path: root/release_docs/RELEASE.txt

HDF5 version 1.14.1-1 currently under development
================================================================================


INTRODUCTION
============

This document describes the differences between this release and the previous
HDF5 release. It contains information on the platforms tested and known
problems in this release. For more details check the HISTORY*.txt files in the
HDF5 source.

Note that documentation in the links below will be updated at the time of each
final release.

Links to HDF5 documentation can be found on The HDF5 web page:

     https://portal.hdfgroup.org/display/HDF5/HDF5

The official HDF5 releases can be obtained from:

     https://www.hdfgroup.org/downloads/hdf5/

Changes from release to release and new features in the HDF5-1.14.x release series
can be found at:

     https://portal.hdfgroup.org/display/HDF5/Release+Specific+Information

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 HDF5-1.14.0
- Platforms Tested
- Known Problems
- CMake vs. Autotools installations


New Features
============

    Configuration:
    -------------
    - Enabled instrumentation of the library by default in CMake for parallel
      debug builds

      HDF5 can be configured to instrument portions of the parallel library to
      aid in debugging. Autotools builds of HDF5 turn this capability on by
      default for parallel debug builds and off by default for other build types.
      CMake has been updated to match this behavior.

    - Added new option to build libaec and zlib inline with CMake.

      Using the CMake FetchContent module, the external filters can populate
      content at configure time via any method supported by the ExternalProject
      module. Whereas ExternalProject_Add() downloads at build time, the
      FetchContent module makes content available immediately, allowing the
      configure step to use the content in commands like add_subdirectory(),
      include() or file() operations.

      The HDF options (and defaults) for using this are:
          BUILD_SZIP_WITH_FETCHCONTENT:BOOL=OFF
          LIBAEC_USE_LOCALCONTENT:BOOL=OFF
          BUILD_ZLIB_WITH_FETCHCONTENT:BOOL=OFF
          ZLIB_USE_LOCALCONTENT:BOOL=OFF

      The CMake variables to control the path and file names:
          LIBAEC_TGZ_ORIGPATH:STRING
          LIBAEC_TGZ_ORIGNAME:STRING
          ZLIB_TGZ_ORIGPATH:STRING
          ZLIB_TGZ_ORIGNAME:STRING

      See the CMakeFilters.cmake and config/cmake/cacheinit.cmake files for usage.


    Library:
    --------
    - Added a Subfiling VFD configuration file prefix environment variable

      The Subfiling VFD now checks for values set in a new environment
      variable "H5FD_SUBFILING_CONFIG_FILE_PREFIX" to determine if the
      application has specified a pathname prefix to apply to the file
      path for its configuration file. For example, this can be useful
      for cases where the application wishes to write subfiles to a
      machine's node-local storage while placing the subfiling configuration
      file on a file system readable by all machine nodes.


    Parallel Library:
    -----------------
    -


    Fortran Library:
    ----------------
    -


    C++ Library:
    ------------
    -


    Java Library:
    -------------
    -


    Tools:
    ------
    -


    High-Level APIs:
    ----------------
    -


    C Packet Table API:
    -------------------
    -


    Internal header file:
    ---------------------
    -


    Documentation:
    --------------
    - Ported the existing VOL Connector Author Guide document to doxygen.

      Added new dox file, VOLConnGuide.dox.


Support for new platforms, languages and compilers
==================================================
    -


Bug Fixes since HDF5-1.14.0 release
===================================
    Library
    -------
    - Fixed potential buffer overrun issues in some object header decode routines

      Several checks were added to H5O__layout_decode and H5O__sdspace_decode to
      ensure that memory buffers don't get overrun when decoding buffers read from
      a (possibly corrupted) HDF5 file.

    - Fixed issues in the Subfiling VFD when using the SELECT_IOC_EVERY_NTH_RANK
      or SELECT_IOC_TOTAL I/O concentrator selection strategies

      Multiple bugs involving these I/O concentrator selection strategies
      were fixed, including:

        * A bug that caused the selection strategy to be altered when
          criteria for the strategy was specified in the
          H5FD_SUBFILING_IOC_SELECTION_CRITERIA environment variable as
          a single value, rather than in the old and undocumented
          'integer:integer' format
        * Two bugs which caused a request for 'N' I/O concentrators to
          result in 'N - 1' I/O concentrators being assigned, which also
          lead to issues if only 1 I/O concentrator was requested

      Also added a regression test for these two I/O concentrator selection
      strategies to prevent future issues. 

