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* 1.8/master (#317)hdf5-1_8_22Larry Knox2021-02-081-59/+49
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Don't test ph5diff if tests are disabled. * Correct conditions for parallel builds with and without tests. * Snapshot version 1.8 release 22 (snap5) Update version to 1.8.22-snap6 * TRILAB-192 merging warnings changes from develop * Autotools reconfigure update * Restore page ejects. * Restore page eject chars * Fix orphaned token * Update LT files * Correct extra flags and merge TRILAB-24 * Update release note for CMake warnings * H5repack bug fixes from develop * TRILAB-192 - merge changes from develop Single source, config files, for warnings for both autotools and CMake. Update CMake libraries, tools, tests to use correct flags. * Add missing m4 file * Remove 128bit config check fo 1.8 * TRILAB-192 update LTparse files * A fix in the cleaning up code for datatype when datatype initialization via H5D__init_type() fails. The code to fix the problem is the same as what is done in H5D__open_oid(). * Add missing " and update function calls incorrectly named load_gcc_arguments. Commit changes to gnu-cxxflags to remove unmatched " and to gnu-fflags to not add C warnings flags to H5_FCFLAGS. * TRILAB-192 - cleanup edits and match CMake CXX to autotools * Fix shadowed type * TRILAB-192 correct fortran commands * TRILAB-192 version of std=f2008 special check * Fix shadow variable * Add prefix_relto_examplesdir function to set relative path to h5c++. * TRILAB-192 - parser files cannot handle this warning * Parallel Fortran tests now use the MPI module instead of including mpif.h. * Don't add general warnings flags for unsupported old versions of gcc and g++ (older than gcc/g++ 4.2). Correct gnu-cxxflags to determine warnings flags to be added based on C++ compiler version instead of C compiler version. * Snapshot version 1.8 release 22 (snap6) Update version to 1.8.22-snap7 * TRILAB-244 separate CXX warnings and errors from C * Fix NoFilter build * Move ADD_H5_FLAGS macro from *CompilerFlags.cmake files to config/cmake_ext_mod/HDFMacros.cmake for common use. * Restrict errors to gcc 4.8 and above. * OESS-65 replace szip with aec szip * Correct CMake version * Correct -Werror=unused-variable * Add -Werror= flags to lists displayed in libhdf5.settings. * Fix -Werror=unused-variable * More fixes for unused variable * Resolve warning errors from -Werror= flags: -Werror=bad-function-cast -Werror=bad-function-cast -Werror=implicit-function-declaration -Werror=nested-externs * Remove verbose assignments in smoke_check 3 and 5 functions. * Update to use optimization flags, C++ error flags, and correct libhdf5.settings.in to remove unworkable changes. * Update config/gnu-cxxflags. * Add missing headers * Fix ifort warning flag. Restore AC_DEFUN([PAC_PROG_FC_DEFAULT_REALisDBLE] in m4/aclocal_fc.m4. Add --enable-symbols, --enable-profiling, and --enable-optimization options to autotools configure; all configure flags for --enable-production and --disable-production should match HDF5 1.10 and 1.12 production and debug default flags. * Add github actions file * Correct path * OESS-65 Fix packaging * Update reference name * Correct filename * disable pr action and enable fail fast * Snapshot 1.8.22-snap7 Update version to 1.8.22-snap8. * Correct mingw path * Correct mingw paths * Revise gnu-*flags and cmake/HDF*CompilerFlags.cmake files to add warning flags for GCC compilers version 4.8 and above. Removed files from gnu-warnings that only apply to versions < 4.8. Consolidated warnings from versions < 4.8 that apply to versions >= 4.8 into the 4.8 warnings files. * Update MANIFEST for removal of older warnings files. * Yanked all MPI-1 calls Added batch scripts in bin/batch. * Snapshot 1.8.22-snap8. Update version to 1.8.22-snap9. * Squashed commit of the following: commit 45b0cbc71929930a874e1c09e0770aa64d0ae697 Author: Larry Knox <lrknox@hdfgroup.org> Date: Thu Apr 23 13:14:56 2020 -0500 Add C++ warnings treated as error for autotools builds. commit 6debcddcc766601799d5bd661bd60946f951a07e Author: Larry Knox <lrknox@hdfgroup.org> Date: Fri Jun 19 16:50:03 2020 -0500 Remove tests for develop branch from testh5cc.sh.in. Add @H5_ECXXFLAGS@ to AM_CXXFLAGS. commit fed497e7f207313b2a133d3b68c942b7d7104b90 Author: Larry Knox <lrknox@hdfgroup.org> Date: Fri Jun 12 15:06:39 2020 -0500 Merge pull request #2646 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop * commit '998c6470d78e14228695419c3b514c35ecf3d69e': Remove unnecessary version conditions for Clang compilers. commit 92e52ce5c211bd1d3991a3b8bb67287ac7b652aa Author: Larry Knox <lrknox@hdfgroup.org> Date: Wed Jun 10 