8 flag for PGI and Absoft Fortran compilers, + -qintsize=8 flag for IBM xlf compiler). + EIP 2005/06/20 + - added support for "big" REAL and DOUBLE PRECISION types + (usually the size is specified by compilers flags like + -r8, -r16, etc.) + Known problem: multi file test fails when REAL is 16 bytes. + EIP 2005/09/8 + + C++ Library: + ---------------- + - added support for shared C++ libraries. -JML 2005/09/20 + - Added missing member functions + H5::CompType::getMemberArrayType + H5::CompType::getMemberVarLenType + H5::AbstractDs::getArrayType + H5::AbstractDs::getVarLenType + H5::CommonFG::openArrayType + H5::CommonFG::openVarLenType + H5::PropList::copyProp -- this will replace the current + H5::PropList::copyProp in later releases due + to incorrect prototype. + H5::IdComponent::getHDFObjType + BMR - 2005/08/08 + + + Tools: + ------ + - h5repack and h5diff changed command line parameter syntax to be + similar to h5dump, adding also long switch names. PVN - 2008/1/16 + - h5repack now supports adding multiple filters to all objects. + PVN - 2008/1/16 + - h5dump lists groups and attributes in requested orders (by name and + creation order, both ascending and descending). PVN - 2007/10/5 + - h5import imports string (text) data. PVN - 2007/10/5 + - h52gif and gif2h5: Both these tools were revised to include the High + Level Image API support, and tests were added to /hl/tools/gif2h5. + PVN - 2007/04/13 + - h5dump: added support for double long type H5T_NATIVE_LDOUBLE. PVN + 2007/03/13 + - h5dump: added support for binary output, see usage. PVN 2007/03/13 + - h5repack: added support for the new nbit and scaleoffset filters. + PVN - 2007/05/07 + - h5repack: now uses the API function H5Ocopy (of the tool h5copy) to + recreate objects if there is not a user input for changes. PVN - + 2007/05/07 + - h5repack: added support for reading and repacking by hyperslabs for + large files. PVN - 2007/03/01 + - h5repack: a new option allows the copy using the file type (default) + instead of the previous conversion to native type. PVN - 2007/03/01 + - h5repack: output the percentage of compression used. PVN - 2007/03/01 + - h5diff: added support for -p option for unsigned long_long data. PVN + - 2007/02/26 + - h5diff: added support for comparing dataset regions. PVN - 2007/02/20 + - h5diff: added support for reading and comparing by hyperslabs for large files. + PVN - 2007/02/20 + - h5diff: printing of dataset dimensions along with dataset name. PVN -2007/02/19 + - h5dump now uses the new API function H5Rget_name to display the name + of the dataset referenced instead of its ID. PVN - 2007/02/19 + - Added new tool, h5mkgrp. QAK - 2007/02/14 + - Added new tool, h5copy. PVN - 2006/7/15 + - Removed obsolete pdb2hdf5 tool from tools/misc -JML 2005/10/24 + - Added build_h5perf_alone.sh that builds h5perf by standalone mode. + AKC - 2005/09/18. + - Sped up h5dump on files with large numbers of objects. + QAK - 2005/08/25 + - Added a standalone mode for building h5perf. AKC - 2005/08/12 + - new tool, h5jam. See reference manual. 2004/10/08 + - h5repack.sh did not report errors encountered during tests. It does + now. AKC - 2004/04/02 + - Added the MPI-I/O and MPI-POSIX drivers to the list of VFL drivers + available for h5dump and h5ls. RPM & QAK - 2004/02/01 + - Added option --vfd= to h5ls to allow a VFL driver to be selected + by a user. RPM & QAK - 2004/02/01 + - Added option -showconfig to compiler tools (h5cc,h5fc,h5c++). + AKC - 2004/01/08 + - Install the "h5cc" and "h5fc" tools as "h5pcc" and "h5pfc" + respectively if library is built in parallel mode. + WCW - 2003/11/04 + - Added metadata benchmark (perform/perf_meta). SLU - 2003/10/03 + - Changed output of "OID"s from h5dump from "<number>-<number>" to + "<number". This affects both the "regular" and XML output. + QAK - 2003/08/08 + - Changed output of file IDs and "OID"s from h5ls from + "<number>:<number>:<number>:<number>" to "<number>:<number>" + QAK - 2003/08/08 + + High-Level APIs: + ------ + - Fortran interfaces for the Image, Table and Lite APIs. PVN - 2007/5/1 + - New HDF5 Dimension Scale API (H5DS) allows dimension scales to be + created in an HDF5 file and associated with specific datasets. PVN - 2007/5/1 + - There are two new functions in the Lite library, H5LTtext_to_dtype + and H5LTdtype_to_text. H5LTtext_to_dtype creates a HDF5 data type + given a text description; H5LTdtype_to_text converts a data type + to text description. Only DDL definition is supported as text + desciption now. SLU - 2006/05/17 + - Added Packet Table API for creating tables with less overhead than + H5TB API. Added C++ wrapper for Packet Tables. See documentation. + JML - 2004/03/28 + + Documentation + ------------- + - The documentation for this release is largely complete, but + trails the source code. A few of the newer functions are + not yet documented. FMB - 2007/04/18 + - The user documents for this release can be accessed directly at + this location: + http://www.hdfgroup.uiuc.edu/HDF5/doc_1.8pre/doc/ + The most recent document versions (updated daily) in the + 1.8 development branch can be accessed at this location: + http://www.hdfgroup.uiuc.edu/HDF5/doc_dev_snapshot/H5_dev/ + FMB - 2007/04/18 + + +Support for new platforms, languages and compilers. +======================================= + - Added support for Free-BSD on amd64 with GNU C and Fortran compilers + 4.2.1 + EIP - 2007/06/25 + - Added support for sequential and parallel libraries for Intel 64 Linux + cluster (abe.ncsa.uiuc.edu). Among three MPICH packages available on + this machine, only Open MPI works. The VMI has seg fault in hyperslab.c + and bittests.c tests. The MVAPICH2 complained about mpd not running + the parallel test. (see Known Problems section for more info) + EIP - 2007/06/25 + - Added support for HPUX11.23 for both 32 and 64-bit; HDF5 C++ + - Added support for 64-bit Windows with Visual Studio .NET and 2005. + SJW - 2007/06/25 + - Added suport for HPUX11.23 for both 32 and 64-bit; HDF5 C++ + shared library is not supported with +DD64 flag. + EIP - 2006/06/22 + - Added support for VAX floating numbers for Alpha Open VMS 7.3.2 + EIP - 2006/05/05 + - Fixed broken make.com files in tools directories + EIP - 2006/05/05 + - Added support for Alpha Open VMS 7.3.2 EIP - 2006/04/15 + - Added support for Cray X1. JML - 2005/10/03 + - PGI Fortran compiler is supported on Linux64 systems (x86_64) + EIP - 2004/08/19 + - Absoft compiler f95 v9.0 supported on Linux 2.4 + 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 + - HDF5 Fortran APIs are supported on MAC OSX with IBM XL Fortran + Compiler version 8.1 Use "--disable-shared --enable-static" + configure flags along with the "--enable-fortran" flag to build + Fortran library. EIP - 2004/01/07 + +Bug Fixes since HDF5-1.6.0 release +================================== + + Library + ------- + - Changed library's behavior for reading files that might have + corrupted object header information from a previous (buggy) + version of the library. By default, the library now rebuilds the + correct object header information instead of issuing an error. + Previous "strict" file format interpretation can be enabled with + the "--enable-strict-format-checks" configure option. + QAK - 2008/01/13 + - Fixed several bugs with writing fill values for datasets that have + a variable-length datatype or component datatype. QAK - 2007/06/19 + - STDIO driver didn't support files bigger than 2GB because the OFFSET + parameter of fseek is of type LONG INT, not big enough for big files. + Use fseeko instead for big files if it's available on the system. + SLU - 2007/4/5 + - Fixed a bug in H5Sselect_valid() that caused an incorrect value to + be returned (0) instead of FAIL on error conditions such as the + selection or extent not being defined. CMC - 2007/01/17 + - Fixed the MULTI driver problem (Bug #731) that corruptted the data. + SLU - 2007/1/12 + - Fixed file corruption bug which could write an incorrect number of + messages to an object's header under certain circumstances. + Generally, the sequence of actions to generate this bug looks + like this: + - Create an object + - Close the file + - Re-open the file + - Add 2 (or more) attributes to the object + - Close the file + - Re-open the file + - Delete one of the attributes on the object + - Add a smaller attribute to the object + - Delete the smaller atttribute on the object + - Add a larger attribute on the object + + After this, the number of header messages stored for the object + will be off by one. Other sequences of modifying attributes on an + object could also trigger this bug. If you are opening an + object and the bottom few messages of the HDF5 error stack + resembles this, the object has been affected by this bug: + + #007: ../../hdf5_v1.6/src/H5C.c line 3887 in H5C_load_entry(): unable to load entry + major(08): Meta data cache layer + minor(40): Unable to load metadata into cache + #008: ../../hdf5_v1.6/src/H5Ocache.c line 332 in H5O_load(): corrupt object header - too few messages + major(12): Object header layer + minor(40): Unable to load metadata into cache + + Specifically, "corrupt object header" is the best string to search + for in the HDF5 error stack output. + + If your files have been affected by this bug, or you are concerned + that your files might have been, please contact the HDF Helpdesk + at help@hdfgroup.org for a tool to detect and repair files + affected by this problem. QAK - 2006/6/16 + - Fixed various problems with retrieving names of objects, especially + with mounted files. QAK - 2005/12/25 + - Fixed core dump when closing root groups opened through two different + file handles that operate on the same actual file. QAK - 2005/10/02 + - Corrected errors when performing various operations on a group opened + by dereferencing an object reference. QAK - 2005/07/30 + - Fixed a bug with named datatypes where a copy of a named datatype + used to create a dataset would accidentally use the original + named datatype for the dataset's datatype. QAK - 2005/07/23 + - Made H5Fget_name() be consistent and always return name of actual + file the ID is in. (Instead of the name of the top file in a + file mounting hierarchy). QAK - 2005/07/19 + - Reworked internal file mounting semantics to hopefully eliminate + mounting problems. We now require that files that are mounting + together all have the same "file close degree". QAK - 2005/07/19 + - More bug fixes on holding open files that are mounted and have + IDs open. QAK - 2005/07/14 + - Don't unmount child files until the parent file actually closes. + (Previously, if an object is holding open a file, the child files + would get unmounted too early). QAK - 2005/07/05 + - Fixed bug where unmounted files could cause the library to go into + an infinite loop when shutting down. QAK - 2005/06/30 + - The library didn't save the information of family driver in file. + The original file member size was lost after file was closed (see + bug #213). This has been fixed by saving driver name and member + file size in the superblock. SLU - 2005/6/24 + - Fixed bug with hyperslab selections that use selection offsets and + operate on chunked datasets going into infinite loop or dumping + core. QAK - 2005/06/17 + - Corrected memory leak and possible corruption when opening a group. + QAK - 2005/06/17 + - Added check for opaque datatype tags being too long (check against + H5T_OPAQUE_TAG_MAX, currently set to 256). QAK - 2005/06/14 + - Fixed various errors in maintaining names for open objects in the + face of unusual mount & unmount operations. QAK - 2005/06/08 + - "SEMI" and "STRONG" file close degree settings now apply only to the + particular file ID being closed, instead of operating on all open + file IDs for a given file. QAK - 2005/06/01 + - For family driver, the library didn't save member size in file. + When file is reopened, the size of 1st member file determine the + member size. Now member size is saved in file and is used to + define member file size. Wrong file access property of member size + will result in a failure. Using any other driver except family + will cause library to return error. So is multi driver. SLU - + 2005/05/24 + - Fixed error in opening object in group that was opened in mounted + file which has been unmounted. QAK - 2005/03/17 + - Fixed a racing condition in MPIPOSIX virtual file drive close + function. Now all processes must completed the close before any + of them is returned. This prevents some "faster" processes start + accessing the file for another purpose (e.g., open with truncate) + while other "slower" processes have not closed the same file with + the previous purpose. AKC - 2005/03/01 + - H5Tget_member_value calls for enum datatype didn't return correct + value if H5Tenum_valueof was called first. It's fixed. SLU - + 2005/02/08 + - For variable-length string, H5Tget_class returned H5T_STRING as its + class. But H5Tdetect_class and H5Tget_member_class considered it + as H5T_VLEN. This is fixed to let all these 3 functions treat it + as H5T_STRING. SLU - 2005/02/08 + - The byte order of 1-byte integer types was fixed as little endian + even on a big-endian machine. This has been corrected. SLU - + 2005/02/07 + - Fix segmentation fault when calling H5Fflush with an attribute that + hasn't had a value written to it open. QAK - 2004/10/18 + - Back up supporting bitfield and time types in H5Tget_native_type. + Leave it to future support. The function simply returns error + message of "not support" for bitfield and time types. + SLU - 2004/10/5 + - Fixed address check in Core VFL driver to avoid spurious address/size + overflows for odd valued addresses and/or sizes. QAK - 2004/09/27 + - Fixed parallel bug in which some processes attempted collective + I/O while others did independent I/O. Bug appeared when some + processes used point selections, and others didn't. JRM - 2004/9/15 + - Corrected error where dataset region references were written in an + incorrect way on Cray machines. PVN & QAK - 2004/09/13 + - The H5Tget_native_type now determines the native type for integers + based on the precision. This is to avoid cases of wrongly converting + an int to a short in machines that have a short of 8 bytes but with + 32bit precision (e.g Cray SV1). PVN - 2004/09/07 + - Changed H5Dread() to not overwrite data in an application's buffer + with garbage when accessing a chunked dataset with an undefined + fill value and an unwritten chunk is uncountered. QAK - 2004/08/25 + - Fixed error which could cause a core dump when a type conversion + routine was registered after a compound datatype had been + converted and then an equivalment compound datatype was converted + again. QAK - 2004/08/07 + - Fixed memory overwrite when encoding "multi" file driver information + for file's superblock. QAK - 2004/08/05 + - 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 + - Fixed failure to read data back from file of compound type with + variable-length string as field. SLU - 2004/06/10 + - 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 + - Fixed problem with fletcher32 filter when converting data of different + endianess. PVN - 2004/03/10 + - Fixed problem with H5Tget_native_type() not handling opaque fields + correctly. QAK - 2004/01/31 + - Fixed several errors in B-tree deletion code which could cause a + B-tree (used with groups and chunked datasets) to become corrupt + with the right sequence of deleted objects. QAK - 2004/01/19 + - Fixed small internal memory leaks of fill-value information. + QAK - 2004/01/13 + - Fixed bug that caused variable-length datatypes (strings or sequences) + used for datasets in files with objects that were unlinked to + fail to be read/written to a file. QAK - 2004/01/13 + - Detect situation where szip 'pixels per block' is larger than the + fastest changing dimension of a dataset's chunk size and disallow + this (due to limits in szip library). QAK - 2003/12/31 + - Fixed bug with flattened hyperslab selections that would generate + incorrect hyperslab information with certain high-dimensionality + combinations of start/stride/count/block information. + QAK - 2003/12/31 + - Fixed bug with variable-length datatypes used in compound datatypes. + SLU - 2003/12/29 + - Fixed bug in parallel I/O routines that would cause reads from + "short datasets" (datasets which were only partially written out) + to return invalid data. QAK & AKC - 2003/12/19 + - Fixed bug where scalar dataspaces for attributes were reporting as + simple dataspaces. QAK - 2003/12/13 + - Fixed problem with selection offsets of hyperslab selections in + chunked datasets causing the library to go into an infinite loop. + QAK - 2003/12/13 + - Fixed H5Giterate to avoid re-using index parameter after iteration + callback has been called (allows iteration callback to modify the + index parameter itself). QAK - 2003/12/06 + - Fixed various floating-point conversion problems, including a + change which could corrupt data when converting from double->float. + QAK - 2003/11/24 + - Changed "single process" metadata writing in library to collective + I/O by all processes, in order to guarantee correct data being + written with MPI-I/O. QAK - 2003/11/20 + - Fixed problems with fill values and variable-length types and also + I/O on VL values that were set to NULL. QAK - 2003/11/08 + - Fixed problems with MPI datatypes that caused ASCI Q machine to + hang. QAK - 2003/10/28 + - Removed HDF5_MPI_PREFER_DERIVED_TYPES environment variable support, + since it had no benefit. QAK - 2003/10/28 + - Single hyperslab selections (which were set with only one call to + H5Sselect_hyperslab) that had dimensions that could be "flattened" + but were interspersed with dimensions that could not be flattened + were not correctly handled, causing core dumps. QAK - 2003/10/25 + - Fixed incorrect datatype of the third parameter to the Fortran90 + h5pset(get)_cache_f subroutine (INTEGER to INTEGER(SIZE_T)) + EIP - 2003/10/13 + - Fixed problems with accessing variable-length data datatypes on + Crays. QAK - 2003/10/10 + - Fixed potential file corruption bug when too many object header + messages (probably attributes, from a user perspective) were + inserted into an object header and certain other conditions were + met. QAK - 2003/10/08 + - Changed implementation of internal ID searching algorithm to avoid + O(n) behavior for many common cases. QAK - 2003/10/06 + - Allow partial parallel writing to compact datasets. QAK - 2003/10/06 + - Correctly create reference to shared datatype in attribute, instead + of making a copy of the shared datatype in the attribute. + QAK - 2003/10/01 + - Revert changes which caused files >2GB to fail when created with + MPI-I/O file driver on certain platforms. QAK - 2003/09/16 + - Allow compound datatypes to grow in size. SLU - 2003/09/10 + - Detect if a type is already packed before attempting to pack it + again or check if it is locked. SLU - 2003/09/10 + - Corrected bug when opening a file twice with read-only permission + for one open and then closing the read-only access file ID would + generate an error. QAK - 2003/09/10 + - Corrected bug in repeated calls to H5Pget_access_plist() which would + incorrectly manage reference counts of internal information and + eventually blow up. QAK - 2003/09/02 + - Return rank of the array datatype on successful call to + H5Tget_array_dims(). QAK - 2003/08/30 + - Corrected bug in H5Tdetect_class which was not correctly detecting + datatype classes of fields in nested compound datatypes in some + circumstances. QAK - 2003/08/30 + - Corrected bug in sieve buffer code which could cause loss of data + when a small dataset was created and deleted in quick succession. + QAK - 2003/08/27 + - Corrected bug in H5Gget_objname_by_idx which was not allowing NULL + for the name when just querying for the object name's length. + QAK - 2003/08/25 + - Corrected bug in variable-length string handling which could + generate a core dump on writing variable-length strings as part + of a compound datatype on certain architectures. QAK - 2003/08/25 + - Corrected bug in H5Tget_native_type which would incorrectly compute + the size of certain compound datatypes and also incorrectly + compute the offset of the last field for those compound datatypes. + QAK - 2003/08/25 + - Corrected bug in H5Tget_native_type which would drop string datatype + metadata (padding, etc.) QAK - 2003/08/25 + - Corrected bugs in H5Gget_num_objs, H5Gget_objname_by_idx and + H5Gget_objtype_by_idx to allow them to accept location IDs, not just + group IDs. QAK - 2003/08/21 + - Corrected bug when using scalar dataspace for memory selection and + operating on chunked dataset. QAK - 2003/08/18 + - Corrected bugs with multiple '/' characters in names for H5Glink + and H5Gunlink. QAK - 2003/08/16 + - Corrected bug with user blocks that didn't allow a user block to + be inserted in front of a file after the file was created. + QAK - 2003/08/13 + - Corrected errors with using point selections to access data in + chunked datasets. QAK - 2003/07/23 + - Corrected error with variable-length datatypes and chunked datasets + caused H5Dwrite to fail sometimes. QAK - 2003/07/19 + - Modified library and file format to support storing indexed storage + (chunked dataset) B-tree's with non-default internal 'K' values. + QAK - 2003/07/15 + - Returned H5T_BKG_TEMP support to library after it was accidentally + removed. QAK - 2003/07/14 + + Configuration + ------------- + - Configure can now use any tr command. No more need for + defining variable TR nor is it supported. -AKC 2006/05/19 + - Parallel I/O with the MPI-I/O driver will no longer work if the + filesystem is not POSIX compliant. The "HDF5_MPI_1_METAWRITE" + environment variable has been removed. QAK - 2004/01/30 + - Fixed the error that cause "make install" to fail because of the + macro definition syntax of "prefix?