    - Memory leak

      Memory leak was detected when running h5dump with "pov".  The memory was allocated
      via H5FL__malloc() in hdf5/src/H5FL.c

      The fuzzed file "pov" was an HDF5 file containing an illegal continuation message.
      When deserializing the object header chunks for the file, memory is allocated for the
      array of continuation messages (cont_msg_info->msgs) in continuation message info struct.
      As error is encountered in loading the illegal message, the memory allocated for
      cont_msg_info->msgs needs to be freed.

      Fixes GitHub issue #2599

    - Fixed a heap buffer overflow that occurs when reading from
      a dataset with a compact layout within a malformed HDF5 file

      During opening of a dataset that has a compact layout, the
      library allocates a buffer that stores the dataset's raw data.
      The dataset's object header that gets written to the file
      contains information about how large of a buffer the library
      should allocate. If this object header is malformed such that
      it causes the library to allocate a buffer that is too small
      to hold the dataset's raw data, future I/O to the dataset can
      result in heap buffer overflows. To fix this issue, an extra
      check is now performed for compact datasets to ensure that
      the size of the allocated buffer matches the expected size
      of the dataset's raw data (as calculated from the dataset's
      dataspace and datatype information). If the two sizes do not
      match, opening of the dataset will fail.

      Fixes GitHub issue #2606

    - Fixed a memory corruption issue that can occur when reading
      from a dataset using a hyperslab selection in the file
      dataspace and a point selection in the memory dataspace

      When reading from a dataset using a hyperslab selection in
      the dataset's file dataspace and a point selection in the
      dataset's memory dataspace where the file dataspace's "rank"
      is greater than the memory dataspace's "rank", memory corruption
      could occur due to an incorrect number of selection points
      being copied when projecting the point selection onto the
      hyperslab selection's dataspace.

    - Fixed issues in the Subfiling VFD when using the SELECT_IOC_EVERY_NTH_RANK
      or SELECT_IOC_TOTAL I/O concentrator selection strategies

      Multiple bugs involving these I/O concentrator selection strategies
      were fixed, including:

        * A bug that caused the selection strategy to be altered when
          criteria for the strategy was specified in the
          H5FD_SUBFILING_IOC_SELECTION_CRITERIA environment variable as
          a single value, rather than in the old and undocumented
          'integer:integer' format
        * Two bugs which caused a request for 'N' I/O concentrators to
          result in 'N - 1' I/O concentrators being assigned, which also
          lead to issues if only 1 I/O concentrator was requested

      Also added a regression test for these two I/O concentrator selection
      strategies to prevent future issues. 

    - Fixed an issue with collective metadata writes of global heap data

      New test failures in parallel netCDF started occurring with debug
      builds of HDF5 due to an assertion failure and this was reported in
      GitHub issue #2433. The assertion failure began happening after the
      collective metadata write pathway in the library was updated to use
      vector I/O so that parallel-enabled HDF5 Virtual File Drivers (other
      than the existing MPI I/O VFD) can support collective metadata writes.

      The assertion failure was fixed by updating collective metadata writes
      to treat global heap metadata as raw data, as done elsewhere in the
      library. 

      Fixes GitHub issue #2433

    - Fix CVE-2021-37501 / GHSA-rfgw-5vq3-wrjf

      Check for overflow when calculating on-disk attribute data size.

      A bogus hdf5 file may contain dataspace messages with sizes
      which lead to the on-disk data sizes to exceed what is addressable.
      When calculating the size, make sure, the multiplication does not
      overflow.
      The test case was crafted in a way that the overflow caused the
      size to be 0.

      Fixes GitHub issue #2458


    Java Library
    ------------
    -


    Configuration
    -------------
    - Fixed improper include of Subfiling VFD build directory

      With the release of the Subfiling Virtual File Driver feature, compiler
      flags were added to the Autotools build's CPPFLAGS and AM_CPPFLAGS
      variables to always include the Subfiling VFD source code directory,
      regardless of whether the VFD is enabled and built or not. These flags
      are needed because the header files for the VFD contain macros that are
      assumed to always be available, such as H5FD_SUBFILING_NAME, so the
      header files are unconditionally included in the HDF5 library. However,
      these flags are only needed when building HDF5, so they belong in the
      H5_CPPFLAGS variable instead. Inclusion in the CPPFLAGS and AM_CPPFLAGS
      variables would export these flags to the h5cc and h5c++ wrapper scripts,
      as well as the libhdf5.settings file, which would break builds of software
      that use HDF5 and try to use or parse information out of these files after
      deleting temporary HDF5 build directories.