18:53:45 2020 -0500 Merge pull request #2639 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop * commit 'a33667faf226f5d8c9633bf537893e8fce1bf1f6': Add c++ to --enable-sanitize-checks option. commit 2e802534fb997b81fa98fdd1c7d97d4310898e0d Author: Larry Knox <lrknox@hdfgroup.org> Date: Wed Jun 10 15:18:36 2020 -0500 Merge pull request #2633 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop * commit '20eab963899841c9a003baebead8e3bc07d9e127': Remove duplicate entries in MANIFEST. Make changes to CMake CompilerFlags.cmake files so extra flags are loaded for non-GNU compilers. Update new clang files to not pick up clang as vendor for pgCC. Add new files to MANIFEST Temporary demotion of 2 -Werror warning flags that fail on macos 10.12 Remove Production flag unknown to Apple clang. commit 96ef60a58a23847a7da89a891f2415055ec2ab60 Author: Larry Knox <lrknox@hdfgroup.org> Date: Mon Jun 8 16:24:49 2020 -0500 Merge pull request #2631 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop * commit 'b942a4d8a3e27317cac50ce37ff5302d477664d8': Clean up code to get clang version in config/linux-gnulibc1 commit 8a7c687da568e8b50b38fa53da1ca63759be6ec4 Author: Larry Knox <lrknox@hdfgroup.org> Date: Mon Jun 8 11:42:37 2020 -0500 Merge pull request #2623 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop * commit 'c7626f79fdee4eee13925e240ef41e61f3367eab': Add flags from config/clang-warnings/*general files to H5 C and CXX flags for all versions of Clang and Clang++ compilers. Switched from cut to awk in testcheck_version.sh.in to avoid dependence on tab vs. " " in version definitions in H5public.h. Add files for adding warning flags for clang compilers in autotools configure. commit db3ef7ff3c1ed79167cecef831501411cff8291f Merge: 5a0f8d7 f9f1310 Author: Larry Knox <lrknox@hdfgroup.org> Date: Fri Jun 19 14:46:22 2020 -0500 Merge branch 'hdf5_1_12' of https://bitbucket.hdfgroup.org/scm/~lrknox/hdf5_lrk into hdf5_1_12 commit 5a0f8d7940ae57b445f545a0abd7e303ce6924ee Author: Larry Knox <lrknox@hdfgroup.org> Date: Wed Jun 10 20:15:41 2020 -0500 Merge pull request #2636 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:HDFFV-11000-update-testh5cc.sh.in-for-version to develop * commit '5c0bd670d6e9919c463fbc05de99e2ba55b0761e': Add tests for all version to H5_NO_DEPRECATED_SYMBOLS section and to section for current version, with and without default API version flags. HDFFV-11000: update-testh5cc.sh.in to test sample versioned functions in HDF5 1.10, 1.12 and develop. * Update configure and Makefile.ins after bin/reconfigure. * Fix MANIFEST * Fix HDFFV-10591 Description: h52gif produced a segfault when a buffer overflow occurred because the data size was corrupted and became very large. This commit added a check on the data size against the buffer size to prevent the segfault. It also added error reporting to h52gif to display an error message instead of silently exiting when the failure occurred. Platforms tested: Linux/64 (jelly) * Snapshot 1.8.22-snap9. Update version to 1.8.22-snap10. * Merge pull request #2686 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop * commit '800f93f7c994f88dfa716746153ded4b1e690e3a': Remove path to szip header file from AM_CPPFLAGS when configure check of libsz fails. Fix for HDFFV-10830. * Regenerate configure. * Merge from 1.10-1.12-dev - LT parse needs update * Incorporate pull request #2693 from develop for the fix to HDFFV-11080: (1) Patch up the file pointer when reading attribute of variable length datatype (2) Test to verify the fix when doing multiple threads (3) Update MANIFEST (4) Add new test to Cmake * Switch bison and flex update of LT files from bin/genltanalyse to bin/genparser, and from automatically updating the LT files whenever reconfigure is run to running only on man<F12>ual command. * Update hl/sr/H5LT files. Add bin/genparser to MANIFEST; remove bin/genltanalyze. * Fix to the merge of PR #2708 for HDFFV-11080 to the 1.8 branch. Need to checkin test/Makefile.in for the new file added. * Fix HDFFV-11120 and HDFFV-11121 (CVE-2018-13870 and CVE-2018-13869) Description: When a buffer overflow occurred because a name length was corrupted and became very large, h5dump produced a segfault on one file and a memcpy parameter overlap on another file. This commit added checks that detect a read pass the end of the buffer to prevent these error conditions. Platforms tested: Linux/64 (jelly) * Fixed typo * Check for header szlib.h only when libsz passes AC_CHECK_LIB, so that H5_HAVE_SALIB_H is not defined when szip is not enabled, to prevent compile failures for incompatible szlib. * HDFFV-11127 - force RTLD_LOCAL in dlopen * spelling * Remove extra parens * Remove