=..." AKC - 2003/07/22 + + Performance + ------------- + - Optimized I/O for enumerated datatypes that are a superset of source + enumerated datatype. QAK - 2005/03/19 + - More optimizations to inner loops of datatype conversions for + integers and floats which give a 10-50% speedup. QAK - 2003/11/07 + - Hoisted invariant 'if/else's out of inner datatype conversion loop for + integer and floating-point values, giving about a 20% speedup. + QAK - 2003/10/20 + + Tools + ----- + - Fixed h5dump regarding the display of blocks in hyperslab + selections. PVN 2008/01/16 + - Fixed h5diff regarding the display of NaN (Not a Number) + values. PVN 2008/01/16 + - Fixed h5dump regarding the parsing of binary output parameters. + PVN 2008/01/16 + - Fixed memory problems in h52gif and gif2h5. PVN 2008/01/16 + - Fixed h5repack dealing with NULL references. PVN 2008/01/16 + - Fixed h5dump & h5ls to display attributes in "name" order, rather + than the order they are encountered in the object header. + QAK - 2007/10/04 + - Fixed h5dump regarding the display of named datatypes + attributes. PVN 2007/03/13 + - Fixed h5dump regarding the display of group comments. PVN + 2007/03/13 + - Fixed h5dump regarding the display of hardlinks pointing + to the root group. PVN 2007/03/13 + - Fixed h5diff percentage option -p. PVN 2007/03/05 + - Fixed h5dump that caused array indices greater than 2 ^32-1 + not to be printed correctly - PVN 2007/2/19 + - Fixed h5dump to print attributes data in ASCII if -r option is used. + AKC - 2004/11/18 + - Fixed space utilization reported in h5ls to correct error in formula + used. QAK - 2004/10/22 + - Fixed h5redeploy which sometimes complain too many argument for the + test command. (The complain did not hinder the h5redploy to + proceed correctly.) AKC - 2003/11/03 + - Fixed a segmentation fault of h5diff when percentage option is used. + AKC - 2003/08/27 + - Switched away from tools using internal "fixtype" function(s) to use + H5Tget_native_type() internally. QAK - 2003/08/25 + + + Documentation + ------------- + + + F90 APIs + -------- + - h5pget_driver_f was returning information that could not be + interpreted by fortran application program; fixed. EIP - 2005/04/10 + + +Platforms Tested +================ +Platforms marked with * were not tested for hdf5-1.8.0-rc* release +(This information is somewhat out of date and may be inaccurate. It will be + updated for a later release) + +* AIX 5.2 (32/64 bit) xlc 8.0.0.11 + xlC 8.0 + xlf 10.01.0000.0 + mpcc_r 6.0.0.8 + mpxlf_r 8.1.1.7 +* AIX 5.3 (32/64 bit) xlc 7.0.0.8 + xlC 7.0.0.8 + xlf 09.01.0000.0007 +* Cray X1 water 3.0.35 Cray Standard C Version 5.4.0.7.4 + Cray Fortran 5.4.0.7.3 + Cray C++ 5.4.0.7.4 + FreeBSD 6.2-STABLE i386 gcc 3.4.6 [FreeBSD] 20060305 + (duty) g++ 3.4.6 [FreeBSD] 20060305 + gcc 4.2.1 20080123 + g++ 4.2.1 20080123 + gfortran 4.2.1 20070620 + FreeBSD 6.2-STABLE amd64 gcc 3.4.6 [FreeBSD] 20060305 + (liberty) g++ 3.4.6 [FreeBSD] 20060305 + gcc 4.2.1 20080123 + g++ 4.2.1 20080123 + gfortran 4.2.1 20080123 + +* HP-UX B.11.23 HP aC++/ANSI C B3910B A.06.00 + HP F90 v2.9.2 + HP aC++/ANSI C B3910B A.06.00 + IRIX64 6.5 (64 & n32) MIPSpro cc 7.4.4m + F90 MIPSpro 7.4.4m + C++ MIPSpro cc 7.4.4m + +* Linux 2.6.9 (RHEL4) Intel 10.0 compilers + (abe.ncsa.uiuc.edu) + Linux 2.4.21-47 gcc 3.2.3 20030502 + (osage) + Linux 2.6.9-42.0.10 gcc 3.4.6 20060404 + (kagiso) PGI 7.0-7 (pgcc, pgf90, pgCC) + Intel 9.1 (icc, ifort, icpc) + Linux 2.6.16.27 x86_64 AMD gcc 4.1.0 (SuSE Linux), g++ 4.1.0, g95 (GCC 4.0.3) + (smirom) PGI 6.2-5 (pgcc, pgf90, pgCC) + Intel 9.1 (icc, iort, icpc) + Linux 2.6.5-7.252.1-rtgfx #1 + SMP ia64 Intel(R) C++ Version 9.0 + (cobalt) Intel(R) Fortran Itanium(R) Version 9.0 + SGI MPI + SunOS 5.8 32,46 Sun WorkShop 6 update 2 C 5.3 + (Solaris 2.8) Sun WorkShop 6 update 2 Fortran 95 6.2 + Sun WorkShop 6 update 2 C++ 5.3 +* SunOS 5.10 i86pc Sun C 5.7 + Sun Fortran 95 8.1 + Sun C++ 5.7 + SunOS 5.10 cc: Sun C 5.8 + (linew) f90: Sun Fortran 95 8.2 + CC: Sun C++ 5.8 + Xeon Linux 2.4.21-32.0.1.ELsmp-perfctr-lustre + (tungsten) gcc 3.2.2 20030222 + Intel(R) C++ Version 9.0 + Intel(R) Fortran Compiler Version 9.0 + IA-64 Linux 2.4.21.SuSE_292.til1 ia64 + (NCSA tg-login) gcc 3.2.2 + Intel(R) C++ Version 8.1 + Intel(R) Fortran Compiler Version 8.1 + mpich-gm-1.2.5..10-intel-r2 + Windows XP + Visual Studio .NET + Visual Studio 2005 w/ Intel Fortran 9.1 + Cygwin(native gcc compiler and g95) + MinGW(native gcc compiler and g95) + Windows XP x64 + Visual Studio 2005 w/ Intel Fortran 9.1 + Windows Vista + Visual Studio 2005 + + MAC OS 10.4 (Intel) gcc i686-apple-darwin8-gcc-4.0.1 (GCC) 4.0.1 + G95 (GCC 4.0.3 (g95 0.91!) Nov 21 2006) +* Alpha Open VMS 7.3 + + +Supported Configuration Features Summary +(This table was not modified for 1.8.0-rc* release; for information contact help@hdfgroup.org) +======================================== + + In the tables below + 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 + <blank> = testing incomplete on this feature or platform + +Platform C F90 F90 C++ zlib SZIP + parallel parallel +SunOS5.8 64-bit n y n y y y +SunOS5.8 32-bit n y n y y y +SunOS5.10 64-bit y(1) y n y y y +SunOS5.10 32-bit y(1) y n y y y +IRIX64_6.5 64-bit n y y y y y +IRIX64_6.5 32-bit n n n n y y +Cray XT3 (16) n n n n n n +AIX-5.2 & 5.3 32-bit y y y y y y +AIX-5.2 & 5.3 64-bit y y y y y y +Windows XP n y(15) n(15) y y y +Windows XP x64 n y(15) n(15) y y y +Windows Vista n n n y y y +Mac OS X 10.4 PowerPC n n +FreeBSD 4.11 n n n y y y +RedHat EL3 W (3) y(1a) y(10) y(1a) y y y +RedHat EL3 W Intel (3) n y n y y n +RedHat EL3 W PGI (3) n y n y y n +SuSe x86_64 gcc (3,12) y(1a) y(11) n y y y +SuSe x86_64 Int (3,12) n y(13) n y y n +SuSe x86_64 PGI (3,12) n y(8) n y y y +Linux 2.4 Xeon C + Lustre Intel (3,6) n y n y y n +Linux 2.6 SuSE ia64 C + Intel (3,7) y y y y y n +Linux 2.6 SGI Altix + ia64 Intel (3) y y y y y y +Alpha OpenVMS 7.3.2 n y n y n n + + + +Platform Shared Shared Shared static- Thread- + C libs F90 libs C++ libs exec safe +Solaris2.8 64-bit y y y x y +Solaris2.8 32-bit y y y x y +Solaris2.10 64-bit y x y +Solaris2.10 32-bit y x y +IRIX64_6.5 64-bit y y n y y +IRIX64_6.5 32-bit y dna y y y +HPUX11.00 y n y x n +HPUX11.23-32bit y n n y n +HPUX11.23-64bit y dna n y n +Cray XT3 (16) n n n n n +AIX-5.2 & 5.3 32-bit n n n y n +AIX-5.2 & 5.3 64-bit n n n y n +Windows XP y y(15) y y y +Windows XP x64 y y(15) y y y +Windows Vista y n n y y +Mac OS X 10.3 y y n +Mac OS X 10.4 PowerPC +FreeBSD 4.11 y n y y y +RedHat EL3 W (3) y y(10) y y y +RedHat EL3 W Intel (3) y y y y n +RedHat EL3 W PGI (3) y y y y n +SuSe x86_64 W GNU (3,12) y y y y y +SuSe x86_64 W Int (3,12) y y y y(14) n +SuSe x86_64 W PGI (3,12) y y y y(14) n +Linux 2.4 Xeon C + Lustre Intel (6) y y y y n +Linux 2.4 SuSE + ia64 C Intel (7) y y y y n +Linux 2.4 SGI Altix + ia64 Intel y y n +Alpha OpenVMS 7.3.2 n n n y n + + Notes: (1) Using mpich 1.2.6. + (1a) Using mpich2 1.0.6. + (2) Using mpt and mpich 1.2.6. + (3) Linux 2.6 with GNU, Intel, and PGI compilers, as indicated. + W or C indicates workstation or cluster, respectively. + + (6) Linux 2.4.21-32.0.1. Xeon cluster with ELsmp_perfctr_lustre + and Intel compilers + (7) Linux 2.4.21, SuSE_292.till. Ia64 cluster with Intel compilers + (8) pgf90 + (9) With Compaq Visual Fortran 6.6c compiler. + (10) With PGI and Absoft compilers. + (11) PGI and Intel compilers for both C and Fortran + (12) AMD Opteron x86_64 + (13) ifort + (14) Yes with C and Fortran, but not with C++ + (15) Using Visual Studio 2005 or Cygwin + (16) Not tested for this release. + Compiler versions for each platform are listed in the preceding + "Platforms Tested" table. + + + +Known Problems +============== +* We discovered two problems when running collective IO parallel HDF5 tests + with chunking storage on ChaMPIon MPI compiler on tungsten, a linux + cluster at NCSA. + Under some complex selection cases, + 1) MPI_Get_element returns the wrong value. + 2) MPI_Type_struct also generates wrong derived data type and corrupt data + may be generated. + This only happens when turning on collective IO with chunking storage + with some complex selections. We haven't found these problems on other + MPI-IO compilers. If you encounter these problems, you may use Independent IO + instead. + + Change the following line in your code: + H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); + + to + H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_INDEPENDENT); + + KY - 2007/08/24 + +* For SNL, spirit/liberty/thunderbird: The serial tests pass but parallel + tests failed with MPI-IO file locking message. AKC - 2007/6/25. +* On Intel 64 Linux cluster (RH 4, Linux 2.6.9) with Intel 10.0 compilers use + -mp -O1 compilation flags to build the libraries. Higher level of optimization + causes failures in several HDF5 library tests. +* For HPUX 11.23 many tools tests failed for 64-bit version when linked to the + shared libraries (tested for 1.8.0-beta2) +* For SNL, Red Storm: only paralle HDF5 is supported. The serial tests pass + and the parallel tests also pass with lots of non-fatal error messages. +* For LLNL, uP: both serial and parallel pass. Zeus: serial passes but + parallel fails with a known proglem in MPI. ubgl: serial passes but + parallel fails. +* on SUN 5.10 C++ test fails in the "Testing Shared Datatypes with Attributes" test +* configuring with --enable-debug=all produces compiler errors on most + platforms. Users who want to run HDF5 in debug mode should use + --enable-debug rather than --enable-debug=all to enable debugging + information on most modules. +* On Mac OS 10.4, test/dt_arith.c has some errors in conversion from long + double to (unsigned) long long and from (unsigned)long long to long double. +* On Altix SGI with Intel 9.0 testmeta.c would not compile with -O3 + optimization flag. +* On VAX, Scaleoffset filter isn't supported. The filter cannot be applied to + HDF5 data generated on VAX. Scaleoffset filter only supports IEEE standard + for floating-point data. +* On Cray X1, a lone colon on the command line of h5dump --xml (as in + the testh5dumpxml.sh script) is misinterpereted by the operating system + and causes an error. +* On mpich 1.2.5 and 1.2.6, we found that if more than two processes + contribute no IO and the application asks to do IO with collective, we found + that when using 4 processors, a simple collective write will be hung + sometimes. This can be verified with t_mpi test under testpar. +* On IRIX6.5, when C compiler version >7.4, the complicate MPI derived data type + code will work. However, the user should be aware to enlarge MPI_TYPE_MAX environment + variable to some certian value in order to use collective irregular selection code. + For example, the current parallel HDF5 test needs to enlarge MPI_TYPE_MAX to + 200,000 to make the test pass. +* The dataset created or rewritten with the v1.6.3 library or after can't + be read with the v1.6.2 library or before when Fletcher32 EDC(filter) is + enabled. There was a bug in the calculating code of the Fletcher32 + checksum in the library before v1.6.3. The checksum value wasn't consistent + between big-endian and little-endian systems. This bug was fixed in + Release 1.6.3. However, after fixing the bug, the checksum value is no + longer the same as before on little-endian system. The library release + after 1.6.4 can still read the dataset created or rewritten with the library + of v1.6.2 or before. SLU - 2005/6/30 +* For the version 6(6.02 and 6.04) of Portland Group compiler on AMD Opteron + processor, there's a bug in the compiler for optimization(-O2). The library + failed in several tests but all related to multi driver. The problem has + been reported to the vendor. +* On IBM AIX systems, parallel HDF5 mode will fail some tests with error + messages like "INFO: 0031-XXX ...". This is from the command poe. + Set the environment variable MP_INFOLEVEL to 0 to minimize the messages + and run the tests again. + The tests may fail with messages like "The socket name is already + in use". HDF5 does not use sockets (except for stream-VFD). This is + due to problems of the poe command trying to set up the debug socket. + Check if there are many old /tmp/s.pedb.* staying around. These are + sockets used by the poe command and left behind due to failed commands. + Ask your system administrator to clean them out. Lastly, request IBM + to provide a mean to run poe without the debug socket. + +* The C++ library's tests fails when compiling with PGI C++ compiler. The + workaround until the problem is correctly handled is to use the + flag "--instantiate=local" prior to the configure and build steps, as: + setenv CXX "pgCC --instantiate=local" for pgCC 5.02 and higher + + +* 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. + +* With the gcc 2.95.2 compiler, HDF 5 uses the `-ansi' flag during + compilation. The ANSI version of the compiler complains about not being + able to handle the `long long' datatype with the warning: + + warning: ANSI C does not support `long long' + + This warning is innocuous and can be safely ignored. + + +* 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 this site: + ftp://www.hdfgroup.uiuc.edu/pub/outgoing/hdf5/hdf5-1.8.0-pre/PATCH/ + +* Not all platforms behave correctly with szip's shared libraries. Szip is + disabled in these cases, and a message is relayed at configure time. Static + libraries should be working on all systems that support szip, and should be + used when shared libraries are unavailable. There is also a configure error + on Altix machines that incorrectly reports when a version of szip without + an encoder is being used. + +* 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 + +* On at least one system, (SDSC DataStar), the scheduler (in this case + LoadLeveler) sends job status updates to standard error when you run + any executable that was compiled with the parallel compilers. + + This causes problems when running "make check" on parallel builds, as + many of the tool tests function by saving the output from test runs, + and comparing it to an exemplar. + + The best solution is to reconfigure the target system so it no longer + inserts the extra text. However, this may not be practical. + + In such cases, one solution is to "setenv HDF5_Make_Ignore yes" prior to + the configure and build. This will cause "make check" to continue after + detecting errors in the tool tests. However, in the case of SDSC DataStar, + it also leaves you with some 150 "failed" tests to examine by hand. + + A second solution is to write a script to run serial tests and filter + out the text added by the scheduler. A sample script used on SDSC + DataStar is given below, but you will probably have to customize it + for your installation. + + Observe that the basic idea is to insert the script as the first item + on the command line which executes the the test. The script then + executes the test and filters out the offending text before passing + it on. + + #!