      Fixes GitHub issues #2422 and #2621

    - Correct the CMake generated pkg-config file

      The pkg-config file generated by CMake had the order and placement of the
      libraries wrong. Also added support for debug library names.

      Changed the order of Libs.private libraries so that dependencies come after
      dependents. Did not move the compression libraries into Requires.private
      because there was not a way to determine if the compression libraries had
      supported pkconfig files. Still recommend that the CMake config file method
      be used for building projects with CMake.

      Fixes GitHub issues #1546 and #2259


    Tools
    -----
    - In the tools traverse function - an error in either visit call
      will bypass the cleanup of the local data variables.

      Replaced the H5TOOLS_GOTO_ERROR with just H5TOOLS_ERROR.

      Fixes GitHub issue #2598


    Performance
    -------------
    -


    Fortran API
    -----------
    -

    High-Level Library
    ------------------
    -


    Fortran High-Level APIs
    -----------------------
    -


    Documentation
    -------------
    -


    F90 APIs
    --------
    -


    C++ APIs
    --------
    - 


    Testing
    -------
    -


Platforms Tested
===================

    Linux 5.16.14-200.fc35           GNU gcc (GCC) 11.2.1 20220127 (Red Hat 11.2.1-9)
    #1 SMP x86_64  GNU/Linux         GNU Fortran (GCC) 11.2.1 20220127 (Red Hat 11.2.1-9)
    Fedora35                         clang version 13.0.0 (Fedora 13.0.0-3.fc35)
                                     (cmake and autotools)

    Linux 5.11.0-34-generic          GNU gcc (GCC) 9.3.0-17ubuntu1
    #36-Ubuntu SMP x86_64 GNU/Linux  GNU Fortran (GCC) 9.3.0-17ubuntu1
    Ubuntu 20.04                     Ubuntu clang version 10.0.0-4
                                     (cmake and autotools)

    Linux 5.3.18-150300-cray_shasta_c cray-mpich/8.1.16
    #1 SMP x86_64 GNU/Linux              Cray clang 14.0.0
    (crusher)                            GCC 11.2.0
                                     (cmake)

    Linux 4.14.0-115.35.1.1chaos     openmpi 4.0.5
    #1 SMP aarch64 GNU/Linux             GCC 9.2.0 (ARM-build-5)
    (stria)                              GCC 7.2.0 (Spack GCC)
                                     (cmake)

    Linux 4.14.0-115.35.1.3chaos     spectrum-mpi/rolling-release
    #1 SMP ppc64le GNU/Linux             clang 12.0.1
    (vortex)                             GCC 8.3.1
                                         XL 16.1.1
                                     (cmake)

    Linux-4.14.0-115.21.2            spectrum-mpi/rolling-release
    #1 SMP ppc64le GNU/Linux             clang 12.0.1, 14.0.5
    (lassen)                             GCC 8.3.1
                                         XL 16.1.1.2, 2021,09.22, 2022.08.05
                                     (cmake)

    Linux-4.12.14-197.99-default     cray-mpich/7.7.14
    #1 SMP x86_64 GNU/Linux              cce 12.0.3
    (theta)                              GCC 11.2.0
                                         llvm 9.0
                                         Intel 19.1.2

    Linux 3.10.0-1160.36.2.el7.ppc64 gcc (GCC) 4.8.5 20150623 (Red Hat 4.8.5-39)
    #1 SMP ppc64be GNU/Linux         g++ (GCC) 4.8.5 20150623 (Red Hat 4.8.5-39)
    Power8 (echidna)                 GNU Fortran (GCC) 4.8.5 20150623 (Red Hat 4.8.5-39)