unnecessary assignment freom configure.ac. * Add hypen to subrelease regex * Add special case when H5_VERS_SUBRELEASE is 0 * Revert H5_VERS_SUBRELEASE check * The version string has a second use for packaging * MinGW uses "MinGW Makefiles" * Snapshot 1.8.22-snap10. Update version to 1.8.22-snap11. * Merge clang-format changes from develop * remove stray file * Source formatted * Add options to github actions. * Add back file, remove py file * HDFFV-11096 Correct h5dump usage text * Update formating * remove autogen for 1.8 branch * Fix comment whitespace * Change '==' to 'eq' in test script * Merge from develop github updates bin scripts parser updates * Snapshot 1.8.22-snap11. Update version to 1.8.22-snap12. * Merge from 1.10 Comments, whitespace Simple init and if block brackets. Minimal code changes limited to return value and spelling * Update autotools files * Update FD source * More merges from 1.10 comments and inits * Comment fixes * Fix macro argument * Remove autogen file and cache dir * Revert autotools files to previous version * Correct boolean value and missing define * URL and options corrections * revert autoconf files * Fix compile issues with vfd drivers. * Fix HDFS test * Remove extra #endif * Move init above execution * Multiple changes to bring branch up-to-date (#87) Correct TARGET variable and CMake config file location. Add option to allow filter plugins to be built inline. Update CMake tools macros. * hdf5 1 8 release text (#113) * Multiple changes to bring branch up-to-date Correct TARGET variable and CMake config file location. Add option to allow filter plugins to be built inline. Update CMake tools macros. * release text updates - mostly whitespace * Fixed HDFFV-10480 and HDFFV-11159 (#145) * Fixed HDFFV-10480 and HDFFV-11159 Description Checked against buffer size to prevent segfault, in case of data corruption. + HDFFV-11159 CVE-2018-14033 Buffer over-read in H5O_layout_decode + HDFFV-10480 CVE-2018-11206 Buffer over-read in H5O_fill_new[/old]_decode and A user's patch was applied to this previously, but it is redone for a more correct fix, that is the check now accounted for the previous advance of the buffer pointer. Platforms tested: Linux/64 (jelly) * Fixed typo * Update HDF5 1.8 copyright headers with updated copyright URL (#148) * Update URL for COPYING file in copyright headers. * Make fortran copyright headers uniformly spaced. * Update url for Copyright file in c++/src/footer.html. * OESS-98 Update plugin build option (#171) * 1.8 has extra fortran CMake option (#176) * 1.8 has extra fortran CMake option * Update license URL * OESS-98 fix tools test for plugins (#180) * Hdf5 1 8 (#169) * Fixed HDFFV-10480 and HDFFV-11159 Description Checked against buffer size to prevent segfault, in case of data corruption. + HDFFV-11159 CVE-2018-14033 Buffer over-read in H5O_layout_decode + HDFFV-10480 CVE-2018-11206 Buffer over-read in H5O_fill_new[/old]_decode and A user's patch was applied to this previously, but it is redone for a more correct fix, that is the check now accounted for the previous advance of the buffer pointer. Platforms tested: Linux/64 (jelly) * Fixed typo * Fixed HDFFV-11150 Description Replaced an HDassert with a check for null pointer in H5O_dec_rc() to catch null pointer in corrupted data situation. Reversed the fix in svn-r24463 in which a check for null pointer prior to calling H5O_dec_rc() Platforms tested: Linux/64 (jelly) * HDF5 1 8 fix fortran build on macs (#186) * Correct fortran and shared libs option * Fix for no shared fortran build * OESS-98 fix hdf5 link target (#191) * Partial changes to RELEASE.txt for release. (#185) * Partial changes to RELEASE.txt for release. * Update supported and tested platforms. * Update version to 1.8.22-12. * close #195. (#196) * Update HDF5PluginMacros.cmake * Update HDF5PluginMacros.cmake * Update directory for SZ filter in HDF5PluginMacros.cmake. Updates for release: Switch configure default to production mode. Set HDF5_GENERATE_HEADERS to OFF. * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Restores maintainer mode in the autotools (#200) (#203) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> * Hdf5 1 8 22 (#212) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Brings ttsafe_attr_vlen.c changes from develop (#214) Fixes exposed pthread problem on Windows. * Update SO numbers for Hdf5 1 8 22 (#215) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Hdf5 1 8 22 (#224) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> * Update CMake/HDF5Examples version in bin/release * Update CMake/HDF5Examples version number in bin/release (#225) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> * Fixed typo in an error message. (#228) * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * Bring 3 small changes from Hdf5 1.8 to 1.8.22 (#241) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * Stat st blocks fix 1822 (#251) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * Fixes Autotools detection of the st_blocks field in stat (#246) * Fixes Autotools detection of the st_blocks field in stat The Autotools and CMake will now both correctly determine if the stat struct has the st_blocks field and set H5_HAVE_STAT_ST_BLOCKS appropriately. * Fixes a typo in configure.ac * Restore lines in RELEASE.txt. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * Stat st blocks fix 1822 (#256) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * Fixes Autotools detection of the st_blocks field in stat (#246) * Fixes Autotools detection of the st_blocks field in stat The Autotools and CMake will now both correctly determine if the stat struct has the st_blocks field and set H5_HAVE_STAT_ST_BLOCKS appropriately. * Fixes a typo in configure.ac * Restore lines in RELEASE.txt. * Updated configure with reconfigure. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * RELEASE.txt cleanup. * Hdf5 1 8 22 (#261) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * RELEASE.txt cleanup. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * Add macOS Big Sur to tested machines, also missing entries for macOS 10.13 and 10.14. * )Update version. * Hdf5 1 8 22 (#266) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * RELEASE.txt cleanup. * Add macOS Big Sur to tested machines, also missing entries for macOS 10.13 and 10.14. * )Update version. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * Reverts lock/unlock callback signature to 1.8.21 version (#254) * Reverts lock/unlock callback signature to 1.8.21 version This callback is unused in 1.8. The ros3 and hdfs VFDs are the only VFDs that have the lock callback implemented and that is just as no-op stubs. These stubs were removed so the callbacks are now NULL pointers, like the other VFDs in 1.8. * Trivial whitespace fix * Update version to 1.8.22-14. * Hdf5 1 8 22 - Reverts lock/unlock callback signature to 1.8.21 version (#267) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * RELEASE.txt cleanup. * Add macOS Big Sur to tested machines, also missing entries for macOS 10.13 and 10.14. * )Update version. * Reverts lock/unlock callback signature to 1.8.21 version (#254) * Reverts lock/unlock callback signature to 1.8.21 version This callback is unused in 1.8. The ros3 and hdfs VFDs are the only VFDs that have the lock callback implemented and that is just as no-op stubs. These stubs were removed so the callbacks are now NULL pointers, like the other VFDs in 1.8. * Trivial whitespace fix * Update version to 1.8.22-14. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * Update version in H5public.h * Hdf5 1 8 22 (#269) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * RELEASE.txt cleanup. * Add macOS Big Sur to tested machines, also missing entries for macOS 10.13 and 10.14. * )Update version. * Reverts lock/unlock callback signature to 1.8.21 version (#254) * Reverts lock/unlock callback signature to 1.8.21 version This callback is unused in 1.8. The ros3 and hdfs VFDs are the only VFDs that have the lock callback implemented and that is just as no-op stubs. These stubs were removed so the callbacks are now NULL pointers, like the other VFDs in 1.8. * Trivial whitespace fix * Update version to 1.8.22-14. * Update version in H5public.h Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * Set version 1.8.22 for release. * dd RELEASE.txt entry for HDFFV-10741. * Hdf5 1 8 22 (#279) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * RELEASE.txt cleanup. * Add macOS Big Sur to tested machines, also missing entries for macOS 10.13 and 10.14. * )Update version. * Reverts lock/unlock callback signature to 1.8.21 version (#254) * Reverts lock/unlock callback signature to 1.8.21 version This callback is unused in 1.8. The ros3 and hdfs VFDs are the only VFDs that have the lock callback implemented and that is just as no-op stubs. These stubs were removed so the callbacks are now NULL pointers, like the other VFDs in 1.8. * Trivial whitespace fix * Update version to 1.8.22-14. * Update version in H5public.h * Set version 1.8.22 for release. * dd RELEASE.txt entry for HDFFV-10741. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> * Improve performance of multiple calls to H5Sget_select_elem_pointlist (#270) (#277) * Cache the pointer to the next point to process after the last call to H5S__get_select_elem_pointlist. This allows the normal process of iterating over the points in batches to be much more efficient, as the library does not need to traverse the entirety of the preceding points every time the funciton is re-entered. * Update RELEASE.txt for point selection iteration performance fix. * Hdf5 1 8 22 (#281) * Restores maintainer mode in the autotools (#200) Maintainer mode should be enabled in development branches. Also adds helpful commenting. Add bin/switch_maint_mode Disable maintainer mode for release. Fix incomplete merge for stub functions in H5Fdhdfs.c * Update configure for Restores maintainer mode in the autotools (#200). * Update MANIFEST for switch_maint_mode script. * Update so numbers for 1.8.22 release. * Add so numbers changes in Makefile.ins for 1.8.22 release. * Update pkgconfig settings with version - #218 (#223) * Add notice of final HDFF5 1.8 release. Add solaris 64bit alignment issue to "Known Problems". * Update 1.8 final release notice. * Update CMake/HDF5Examples version in bin/release * Fixed typo in an error message. (#227) * Remove duplicate setting (#239) * RELEASE.txt cleanup. * Add macOS Big Sur to tested machines, also missing entries for macOS 10.13 and 10.14. * )Update version. * Reverts lock/unlock callback signature to 1.8.21 version (#254) * Reverts lock/unlock callback signature to 1.8.21 version This callback is unused in 1.8. The ros3 and hdfs VFDs are the only VFDs that have the lock callback implemented and that is just as no-op stubs. These stubs were removed so the callbacks are now NULL pointers, like the other VFDs in 1.8. * Trivial whitespace fix * Update version to 1.8.22-14. * Update version in H5public.h * Set version 1.8.22 for release. * dd RELEASE.txt entry for HDFFV-10741. * Improve performance of multiple calls to H5Sget_select_elem_pointlist (#270) (#277) * Cache the pointer to the next point to process after the last call to H5S__get_select_elem_pointlist. This allows the normal process of iterating over the points in batches to be much more efficient, as the library does not need to traverse the entirety of the preceding points every time the funciton is re-entered. * Update RELEASE.txt for point selection iteration performance fix. Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> Co-authored-by: Neil Fortner <nfortne2@hdfgroup.org> * Hdf5 1 8 22 (#284) * Fixed typo in an error message. * Updated for HDFFV-11150, HDFFV-10480, and HDFFV-11159 * Update "Support for New Platforms and Compilers" section in RELEASE.txt; add check_version workaround for binary compatibility to "Known Problems". * Add SUSE Linux to tested platforms. * Update numbers in config/lt_vers.am and run bin/reconfigure for so numbers. * Update version in 3 files missed by merge. Co-authored-by: Allen Byrne <byrn@hdfgroup.org> Co-authored-by: Vailin Choi <vchoi@hdfgroup.org> Co-authored-by: vchoi <vchoi@jelly.ad.hdfgroup.org> Co-authored-by: hdftest <hdftest@hdfgroup.org> Co-authored-by: Jordan Henderson <jhenderson@hdfgroup.org> Co-authored-by: Dana Robinson <derobins@hdfgroup.org> Co-authored-by: Binh-Minh Ribler <bmribler@hdfgroup.org> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org> Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: Neil Fortner <nfortne2@hdfgroup.org>
* Change copyright headers to replace url referring to file to belrknox2017-05-161-6/+4
| | | | removed and replace it with new url for COPYING file.
* [svn-r25109] Description:Quincey Koziol2014-04-251-3/+39
| | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r25084, 25088, 25092, 25097 from trunk to 1.8 branch: r25084: Begin process of migrating from using property list IDs internally to the library to using the internal generic property list data structure. r25088: Introduce "file I/O info" struct, to hold file & dxpl pointers, and start propagating up through library. r25092: More migration to using H5F_io_info_t pointers and away from using property list IDs internally. Also, clean up some compiler warnings in the cache code. r25097: Make progress toward moving from DXPL IDs to property list structures within the library. Also move the signature location code from the H5F package to the H5FD package, where it's a better fit. Also, clean up some more compiler warnings along the way. Tested: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & parallel (h5committested on trunk)
* [svn-r23702] Issue 8380 - H5Zunregister caused seg fault. This is a porting ↵Raymond Lu2013-05-141-0/+1
| | | | | | | | | of code from the trunk. It fixes the problem by first iterating through all opened datasets and groups to see if any of them uses the filter. If it finds one, the function fails with a message. Then the function flushes all opened files. Tested with h5committest.