/bin/csh + + set STDOUT_FILE=~/bin/serial_filter.stdout + set STDERR_FILE=~/bin/serial_filter.stderr + + rm -f $STDOUT_FILE $STDERR_FILE + + ($* > $STDOUT_FILE) >& $STDERR_FILE + + set RETURN_VALUE=$status + + cat $STDOUT_FILE + + tail +3 $STDERR_FILE + + exit $RETURN_VALUE + + You get the HDF make files and test scipts to execute your filter script + by setting the environment variable "RUNSERIAL" to the full path of the + script prior to running configure for parallel builds. Remember to + "unsetenv RUNSERIAL" before running configure for a serial build. + + Note that the RUNSERIAL environment variable exists so that we can + can prefix serial runs as necessary on the target system. On DataStar, + no prefix is necessary. However on an MPICH system, the prefix might + have to be set to something like "/usr/local/mpi/bin/mpirun -np 1" to + get the serial tests to run at all. + + In such cases, you will have to include the regular prefix in your + filter script. + +* H5Ocopy() does not copy reg_ref attributes correctly when shared-message + is turn on. The value of the reference in the destination attriubte is + wrong. This H5Ocopy problem will affect h5copy tool + +%%%%1.6.7%%%% Release Information for hdf5-1.6.7 (31/January/08) + +HDF5 version 1.6.7 released on Thu Jan 31 21:09:10 CST 2008 +================================================================================ + +INTRODUCTION +============ +This document describes the differences between HDF5-1.6.6 and HDF5-1.6.7 +It contains information on the platforms tested and known problems in +HDF5-1.6.7. For more details, check the HISTORY.txt file in the HDF5 source. + +HDF5 documentation can be found in the distributed release source code +in the subdirectory doc/html/ or on the THG (The HDF Group) FTP server: + + ftp://ftp.hdfgroup.org/HDF5/docs/ + +Documentation for the current release in the HDF5 Release 1.6.x series is +also on the HDF web site: + + http://hdfgroup.org/HDF5/doc1.6/ + +For more information, see the HDF5 home page: + + http://hdfgroup.org/products/hdf5/ + +If you have any questions or comments, please see the HDF Support page +for a list of available resources: + + http://hdfgroup.org/services/support.html + + +CONTENTS +======== +- New Features +- Support for New Platforms, Languages and Compilers +- Bug Fixes since HDF5-1.6.6 +- Documentation +- Platforms Tested +- Supported Configuration Features Summary +- Known Problems + + +New Features +============ + Configuration: + ------------------------- + '--enable-stream-vfd' and '--disable-stream-vfd' are no longer valid + configure options because the stream I/O driver has ben removed from + the distribution. + + Source code distribution + ======================== + Library: + -------- + The stream I/O driver is not included with the HDF5 Library in this + release. The source code files hdf5/src/H5FDstream.c and + hdf5/src/H5FDstream.h and the driver ENUM value H5FD_STREAM have been + removed. + + Parallel Library: + ----------------- + None + + Tools: + ------ + None + + F90 API: + -------- + None + + C++ API: + -------- + None + + +Support for New Platforms, Languages and Compilers +================================================== + +No new platorms, languages, or compilers are supported in this release. + + +Bug Fixes since HDF5-1.6.6 Release +================================== + + Library + ------- + - H5Iget_name could not be used with an object identifier returned + by H5Rdereference; the function would not be able to determine + a valid object name. It has been fixed. SLU - 2008/1/30 + - Changed library's behavior for reading files that might have + corrupted object header information from a previous (buggy) + version of the library. By default, the library now rebuilds the + correct object header information instead of issuing an error. + Previous "strict" file format interpretation can be enabled with + the "--enable-strict-format-checks" configure option. + QAK - 2008/01/13 + - Fixed bug in H5Epush() which was clearing the error stack before + pushing new error value. QAK - 2007/08/23 + - Fixed bug in H5Ewalk() which was not passing back the return value + from error stack walking callback. QAK - 2007/08/23 + + + Configuration + ------------- + None + + + Performance + ------------- + None + + + Tools + ----- + None + + + Documentation + ------------- + None + + + F90 API + ------- + None + + + C++ API + ------- + None + + +Documentation +============= + HDF5 documentation can be found in the distributed release source + code in the subdirectory doc/html/ (start with index.html) or on the + THG (The HDF Group) FTP server: + + ftp://ftp.hdfgroup.org/HDF5/docs/ + + Online documentation for the current release in the HDF5 Release 1.6.x + series can be found on the THG web site: + + http://hdfgroup.org/HDF5/doc1.6/ + + A listing of interface changes from release to release can be found + in the document "HDF5 Software Changes from Release to Release": + + http://hdfgroup.org/HDF5/doc1.6/ADGuide/Changes.html + + Since the stream I/O driver is not included in this release, the + functions H5Pset_fapl_stream and H5Pget_fapl_stream and the stream + ENUM value H5FD_STREAM have been removed from the documentation. + + +Platforms Tested +================ + + AIX 5.2 (32/64 bit) xlc 8.0.0.11 + (datastar) xlC 8.0 + xlf 10.01.0000.0002 + + FreeBSD 6.2 (32- and 64-bit) gcc and g++3.4.6 + (duty and liberty) gcc and g++ 4.2.1 + + IRIX64 6.5 MIPSpro cc 7.4.4m + (ucar mop1 64 & n32) F90 MIPSpro 7.4.4m (64 only) + C++ MIPSpro cc 7.4.4m + + Linux 2.4.21-47.ELsmp #1 SMP gcc 3.2.3 + i686 i386 GNU/Linux + (osage) + + Linux 2.6.9-42.0.10.ELsmp #1 gcc (GCC) 3.4.6 + SMP i686 i386 G95 (GCC 4.0.3 (g95 0.91!) April 18 2007) + (kagiso) PGI C, Fortran, C++ 7.0-7 32-bit + Intel(R) C Compiler for 32-bit + applications, Version 9.1 + Intel(R) C++ Compiler for 32-bit + applications, Version 9.1 + Intel(R) Fortran Compiler for 32-bit + applications, Version 9.1 + Absoft 32-bit Fortran 95 10.0.4 + MPICH mpich2-1.0.6p1 compiled with + gcc 4.2.1 and G95 (GCC 4.0.3 (g95 0.91!) + + Linux 2.6.16.46-0.12-debug #1 Intel(R) C++ Version 10.0.025 + SMP ia64 GNU/Linux Intel(R) Fortran Itanium(R) Version 10.0.025 + (ucar hir1) + + Linux 2.6.16.46-0.14-smp #1 Intel(R) C++ for Intel(R) EM64T Ver. 9.1.037 + SMP x86_64 GNU/Linux Intel(R) Fortran Intel(R) EM64T Ver. 9.1.031 + (smirom) PGI C, Fortran, C++ Version 7.0-7 + for 64-bit target on x86-64 + tested for both 32- and 64-bit binaries + + Linux 2.6.5-7.287.3-sn2 #1 Intel(R) C++ Version 9.0 + Altix SMP ia64 Intel(R) Fortran Itanium(R) Version 9.0 + (cobalt) SGI MPI + + SunOS 5.8 32- and 64-bit Sun WorkShop 6 update 2 C 5.3 + (sol) Sun WorkShop 6 update 2 Fortran 95 6.2 + Sun WorkShop 6 update 2 C++ 5.3 + + SunOS 5.10 32- and 64-bit Sun WorkShop 6 update 2 C 5.8 + (linew) Sun WorkShop 6 update 2 Fortran 95 8.2 + Sun WorkShop 6 update 2 C++ 5.8 + Patch 121019-06 + + Xeon Linux 2.4.21-32.0.1.ELsmp-perfctr-lustre + (tungsten) Intel(R) C++ Version 9.0 + Intel(R) Fortran Compiler Version 9.0 + PGI C Version 6.0-5 + PGI C++ Version 6.0-5 + PGI Fortran Version 6.0-5 + gcc (GCC) 3.2.2 (Red Hat Linux 3.2.2-5) + + Xeon Linux 2.6.9-42.0.10.EL_lustre-1.4.10.1smp + (abe) Intel(R) C++ Version 10.0 + Intel(R) Fortran Compiler Version 10.0 + Open MPI 1.2.2 + + IA-64 Linux 2.4.21-309.tg1 #1 SMP + ia64 gcc (GCC) 3.2.2 + (NCSA tg-login) Intel(R) C++ Version 8.1 + Intel(R) Fortran Compiler Version 8.1 + mpich-gm-1.2.6..14-intel-r2 + + Windows XP Visual Studio 6.0 + Visual Studio .NET (with Intel Fortran 9.1) + Visual Studio 2005 (with Intel Fortran 9.1) + cygwin (gcc 3.4.4) + + Windows Vista Visual studio 2005 + MAC OS X Intel Darwin 8.10.1 + i686-apple-darwin8-gcc-4.0.1 (GCC) 4.0.1 + g95 0.91 + + +Supported Configuration Features Summary +======================================== + +Key: y = Tested and supported + n = Not supported or not tested in this release + C = Cluster + W = Workstation + ( ) = Footnote appears below second table + +Platform C F90 F90 C++ zlib SZIP + parallel parallel +Solaris2.8 32-bit n y n y n y +Solaris2.8 64-bit n y n n y y +Solaris2.10 32-bit n y n y y y +Solaris2.10 64-bit n y n n y y +IRIX64_6.5 32-bit n n n n y y +IRIX64_6.5 64-bit n y n n y y +WinXP Visual Studio 6.0 n n n y y y +WinXP CYGWIN n n n y y y +WinXP 2005 n y n y y y +WinXP .Net n y n y y y +WinVista 2005 n n n y y y +Mac OS X 10.4.10 n y n y y y +AIX-5.2 & 5.3 32- and 64-bit y y y y y y +FreeBSD 6.2 32- and 64-bit n n n y y y +RedHat Linux 2.4.21 W n n n n y n +RedHat Linux 2.6.9-42 i686 GNU (1) W y y y y y y +RedHat Linux 2.6.9-42 i686 Intel W n y n y y n +RedHat Linux 2.6.9-42 i686 PGI W n y n y y n +SuSE Linux 2.6.16 x86_64 GNU (1) W y y n y y y +SuSE Linux 2.6.16 x86_64 Intel W n y n y y n +SuSE Linux 2.6.16 x86_64 PGI W n y n y y n +RHEL 4 Linux 2.6.9 Xeon Lustre C n y n y y y +RedHat Linux 2.4 Xeon Lustre C n y n y y n +SuSE Linux 2.4 ia64 C y y y y y y +SuSe Linux 2.6.5 SGI Altix ia64 n y n y y y + + +Platform Shared static- Thread- + libraries(4) exec safe +Solaris2.8 32- and 64-bit y n y +Solaris2.10 32- and 64-bit y n y +IRIX64_6.5 32-bit y n y +IRIX64_6.5 64-bit y n y +WinXP Visual Studio 6.0 y n n +WinXP CYGWIN y n n +WinXP 2005 y n n +WinXP .Net y n n +WinVista 2005 y n n +Mac OS X 10.4.10 y n n +AIX-5.2 & 5.3 32- and 64-bit n n n +FreeBSD 6.2 32- and 64-bit y n n +RedHat Linux 2.4.21 W y n n +SuSE Linux 2.6.9-42 i686 GNU (1) W y n y +SuSE Linux 2.6.9-42 i686 Intel W y n n +SuSE Linux 2.6.9-42 i686 PGI W n n n +SuSE Linux 2.6.16 x86_64 GNU (1) W y n y +SuSE Linux 2.6.16 x86_64 Intel W y n n +SuSE Linux 2.6.16 x86_64 PGI W n n n +RHEL 4 Linux 2.6.9 Xeon Lustre C y n n +RedHat Linux 2.4 Xeon Lustre C y n n +SuSE Linux 2.4 ia64 C y n n +SuSe Linux 2.6.5 SGI Altix ia64 n n n + +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) Fortran compiled with g95. + + +Known Problems +============== +* We discovered two problems when running collective IO parallel HDF5 tests + with chunking storage with the ChaMPIon MPI compiler on tungsten, a Linux + cluster at NCSA. + Under some complex selection cases, + 1) MPI_Get_element returns the wrong value. + 2) MPI_Type_struct also generates the wrong derived datatype and corrupt + data may be generated. + This only happens when turning on collective IO with chunking storage + with some complex selections. We haven't found these problems on other + MPI-IO compilers. If you encounter these problems, you may use Independent + IO instead. + + To avoid this problem, change the following line in your code: + H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); + + to + H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_INDEPENDENT); + + KY - 2007/08/24 + +* QSC (an HP alpha-based OSF1 cluster) does not create h5pfc correctly. It + does not include the -lmpi properly. This will be fixed in the next + release. AKC - 2007/08/07. + +* On IRIX64 6.5 (UCAR SGI mop1), when testing HDF5 tools with an HDF5 shared + library, especially for h5repacktst and h52gifgentst, the following (or a + similar) error message may appear: + "523648:lt-h5repacktst: rld: Fatal Error: Cannot Successfully map soname + 'libh5test.so.1' under any of the filenames .......(bunch of directories) + " + And the testing will fail. + + We believe this is a libtool problem. One way to get rid of this is to + add the paths of libh5test.so.1 and libh5.so.1 to the shared library path. + + For 32-bit: + You may do this, under csh: + setenv LD_LIBRARYN32_PATH .......(existing paths):[full path of HDF5 + directory/test/.libs]:[full path of HDF5 directory/src/.libs] + + For 64-bit: + setenv LD_LIBRARY64_PATH ......(existing paths):[full path of HDF5 + directory/test/.libs]:[full path of HDF5 directory/src/.libs] + + NOTE: This problem ONLY affects the testing of the HDF5 library when you + build from source. It won't affect any applications that would like to link + with the HDF5 shared library since the shared library path needs to be set + anyway. KY - 2007/8/2 + +* QSC (an HP alpha-based OSF1 cluster) failed the testpar/testphdf5 sub-test + "calloc". All other tests passed. This indicates that a dataset using + chunked storage created by serial HDF5 may not work properly with parallel + HDF5. The calloc test can be skipped by running "prun ... testphdf5 -x + calloc". AKC - 2007/7/12. + +* The Intel C Compiler for the Linux x86_64 platform (EM64T-based, v8.1) has + an optimization error in the datatypes conversion code. Before running + configure, edit the file config/intel-flags by changing the setting of + PROD_CFLAGS from -O3 to -O0. Then run configure. AKC - 2005/11/10. + +* When testing parallel HDF5 with the C compiler version MIPSpro 7.4.3 on IRIX + 6.5, set the environment variable MPI_TYPE_MAX to be a bigger number, for + example 120000, in order to pass the complicated collective IO tests inside + the parallel HDF5 library. This is not a problem inside the parallel HDF5 + library. You can always set a bigger number on your system. KY - 2005/10/6 + +* A contiguous or chunked dataset created by a sequential version of HDF5 + might not be able to be modified with a parallel version of the library. + Use the H5Pset_alloc_time function with H5D_ALLOC_TIME_EARLY to set up the + dataset creation property list to avoid the problem. EIP - 2005/09/09 + +* A dataset created or rewritten with the v1.6.3 library or after can't + be read with the v1.6.2 library or before when Fletcher32 EDC (a filter) is + enabled. There was a bug in the calculating code of the Fletcher32 + checksum in the library before v1.6.3. The checksum value wasn't consistent + between big-endian and little-endian systems. This bug was fixed in + Release 1.6.3. However, after fixing the bug, the checksum value is no + longer the same as before on little-endian system. HDF5 library releases + after 1.6.4 can still read datasets created or rewritten with an HDF5 + library of v1.6.2 or before. SLU - 2005/7/8 + +* For version 6 (6.02 and 6.04) of the Portland Group compiler on AMD Opteron + processor, there's a bug in the compiler for optimization(-O2). The library + failed in several tests, all related to the multi driver. The problem has + been reported to the vendor. + +* test/big fails sometimes with the message "Possible overlap with another + region." The test selects regions randomly, and this error occurs when + two regions overlap each other; it is a bug in the test and not in + HDF5. Since the error is triggered by a random situation, it will + usually disappear if the test is re-run. + +* Newer SGI MIPSpro compilers (version 7.4.x) support C99 features but + have a "guard" statement in stdint.h that will #error and skip the rest + of the header file if the C99 option is not used explicitly. Hardsetting + $CC to c99 will resolve the problem. AKC - 2004/12/13 + +* On IBM AIX systems, parallel HDF5 mode will fail some tests with error + messages like "INFO: 0031-XXX ...". This is from the command poe. + Set the environment variable MP_INFOLEVEL to 0 to minimize the messages + and run the tests again. + + The tests may also fail with messages like "The socket name is already + in use". HDF5 does not use sockets. This is due to problems of the + poe command trying to set up the debug socket. Check whether there are + many old /tmp/s.pedb.* files staying around. These are sockets used by + the poe command and left behind due to failed commands. Ask your system + administrator to clean them out. Lastly, request IBM to provide a means + to run poe without the debug socket. + +* 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 --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 the IBM SP2 platform for the serial mode. The parallel mode works fine + with this option. + + The --enable-static-exec configure flag also fails to correctly compile + on the HPUX 11.00. + + It is suggested that you don't use this option on these platforms + during configuration. + +* Use the --disable-shared configure flag if building with an Absoft Fortran + compiler. + +* 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 following test: + Testing random sw long double -> double conversions + If -ieee is used, the converted doubles spread over the range 0.0 to + 10**-308. If -ieee is not used, the converted double values are mostly + 0.0, but occasionally appear as 10**-308. This has been reported to the + system staff. + + All other tests have passed. + +* On at least one system, SDSC DataStar, the scheduler (in this case + LoadLeveler) sends job status updates to standard error when you run + any executable that was compiled with the parallel compilers. + + This causes problems when running "make check" on parallel builds, as + many of the tool tests function by saving the output from test runs, + and comparing it to an exemplar. + + The best solution is to reconfigure the target system so it no longer + inserts the extra text. However, this may not be practical. + + In such cases, one solution is to "setenv HDF5_Make_Ignore yes" prior to + the configure and build. This will cause "make check" to continue after + detecting errors in the tool tests. However, in the case of SDSC DataStar, + it also leaves you with some 150 "failed" tests to examine by hand. + + A second solution is to write a script to run serial tests and filter + out the text added by the scheduler. A sample script used on SDSC + DataStar is given below, but you will probably have to customize it + for your installation. + + Observe that the basic idea is to insert the script as the first item + on the command line which executes the test. The script then + executes the test and filters out the offending text before passing + it on. + + #!/bin/csh + + set STDOUT_FILE=~/bin/serial_filter.stdout + set STDERR_FILE=~/bin/serial_filter.stderr + + rm -f $STDOUT_FILE $STDERR_FILE + + ($* > $STDOUT_FILE) >& $STDERR_FILE + + set RETURN_VALUE=$status + + cat $STDOUT_FILE + + tail +3 $STDERR_FILE + + exit $RETURN_VALUE + + You get the HDF5 make files and test scripts to execute your filter script + by setting the environment variable "RUNSERIAL" to the full path of the + script prior to running configure for parallel builds. Remember to + "unsetenv RUNSERIAL" before running configure for a serial build. + + Note that the RUNSERIAL environment variable exists so that we can + prefix serial runs as necessary on the target system. On DataStar, + no prefix is necessary. However, on an MPICH system, the prefix might + have to be set to something like "/usr/local/mpi/bin/mpirun -np 1" to + get the serial tests to run at all. + + In such cases, you will have to include the regular prefix in your + filter script. JM - 2004/9/15 + +%%%%1.6.6%%%% Release Information for hdf5-1.6.6 (16/August/08) + +HDF5 version 1.6.6 released on Thu Aug 16 11:17:10 CDT 2007 +================================================================================ + +INTRODUCTION +============ +This document describes the differences between HDF5-1.6.5 and +HDF5-1.6.6 It contains information on the platforms tested and +known problems in HDF5-1.6.6. For more details, check the HISTORY.txt +file in the HDF5 source. + +HDF5 documentation can be found in the distributed release source +code in the subdirectory doc/html/ or on the THG (The HDF Group) +ftp server (ftp.hdfgroup.org) in the directory: + + /HDF5/docs/ + +Documentation for the current release is also on the HDF web site: + + http://hdfgroup.org/HDF5/doc/ + +For more information, see the HDF5 home page at: + + http://hdfgroup.org/HDF5/ + +If you have any questions or comments, please send them to: + + help@hdfgroup.org + + +CONTENTS +======== +- New Features +- Support for New Platforms, Languages and Compilers +- Bug Fixes since HDF5-1.6.5 +- Documentation +- Platforms Tested +- Supported Configuration Features Summary +- Known Problems + + +New Features +============ + Configuration: + ------------------------- + - HDF5 now uses autoconf 2.61 to generate configure. MAM - 2007/7/25. + + Source code distribution + ======================== + Library: + -------- + - None + + Parallel Library: + ----------------- + - None + + Tools: + ------ + - h52gif and gif2h5: Both these tools were revised to include High + Level Image API support. Tests were added to /hl/tools/gif2h5. + PVN - 2007/04/13 + - h5dump: Added support for double long type H5T_NATIVE_LDOUBLE. + PVN - 2007/03/13 + - h5dump: Added support for binary output; see usage. PVN 2007/03/13 + - h5repack: Added support for reading and writing by hyperslabs for + large files. PVN - 2007/03/01 + - h5repack: A new option allows the copy to use the source file type + (default) instead of the previous conversion to native type. + PVN - 2007/03/01 + - h5repack: Added output of the percentage of compression achieved. + PVN - 2007/03/01 + - h5diff: Added support for comparing dataset regions. PVN - + 2007/02/20 + - h5diff: Added support for reading and comparing by hyperslabs for + large files. PVN - 2007/02/20 + - h5diff: Added printing of dataset dimensions along with dataset + name. + PVN - 2007/02/19 + + F90 API: + -------- + - None + + C++ API: + -------- + - Added support for Szip: DSetCreatPropList::setSzip - BMR 2007/01/24 + + +Support for New Platforms, Languages and Compilers +================================================== + - Added support for MAC Intel (Darwin 8.8.2) (gcc 4.0.1 and g95 0.91) + EIP - 2007/02/13 + - Added support for GNU C compiler version 4.2.1 for FreeBSD 