    Linux 3.10.0-1160.24.1.el7       GNU C (gcc), Fortran (gfortran), C++ (g++)
    #1 SMP x86_64 GNU/Linux          compilers:
    Centos7                              Version 4.8.5 20150623 (Red Hat 4.8.5-4)
    (jelly/kituo/moohan)                 Version 4.9.3, Version 5.3.0, Version 6.3.0,
                                         Version 7.2.0, Version 8.3.0, Version 9.1.0
                                     Intel(R) C (icc), C++ (icpc), Fortran (icc)
                                     compilers:
                                         Version 17.0.0.098 Build 20160721
                                     GNU C (gcc) and C++ (g++) 4.8.5 compilers
                                         with NAG Fortran Compiler Release 6.1(Tozai)
                                     Intel(R) C (icc) and C++ (icpc) 17.0.0.098 compilers
                                         with NAG Fortran Compiler Release 6.1(Tozai)
                                     MPICH 3.1.4 compiled with GCC 4.9.3
                                     MPICH 3.3 compiled with GCC 7.2.0
                                     OpenMPI 2.1.6 compiled with icc 18.0.1
                                     OpenMPI 3.1.3 and 4.0.0 compiled with GCC 7.2.0
                                     PGI C, Fortran, C++ for 64-bit target on
                                     x86_64;
                                         Version 19.10-0
                                     (autotools and cmake)

    Linux-3.10.0-1160.0.0.1chaos     openmpi-4.1.2
    #1 SMP x86_64 GNU/Linux              clang 6.0.0, 11.0.1
    (quartz)                             GCC 7.3.0, 8.1.0
                                         Intel 19.0.4, 2022.2, oneapi.2022.2

    Linux-3.10.0-1160.71.1.1chaos    openmpi/4.1
    #1 SMP x86_64 GNU/Linux              GCC 7.2.0
    (skybridge)                          Intel/19.1
                                     (cmake)

    Linux-3.10.0-1160.66.1.1chaos    openmpi/4.1
    #1 SMP x86_64 GNU/Linux              GCC 7.2.0
    (attaway)                            Intel/19.1
                                     (cmake)

    Linux-3.10.0-1160.59.1.1chaos    openmpi/4.1
    #1 SMP x86_64 GNU/Linux              Intel/19.1
    (chama)                          (cmake)

    macOS Apple M1 11.6              Apple clang version 12.0.5 (clang-1205.0.22.11)
    Darwin 20.6.0 arm64              gfortran GNU Fortran (Homebrew GCC 11.2.0) 11.1.0
    (macmini-m1)                     Intel icc/icpc/ifort version 2021.3.0 202106092021.3.0 20210609

    macOS Big Sur 11.3.1             Apple clang version 12.0.5 (clang-1205.0.22.9)
    Darwin 20.4.0 x86_64             gfortran GNU Fortran (Homebrew GCC 10.2.0_3) 10.2.0
    (bigsur-1)                       Intel icc/icpc/ifort version 2021.2.0 20210228

    macOS High Sierra 10.13.6        Apple LLVM version 10.0.0 (clang-1000.10.44.4)
    64-bit                           gfortran GNU Fortran (GCC) 6.3.0
    (bear)                           Intel icc/icpc/ifort version 19.0.4.233 20190416

    macOS Sierra 10.12.6             Apple LLVM version 9.0.0 (clang-900.39.2)
    64-bit                           gfortran GNU Fortran (GCC) 7.4.0
    (kite)                           Intel icc/icpc/ifort version 17.0.2

    Mac OS X El Capitan 10.11.6      Apple clang version 7.3.0 from Xcode 7.3
    64-bit                           gfortran GNU Fortran (GCC) 5.2.0
    (osx1011test)                    Intel icc/icpc/ifort version 16.0.2


    Linux 2.6.32-573.22.1.el6        GNU C (gcc), Fortran (gfortran), C++ (g++)
    #1 SMP x86_64 GNU/Linux          compilers:
    Centos6                              Version 4.4.7 20120313
    (platypus)                           Version 4.9.3, 5.3.0, 6.2.0
                                     MPICH 3.1.4 compiled with GCC 4.9.3
                                     PGI C, Fortran, C++ for 64-bit target on
                                     x86_64;
                                         Version 19.10-0