* [svn-r22759] Description:Quincey Koziol2012-09-131-1/+1
| | | | | | | | | | | | | | Bring r22758 from trunk to 1.8 branch: Bring generic improvements from encode/decode property list branch to the trunk. This includes a better version of the property list comparison routine, cleaned up compiler warnings, and some cleaned up property list callbacks. Also, started on changes to clean up parallel test output, so that it doesn't report successful tests from each process. Tested on: Mac OSX/64 10.7.4 (amazon) w/debug, GCC 4.7.x, FORTRAN, C++, threadsafe and parallel (h5committested on trunk)
* [svn-r22682] Description:Quincey Koziol2012-08-151-1/+1
| | | | | | | | | | Bring r22681 from trunk to 1.8 branch: Clean up file driver property handling, along with some misc. warnings. Tested on: Mac OSX/64 10.7.4 (amazon) w/debug, gcc 4.7.1, C++, FORTRAN & threadsafe (h5committest upcoming)
* [svn-r22628] Description:Quincey Koziol2012-08-041-0/+21
| | | | | | | | | | | Bring r22627 from trunk to 1.8 branch: Merge some of the changes on the plist_encode_decode branch back to the trunk. Tested on: Mac OSX/64 10.7.4 (amazon) w/debug (Too minor to require h5committest)
* [svn-r18348] Description:Quincey Koziol2010-02-271-5/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r18346 from trunk to 1.8 branch: Bring Coverity fixes back from branch to trunk: r18336: Fix coverity issues 275, 276, 277, 323, 432, 433, and 434 r18337: Fix Coverity issue #106: release free space section node on error r18338: Fixed Coverity #94 - In H5P_register, new_class wasn't closed when there's an error after it's created. r18339: Fix Coverity #185 - In test_conv_str_1, BUF wasn't freed when there's an error in this function. r18340: Correct error in r18337 that wasn't releasing indirect fractal heap block early enough. r18341: Close nodes if any failed in the middle of allocating new nodes. Coverity 140 and 141 r18342: Correct [another] problem w/r18337. r18343: Fix coverity items 185, 20, and 21. r18344: Fix Coverity 213 - In H5FD_family_close, the double pointer file->memb was dereferenced without NULL checking (We believe). r18345: Fix Coverity issue # 210; removed NULL check after pointer dereferenced in H5HFdblock.c. Also assigned NULL to pointer in H5Pint.c to fix segmentation fault. Tested on: FreeBSD/32 6.3 (duty) w/debug) (h5committested on trunk)
* [svn-r17972] Description:Quincey Koziol2009-12-071-1/+1
| | | | | | | | | | | | Bring r17971 from trunk to 1.8 branch: Allow the core VFD to properly support opening backing store files through symbolic links and have the external links in the file be treated in the same way as for the sec2 driver. Tested on: FreeBSD/32 6.3 (duty) in debug mode (h5committested on trunk)
* [svn-r17807] Description:Quincey Koziol2009-11-031-6/+5
| | | | | | | | | | | | | | | | | | | | | | | Bring r17623 from trunk to 1.8 branch: Bring "compress group's fractal heap" feature from feature branch. Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers, w/default API=1.6.x, 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 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in debug mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.1 (amazon) in debug mode Mac OS X/32 10.6.1 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r15513] Description:Quincey Koziol2008-08-211-1/+1
| | | | | | | | | | Bring back r15510 & r15512 from trunk: Fix compiler warnings and formatting. Tested on: Mac OS X/32 10.5.4 (amazon) More tests upcoming
* [svn-r15486] Purpose: Allow library to shut down properly when objects have ↵Neil Fortner2008-08-191-2/+2
| | | | | | | | | | | | | | | | reference count > 1. Description: Added a new field 'app_count' to H5I_id_info_t struct, to track the reference count on an id due to the application. the old 'count' field tracks the total. Generally any id visible to the application gets placed in app_count. Added app_ref boolean parameter to H5I_inc_ref, H5I_dec_ref, H5I_register, H5I_clear_type, and a few other functions, to specify whether the operation(s) being performed on the id(s) are due to the application (TRUE) or not (FALSE). Test added for this case. Tested: kagiso, smirom, linew (h5committest)
* [svn-r15132] Description:Quincey Koziol2008-06-031-1/+1
| | | | | | | | | | | | | | Bring back revision 15131 from trunk: Finish omnibus chunked dataset I/O refactoring, to separate general actions on chunked datasets from actions that are specific to using the v1 B-tree index. Cleaned up a few bugs and added some additional tests also. Tested on: Mac OS X/32 10.5.3 (amazon) Linux/32 2.4 (chicago)
* [svn-r14208] Description:Quincey Koziol2007-10-181-0/+12
| | | | | | | | | | | | | | | | | | | | Make H5Pget_filter_by_id() API versioned and switch internal usage to H5Pget_filter_by_id2(). Add simple regression test for H5Pget_filter_by_id1(). 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 Mac OS X/32 10.4.10 (amazon) in debug mode
* [svn-r14202] Description:Quincey Koziol2007-10-111-5/+6
| | | | | | | | | | | | | | | | | | | | | | Move H5Pregister our of old "compat v1.6" section and add it to the versioned symbols. Add simple regression test for H5Pregister1() Split H5P.c source file into H5P/H5Pint/H5Pdeprec files. 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 Mac OS X/32 10.4.10 (amazon) in debug mode
* [svn-r13794] Description:Quincey Koziol2007-05-221-1/+1
| | | | | | | Add 'const' to some pointers in internal routines. Tested on: Linux/32 2.6 (chicago)
* [svn-r13253] Updated all C and C++ style source code files with the THG ↵Albert Cheng2007-02-071-2/+3
| | | | | | | | | copyright notice. Tested platform: Kagiso only since it is only a comment block change. If it works in one machine, it should work in all, I hope. Still need to check the parallel build on copper.