6.2 + (32- and 64-bit) + + +Bug Fixes since HDF5-1.6.5 Release +================================== + + Library + ------- + - Fixed several bugs with writing fill values for datasets that have + a variable-length datatype or component datatype. QAK - +2007/06/19 + - STDIO driver didn't support files bigger than 2GB because the OFFSET + parameter of fseek is of type LONG INT, not big enough for big + files. Use fseeko instead for big files if it's available on the + system. SLU - 2007/4/5 + - Relaxed restrictions on attribute operations to allow a file ID to + be used as the "location ID". If a file ID is used, the attribute + operation will occur on the root group of the file. + QAK - 2007/02/09 + - Fixed a bug in H5Sselect_valid() that caused an incorrect value to + be returned (0) instead of FAIL on error conditions such as the + selection or extent not being defined. CMC - 2007/01/05 + - Fixed potential file corruption bug which could overwrite a portion + of an object's header when an attribute was renamed. If the new + name for the attribute was longer than the old name, it was +possible + that the attribute would grow enough to overwrite another message + in the object's header. QAK - 2007/01/02 + - Fixed file corruption bug which could write an incorrect number of + messages to an object's header under certain circumstances. + Generally, the sequence of actions to generate this bug looks + like this: + - Create an object. + - Close the file. + - Re-open the file. + - Add 2 (or more) attributes to the object. + - Close the file. + - Re-open the file. + - Delete one of the attributes on the object. + - Add a smaller attribute to the object. + - Delete the smaller atttribute on the object. + - Add a larger attribute on the object. + + After this, the number of header messages stored for the object + will be off by one. Other sequences of modifying attributes on an + object could also trigger this bug. If you are opening an + object and the bottom few messages of the HDF5 error stack + resembles the following, the object has been affected by this bug: + + #007: ../../hdf5_v1.6/src/H5C.c line 3887 in H5C_load_entry(): +unable to load entry + major(08): Meta data cache layer + minor(40): Unable to load metadata into cache + #008: ../../hdf5_v1.6/src/H5Ocache.c line 332 in H5O_load(): +corrupt object header - too few messages + major(12): Object header layer + minor(40): Unable to load metadata into cache + + Specifically, "corrupt object header" is the best string to search + for in the HDF5 error stack output. + + If your files have been affected by this bug, or you are concerned + that your files might have been, please contact the HDF Helpdesk + at help@hdfgroup.org for a tool to detect and repair files + affected by this problem. QAK - 2006/6/16 + + - Fixed various problems with retrieving names of objects, especially + with mounted files. QAK - 2005/12/25 + + Configuration + ------------- + - Changed to default to --disable-shared if parallel is enabled. + AKC - 2007/5/12 + - Corrected a coding error in configure when it tries to locate the + needed MPI and MPI-IO library for the fortran interface. + AKC - 007/5/9. + - Changed default fortran compiler to g95 when gcc is used. + AKC - 007/2/17. + - Configure can now use any tr command. No more need for + defining the variable TR, nor is it supported. AKC - 2006/05/20 + + Performance + ------------- + - None + + Tools + ----- + - Fixed a bug in h5dump regarding the display of named datatypes + attributes. PVN - 2007/03/13 + - Fixed a bug in h5dump regarding the display of group comments. + PVN - 2007/03/13 + - Fixed a bug in h5dump regarding the display of hardlinks pointing + to the root group. PVN - 2007/03/13 + - Fixed a bug in the h5diff percentage option -p. PVN - 2007/03/05 + - Fixed a bug in h5dump that caused array indices greater than 2^32-1 + not to be printed correctly. PVN - 2007/2/19 + + Documentation + ------------- + - Corrected errors and extended the descriptions in Reference Manual + entries for several functions. + + F90 API + ------- + - None + + C++ API + ------- + - Changed + StrType::StrType(const size_t& size); + to + StrType::StrType(const int dummy, const size_t& size); + because the first one clashed with + StrType::StrType(const hid_t existing_id); - BMR 2007/05/03 + - Wrappers of H5Rcreate had incorrect prototypes. Added these + overloaded functions: + IdComponent::reference(void* ref, const char* name, +DataSpace& + dataspace, H5R_type_t ref_type = H5R_DATASET_REGION) + IdComponent::void reference(void* ref, const char* name) + IdComponent::reference(void* ref, const H5std_string& name) + and will remove these incorrect member functions: + DataSet::Reference + DataType::Reference + Group::Reference + H5File::Reference + - Added wrappers for H5Rdereference as constructors: + DataSet(IdComponent& obj, void* ref); + Group(IdComponent& obj, void* ref); + DataType(IdComponent& obj, void* ref); + + +Documentation +============= + + HDF5 documentation can be found in the distributed release source + code in the subdirectory doc/html/ (start with index.html) or on the + THG (The HDF Group) ftp server (ftp.hdfgroup.org) in the directory: + + /HDF5/docs/ + + Online documentation for the current release can be found on the THG + web site: + + http://hdfgroup.org/HDF5/doc/ + + +Platforms Tested +================ + + AIX 5.2 (32/64 bit) xlc 6.0.0.8 + (datastar) xlC 6.0.0.9 + xlf 8.1.1.7 + mpcc_r 6.0.0.8 + mpxlf_r 8.1.1.7 + + AIX 5.3 (32/64 bit) xlc 7.0.0.0 + (copper) xlC 7.0. + xlf 9.1.0.3 + + FreeBSD 6.2 (32- and 64-bit) gcc and g++3.4.6 + (duty and liberty) gcc and g++ 4.2.1 + + HP-UX B.11.23 HP aC++/ANSI C B3910B A.06.02 + (sirius) HP F90 v3.1 (32-bit only) + HP aC++/ANSI C B3910B A.06.02 + + IRIX64 6.5 MIPSpro cc 7.4.4m + (ucar mop1 64 & n32) F90 MIPSpro 7.4.4m (64 only) + C++ MIPSpro cc 7.4.4m + + Linux 2.4.21-47.ELsmp #1 SMP gcc 3.2.3 + i686 i386 GNU/Linux + (osage) + + Linux 2.6.9-42.0.10.ELsmp #1 gcc (GCC) 3.4.6 + SMP i686 i386 G95 (GCC 4.0.3 (g95 0.91!) Nov 21 2006) + (kagiso) PGI C, Fortran, C++ 6.2-5 32-bit + icc (ICC) 9.1 + Intel(R) C++ Compiler for 32-bit + applications, Version 9.1 + Intel(R) Fortran Compiler for 32-bit + applications, Version 9.1 + Absoft 32-bit Fortran 95 10.0.4 + MPICH mpich2-1.0.4p1 compiled with + gcc 3.4.6 and G95 (GCC 4.0.3 (g95 0.91!) + + Linux 2.6.16.46-0.12-debug #1 + SMP ia64 GNU/Linux Intel(R) C++ Version 10.0.025 + (ucar hir1) Intel(R) Fortran Itanium(R) Version 10.0.025 + + Linux 2.6.16.46-0.14-smp #1 Intel(R) C++ for Intel(R) EM64T Ver. 9.1.037 + SMP x86_64 GNU/Linux Intel(R) Fortran Intel(R) EM64T Ver. 9.1.031 + (smirom) PGI C, Fortran, C++ Version 6.2-5 + for 64-bit target on x86-64 + tested for both 32- and 64-bit binaries + + Linux 2.6.5-7.283-rtgfx Altix + SMP ia64 Intel(R) C++ Version 9.0 + (cobalt) Intel(R) Fortran Itanium(R) Version 9.0 + SGI MPI + + OSF1 V5.1 (QSC) Compaq C V6.5-011 + (See "Known Problems.") HP Fortran V5.5A-3548 + Compaq C++ V6.5-036 + MPIX200_64_r13.4 + + SunOS 5.8 32- and 64-bit Sun WorkShop 6 update 2 C 5.3 + (sol) Sun WorkShop 6 update 2 Fortran 95 6.2 + Sun WorkShop 6 update 2 C++ 5.3 + + SunOS 5.10 32- and 64-bit Sun WorkShop 6 update 2 C 5.8 + (linew) Sun WorkShop 6 update 2 Fortran 95 8.2 + Sun WorkShop 6 update 2 C++ 5.8 + Patch 121019-06 + + Xeon Linux 2.4.21-32.0.1.ELsmp-perfctr-lustre + (tungsten) Intel(R) C++ Version 9.0 + Intel(R) Fortran Compiler Version 9.0 + PGI C Version 6.0 + PGI C++ Version 6.0 + PGI Fortran Version 6.0 + gcc (GCC) 3.2.2 (Red Hat Linux 3.2.2-5) + + Xeon Linux 2.6.9-42.0.10.EL_lustre-1.4.10.1smp + (abe) Intel(R) C++ Version 10.0 + Intel(R) Fortran Compiler Version 10.0 + Open MPI 1.2.2 + + IA-64 Linux 2.4.21.SuSE_292.til1 + ia64 gcc (GCC) 3.2.2 + (NCSA tg-login) Intel(R) C++ Version 8.0 + Intel(R) Fortran Compiler Version 8.0 + mpich-gm-1.2.5..10-intel-r2 + + Windows XP Visual Studio 6.0 + Visual Studio .NET (with Intel Fortran 9.0) + Visual Studio 2005 (with Intel Fortran 9.0) + cygwin (gcc 3.4.4) + + MAC OS X Intel Darwin 8.10.1 + i686-apple-darwin8-gcc-4.0.1 (GCC) 4.0.1 + g95 0.91 + + +Supported Configuration Features Summary +======================================== + +Key: y = Tested and supported + n = Not supported or not tested in this release + C = Cluster + W = Workstation + ( ) = Footnote appears below second table + +Platform C F90 F90 C++ zlib SZIP + parallel parallel +Solaris2.8 32- and 64-bit n y n y y y +Solaris2.10 32- and 64-bit n y n y y y +IRIX64_6.5 32-bit n n n n y y +IRIX64_6.5 64-bit n y n n y y +HPUX11.23-32bit n y n y y y +HPUX11.23-64bit n n n y y y +WinXP Visual Studio 6.0 n n n y y y +WinXP CYGWIN n n n y y y +WinXP 2005 n y n y y y +WinXP .Net n y n y y y +Mac OS X 10.4.10 n y n y y y +AIX-5.2 & 5.3 32- and 64-bit y y y y y y +FreeBSD 6.2 32- and 64-bit n n n y y y +RedHat Linux 2.4.21 W n n n y y y +SuSE Linux 2.6.9-42 i686 GNU (1) W y y y y y y +SuSE Linux 2.6.9-42 i686 Intel W n y n y y y +SuSE Linux 2.6.9-42 i686 PGI W n y n y y y +SuSE Linux 2.6.16 x86_64 GNU (1) W y y y y y y +SuSE Linux 2.6.16 x86_64 Intel W n y n y y y +SuSE Linux 2.6.16 x86_64 PGI W n y n y y y +RHEL 4 Linux 2.6.9 Xeon Lustre C y y y y y y +RedHat Linux 2.4 Xeon Lustre C n y n y y y +SuSE Linux 2.4 ia64 C y y y y y y +SuSe Linux 2.6.16 SGI Altix ia64 n y n y y y +SuSe Linux 2.6.5 SGI Altix ia64 n y n y y y +OSF1 v5.1 y y y y y n + + +Platform Shared static- Thread- STREAM- + libraries(4) exec safe VFD +Solaris2.8 32- and 64-bit y n y y +Solaris2.10 32- and 64-bit y n y y +IRIX64_6.5 32-bit y n y y +IRIX64_6.5 64-bit y n y y +HPUX11.23-32bit y (3) n n y +HPUX11.23-64bit y (3) n n y +WinXP Visual Studio 6.0 y n n n +WinXP CYGWIN y n n n +WinXP 2005 y n n n +WinXP .Net y n n n +Mac OS X 10.4.10 y n n y +AIX-5.2 & 5.3 32- and 64-bit n n n y +FreeBSD 6.2 32- and 64-bit y n n y +RedHat Linux 2.4.21 W y n n y +SuSE Linux 2.6.9-42 i686 GNU (1) W y n y y +SuSE Linux 2.6.9-42 i686 Intel W y n n y +SuSE Linux 2.6.9-42 i686 PGI W n n n y +SuSE Linux 2.6.16 x86_64 GNU (1) W y n n y +SuSE Linux 2.6.16 x86_64 Intel W y n n y +SuSE Linux 2.6.16 x86_64 PGI W n n n y +RHEL 4 Linux 2.6.9 Xeon Lustre C y n n y +RedHat Linux 2.4 Xeon Lustre C y n n y +SuSE Linux 2.4 ia64 C y n n y +SuSe Linux 2.6.16 SGI Altix ia64 n n n y +SuSe Linux 2.6.5 SGI Altix ia64 n n n y +OSF1 v5.1 n n n y + +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) Fortran compiled with g95. +(2) In most cases, shared libraries are provided only for the C library, + except on Windows where they are provided for C, C++, and Fortran. +(3) C++ works only with static libraries. + + +Known Problems +============== +* QSC (an HP alpha-based OSF1 cluster) does not create h5pfc correctly. It + does not include the -lmpi properly. This will be fixed in the next + release. AKC - 2007/08/07. + +* On IRIX64 6.5 (UCAR SGI mop1), when testing HDF5 tools with an HDF5 shared + library, especially for h5repacktst and h52gifgentst, the following (or + similar) error message may appear: + "523648:lt-h5repacktst: rld: Fatal Error: Cannot Successfully map soname + 'libh5test.so.1' under any of the filenames .......(bunch of directories) + " + And the testing will fail. + We believe this is a libtool problem. One way to get rid of this is to + add the paths of libh5test.so.1 and libh5.so.1 to the shared library path. + + For 32-bit: + You may do this, under csh: + setenv LD_LIBRARYN32_PATH .......(existing pathes):[full path of HDF5 + directory/test/.libs]:[full path of HDF5 directory/src/.libs] + + For 64-bit: + setenv LD_LIBRARY64_PATH ......(existing pathes):[full path of HDF5 + directory/test/.libs]:[full path of HDF5 directory/src/.libs] + + NOTE: This problem ONLY affects the testing of the HDF5 library when you + build from source. It won't affect any applications that would like to link + with the HDF5 shared library since the shared library path needs to be set + anyway. KY - 2007/8/2 + +* QSC (an HP alpha-based OSF1 cluster) failed the testpar/testphdf5 sub-test + "calloc". All other tests passed. This indicates that a dataset using + chunked storage created by serial HDF5 may not work properly with parallel + HDF5. The calloc test can be skipped by running "prun ... testphdf5 -x + calloc". AKC - 2007/7/12. + +* The Intel C Compiler for the Linux x86_64 platform (EM64T-based, v8.1) has + an optimization error in the datax types conversion code. Before running + configure, edit the file config/intel-flags by changing the setting of + PROD_CFLAGS from -O3 to -O0. Then run configure. AKC - 2005/11/10. + +* When testing parallel HDF5 with the C compiler version MIPSpro 7.4.3 on IRIX + 6.5, set the environment variable MPI_TYPE_MAX to be a bigger number, for + example 120000, in order to pass the complicated collective IO tests inside + the parallel HDF5 library. This is not a problem inside the parallel HDF5 + library. You can always set a bigger number on your system. KY - 2005/10/6 + +* A contiguous or chunked dataset created by a sequential version of HDF5 + might not be able to be modified with a parallel version of the library. + Use the H5Pset_alloc_time function with H5D_ALLOC_TIME_EARLY to set up the + dataset creation property list to avoid the problem. EIP - 2005/09/09 + +* The dataset created or rewritten with the v1.6.3 library or after can't + be read with the v1.6.2 library or before when Fletcher32 EDC (a filter) is + enabled. There was a bug in the calculating code of the Fletcher32 + checksum in the library before v1.6.3. The checksum value wasn't consistent + between big-endian and little-endian systems. This bug was fixed in + Release 1.6.3. However, after fixing the bug, the checksum value is no + longer the same as before on little-endian system. The library release + after 1.6.4 can still read the dataset created or rewritten with the library + of v1.6.2 or before. SLU - 2005/7/8 + +* For version 6 (6.02 and 6.04) of the Portland Group compiler on AMD Opteron + processor, there's a bug in the compiler for optimization(-O2). The library + failed in several tests, all related to the multi driver. The problem has + been reported to the vendor. + +* test/big fails sometimes with the message "Possible overlap with another + region." The test selects regions randomly, and this error occurs when + two regions overlap each other; it is a bug in the test and not in + HDF5. Since the error is triggered by a random situation, it will + usually disappear if the test is re-run. + +* Newer SGI MIPSpro compilers (version 7.4.x) support C99 features but + have a "guard" statement in stdint.h that will #error and skip the rest + of the header file if the C99 option is not used explicitly. Hardsetting + $CC to c99 will resolve the problem. AKC - 2004/12/13 + +* On IBM AIX systems, parallel HDF5 mode will fail some tests with error + messages like "INFO: 0031-XXX ...". This is from the command poe. + Set the environment variable MP_INFOLEVEL to 0 to minimize the messages + and run the tests again. + + The tests may also fail with messages like "The socket name is already + in use". HDF5 does not use sockets (except for stream-VFD). This is + due to problems of the poe command trying to set up the debug socket. + Check whether there are many old /tmp/s.pedb.* files staying around. These + are sockets used by the poe command and left behind due to failed commands. + Ask your system administrator to clean them out. Lastly, request IBM + to provide a means to run poe without the debug socket. + +* 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 the IBM SP2 platform for the serial mode. The parallel mode works fine + with this option. + + The --enable-static-exec configure flag also fails to correctly compile + on the HPUX 11.00. + + It is suggested that you don't use this option on these platforms + during configuration. + +* The Stream VFD is not supported under Windows. + +* Use the --disable-shared configure flag if building with Absoft Fortran + compiler. + +* 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 following test: + Testing random sw long double -> double conversions + If -ieee is used, the converted doubles spread over the range 0.0 to + 10**-308. If -ieee is not used, the converted double values are mostly + 0.0, but occasionally appear as 10**-308. This has been reported to the + system staff. + + All other tests have passed. + +* On at least one system, SDSC DataStar, the scheduler (in this case + LoadLeveler) sends job status updates to standard error when you run + any executable that was compiled with the parallel compilers. + + This causes problems when running "make check" on parallel builds, as + many of the tool tests function by saving the output from test runs, + and comparing it to an exemplar. + + The best solution is to reconfigure the target system so it no longer + inserts the extra text. However, this may not be practical. + + In such cases, one solution is to "setenv HDF5_Make_Ignore yes" prior to + the configure and build. This will cause "make check" to continue after + detecting errors in the tool tests. However, in the case of SDSC DataStar, + it also leaves you with some 150 "failed" tests to examine by hand. + + A second solution is to write a script to run serial tests and filter + out the text added by the scheduler. A sample script used on SDSC + DataStar is given below, but you will probably have to customize it + for your installation. + + Observe that the basic idea is to insert the script as the first item + on the command line which executes the test. The script then + executes the test and filters out the offending text before passing + it on. + + #!