    Windows 10 x64                  Visual Studio 2015 w/ Intel C/C++/Fortran 18 (cmake)
                                    Visual Studio 2017 w/ Intel C/C++/Fortran 19 (cmake)
                                    Visual Studio 2019 w/ clang 12.0.0
                                        with MSVC-like command-line (C/C++ only - cmake)
                                    Visual Studio 2019 w/ Intel C/C++/Fortran oneAPI 2022 (cmake)
                                    Visual Studio 2022 w/ clang 15.0.1
                                        with MSVC-like command-line (C/C++ only - cmake)
                                    Visual Studio 2022 w/ Intel C/C++/Fortran oneAPI 2022 (cmake)
                                    Visual Studio 2019 w/ MSMPI 10.1 (C only - cmake)


Known Problems
==============

       ************************************************************
       *                                  _                       *
       *                                 (_)                      *
       *        __      ____ _ _ __ _ __  _ _ __   __ _           *
       *        \ \ /\ / / _` | '__| '_ \| | '_ \ / _` |          *
       *         \ V  V / (_| | |  | | | | | | | | (_| |          *
       *          \_/\_/ \__,_|_|  |_| |_|_|_| |_|\__, |          *
       *                                           __/ |          *
       *                                          |___/           *
       *                                                          *
       *  Please refrain from running any program (including      *
       *  HDF5 tests) which uses the subfiling VFD on Perlmutter  *
       *  at the National Energy Research Scientific Computing    *
       *  Center, NERSC.                                          *
       *  Doing so may cause a system disruption due to subfiling *
       *  crashing Lustre. The sytem's Lustre bug is expected     *
       *  to be resolved by 2023.                                 *
       *                                                          *
       ************************************************************

    CMake files do not behave correctly with paths containing spaces.
    Do not use spaces in paths because the required escaping for handling spaces
    results in very complex and fragile build files.
    ADB - 2019/05/07

    At present, metadata cache images may not be generated by parallel
    applications.  Parallel applications can read files with metadata cache
    images, but since this is a collective operation, a deadlock is possible
    if one or more processes do not participate.

    CPP ptable test fails on both VS2017 and VS2019 with Intel compiler, JIRA
    issue: HDFFV-10628.  This test will pass with VS2015 with Intel compiler.

    The subsetting option in ph5diff currently will fail and should be avoided.
    The subsetting option works correctly in serial h5diff.

    Several tests currently fail on certain platforms:
        MPI_TEST-t_bigio fails with spectrum-mpi on ppc64le platforms.

        MPI_TEST-t_subfiling_vfd and MPI_TEST_EXAMPLES-ph5_subfiling fail with
        cray-mpich on theta and with XL compilers on ppc64le platforms.

        MPI_TEST_testphdf5_tldsc fails with cray-mpich 7.7 on cori and theta.

    Known problems in previous releases can be found in the HISTORY*.txt files
    in the HDF5 source. Please report any new problems found to
    help@hdfgroup.org.


CMake vs. Autotools installations
=================================
While both build systems produce similar results, there are differences.
Each system produces the same set of folders on linux (only CMake works
on standard Windows); bin, include, lib and share. Autotools places the
COPYING and RELEASE.txt file in the root folder, CMake places them in
the share folder.

The bin folder contains the tools and the build scripts. Additionally, CMake
creates dynamic versions of the tools with the suffix "-shared". Autotools
installs one set of tools depending on the "--enable-shared" configuration
option.
  build scripts
  -------------
  Autotools: h5c++, h5cc, h5fc
  CMake: h5c++, h5cc, h5hlc++, h5hlcc

The include folder holds the header files and the fortran mod files. CMake
places the fortran mod files into separate shared and static subfolders,
while Autotools places one set of mod files into the include folder. Because
CMake produces a tools library, the header files for tools will appear in
the include folder.

The lib folder contains the library files, and CMake adds the pkgconfig
subfolder with the hdf5*.pc files used by the bin/build scripts created by
the CMake build. CMake separates the C interface code from the fortran code by
creating C-stub libraries for each Fortran library. In addition, only CMake
installs the tools library. The names of the szip libraries are different
between the build systems.

The share folder will have the most differences because CMake builds include
a number of CMake specific files for support of CMake's find_package and support
for the HDF5 Examples CMake project.

The issues with the gif tool are:
    HDFFV-10592 CVE-2018-17433
    HDFFV-10593 CVE-2018-17436
    HDFFV-11048 CVE-2020-10809
These CVE issues have not yet been addressed and are avoided by not building
the gif tool by default. Enable building the High-Level tools with these options:
    autotools:   --enable-hlgiftools
    cmake:       HDF5_BUILD_HL_GIF_TOOLS=ON