* [svn-r13217] Description:Quincey Koziol2007-01-291-0/+2
| | | | | | | | | | | Move fill value messages into new shared message method calling scheme. Only update an opened dataset's fill value property if it's different from the default fill value settings. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12846] Description:Quincey Koziol2006-11-021-4/+2
| | | | | | | | | | Further minor tweaking of property list class initialization macros, etc. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe & debugging turned on Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/build-all & 1.6 compat enabled AIX/32 5.x (copper) w/FORTRAN & parallel
* [svn-r12845] Description:Quincey Koziol2006-11-021-2/+22
| | | | | | | | | | | | | Finish refactoring job on the library's property list class initialization code, so that the library determines the parent class dependencies at run-time, eliminating the need for developers to initialize the classes in a particular order. Also eliminates some more redundant code... Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe & debugging turned on Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/build-all & 1.6 compat enabled AIX/32 5.x (copper) w/FORTRAN & parallel
* [svn-r12842] Description:Quincey Koziol2006-11-021-1/+1
| | | | | | | | | | | | | | | | Refactor generic property list initialization code to put property list specific routines in property list modules, instead of scattered to the four winds. Also, introduce property list class initialization objects, to make adding new property list classes in the library easier. Fix daily test failure by using H5Pget_elink_prefix() API routine instead of looking at the "raw" generic property list information. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/build-all & 1.6 compat
* [svn-r12452] Purpose:James Laird2006-07-051-0/+5
| | | | | | | | | | | | | | | | | | | | | | Feature Description: Revised Link APIs. Solution: New link APIs use H5L* H5*create_expand do not create links to the objects created; this must be done manually with H5Llink. Added APIs to link an object given its ID (H5Llink), to copy links (H5Lcopy), and changed creation APIs (H5Lcreate_hard and H5Lcreate_soft) and query API (H5Lget_linkinfo instead of H5Gget_objinfo). All old APIs are still supported in H5Gdeprec.c . Platforms tested: sol, mir, copper Misc. update: Forgot to update MANIFEST and release docs. Will do after checkin.
* [svn-r11245] Purpose:Quincey Koziol2005-08-131-1/+1
| | | | | | | | | | | | | | | | | | | | Code cleanup Description: Trim trailing whitespace, which is making 'diff'ing the two branches difficult. Solution: Ran this script in each directory: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r10958] Purpose:Quincey Koziol2005-06-201-2/+2
| | | | | | | | | | | | | New feature Description: Add group creation & access property lists, dataset access property lists and named datatype creation & access property lists. Currently have <foo>_extend() API names, which will need to be changed for the final release. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (heping)
* [svn-r8158] Purpose:Quincey Koziol2004-02-061-2/+0
| | | | | | | | | | | | | | | | | Code cleanup/optimization Description: Query property list values once, at the beginning of the I/O routines, instead of querying the property list values multiple (lots!) of times in lower level routines. Solution: Create "property list caches" for internal library queries of the property list values. Platforms tested: IBM p690 (copper) w/parallel & fphdf5 h5committest
* [svn-r8038] Purpose:Quincey Koziol2004-01-081-2/+3
| | | | | | | | | | | | | | | | | | | | Bug fix Description: When two property lists are compared, the H5Pequal routine was just comparing the raw information for the property values. This causes problems when the raw information contains pointers to other information. Solution: Allow a 'compare' callback to be registered for properties, so that a user application get perform the comparison itself, allowing for "deep" compares of the property value. This was exported to the H5Pregister & H5Pinsert routines in the development branch, but not the release branch. Platforms tested: FreeBSD 4.9 (sleipnir) h5committest
* [svn-r6878] Purpose:Quincey Koziol2003-05-151-18/+3
| | | | | | | | | | | Code cleanup Description: Limit the scope on more function prototypes/macros/typedefs. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest not necessary.