/bin/csh + + set STDOUT_FILE=~/bin/serial_filter.stdout + set STDERR_FILE=~/bin/serial_filter.stderr + + rm -f $STDOUT_FILE $STDERR_FILE + + ($* > $STDOUT_FILE) >& $STDERR_FILE + + set RETURN_VALUE=$status + + cat $STDOUT_FILE + + tail +3 $STDERR_FILE + + exit $RETURN_VALUE + + You get the HDF5 make files and test scripts to execute your filter script + by setting the environment variable "RUNSERIAL" to the full path of the + script prior to running configure for parallel builds. Remember to + "unsetenv RUNSERIAL" before running configure for a serial build. + + Note that the RUNSERIAL environment variable exists so that we can + prefix serial runs as necessary on the target system. On DataStar, + no prefix is necessary. However, on an MPICH system, the prefix might + have to be set to something like "/usr/local/mpi/bin/mpirun -np 1" to + get the serial tests to run at all. + + In such cases, you will have to include the regular prefix in your + filter script. JM - 2004/9/15 + + %%%%1.6.5%%%% Release Information for hdf5-1.6.5 (10/November/05) diff --git a/release_docs/INSTALL_Cygwin.txt b/release_docs/INSTALL_Cygwin.txt index b63d294..0cb0968 100644 --- a/release_docs/INSTALL_Cygwin.txt +++ b/release_docs/INSTALL_Cygwin.txt @@ -98,7 +98,29 @@ Install HDF5 on Cygwin $ bunzip2 < hdf5-1.8.0.tar.bz2 | tar xf - -3. Configuring +3. Setup environment + + In the latest version of the Cygwin DLL, a bug was introduced + relating to the 'timezone' global variable and C99 support. As + work-around, we must use a special compiler flag. + + 3.1. In the command prompt you plan to build from, run the + command: + + export CFLAGS="-ansi ${CFLAGS}" + + 3.2 (Optional) If you plan to build C++ libraries, also + run the command: + + export CXXFLAGS="-ansi ${CXXFLAGS}" + + 3.3 (Optional) If you plan to build Fortran libraries, also + run the command: + + export FCFLAGS="-ansi ${FCFLAGS}" + + +4. Configuring Notes: See detailed information in hdf5/release_docs/INSTALL, part 5. Full installation instructions for source @@ -112,19 +134,19 @@ Install HDF5 on Cygwin In short, - 3.1 To configure HDF5 C Library, using + 4.1 To configure HDF5 C Library, using $ ./configure - 3.2 To configure HDF5 C/C++ Library, using + 4.2 To configure HDF5 C/C++ Library, using $ ./configure --enable-cxx - 3.3 To configure HDF5 C/Fortran Library, using + 4.3 To configure HDF5 C/Fortran Library, using $ ./configure --enable-fortran - 3.4 To configure HDF5 C with Szip library, using + 4.4 To configure HDF5 C with Szip library, using $ ./configure --with-szlib="path to szlib" @@ -135,15 +157,15 @@ Install HDF5 on Cygwin $ ./configure --with-szlib=/cygdrive/c/szip - 3.5 To configure HDF5 C without Zlib, + 4.5 To configure HDF5 C without Zlib, To disable zlib, using $ ./configure --without-zlib - 3.6 Two ways to configure HDF5 C with specified Zlib + 4.6 Two ways to configure HDF5 C with specified Zlib - 3.6.1 Using + 4.6.1 Using $ ./configure --with-zlib=INCDIR,LIBDIR @@ -153,7 +175,7 @@ Install HDF5 on Cygwin $ ./configure --with-zlib=/cygdrive/c/usr/include,/cygdrive/c/usr/lib - 3.6.2 Through the CPPFLAGS and LDFLAGS Variables + 4.6.2 Through the CPPFLAGS and LDFLAGS Variables For example, if zlib was installed in the directory /cygdrive/c/usr then using the following command to configure @@ -163,7 +185,7 @@ Install HDF5 on Cygwin $ LDFLAGS=-L/cygdrive/c/usr/lib \ $ ./configure - 3.7 To specify the installation directories, using + 4.7 To specify the installation directories, using $ ./configure --prefix="path for installation" @@ -174,7 +196,7 @@ Install HDF5 on Cygwin the path with the `--prefix=PATH' switch as in the above command. - 3.8 Combination of Switches + 4.8 Combination of Switches All of the above switches can be combined together. For example, if users want to configure HDF5 C/C++/Fortran @@ -209,7 +231,7 @@ Install HDF5 on Cygwin --enable-fortran <"If no more switches, then hit Enter"> -4. Make and Make Check +5. Make and Make Check After configuration is done successfully, run the following series of commands to build, test and install HDF5 @@ -220,20 +242,23 @@ Install HDF5 on Cygwin Before run "make install", check output file for "make check", there should be no failures at all. -5. Make Install +6. Make Install $ make install > "output file name" -6. Check installed HDF5 library +7. Check installed HDF5 library After step 4, go to your installation directory, there should be three subdirectories: "bin" "include" and "lib". -7. Known Problems +8. Known Problems Shared libraries can not be built on Cygwin In release 1.8.0. + There are issues linking with the latest Cygwin DLL. As a work-around, + make sure to follow the steps described in step 3 above. + ----------------------------------------------------------------------- Need Further assistance, email help@hdfgroup.org diff --git a/release_docs/INSTALL_MinGW.txt b/release_docs/INSTALL_MinGW.txt index f92961e..47dcadd 100644 --- a/release_docs/INSTALL_MinGW.txt +++ b/release_docs/INSTALL_MinGW.txt @@ -109,13 +109,15 @@ Build HDF5 on MinGW - ./tools/h5diff/Makefile.in: "testh5diff.sh"
- - ./tools/misc/Makefile.in: "testh5stat.sh" and "testh5mkgrp.sh"
+ - ./tools/misc/Makefile.in: "testh5mkgrp.sh"
- ./tools/h5jam/Makefile.in: "testh5jam.sh"
- ./tools/h5copy/Makefile.in: "testh5copy.sh"
- ./tools/h5ls/Makefile.in: "testh5ls.sh"
+
+ - ./tools/h5stat/Makefile.in: "testh5stat.sh"
5. Configuring
diff --git a/release_docs/INSTALL_VMS.txt b/release_docs/INSTALL_VMS.txt index 5e31db6..fd997c5 100644 --- a/release_docs/INSTALL_VMS.txt +++ b/release_docs/INSTALL_VMS.txt @@ -1,7 +1,6 @@ Building and installation instructions for Alpha Open VMS - This file is under construction - EIP June 1, 2006 - + HDF5 1.8.0 release + January 2008 @@ -9,83 +8,70 @@ -------- 1. Obtaining HDF5 - 2. Building C, Fortran and C++ libraries - 3. Testing HDF5 libraries and tools - 4. Installing HDF5 libraries - 5. Known problems + 2. Building and testing HDF5 C, Fortran and C++ libraries, + and utilities + 3. Installing HDF5 libraries + 4. Known problems 1.Obtaining HDF5 + Please see INSTALL file in this directory for downloading instructions. - 2. Building C, Fortran and C++ libraries + 2. Building and testing HDF5 C, Fortran and C++ libraries and utilities. - IMPORTANT: This version REQUIRES GNU ZLIB librarary to be installed + IMPORTANT: This version REQUIRES GNU ZLIB library to be installed on a system. You may download the source code from http://www.zlib.net/ - Use tar command to untar HDF5 source ball - tar -xvf hdf5-1.8.0-<pre>.tar - - - Change default directory to [.hdf5-1.8.0-<pre>.vms] - - Modify make.com file to point to the installed ZLIB library. - - Run - @make - command. This command file will build + tar -xvf <source>.tar + + - Change default directory to [.<source>.vms] + - Specify top HDF5 source directory in the build.com file + - Edit make.com: + specify path to ZLIB library + if necessary, modify compilation flags + Do NOT REMOVE /define=H5_VMS and /standard=strict_ansi qualifiers. + - Run build.com command file + @build + We recommend using batch queue to build and test this distribution. + The command file runs make.com and builds C library, tests, and utilities Fortran library and tests C++ library and tests - C, Fortran and C++ examples - - IMPORTANT: Compilations flags are defined in the [.vms]make.com file of the - source tree. It is set up to use /float=float_ieee qualifier for C, Fortran - and C++ compilersi, and debug mode. If desired, those flags can be removed. - Do NOT REMOVE /define=H5_VMS and /standard=strict_ansi qualifiers. - If you have to use make.com file in a particular directory, make sure that - you modify the compilation flags in this file appropriately. - - If make.com succeeds, the following libraries and utilties will be built: - - [.src]hdf5.olb - [.fortran.src]hdf5_fortran.olb - [.c__.src]hdf5_cplus.olb - [.tools.h5diff]h5diff.exe - [.tools.h5dump]h5dump.exe - [.tools.h5import]h5import.exe - [.tools.h5jam]h5jam.exe - [.tools.h5jam]h5unjam.exe - [.tools.h5ls]h5ls.exe - [.tools.h5repack]h5repack.exe - - 3. Testing HDF5 libraries and tools - You may try to run check.com files in the following directories - - [.test] - [.fortran.test] - [.c__.test] - [.examples] - [.fortran.examples] - [.c__.examples] - - 4. Installing HDF5 libraries - Currently one has to manually copy *.olb, public *.h (all header - files that do not have "private" in file name) iheader files and - Fortran modules files from - [.src], [.fortran.src] and [.c__.src] directories - - 5. Known problems + It also runs test scripts to test C, Fortran and C++ libraries, and + h5dump, h5diff, h5ls, h5repack and h5import utilities. + + 3. Installing HDF5 libraries + + Modify install.com file to specify installation directory and run + @install + to install HDF5 C, Fortran, and C++ libraries, and utilities. + The script will create the directories shown below in the + installation directory: + + [.HDF5]... + [.HDF5.INCLUDE] + [.HDF5.LIB] + [.HDF5.BIN] + [.HDF5.EXAMPLES] + [.HDF5.EXAMPLES.C] + [.HDF5.EXAMPLES.F90] + [.HDF5.EXAMPLES.CXX] + + [.HDF5.EXAMPLES.*] directories contain make.com and check.com files + to build examples against the installed libraries and to verify + the installation. + + 3. Known problems - dsets test fails for test_scleoffset_double and test_scleoffset_double_2 tests when G_FLOAT double is used - 06/01/2006 EIP - There is no support for szip compression filter. - - There are few C and Fortran tests that fail (C mtime, Fortran file_close and - multifile driver tests, probably more; all major tests succeed). - - Mulitifile driver has not been tested yet. - - Test scripts for some tools are missing; existing tools test scripts - do not compare output with the expected output. - - Probably more :-) + - Fortran multifile driver test fails; similar C test passes. + + For help contact help@hdfgroup.org - For help contact hdfhelp@hdf.ncsa.uiuc.edu or help@hdfgroup.org diff --git a/release_docs/INSTALL_Windows.txt b/release_docs/INSTALL_Windows.txt index 703d2a8..daedadd 100644 --- a/release_docs/INSTALL_Windows.txt +++ b/release_docs/INSTALL_Windows.txt @@ -1,6 +1,6 @@ *********************************************************************** -* HDF5 Build and Install Instructions for Windows XP * +* HDF5 Build and Install Instructions for Windows XP/VISTA * * (Full Version) * *********************************************************************** @@ -16,13 +16,15 @@ Contents: Section I : What do we build and install Section II : How to build and test HDF5 libraries and tools Section III : How to build examples (optional) - Section IV : How to build an application using the HDF5 library or DLL + Section IV : How to build an application using the HDF5 library or DLL Section V : How to disable Gzip(Zlib)/Szip compression Section VI : How to build HDF5 with Fortran Support Section VII : How to build Multi-threaded version of HDF5 library Section VIII : How to build HDF5 with Thread-Safe Feature Section IX : How to build HDF5 for 64-bit Windows - Section X : Misc. + Section X : How to build HDF5 on Windows Vista + Section XI : Backwards Compatibility with HDF5 1.6 + Section XII : Misc. ======================================================================== @@ -108,7 +110,7 @@ Preconditions: Variables" box. In the New Variable window, set "Variable name" as HDF5_EXT_ZLIB and - "Variable value" as zdll.lib, then click OK. + "Variable value" as zlib1.lib, then click OK. Similarly, you can set: @@ -151,13 +153,11 @@ Notes: directory, run copy_hdf.bat first and then open all.dsw under hdf5/windows/proj/all to start building process. - 2. Users who prefer to use Visual Studio 6.0 can follow instructions in - INSTALL_Windows_Short_MSVS6.0.txt. Note, however, that Visual Studio - 6.0 will not be supported in future versions of HDF5. + 2. Visual Studio 6.0 will not be supported in HDF5 1.8 or later release. 2. Users who prefer to use Visual Studio .NET can follow instructions in - INSTALL_Windows_Short_Net.txt. Note, however, that Visual Studio - .NET will not be supported in future versions of HDF5. + INSTALL_Windows_Short_Net.txt. Note, however, HDF5 Fortran product + will not be supported in HDF5 1.8 release. 3. For users who want to quickly build HDF5 library or do not want to know HDF5 building and installation details, please read the @@ -176,9 +176,6 @@ Notes: 7. For users who would like to build Muti-threaded version of HDF5 library, please read Section VII. - - 8. For users who would like to build, test and use HDF5 snapshot - release, please read Section VIII. ======================================================================== @@ -1372,7 +1369,7 @@ Notes: In Visual Studio 2005, the Single-threaded runtime libraries have been those two sections carefully before go to the following part. -In Visual Studio 6.0 and .Net, users have the option of building multi-threaded +In Visual Studio.Net, users have the option of building multi-threaded libraries by manipulating the project settings. Otherwise, the build process is very much the same. Therefore, follow the instructions below, and refer to the earlier sections of this document for details on building and testing. @@ -1648,10 +1645,67 @@ Installing: into one folder, hdf5lib. This script should work identically on 32- and 64-bit builds. Therefore, you may follow the instructions in Section II about installing. - - + ======================================================================== - Section X: Misc. + Section X: How to build HDF5 on Windows Vista +======================================================================== +Building on Windows Vista is very similar to building on Windows XP, with +some minor changes. Therefore, follow the build instructions above, with the +following considerations: + + 1. Only Visual Studio 2005 is currently supported on Windows Vista. This + is because Microsoft has ended their support for 6.0 and .NET. + + 2. Building Fortran libraries has not been tested, and is therefore also + unsupported. You may attempt to build Fortran libraries following the + instructions above, but they should be considered experimental and used + for testing only. + + 3. Elevated security permissions are required to test the HDF5 libraries. + This is because DLLs are installed in the system directory. To enable + elevated security: + + 1. In the Start menu, search for "Command Prompt". Right click on + the "Command Prompt" program, and select "Run as administrator." + + 2. A security dialog will pop up. Make sure you select "Continue." + + 3. Test HDF5 libraries and tools as usual using "hdf5check.bat" + script. + + +======================================================================== + Section XII: Backwards Compatibility with HDF5 1.6 +======================================================================== + +Several basic HDF5 functions have changed over the years as requirements on +the library and data format have evolved. To enable existing applications to +run properly, all versions of these functions have been retained; for +flexibility and ease-of-use, macros have been created that can be mapped +either globally to broad sets of function versions or on a +function-by-function basis to specific versions. For example, an overall +approach can be determined by means global setting; function-level settings +can then be used to override the global setting then for specific functions. + +To enable 1.6 API symbols in your application: + + 1. Build and test HDF5 normally (see Section II). + + 2. Open your application in Visual Studio. Right click on the + project file, and select properties. + + 3. Select the C/C++ > Preprocessor pane on the left. In the list of + "Preprocessor Definitions", add "H5_USE_16_API". (Note: macros in + the list are separated by a semi-colon.) + + 4. Repeat this for each project and project configuration that uses + HDF5 libraries. + + 5. Continue to build and test your application normally. + + +======================================================================== + Section XII: Misc. ======================================================================== 1. Helpful Pointers @@ -1679,15 +1733,5 @@ using the Visual C++ Development Environment. Developer Studio project settings dialog. -2. Backward compatibility with 1.6 - If you are going to use 1.6 APIs with 1.8 branch, you may do the - following two things: - 3.1 Uncomment out /*#define H5_WANT_H5_V1_6_COMPAT 1*/ inside - h5pubconf.h under windows\src. - 3.2 Set up an environment variable H5_WANT_H5_V1_6_COMPAT to 1, - this will be used to test compatibility of error APIs. - Remember to undo 1 and 2 after you test if you are not going to use 1.6 - backward compatibility option. - ************************************************************************ Please send email to help@hdfgroup.org for further assistance. diff --git a/release_docs/INSTALL_Windows_Short_MSVS6.0.TXT b/release_docs/INSTALL_Windows_Short_MSVS6.0.TXT deleted file mode 100755 index 0f5aa64..0000000 --- a/release_docs/INSTALL_Windows_Short_MSVS6.0.TXT +++ /dev/null @@ -1,127 +0,0 @@ -************************************************************************ -* HDF5 Build and Install Instructions for Windows XP with MSVS 6.0 * -* (Short Version) * -************************************************************************ - -Notes: To ease the building process for current versions of Visual - Studio, 6.0 is set to be depreciated in future releases. This - means that project files are being converted to .Net format, and - will not be backwards-compatible with Visual Studio 6.0. - - Users who wish to continue to use Visual Studio 6.0 may choose - not to upgrade to future versions of HDF5. However, it is - recommended that all users consider making the switch to a - more current version of Visual Studio. An express version of - Visual Studio 2005 is available free from Microsoft, and is - full compatible with HDF5. - - - - This short instruction is written for users who want to quickly - build HDF5 library and tools from the HDF5 source code package - with Microsoft Visual Studio 6.0 but do not want to know HDF5 - building and installation details on Windows XP. - - For detailed HDF5 build and install information, or if you have - trouble following any steps in the instructions, please refer to - INSTALL_Windows.txt for further information. - - For users who would like to build and test HDF5 package from the - command line, please refer to - INSATLL_Windows_From_Command_Line.txt. - -WARNINGS: - -Please read CAREFULLY about HDF5 build and install preconditions and -notes in INSTALL_Windows.txt before starting below procedures. - -======================================================================== - STEP 1: Building HDF5 Libraries and Tools -======================================================================== - -1. Run batch file copy_hdf.bat. - - Go to c:\MyHDFstuff\hdf5\windows and run copy_hdf.bat. - -2. Open all.dsw workspace - - Open the c:\MyHDFstuff\hdf5\windows_vs6\proj\all\all.dsw workspace. - -3. (Optional) Disable C++ related projects - - Remove the following projects from project "all" dependencies - ONLY if you prefer not to build HDF5 C++ libraries - - dsets_cpp - dsets_cppdll - hdf5_cpp - hdf5_cppdll - testhdf5_cpp - testhdf5_cppdll - hdf5_hl_cpp - hdf5_hl_cppdll - hl_test_table_cpp - hl_test_table_cppdll - -4. Select "Build", then Select "Set Active Configuration". - - In "Project configurations", select the active configuration - - "all -- Win32 Debug" - - or - - "all -- Win32 Release" - - Then build project "all". - - -======================================================================== - STEP 2: Testing HDF5 Libraries and Tools -======================================================================== - -HDF5 libraries and tools should be tested to make sure that they were -built correctly. - -HDF5 libraries and tools can be tested with hdf5check.bat batch file -in c:\MyHDFstuff\hdf5 directory. - -hdf5check.bat has four options: - - hdf5check test HDF5 C library and tools only - - hdf5check enablecpp test HDF5 C/C++ libraries and tools - - - -Invoke a command prompt and run hdf5check with appropriate -options. - -Test results are saved in two files: - - c:\MyHDFstuff\hdf5\tests_results.txt - - c:\MyHDFstuff\hdf5\check_results.txt. - -In general, you only need to check tests_results.txt. If all the -tests passed, then you do not have to check check_results.txt. -If some tests failed, check check_results.txt can help you -figure out what was wrong. - -======================================================================== - STEP 3: Installing HDF5 Libraries -======================================================================== - -Run the batch file c:\MyHDFstuff\hdf5\installhdf5lib.bat to install -all HDF5 libraries and tools into c:\MyHDFstuff\hdf5\hdf5lib directory. - -======================================================================== - STEP 4: Building HDF5 Examples (Optional) -======================================================================== - -Please read about building examples in the main document, INSTALL_Windows.txt. -Note that these instructions use Visual Studio .Net project files. However, -similar 6.0 project files exist in the "windows_vs6" directory. - -************************************************************************ -Please send email to help@hdfgroup.org for further assistance diff --git a/release_docs/INSTALL_Windows_Short_NET.TXT b/release_docs/INSTALL_Windows_Short_NET.TXT index 8e6252e..c60021c 100755 --- a/release_docs/INSTALL_Windows_Short_NET.TXT +++ b/release_docs/INSTALL_Windows_Short_NET.TXT @@ -66,49 +66,12 @@ notes in INSTALL_Windows.txt before starting below procedures. Invoke Microsoft Visual Studio. From the main menu, go to "File" and select the "Open Solution" option. Then open the - c:\MyHDFstuff\hdf5\windows_vs6\proj\all\all.dsw workspace. When prompted - to convert project files to Visual Studio .NET format, select "Yes to All". + c:\MyHDFstuff\hdf5\windows_vnet\proj\all\all.dsw workspace. You should find Windows project files listed as "all", "big", etc. on the left. - 3. Disable Projects - - In Visual Studio .NET, we do not support building Fortran libraries. If - you would like to build Fortran libraries, please read about Visual Studio - 2005 with Intel Fortran 9.1 in the Install_Windows.txt document. - - The following projects must be disabled. Go to "Build", "Configuration - Manager", and uncheck the following for both Release and Debug builds: - - flush1_fortran - flush1_fortrandll - flush2_fortran - flush2_fortrandll - hdf5_f90cstub - hdf5_f90cstubdll - hdf5_fortran - hdf5_fortrandll - hdf5_hl_f90cstubdll - hdf5_hl_fortran - hdf5_hl_fortrandll - hl_test_image_fortran - hl_test_image_fortrandll - hl_test_lite_fortran - hl_test_lite_fortrandll - hl_test_table_fortran - hl_test_table_fortrandll - libtest_cstubdll - libtest_fortran - libtest_fortrandll - testhdf5_fortran - testhdf5_fortrandll - - If you don't plan on building threadsafe HDF5, disable project - "ttsafedll" as well. If you would like to build threadsafe HDF5, please - see Install_Windows.txt. - - 4. (Optional) Disable HDF5 C++ and High level C++ + 3. (Optional) Disable HDF5 C++ and High level C++ In HDF5 1.8, C++ and HL C++ libraries are built by default. To opt-out, you must explicitly disable them. @@ -147,7 +110,7 @@ notes in INSTALL_Windows.txt before starting below procedures. Libraries. - 5. Select "Build", then Select "Configuration Manager". + 4. Select "Build", then Select "Configuration Manager". 5.1 To build debug static libraries, debug multithreaded DLLs, and tests: @@ -187,19 +150,9 @@ hdf5check.bat has four options: Notes: Users who only build HDF5 C/C++ libraries ONLY have the first two options. -Invoke a command prompt window and run hdf5check with appropriate -options. - -Test results are saved in two files: - - c:\MyHDFstuff\hdf5\tests_results.txt - - c:\MyHDFstuff\hdf5\check_results.txt. - -In general, you only need to check tests_results.txt. If all the -tests passed, then you do not have to check check_results.txt. -If some tests failed, check check_results.txt can help you -figure out what was wrong. +Invoke a command prompt window and run hdf5check with appropriate option. +Users are encouraged to pipe the test output into a file. You should find +no "*FAILED*" marks. If you want to test HDF5 libraries and tools one by one, please refer to Section II, step 2 in INSTALL_Windows.txt. diff --git a/release_docs/INSTALL_Windows_Short_VS2005.TXT b/release_docs/INSTALL_Windows_Short_VS2005.TXT index 957e7c1..c205852 100755 --- a/release_docs/INSTALL_Windows_Short_VS2005.TXT +++ b/release_docs/INSTALL_Windows_Short_VS2005.TXT @@ -149,19 +149,9 @@ hdf5check.bat has four options: Notes: Users who only build HDF5 C/C++ libraries ONLY have the first two options. -Invoke a command prompt window and run hdf5check with appropriate -options. - -Test results are saved in two files: - - c:\MyHDFstuff\hdf5\tests_results.txt - - c:\MyHDFstuff\hdf5\check_results.txt. - -In general, you only need to check tests_results.txt. If all the -tests passed, then you do not have to check check_results.txt. -If some tests failed, check check_results.txt can help you -figure out what was wrong. +Invoke a command prompt window and run hdf5check with appropriate option. +Users are encouraged to pipe the test output into a file. You should find +no "*FAILED*" marks. If you want to test HDF5 libraries and tools one by one, please refer to Section II, step 2 in INSTALL_Windows.txt. diff --git a/release_docs/RELEASE.txt b/release_docs/RELEASE.txt index dcac848..489030c 100644 --- a/release_docs/RELEASE.txt +++ b/release_docs/RELEASE.txt @@ -1,16 +1,16 @@ -HDF5 version 1.8.0-beta4post1 currently under development +HDF5 version 1.8.0 currently under development ================================================================================ INTRODUCTION This document describes the differences between HDF5-1.6.* and -HDF5-1.8.0-beta3, and contains information on the platforms tested and -known problems in HDF5-1.8.0-beta3. For more details check the HISTORY.txt -file in the HDF5 source. +Hdf5 1.8.0 release candidate "HDF5-1.8.0-rc3", and contains information +on the platforms tested and known problems in HDF5-1.8.0-rc3. +For more details check the HISTORY.txt file in the HDF5 source. -Links to HDF5 1.8.0-beta* source code, documentation, and additional materials +Links to HDF5 1.8.0-rc3 source code, documentation, and additional materials can be found on THG's development server (www.hdfgroup.uiuc.edu) at the following location: http://www.hdfgroup.uiuc.edu/HDF5/release/beta/obtain518.html @@ -41,7 +41,7 @@ CONTENTS - New Features - Support for new platforms and languages -- Bug Fixes since HDF5-1.6.0 +- Bug Fixes since HDF5-1.8.0 - Platforms Tested - Known Problems @@ -50,922 +50,47 @@ New Features ============ Configuration: - -------------- - - Removed stream-vfd from the HDF5 library. - AKC 2007/11/19. - - Updated versions of autotools. HDF5 now uses automake 1.10.0, - autoconf 2.61, and libtool 1.5.22. MAM - 2007/7/25. - - Changed default fortran compiler to g95 when gcc is used. - AKC - 2007/2/17. - - 'make check-vfd' can now be run from the top level directory. Not all - tests that 'make check' invokes work with certain Virtual File Drivers, - so those tests have been skipped. - MAM 2006/7/17 - - Added the variable HDF5TestExpress to control how long tests run. - Setting it to a value between 0 and 3 controls how thoroughly the - library is tested, with 0 being an "exhaustive run" and 3 being a - very quick "smoke test." 1 (a "full run") is the default. - -JML 2006/6/21 - - If both shared and static libraries are installed, now both will be - tested during 'make install'. -MAM 2006/06/21 - - Added support to explicity enable stream_vfd or shared libraries - when using parallel via the '--enable-stream_vfd' and - '--enable-shared' options, respectively. If not explicity defined, - These settings default to enabled when parallel is not used, - and disabled when parallel is used. -MAM 2006/06/17 - - Remove the flexible parallel code and the --enable-fphdf5 - configure option, it was never up to production standards - anyway. -QAK 2006/4/20 - - Added a macro hdf5_mpi_special_collective_io_works to filter out - some mpi-io packages that don't support collective IO for no IO - contributions in some processes. -KY 2006/2/16 - - Added -shlib option to link against installed shared libraries to - h5c++ and h5fc. -JML 2005/11/1 - - Added --enable-build-all option to configure, which only developers - should need to use. -JML 2005/10/24 - - Configure uses the 'TR' variable to let the user override the path - to the 'tr' utility. -JML 2005/10/17 - - Configure can recognize -lmpich as a form of MPI library. -AKC- - 2005/9/28. - - MD5 checksumming has been added to snapshot releases. Release - tarballs will be accompanied by .md5 checksum files, which can - be verified using the md5sum utility. -JML 2005/9/6 - - Some configure flags are incompatible (e.g., the C++ APIs cannot - be built using the parallel version of HDF5). configure will now - output errors when some common incompatible features are used - together. -JML 2005/9/6 - - A new API function, H5Tis_hard(), was added to the library. It - checks if a conversion function is a compiler (hard) conversion. - SLU - 2005/9/6 - - t_mpi will run the test_mpio_derived_dtype by default unless it is - known not working (indicated by macro H5_MPI_COMPLEX_DERIVED_DATATYPE_WORKS - not defined.) -AKC- 2005/8/23. - - Test execution has changed in a number of ways: - When make is invoked in parallel (using -j), sequential tests - are now executed as parallel make targets. This should make them - finish more quickly on machines with multiple processors. - Since test output is garbled when they are executed by parallel make, - tests now dump their output to foo.log files and foo.logsh files - (for test scripts). These logs are printed to the screen only - when a test fails or when all tests in the current directory have - completed successfully. - When tests pass, they will create a foo.chkexe file. - This prevents the test from executing again until the test or - main library changes. - All files generated by tests (*.chkexe, *.log, and any *.h5 files - created) can be removed by invoking 'make check-clean'. - Sequential and parallel library tests can now be invoked separately. - 'make check-s' will execute only sequential tests, and 'make check-p' - will execute only parallel tests. 'make check' will still execute - all tests. - -JML 2005/08/03 - - On windows, all.zip is deprecated. users should - read INSTALL_Windows.txt to know the details. - Reasons to deprecate all.zip: - 1. Avoid confliction for windows programmers - 2. Decrease size of CVS tree by adding all.zip - 3. Avoid using winzip as the intermediate step - --KY 2005/04/22 - - When HDF5 is created as a shared library, it now uses libtool's - shared library versioning scheme. -JML 2005/04/18 - - HDF5 now uses automake 1.9.5 to generate Makefiles.in. - This has a number of effects on users: - The Fortran compiler should be set using the environment - variable $FC, not $F9X. F9X still works, but is depreciated. - The output of make may be different. This should be only a - cosmetic effect. - make depened (or make dep) is no longer recognized, since automake - handles dependency tracking. - Some new configure options exist. --enable-dependency-tracking - and --disable-dependency-tracking are used to control automake's - dependency tracking. Dependencies are on by default *on most - platforms and compilers*. If --enable-dependency-tracking is - used, they will be enabled on any platform. However, this can - slow down builds or even cause build errors in some cases. - Likewise, --disable-dependency-tracking can speed up builds and - avoid some build errors. - Some make targets have alternate names. make check-install and - make installcheck do the same thing, for instance. - pmake on IRIX can be invoked from the root directory, but the - -V flag must be used to invoke it in any subdirectory or it - will give an error about undefined variables. - JML 2005/01 - 2005/03 - - Hardware conversion between long double and integers is also added. - SLU 2005/02/10 - - Started to support software conversion between long double and - integers. Hardware conversion will come very soon. SLU - 2005/1/6 - - Intel v8.0 compiler would infinite loop when compiling some test - code with -O3 option. Changed enable-production default compiler - option to -O2. AKC - 2004/12/06 - - Long double is assumed to be a supported C data type. It is a - stanadard C89 type. AKC - 2004/10/22 - - The IA64 will use ecc as the C++ compiler by default. - - Added some initial support for making valgrind/Purify (or similar - memory checking products) happier by initializing buffers to zero - and disabling the internal free list code. To take advantage of - this, use the "--enable-using-memchecker" configure option when - building the library. QAK - 2004/07/23 - - Fixed the long compile time of H5detect.c when v7.x Intel Compiler - is used with optimization NOT off. AKC - 2004/05/20 - - Fixed configure setting of C++ for OSF1 platform. AKC - 2004/01/06 - - Prefix default is changed from /usr/local to `pwd`/hdf5. - AKC - 2003/07/09 + ------------- Library: -------- - - Removed size restrictions on attributes, when using the "latest" - version of the file format. - QAK - 2007/02/21 - - Relaxed restrictions on attribute operations to allow a file ID to - be used as the "location ID". If a file ID is used, the attribute - operation will occur on the root group of the file. - - QAK - 2007/02/09 - - Enabled the CORE driver to read an existing file depending on - the setting of the backing_store for H5Pset_fapl_core and file - open flags. - SLU - 2006/11/30 - - Added new H5Gget_info_by_idx() routine to query the information about - a group according to the order within an index. - - QAK - 2006/11/27 - - Added new H5Gget_info() routine to query the information about a - group by name. - - QAK - 2006/11/27 - - Added new H5Oget_info_by_idx() routine to query the information about - an object in a group according to the order within an index. - - QAK - 2006/11/26 - - Added new H5Oget_info() routine to query the information about an - object in a group by name. - - QAK - 2006/11/26 - - Added new H5Oopen_by_idx() routine to open an object in a group - according to the order within an index. - - QAK - 2006/11/20 - - Added new H5Literate() routine to iterate over links in a group - according to the order within an index. - - QAK - 2006/11/20 - - Added new H5Ldelete_by_idx() routine to delete a link according to - the order within an index. - - QAK - 2006/11/13 - - Added new H5Lget_val_by_idx() routine to query the value of a soft link - according to the order within an index. - - QAK - 2006/11/13 - - Added new H5Lget_name_by_idx() routine to query the name of a link - according to the order within an index. - - QAK - 2006/11/12 - - Added new H5Rget_name() routine to determine the name of the object - that a reference points to, as long as the object is still - reachable in the group hierarchy. - - QAK - 2006/11/10 - - Added new H5Lget_info_by_idx() routine to query the link information - according to the order within an index. - - QAK - 2006/11/10 - - Added feature to H5Iget_name to allow retrieving the name of any - object's ID, as long as the object is still reachable in the - group hierarchy. - - LA - 2006/11/01 - - Added External and User-defined links. - External links are links from one HDF5 file to another; they - require both the name of the file and a path within that file. - User-defined links allow users to supply callback functions - for link traversals, allowing links to exhibit essentially - any behavior. - External links are a kind of user-defined link, so their default - behavior can be overridden by the user. - -JML 2006/8/23 - - Added H5Oopen and H5Oclose for opening objects of unknown type - (as link callback functions do). - -JML 2006/8/23 - - Added H5Oopen_by_addr, H5Oincr_refcount, and H5Odecr_refcount for - opening objects by address. Be very careful with these! - -JML 2006/8/23 - - Added H5Fget_intent to get the "intent" of a file (whether it - was opened with read-write access or read-only. - -JML 2006/8/23 - - Added Link Access Property Lists. They currently contain two - properties, nlinks (H5Pget/set_nlinks) and elink_prefix - (H5Pget/set_elink_prefix). nlinks controls how many soft and - user-defined traversals are allowed before HDF5 assumes it has - found a cycle (previously this defaulted to 16). - The elink_prefix is a filesystem path that is prefixed to the - names of any external link files opened using this LAPL. - -JML 2006/8/23 - - Add H5L link APIs. Old APIs (H5Glink, H5Gmove, etc.) are still - supported but deprecated. - New APIs are: - H5Llink - create a link to an object given its ID - H5Lmove - just like H5Gmove2 - H5Lcopy - copy a link without copying the underlying object - H5Lcreate_hard - like H5Glink2 for hard links - H5Lcreate_soft - like H5Glink2 for soft links - H5Ldelete - just like H5Gunlink - H5Lget_val - just like H5Gget_linkval - H5Lget_info - gets link-specific info (like H5Gget_objinfo) - - In addition, H5Gcreate_anon, H5Tcommit_anon, and H5Dcreate_anon - no longer create links to objects; objects must be manually linked - using H5Llink or they will be deleted when the ID is closed. - - Link Creation Property Lists can be used to pass character - encoding (ASCII or UTF-8) for link names and to set the Intermediate - Group Creation Flag: - H5Pset_char_encoding, H5Pget_char_encoding - H5Pset_copy_object, H5Pget_copy_object - -JML 2006/7/5 - - Added managements of collective IO supports for chunking storage - inside parallel HDF5 - 1) Implemented One IO with collective mode for all chunks in the - application by building one MPI derived datatype accross all - chunks. - 2) Implemented the decision-making support to do collective IO inside - MPI-IO per chunk. - 3) Added the decision-making support to do one IO accross all chunks - or to do multiple IOs with each IO per chunk. - 4) Added the support to handle the case some processes won't do any IOs in - collectively. - 5) Some MPI-IO package(mpich 1.2.6 or lower, e.g.) cannot handle - collective IO correctly for the case when some processes have no - contributions to IOs, a special macro is added to change - collective IO mode to independent IO mode inside HDF5 library. - - Currently we find that MPICH at Linux and vender MPI-IO package at NCSA - Altix cannot handle this case. - - "hdf5_mpi_special_collective_io_works=${hdf5_mpi_special_collective_io_works='no'}" - has been added at the end of file <ia64-linux-gnui> and - <linux-gnulibc1>. - - If MPI-IO packages at your Linux and Altix support this case, - please comment out the last line and report to us at - help@hdfgroup.org. We can tune in our configuration to - support this. - - KY - 2006/02/16 - - Added character encoding to attribute creation property lists. - JML - 2006/01/02 - - Added H5Gcopy() routine to copy objects between while keeping - data in compressed form. QAK - 2005/11/06 - - Added H5Sextent_equal() routine. QAK - 2005/11/06 - - Added HSYS_ERROR which retrieves the system error message and pushes - it to the error stack. This gives more information of the failed - system call. AKC - 2005/08/04 - - Added H5F_OBJ_LOCAL flag to H5Fget_obj_count() & H5Fget_obj_ids(), to - allow querying for objects in file that were opened with a particular - file ID, instead of all objects opened in file with any file ID. - QAK - 2005/06/01 - - Added H5T_CSET_UTF8 character set to mark datatypes that use the - UTF-8 Unicode character encoding. Added tests to ensure that - library handles UTF-8 object names, attributes, etc. -JL 2005/05/13 - - HDF5 supports collective MPI-IO for irregular selection with HDF5 - dataset. Irregular selection is when users use H5Sselect_hyperslab - more than once for the same dataset. - Currently, not all MPI-IO packages support complicated MPI derived - datatype used in the implementation of irregular - selection INSIDE HDF5. - 1) DEC 5.x is not supporting complicated derived datatype. - 2) For AIX 5.1, - if your poe version number is 3.2.0.19 or lower, - please edit powerpc-ibm-aix5.x under hdf5/config, - Find the line with - << hdf5_mpi_complex_derived_datatype_works>> - and UNCOMMENT this line before the configure. - check poe version with the following command: - lpp -l all | grep ppe.poe - 3) For Linux cluster, - if mpich version is 1.2.5 or lower, collective irregular selection - IO is not supported, internally independent IO is used. - 4) For IRIX 6.5, - if C compiler version is 7.3 or lower, collective irregular selection - IO is not supported, internally independent IO is used. - 5) For platforms which internally used mpich, if the - mpich version is 1.2.5 or lower, please find the - corresponding config file and add - hdf5_mpi_complex_derived_datatype_works='no' at the - end of the configuration file. For example, at NCSA - SGI Altix, the internal mpich library is 1.2.5. So - hdf5_mpi_complex_derived_datatype_works='no' should be - added at the end of the config file ia64-linux-gnu. - KY - 2005/09/12 - We also found not all MPI-IO packages support collective IO with one - or more processes to have no contributions to IO. - For mpich version 1.2.6 or lower and all IRIX machine, - if the library checks that there are no IO contributions for some - processes, collective IO request is replaced with - independent inside HDF5. - KY - 2006/05/04 - - - HDF5 N-bit filter - HDF5 support N-bit filter from this version, - The N-Bit filter is used effectively for compressing data of N-Bit - datatype as well as compound and array datatype with N-Bit fields. - KY - 2005/04/15 - - HDF5 scaleoffset filter - HDF5 supports scaleoffset filter for users to do data - compression through HDF5 library. - Scale-Offset compression performs a scale and/or offset operation - on each data value and truncates the resulting value to a minimum - number of bits and then stores the data. - Scaleoffset filter supports floating-point and integer datatype. - Please check the HDF5 reference manual for this. - KY - 2005/06/06 - - Retired SRB vfd (--with-srb). Functions H5Pset_fapl_srb and - H5Pget_fapl_srb were removed. EIP - 2005/04/07 - - Retired GASS vfd (--with-gass). Functions H5Pset_fapl_gass and - H5Pget_fapl_gass are removed too. AKC - 2005/3/3 - - Pablo was removed from the source code EIP - 2005/01/21 - - Modified registration of SZIP to dynamically detect the presence - or absence of the encoder. Changed configure and Makefiles, - and tests to dynamically detect encoder. BEM - 2004/11/02 - - Added function H5Pget_data_transform, together with the previously - added H5Pset_data_transform, to support the data transform - feature. AKC - 2004/10/26 - - Compound datatype has been enhanced with a new feature of size - adjustment. The size can be increased and decreased(without - cutting the last member) as long as it doesn't go down to zero. - No API change is involved. SLU - 2004/10/1 - - Put back 6 old error API functions to be backward compatible with - version 1.6. They are H5Epush, H5Eprint, H5Ewalk, H5Eclear, - H5Eset_auto, H5Eget_auto. Their new equivalent functions are - called H5Epush_stack, H5Eprint_stack, H5Ewalk_stack, - H5Eclear_stack, H5Eset_auto_stack, H5Eget_auto_stack. SLU - - 2004/9/2 - - 4 new API functions, H5Tencode, H5Tdecode, H5Sencode, H5Sdecode were - added to the library. Given object ID, these functions encode and - decode HDF5 objects(data type and space) information into and from - binary buffer. SLU - 2004/07/21 - - 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 - - Added support for SZIP without encoder. Added H5Zget_filter_info - and changed H5Pget_filter and H5Pget_filter_by_id to support this - change. JL/NF - 2004/06/30 - - 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 - - Added support for user defined identifier types. NF/JL - 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 - - New Feature of Data transformation is added. AKC - 2004/05/03. - - New exception handler for datatype conversion is put in to - replace the old overflow callback function. This exception - handler is set through H5Pset_type_conv_cb function. - SLU - 2004/4/27 - - Added option that if $HDF5_DISABLE_VERSION_CHECK is set to 2, - will suppress all library version mismatch warning messages. - AKC - 2004/4/14 - - A new type of dataspace, null dataspace(dataspace without any - element) was added. SLU - 2004/3/24 - - Data type conversion(software) from integer to float was added. - SLU - 2004/3/13 - - Data type conversion(software) from float to integer was added. - Conversion from integer to float will be added later. - SLU -2004/2/4 - - Added new H5Premove_filter routine to remove I/O pipeline filters - from dataset creation property lists. PVN - 2004/01/26 - - Added new 'compare' callback parameter to H5Pregister & H5Pinsert - routines. QAK - 2004/01/07 - - Data type conversion(hardware) between integers and floats was added. - SLU 2003/11/21 - - New function H5Iget_file_id() was added. It returns file ID given - an object(dataset, group, or attribute) ID. SLU 2003/10/29 - - Added new fields to the H5G_stat_t for more information about an - object's object header. QAK 2003/10/06 - - Added new H5Fget_freespace() routine to query the free space in a - given file. QAK 2003/10/06 - - Added backward compatability with v1.6 for new Error API. SLU - - 2003/09/24 - - Changed 'objno' field in H5G_stat_t structure from 'unsigned long[2]' - to 'haddr_t'. QAK - 2003/08/08 - - Changed 'fileno' field in H5G_stat_t structure from 'unsigned long[2]' - to 'unsigned long'. QAK - 2003/08/08 - - Changed 'hobj_ref_t' type from structure with array field to 'haddr_t'. - QAK - 2003/08/08 - - Object references (hobj_ref_t) can now be compared with the 'objno' - field in the H5G_stat_t struct for testing if two objects are the - same within a file. QAK - 2003/08/08 - - Switched over to new error API. SLU - 2003/07/25 Parallel Library: ----------------- - - Added mpich2 as a testing "platform" informally. AKC - 2005/9/28. - - A dataset created in serial mode with H5D_ALLOC_TIME_INCR allocation - setting was not extendible, either explicitly by H5Dextend or - implicitly by writing to unallocated chunks. Library now allocates - more space when needed or directed if the file is opened by parallel - mode, independent of what the dataset allocation mode is. - CC/AKC - 2005/08/29. - - Allow compressed, chunked datasets to be read in parallel. - QAK - 2004/10/04 - - Add options of using atomicity and file-sync to test_mpio_1wMr. - AKC - 2003/11/13 - - Added parallel test, test_mpio_1wMr, which tests if the - underlaying parallel I/O system is conforming to the POSIX - write/read requirement. AKC - 2003/11/12 Fortran Library: ---------------- - - added support for shared Fortran libraries. -JML 2005/09/20 - - added missing h5tget_member_class_f function - EIP 2005/04/06 - - added new functions h5fget_name_f and h5fget_filesize_f - EIP 2004/07/08 - - h5dwrite/read_f and h5awrite/read_f functions only accept dims parameter - of the type INTEGER(HSIZE_T). - - added support for native integers of 8 bytes (i.e. when special - compiler flag is specified to set native fortran integers to 8 bytes, - for example, -i8 flag for PGI and Absoft Fortran compilers, - -qintsize=8 flag for IBM xlf compiler). - EIP 2005/06/20 - - added support for "big" REAL and DOUBLE PRECISION types - (usually the size is specified by compilers flags like - -r8, -r16, etc.) - Known problem: multi file test fails when REAL is 16 bytes. - EIP 2005/09/8 C++ Library: ---------------- - - added support for shared C++ libraries. -JML 2005/09/20 - - Added missing member functions - H5::CompType::getMemberArrayType - H5::CompType::getMemberVarLenType - H5::AbstractDs::getArrayType - H5::AbstractDs::getVarLenType - H5::CommonFG::openArrayType - H5::CommonFG::openVarLenType - H5::PropList::copyProp -- this will replace the current - H5::PropList::copyProp in later releases due - to incorrect prototype. - H5::IdComponent::getHDFObjType - BMR - 2005/08/08 Tools: ------ - - h5dump lists groups and attributes in requested orders (by name and - creation order, both ascending and descending). PVN - 2007/10/5 - - h5import imports string (text) data. PVN - 2007/10/5 - - h52gif and gif2h5: Both these tools were revised to include the High - Level Image API support, and tests were added to /hl/tools/gif2h5. - PVN - 2007/04/13 - - h5dump: added support for double long type H5T_NATIVE_LDOUBLE. PVN - 2007/03/13 - - h5dump: added support for binary output, see usage. PVN 2007/03/13 - - h5repack: added support for the new nbit and scaleoffset filters. - PVN - 2007/05/07 - - h5repack: now uses the API function H5Ocopy (of the tool h5copy) to - recreate objects if there is not a user input for changes. PVN - - 2007/05/07 - - h5repack: added support for reading and repacking by hyperslabs for - large files. PVN - 2007/03/01 - - h5repack: a new option allows the copy using the file type (default) - instead of the previous conversion to native type. PVN - 2007/03/01 - - h5repack: output the percentage of compression used. PVN - 2007/03/01 - - h5diff: added support for -p option for unsigned long_long data. PVN - - 2007/02/26 - - h5diff: added support for comparing dataset regions. PVN - 2007/02/20 - - h5diff: added support for reading and comparing by hyperslabs for large files. - PVN - 2007/02/20 - - h5diff: printing of dataset dimensions along with dataset name. PVN -2007/02/19 - - h5dump now uses the new API function H5Rget_name to display the name - of the dataset referenced instead of its ID. PVN - 2007/02/19 - - Added new tool, h5mkgrp. QAK - 2007/02/14 - - Added new tool, h5copy. PVN - 2006/7/15 - - Removed obsolete pdb2hdf5 tool from tools/misc -JML 2005/10/24 - - Added build_h5perf_alone.sh that builds h5perf by standalone mode. - AKC - 2005/09/18. - - Sped up h5dump on files with large numbers of objects. - QAK - 2005/08/25 - - Added a standalone mode for building h5perf. AKC - 2005/08/12 - - new tool, h5jam. See reference manual. 2004/10/08 - - h5repack.sh did not report errors encountered during tests. It does - now. AKC - 2004/04/02 - - Added the MPI-I/O and MPI-POSIX drivers to the list of VFL drivers - available for h5dump and h5ls. RPM & QAK - 2004/02/01 - - Added option --vfd= to h5ls to allow a VFL driver to be selected - by a user. RPM & QAK - 2004/02/01 - - Added option -showconfig to compiler tools (h5cc,h5fc,h5c++). - AKC - 2004/01/08 - - Install the "h5cc" and "h5fc" tools as "h5pcc" and "h5pfc" - respectively if library is built in parallel mode. - WCW - 2003/11/04 - - Added metadata benchmark (perform/perf_meta). SLU - 2003/10/03 - - Changed output of "OID"s from h5dump from "<number>-<number>" to - "<number". This affects both the "regular" and XML output. - QAK - 2003/08/08 - - Changed output of file IDs and "OID"s from h5ls from - "<number>:<number>:<number>:<number>" to "<number>:<number>" - QAK - 2003/08/08 High-Level APIs: ------ - - Fortran interfaces for the Image, Table and Lite APIs. PVN - 2007/5/1 - - New HDF5 Dimension Scale API (H5DS) allows dimension scales to be - created in an HDF5 file and associated with specific datasets. PVN - 2007/5/1 - - There are two new functions in the Lite library, H5LTtext_to_dtype - and H5LTdtype_to_text. H5LTtext_to_dtype creates a HDF5 data type - given a text description; H5LTdtype_to_text converts a data type - to text description. Only DDL definition is supported as text - desciption now. SLU - 2006/05/17 - - Added Packet Table API for creating tables with less overhead than - H5TB API. Added C++ wrapper for Packet Tables. See documentation. - JML - 2004/03/28 Documentation ------------- - - The documentation for this release is largely complete, but - trails the source code. A few of the newer functions are - not yet documented. FMB - 2007/04/18 - - The user documents for this beta can be accessed directly at - this location: - http://www.hdfgroup.uiuc.edu/HDF5/doc_1.8pre/doc/ - The most recent document versions (updated daily) in the - 1.8 development branch can be accessed at this location: - http://www.hdfgroup.uiuc.edu/HDF5/doc_dev_snapshot/H5_dev/ - FMB - 2007/04/18 - Support for new platforms, languages and compilers. ======================================= - - Added support for Free-BSD on amd64 with GNU C and Fortran compilers - 4.2.1 - EIP - 2007/06/25 - - Added support for sequential and parallel libraries for Intel 64 Linux - cluster (abe.ncsa.uiuc.edu). Among three MPICH packages available on - this machine, only Open MPI works. The VMI has seg fault in hyperslab.c - and bittests.c tests. The MVAPICH2 complained about mpd not running - the parallel test. (see Known Problems section for more info) - EIP - 2007/06/25 - - Added support for HPUX11.23 for both 32 and 64-bit; HDF5 C++ - - Added support for 64-bit Windows with Visual Studio .NET and 2005. - SJW - 2007/06/25 - - Added suport for HPUX11.23 for both 32 and 64-bit; HDF5 C++ - shared library is not supported with +DD64 flag. - EIP - 2006/06/22 - - Added support for VAX floating numbers for Alpha Open VMS 7.3.2 - EIP - 2006/05/05 - - Fixed broken make.com files in tools directories - EIP - 2006/05/05 - - Added support for Alpha Open VMS 7.3.2 EIP - 2006/04/15 - - Added support for Cray X1. JML - 2005/10/03 - - PGI Fortran compiler is supported on Linux64 systems (x86_64) - EIP - 2004/08/19 - - Absoft compiler f95 v9.0 supported on Linux 2.4 - 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 - - HDF5 Fortran APIs are supported on MAC OSX with IBM XL Fortran - Compiler version 8.1 Use "--disable-shared --enable-static" - configure flags along with the "--enable-fortran" flag to build - Fortran library. EIP - 2004/01/07 - -Bug Fixes since HDF5-1.6.0 release + +Bug Fixes since HDF5-1.8.0 release ================================== Library ------- - - Fixed several bugs with writing fill values for datasets that have - a variable-length datatype or component datatype. QAK - 2007/06/19 - - STDIO driver didn't support files bigger than 2GB because the OFFSET - parameter of fseek is of type LONG INT, not big enough for big files. - Use fseeko instead for big files if it's available on the system. - SLU - 2007/4/5 - - Fixed a bug in H5Sselect_valid() that caused an incorrect value to - be returned (0) instead of FAIL on error conditions such as the - selection or extent not being defined. CMC - 2007/01/17 - - Fixed the MULTI driver problem (Bug #731) that corruptted the data. - SLU - 2007/1/12 - - Fixed file corruption bug which could write an incorrect number of - messages to an object's header under certain circumstances. - Generally, the sequence of actions to generate this bug looks - like this: - - Create an object - - Close the file - - Re-open the file - - Add 2 (or more) attributes to the object - - Close the file - - Re-open the file - - Delete one of the attributes on the object - - Add a smaller attribute to the object - - Delete the smaller atttribute on the object - - Add a larger attribute on the object - - After this, the number of header messages stored for the object - will be off by one. Other sequences of modifying attributes on an - object could also trigger this bug. If you are opening an - object and the bottom few messages of the HDF5 error stack - resembles this, the object has been affected by this bug: - - #007: ../../hdf5_v1.6/src/H5C.c line 3887 in H5C_load_entry(): unable to load entry - major(08): Meta data cache layer - minor(40): Unable to load metadata into cache - #008: ../../hdf5_v1.6/src/H5Ocache.c line 332 in H5O_load(): corrupt object header - too few messages - major(12): Object header layer - minor(40): Unable to load metadata into cache - - Specifically, "corrupt object header" is the best string to search - for in the HDF5 error stack output. - - If your files have been affected by this bug, or you are concerned - that your files might have been, please contact the HDF Helpdesk - at help@hdfgroup.org for a tool to detect and repair files - affected by this problem. QAK - 2006/6/16 - - Fixed various problems with retrieving names of objects, especially - with mounted files. QAK - 2005/12/25 - - Fixed core dump when closing root groups opened through two different - file handles that operate on the same actual file. QAK - 2005/10/02 - - Corrected errors when performing various operations on a group opened - by dereferencing an object reference. QAK - 2005/07/30 - - Fixed a bug with named datatypes where a copy of a named datatype - used to create a dataset would accidentally use the original - named datatype for the dataset's datatype. QAK - 2005/07/23 - - Made H5Fget_name() be consistent and always return name of actual - file the ID is in. (Instead of the name of the top file in a - file mounting hierarchy). QAK - 2005/07/19 - - Reworked internal file mounting semantics to hopefully eliminate - mounting problems. We now require that files that are mounting - together all have the same "file close degree". QAK - 2005/07/19 - - More bug fixes on holding open files that are mounted and have - IDs open. QAK - 2005/07/14 - - Don't unmount child files until the parent file actually closes. - (Previously, if an object is holding open a file, the child files - would get unmounted too early). QAK - 2005/07/05 - - Fixed bug where unmounted files could cause the library to go into - an infinite loop when shutting down. QAK - 2005/06/30 - - The library didn't save the information of family driver in file. - The original file member size was lost after file was closed (see - bug #213). This has been fixed by saving driver name and member - file size in the superblock. SLU - 2005/6/24 - - Fixed bug with hyperslab selections that use selection offsets and - operate on chunked datasets going into infinite loop or dumping - core. QAK - 2005/06/17 - - Corrected memory leak and possible corruption when opening a group. - QAK - 2005/06/17 - - Added check for opaque datatype tags being too long (check against - H5T_OPAQUE_TAG_MAX, currently set to 256). QAK - 2005/06/14 - - Fixed various errors in maintaining names for open objects in the - face of unusual mount & unmount operations. QAK - 2005/06/08 - - "SEMI" and "STRONG" file close degree settings now apply only to the - particular file ID being closed, instead of operating on all open - file IDs for a given file. QAK - 2005/06/01 - - For family driver, the library didn't save member size in file. - When file is reopened, the size of 1st member file determine the - member size. Now member size is saved in file and is used to - define member file size. Wrong file access property of member size - will result in a failure. Using any other driver except family - will cause library to return error. So is multi driver. SLU - - 2005/05/24 - - Fixed error in opening object in group that was opened in mounted - file which has been unmounted. QAK - 2005/03/17 - - Fixed a racing condition in MPIPOSIX virtual file drive close - function. Now all processes must completed the close before any - of them is returned. This prevents some "faster" processes start - accessing the file for another purpose (e.g., open with truncate) - while other "slower" processes have not closed the same file with - the previous purpose. AKC - 2005/03/01 - - H5Tget_member_value calls for enum datatype didn't return correct - value if H5Tenum_valueof was called first. It's fixed. SLU - - 2005/02/08 - - For variable-length string, H5Tget_class returned H5T_STRING as its - class. But H5Tdetect_class and H5Tget_member_class considered it - as H5T_VLEN. This is fixed to let all these 3 functions treat it - as H5T_STRING. SLU - 2005/02/08 - - The byte order of 1-byte integer types was fixed as little endian - even on a big-endian machine. This has been corrected. SLU - - 2005/02/07 - - Fix segmentation fault when calling H5Fflush with an attribute that - hasn't had a value written to it open. QAK - 2004/10/18 - - Back up supporting bitfield and time types in H5Tget_native_type. - Leave it to future support. The function simply returns error - message of "not support" for bitfield and time types. - SLU - 2004/10/5 - - Fixed address check in Core VFL driver to avoid spurious address/size - overflows for odd valued addresses and/or sizes. QAK - 2004/09/27 - - Fixed parallel bug in which some processes attempted collective - I/O while others did independent I/O. Bug appeared when some - processes used point selections, and others didn't. JRM - 2004/9/15 - - Corrected error where dataset region references were written in an - incorrect way on Cray machines. PVN & QAK - 2004/09/13 - - The H5Tget_native_type now determines the native type for integers - based on the precision. This is to avoid cases of wrongly converting - an int to a short in machines that have a short of 8 bytes but with - 32bit precision (e.g Cray SV1). PVN - 2004/09/07 - - Changed H5Dread() to not overwrite data in an application's buffer - with garbage when accessing a chunked dataset with an undefined - fill value and an unwritten chunk is uncountered. QAK - 2004/08/25 - - Fixed error which could cause a core dump when a type conversion - routine was registered after a compound datatype had been - converted and then an equivalment compound datatype was converted - again. QAK - 2004/08/07 - - Fixed memory overwrite when encoding "multi" file driver information - for file's superblock. QAK - 2004/08/05 - - 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 - - Fixed failure to read data back from file of compound type with - variable-length string as field. SLU - 2004/06/10 - - 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 - - Fixed problem with fletcher32 filter when converting data of different - endianess. PVN - 2004/03/10 - - Fixed problem with H5Tget_native_type() not handling opaque fields - correctly. QAK - 2004/01/31 - - Fixed several errors in B-tree deletion code which could cause a - B-tree (used with groups and chunked datasets) to become corrupt - with the right sequence of deleted objects. QAK - 2004/01/19 - - Fixed small internal memory leaks of fill-value information. - QAK - 2004/01/13 - - Fixed bug that caused variable-length datatypes (strings or sequences) - used for datasets in files with objects that were unlinked to - fail to be read/written to a file. QAK - 2004/01/13 - - Detect situation where szip 'pixels per block' is larger than the - fastest changing dimension of a dataset's chunk size and disallow - this (due to limits in szip library). QAK - 2003/12/31 - - Fixed bug with flattened hyperslab selections that would generate - incorrect hyperslab information with certain high-dimensionality - combinations of start/stride/count/block information. - QAK - 2003/12/31 - - Fixed bug with variable-length datatypes used in compound datatypes. - SLU - 2003/12/29 - - Fixed bug in parallel I/O routines that would cause reads from - "short datasets" (datasets which were only partially written out) - to return invalid data. QAK & AKC - 2003/12/19 - - Fixed bug where scalar dataspaces for attributes were reporting as - simple dataspaces. QAK - 2003/12/13 - - Fixed problem with selection offsets of hyperslab selections in - chunked datasets causing the library to go into an infinite loop. - QAK - 2003/12/13 - - Fixed H5Giterate to avoid re-using index parameter after iteration - callback has been called (allows iteration callback to modify the - index parameter itself). QAK - 2003/12/06 - - Fixed various floating-point conversion problems, including a - change which could corrupt data when converting from double->float. - QAK - 2003/11/24 - - Changed "single process" metadata writing in library to collective - I/O by all processes, in order to guarantee correct data being - written with MPI-I/O. QAK - 2003/11/20 - - Fixed problems with fill values and variable-length types and also - I/O on VL values that were set to NULL. QAK - 2003/11/08 - - Fixed problems with MPI datatypes that caused ASCI Q machine to - hang. QAK - 2003/10/28 - - Removed HDF5_MPI_PREFER_DERIVED_TYPES environment variable support, - since it had no benefit. QAK - 2003/10/28 - - Single hyperslab selections (which were set with only one call to - H5Sselect_hyperslab) that had dimensions that could be "flattened" - but were interspersed with dimensions that could not be flattened - were not correctly handled, causing core dumps. QAK - 2003/10/25 - - Fixed incorrect datatype of the third parameter to the Fortran90 - h5pset(get)_cache_f subroutine (INTEGER to INTEGER(SIZE_T)) - EIP - 2003/10/13 - - Fixed problems with accessing variable-length data datatypes on - Crays. QAK - 2003/10/10 - - Fixed potential file corruption bug when too many object header - messages (probably attributes, from a user perspective) were - inserted into an object header and certain other conditions were - met. QAK - 2003/10/08 - - Changed implementation of internal ID searching algorithm to avoid - O(n) behavior for many common cases. QAK - 2003/10/06 - - Allow partial parallel writing to compact datasets. QAK - 2003/10/06 - - Correctly create reference to shared datatype in attribute, instead - of making a copy of the shared datatype in the attribute. - QAK - 2003/10/01 - - Revert changes which caused files >2GB to fail when created with - MPI-I/O file driver on certain platforms. QAK - 2003/09/16 - - Allow compound datatypes to grow in size. SLU - 2003/09/10 - - Detect if a type is already packed before attempting to pack it - again or check if it is locked. SLU - 2003/09/10 - - Corrected bug when opening a file twice with read-only permission - for one open and then closing the read-only access file ID would - generate an error. QAK - 2003/09/10 - - Corrected bug in repeated calls to H5Pget_access_plist() which would - incorrectly manage reference counts of internal information and - eventually blow up. QAK - 2003/09/02 - - Return rank of the array datatype on successful call to - H5Tget_array_dims(). QAK - 2003/08/30 - - Corrected bug in H5Tdetect_class which was not correctly detecting - datatype classes of fields in nested compound datatypes in some - circumstances. QAK - 2003/08/30 - - Corrected bug in sieve buffer code which could cause loss of data - when a small dataset was created and deleted in quick succession. - QAK - 2003/08/27 - - Corrected bug in H5Gget_objname_by_idx which was not allowing NULL - for the name when just querying for the object name's length. - QAK - 2003/08/25 - - Corrected bug in variable-length string handling which could - generate a core dump on writing variable-length strings as part - of a compound datatype on certain architectures. QAK - 2003/08/25 - - Corrected bug in H5Tget_native_type which would incorrectly compute - the size of certain compound datatypes and also incorrectly - compute the offset of the last field for those compound datatypes. - QAK - 2003/08/25 - - Corrected bug in H5Tget_native_type which would drop string datatype - metadata (padding, etc.) QAK - 2003/08/25 - - Corrected bugs in H5Gget_num_objs, H5Gget_objname_by_idx and - H5Gget_objtype_by_idx to allow them to accept location IDs, not just - group IDs. QAK - 2003/08/21 - - Corrected bug when using scalar dataspace for memory selection and - operating on chunked dataset. QAK - 2003/08/18 - - Corrected bugs with multiple '/' characters in names for H5Glink - and H5Gunlink. QAK - 2003/08/16 - - Corrected bug with user blocks that didn't allow a user block to - be inserted in front of a file after the file was created. - QAK - 2003/08/13 - - Corrected errors with using point selections to access data in - chunked datasets. QAK - 2003/07/23 - - Corrected error with variable-length datatypes and chunked datasets - caused H5Dwrite to fail sometimes. QAK - 2003/07/19 - - Modified library and file format to support storing indexed storage - (chunked dataset) B-tree's with non-default internal 'K' values. - QAK - 2003/07/15 - - Returned H5T_BKG_TEMP support to library after it was accidentally - removed. QAK - 2003/07/14 Configuration ------------- - - Configure can now use any tr command. No more need for - defining variable TR nor is it supported. -AKC 2006/05/19 - - Parallel I/O with the MPI-I/O driver will no longer work if the - filesystem is not POSIX compliant. The "HDF5_MPI_1_METAWRITE" - environment variable has been removed. QAK - 2004/01/30 - - Fixed the error that cause "make install" to fail because of the - macro definition syntax of "prefix?=..." AKC - 2003/07/22 Performance ------------- - - Optimized I/O for enumerated datatypes that are a superset of source - enumerated datatype. QAK - 2005/03/19 - - More optimizations to inner loops of datatype conversions for - integers and floats which give a 10-50% speedup. QAK - 2003/11/07 - - Hoisted invariant 'if/else's out of inner datatype conversion loop for - integer and floating-point values, giving about a 20% speedup. - QAK - 2003/10/20 Tools ----- - - Fixed h5dump & h5ls to display attributes in "name" order, rather - than the order they are encountered in the object header. - QAK - 2007/10/04 - - Fixed a bug on h5dump regarding the display of named datatypes - attributes. PVN 2007/03/13 - - Fixed a bug on h5dump regarding the display of group comments. PVN - 2007/03/13 - - Fixed a bug on h5dump regarding the display of hardlinks pointing - to the root group. PVN 2007/03/13 - - Fixed a bug in the h5diff percentage option -p. PVN 2007/03/05 - - Fixed a bug in h5dump that caused array indices greater than 2 ^32-1 - not to be printed correctly - PVN 2007/2/19 - - Fixed h5dump to print attributes data in ASCII if -r option is used. - AKC - 2004/11/18 - - Fixed space utilization reported in h5ls to correct error in formula - used. QAK - 2004/10/22 - - Fixed h5redeploy which sometimes complain too many argument for the - test command. (The complain did not hinder the h5redploy to - proceed correctly.) AKC - 2003/11/03 - - Fixed a segmentation fault of h5diff when percentage option is used. - AKC - 2003/08/27 - - Switched away from tools using internal "fixtype" function(s) to use - H5Tget_native_type() internally. QAK - 2003/08/25 - Documentation ------------- @@ -973,13 +98,10 @@ Bug Fixes since HDF5-1.6.0 release F90 APIs -------- - - h5pget_driver_f was returning information that could not be - interpreted by fortran application program; fixed. EIP - 2005/04/10 - Platforms Tested ================ -Platforms marked with * were not tested for hdf5-1.8.0-beta3 release +Platforms marked with * were not tested for hdf5-1.8.0-rc* release (This information is somewhat out of date and may be inaccurate. It will be updated for a later release) @@ -988,36 +110,27 @@ Platforms marked with * were not tested for hdf5-1.8.0-beta3 release xlf 10.01.0000.0 mpcc_r 6.0.0.8 mpxlf_r 8.1.1.7 - AIX 5.3 (32/64 bit) xlc 7.0.0.8 - xlC 7.0.0.8 - xlf 09.01.0000.0007 -* Cray X1 water 3.0.35 Cray Standard C Version 5.4.0.7.4 - Cray Fortran 5.4.0.7.3 - Cray C++ 5.4.0.7.4 - FreeBSD 6.2-STABLE gcc 3.4.6 [FreeBSD] 20060305 - g++ 3.4.6 [FreeBSD] 20060305 - gcc 4.2.1 20070620 - g++ 4.2.1 20070620 + FreeBSD 6.2-STABLE i386 gcc 3.4.6 [FreeBSD] 20060305 + (duty) g++ 3.4.6 [FreeBSD] 20060305 + gcc 4.2.1 20080123 + g++ 4.2.1 20080123 gfortran 4.2.1 20070620 FreeBSD 6.2-STABLE amd64 gcc 3.4.6 [FreeBSD] 20060305 - g++ 3.4.6 [FreeBSD] 20060305 - gcc 4.2.1 20070620 - g++ 4.2.1 20070620 - gfortran 4.2.1 20070620 + (liberty) g++ 3.4.6 [FreeBSD] 20060305 + gcc 4.2.1 20080123 + g++ 4.2.1 20080123 + gfortran 4.2.1 20080123 - HP-UX B.11.23 HP aC++/ANSI C B3910B A.06.00 - HP F90 v2.9.2 - HP aC++/ANSI C B3910B A.06.00 -* IRIX64 6.5 (64 & n32) MIPSpro cc 7.4.4m + IRIX64 6.5 (64 & n32) MIPSpro cc 7.4.4m F90 MIPSpro 7.4.4m C++ MIPSpro cc 7.4.4m - mpt 1.6 + Linux 2.6.9 (RHEL4) Intel 10.0 compilers (abe.ncsa.uiuc.edu) - Linux 2.4.21-40 gcc 3.2.3 + Linux 2.4.21-47 gcc 3.2.3 20030502 (osage) - Linux 2.6.9 gcc 3.4.6 - (kagiso) PGI 6.2-5 (pgcc, pgf90, pgCC) + Linux 2.6.9-42.0.10 gcc 3.4.6 20060404 + (kagiso) PGI 7.0-7 (pgcc, pgf90, pgCC) Intel 9.1 (icc, ifort, icpc) Linux 2.6.16.27 x86_64 AMD gcc 4.1.0 (SuSE Linux), g++ 4.1.0, g95 (GCC 4.0.3) (smirom) PGI 6.2-5 (pgcc, pgf90, pgCC) @@ -1026,40 +139,37 @@ Platforms marked with * were not tested for hdf5-1.8.0-beta3 release SMP ia64 Intel(R) C++ Version 9.0 (cobalt) Intel(R) Fortran Itanium(R) Version 9.0 SGI MPI - OSF1 V5.1 (QSC) Compaq C V6.5-011 - HP Fortran V5.5A-3548 - Compaq C++ V6.5-036 - MPIX200_64_r13.4 SunOS 5.8 32,46 Sun WorkShop 6 update 2 C 5.3 - (Solaris 2.8) Sun WorkShop 6 update 2 Fortran 90 + (Solaris 2.8) Sun WorkShop 6 update 2 Fortran 95 6.2 Sun WorkShop 6 update 2 C++ 5.3 -* SunOS 5.10 i86pc Sun C 5.7 - Sun Fortran 95 8.1 - Sun C++ 5.7 SunOS 5.10 cc: Sun C 5.8 (linew) f90: Sun Fortran 95 8.2 CC: Sun C++ 5.8 Xeon Linux 2.4.21-32.0.1.ELsmp-perfctr-lustre - (tungsten) Intel(R) C++ Version 9.0 + (tungsten) gcc 3.2.2 20030222 + Intel(R) C++ Version 9.0 Intel(R) Fortran Compiler Version 9.0 IA-64 Linux 2.4.21.SuSE_292.til1 ia64 - (NCSA tg-login) Intel(R) C++ Version 8.0 - Intel(R) Fortran Compiler Version 8.0 + (NCSA tg-login) gcc 3.2.2 + Intel(R) C++ Version 8.1 + Intel(R) Fortran Compiler Version 8.1 mpich-gm-1.2.5..10-intel-r2 - Windows XP Visual Studio 6.0 - Visual Studio .NET w/ Intel Fortran 9.0 - Visual Studio 2005 w/ Intel Fortran 9.0 - cygwin - Windows 64 Visual Studio .NET w/ Intel Fortran 9.0 - Visual Studio 2005 w/ Intel Fortran 9.0 + Windows XP + Visual Studio .NET + Visual Studio 2005 w/ Intel Fortran 9.1 + Cygwin(native gcc compiler and g95) + MinGW(native gcc compiler and g95) + Windows XP x64 + Visual Studio 2005 w/ Intel Fortran 9.1 + Windows Vista + Visual Studio 2005 MAC OS 10.4 (Intel) gcc i686-apple-darwin8-gcc-4.0.1 (GCC) 4.0.1 G95 (GCC 4.0.3 (g95 0.91!) Nov 21 2006) -* Alpha Open VMS 7.3 + Alpha Open VMS 7.3 Supported Configuration Features Summary -(This table was not modified for 1.8.0-beta3 release; for information contact help@hdfgroup.org) ======================================== In the tables below @@ -1072,93 +182,83 @@ Supported Configuration Features Summary Platform C F90 F90 C++ zlib SZIP parallel parallel -Solaris2.8 64-bit y y y(1) y y y -Solaris2.8 32-bit y y y(1) y y y -Solaris2.10 64-bit y(1) y n y y y -Solaris2.10 32-bit y(1) y n y y y -IRIX64_6.5 64-bit y(2) y y y y y -IRIX64_6.5 32-bit y(2) n n n y y -HPUX11.00 y(1) y y y y y -HPUX11.23-32bit n y n y y y -HPUX11.23-64bit n y n y y y -OSF1 v5.1 y y y y y y -Cray X1 y y y y y n -Cray XT3 (16) n y n y y n -AIX-5.2 & 5.3 32-bit y y y y y y -AIX-5.2 & 5.3 64-bit y y y y y y -WinXP .Net 2003 y y(16) n y(8) y y -WinXP 64bit - Visual Studio 2005 n n n y n n -Cygwin n y n y y y +SunOS5.8 64-bit n y n y y y +SunOS5.8 32-bit n y n y y y +SunOS5.10 64-bit y(1) y n y y y +SunOS5.10 32-bit y(1) y n y y y +IRIX64_6.5 64-bit n y y y y y +IRIX64_6.5 32-bit n n n n y y +AIX-5.2 32-bit y y y y y y +AIX-5.2 64-bit y y y y y y +Windows XP n y(15) n(15) y y y +Windows XP x64 n y(15) n(15) y y y +Windows Vista n n n y y y Mac OS X 10.4 PowerPC n n +Mac OS X 10.4 Intel n y n y y y FreeBSD 4.11 n n n y y y -RedHat EL3 W (3) y(1) y(10) n y y y -RedHat EL3 W Intel (3) n y n y y y -RedHat EL3 W PGI (3) n y n y y y -SuSe x86_64 gcc (3,12) n y(11) n y y y -SuSe x86_64 icc (3,12) n y(13) n y y y +RedHat EL3 W (3) y(1a) y(10) y(1a) y y y +RedHat EL3 W Intel (3) n y n y y n +RedHat EL3 W PGI (3) n y n y y n +SuSe x86_64 gcc (3,12) y(1a) y(11) n y y y +SuSe x86_64 Int (3,12) n y(13) n y y n +SuSe x86_64 PGI (3,12) n y(8) n y y y Linux 2.4 Xeon C - Lustre Intel (3,6) n y n y y y + Lustre Intel (3,6) n y n y y n Linux 2.6 SuSE ia64 C - Intel (3,7) y y y y y y + Intel (3,7) y y y y y n Linux 2.6 SGI Altix ia64 Intel (3) y y y y y y Alpha OpenVMS 7.3.2 n y n y n n -Platform Shared Shared Shared static- Thread- STREAM- - C libs F90 libs C++ libs exec safe VFD -Solaris2.8 64-bit y y n x y y -Solaris2.8 32-bit y y y x y y -Solaris2.10 64-bit y x y y -Solaris2.10 32-bit y x y y -IRIX64_6.5 64-bit y y n y y y -IRIX64_6.5 32-bit y dna y y y y -HPUX11.00 y n y x n y -HPUX11.23-32bit y n n y n y -HPUX11.23-64bit y dna n y n y -OSF1 v5.1 y y n y -Cray X1 n y n y -Cray XT3 (16) n y n y -AIX-5.2 & 5.3 32-bit n n n y n y -AIX-5.2 & 5.3 64-bit n n n y n y -WinXP .Net 2003 y y y y y n -WinXP 64bit - Visual Studio 2005 y y y y n n -Cygwin n dna n n n n -Mac OS X 10.3 y y n y -Mac OS X 10.4 PowerPC -FreeBSD 4.11 y n y y y y -RedHat EL3 W (3) y n(10) y y y y -RedHat EL3 W Intel (3) n n n y n y -RedHat EL3 W PGI (3) n n n y n y -SuSe x86_64 gcc (3,12) y y y y n y -SuSe x86_64 icc (3,12) y y y y(14) n y +Platform Shared Shared Shared static- Thread- + C libs F90 libs C++ libs exec safe +Solaris2.8 64-bit y y y x y +Solaris2.8 32-bit y y y x y +Solaris2.10 64-bit y x y +Solaris2.10 32-bit y x y +IRIX64_6.5 64-bit y y n y y +IRIX64_6.5 32-bit y dna y y y +AIX-5.2 & 5.3 32-bit n n n y n +AIX-5.2 & 5.3 64-bit n n n y n +Windows XP y y(15) y y y +Windows XP x64 y y(15) y y y +Windows Vista y n n y y +Mac OS X 10.3 y y n +FreeBSD 4.11 y n y y y +RedHat EL3 W (3) y y(10) y y y +RedHat EL3 W Intel (3) y y y y n +RedHat EL3 W PGI (3) y y y y n +SuSe x86_64 W GNU (3,12) y y y y y +SuSe x86_64 W Int (3,12) y y y y(14) n +SuSe x86_64 W PGI (3,12) y y y y(14) n Linux 2.4 Xeon C - Lustre Intel (3,6) y y y y n y + Lustre Intel (6) y y y y n Linux 2.4 SuSE - ia64 C Intel (3,7) y y y y n n + ia64 C Intel (7) y y y y n Linux 2.4 SGI Altix - ia64 Intel (3) y y n y -Alpha OpenVMS 7.3.2 n n n y n n + ia64 Intel y y n +Alpha OpenVMS 7.3.2 n n n y n Notes: (1) Using mpich 1.2.6. + (1a) Using mpich2 1.0.6. (2) Using mpt and mpich 1.2.6. - (3) Linux 2.4 with GNU, Intel, and PGI compilers, as indicated. + (3) Linux 2.6 with GNU, Intel, and PGI compilers, as indicated. W or C indicates workstation or cluster, respectively. - (4) IBM XLF and Absoft - (5) Using mpt. + (6) Linux 2.4.21-32.0.1. Xeon cluster with ELsmp_perfctr_lustre and Intel compilers (7) Linux 2.4.21, SuSE_292.till. Ia64 cluster with Intel compilers - (8) Intel 8.1 + (8) pgf90 (9) With Compaq Visual Fortran 6.6c compiler. (10) With PGI and Absoft compilers. (11) PGI and Intel compilers for both C and Fortran (12) AMD Opteron x86_64 (13) ifort (14) Yes with C and Fortran, but not with C++ + (15) Using Visual Studio 2005 or Cygwin + (16) Not tested for this release. Compiler versions for each platform are listed in the preceding "Platforms Tested" table. @@ -1251,12 +351,7 @@ Known Problems workaround until the problem is correctly handled is to use the flag "--instantiate=local" prior to the configure and build steps, as: setenv CXX "pgCC --instantiate=local" for pgCC 5.02 and higher - setenv CXX "pgCC -tlocal" for others -* 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 @@ -1300,12 +395,6 @@ Known Problems 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 this site: - ftp://www.hdfgroup.uiuc.edu/pub/outgoing/hdf5/hdf5-1.8.0-pre/PATCH/ - * Not all platforms behave correctly with szip's shared libraries. Szip is disabled in these cases, and a message is relayed at configure time. Static libraries should be working on all systems that support szip, and should be @@ -1318,23 +407,6 @@ Known Problems 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 |