* [svn-r6546] Purpose:Bill Wendling2003-03-311-11/+13
| | | | | | | | | | | | Update Description: Updated copyright statement in files which hadn't been updated yet. Platforms tested: Linux (Only comment change) Misc. update:
* [svn-r6252] Purpose:Quincey Koziol2003-01-091-0/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Lots of performance improvements & a couple new internal API interfaces. Description: Performance Improvements: - Cached file offset & length sizes in shared file struct, to avoid constantly looking them up in the FCPL. - Generic property improvements: - Added "revision" number to generic property classes to speed up comparisons. - Changed method of storing properties from using a hash-table to the TBBT routines in the library. - Share the propery names between classes and the lists derived from them. - Removed redundant 'def_value' buffer from each property. - Switching code to use a "copy on write" strategy for properties in each list, where the properties in each list are shared with the properties in the class, until a property's value is changed in a list. - Fixed error in layout code which was allocating too many buffers. - Redefined public macros of the form (H5open()/H5check, <variable>) internally to only be (<variable>), avoiding innumerable useless calls to H5open() and H5check_version(). - Reuse already zeroed buffers in H5F_contig_fill instead of constantly re-zeroing them. - Don't write fill values if writing entire dataset. - Use gettimeofday() system call instead of time() system when checking the modification time of a dataset. - Added reference counted string API and use it for tracking the names of objects opening in a file (for the ID->name code). - Removed redundant H5P_get() calls in B-tree routines. - Redefine H5T datatype macros internally to the library, to avoid calling H5check redundantly. - Keep dataspace information for dataset locally instead of reading from disk each time. Added new module to track open objects in a file, to allow this (which will be useful eventually for some FPH5 metadata caching issues). - Remove H5AC_find macro which was inlining metadata cache lookups, and call function instead. - Remove redundant memset() calls from H5G_namei() routine. - Remove redundant checking of object type when locating objects in metadata cache and rely on the address only. - Create default dataset object to use when default dataset creation property list is used to create datasets, bypassing querying for all the property list values. - Use default I/O vector size when performing raw data with the default dataset transfer property list, instead of querying for I/O vector size. - Remove H5P_DEFAULT internally to the library, replacing it with more specific default property list based on the type of property list needed. - Remove redundant memset() calls in object header message (H5O*) routines. - Remove redunant memset() calls in data I/O routines. - Split free-list allocation routines into malloc() and calloc()- like routines, instead of one combined routine. - Remove lots of indirection in H5O*() routines. - Simplify metadata cache entry comparison routine (used when flushing entire cache out). - Only enable metadata cache statistics when H5AC_DEBUG is turned on, instead of always tracking them. - Simplify address comparison macro (H5F_addr_eq). - Remove redundant metadata cache entry protections during dataset creation by protecting the object header once and making all the modifications necessary for the dataset creation before unprotecting it. - Reduce # of "number of element in extent" computations performed by computing and storing the value during dataspace creation. - Simplify checking for group location's file information, when file has not been involving in file-mounting operations. - Use binary encoding for modification time, instead of ASCII. - Hoist H5HL_peek calls (to get information in a local heap) out of loops in many group routine. - Use static variable for iterators of selections, instead of dynamically allocation them each time. - Lookup & insert new entries in one step, avoiding traversing group's B-tree twice. - Fixed memory leak in H5Gget_objname_idx() routine (tangential to performance improvements, but fixed along the way). - Use free-list for reference counted strings. - Don't bother copying object names into cached group entries, since they are re-created when an object is opened. The benchmark I used to measure these results created several thousand small (2K) datasets in a file and wrote out the data for them. This is Elena's "regular.c" benchmark. These changes resulted in approximately ~4.3x speedup of the development branch when compared to the previous code in the development branch and ~1.4x speedup compared to the release branch. Additionally, these changes reduce the total memory used (code and data) by the development branch by ~800KB, bringing the development branch back into the same ballpark as the release branch. I'll send out a more detailed description of the benchmark results as a followup note. New internal API routines: Added "reference counted strings" API for tracking strings that get used by multiple owners without duplicating the strings. Added "ternary search tree" API for text->object mappings. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} Other platforms/configurations tested? FreeBSD 4.7 (sleipnir) serial & parallel Solaris 2.6 (baldric) serial
* [svn-r6024] Purpose:Bill Wendling2002-10-231-0/+2
| | | | | | | | | Feature Add Description: Moved some functions from having only module scope to having public scope, but only available in the HDF5 internals (not public APIs). Platforms tested: Eirene, Arabica, Modi4
* [svn-r5968] Purpose:Quincey Koziol2002-10-091-0/+2
| | | | | | | | | Code cleanup Description: Change new H5P_get_class_path and H5P_open_class_path functions to be non- static and put prototypes in H5Pprivate.h Platforms tested: FreeBSD 4.6 (sleipnir) (no triple-check necessary)
* [svn-r5964] Purpose:Quincey Koziol2002-10-081-1/+5
| | | | | | | | | | | | | | | Internal feature. Description: To complement the "get the class's path" functionality, there needs to be a way to open a generic property class with a path. Solution: Implement the "open a class by path" functionality. Also, add internal testing routines. Platforms tested: FreeBSD 4.6 (sleipnir) (too small for triple testing)
* [svn-r5963] Purpose:Quincey Koziol2002-10-081-0/+1
| | | | | | | | | | | | | | | | | | | | New internal feature. Description: Need some way to determine the "full path" for a generic property class, i.e. where is this class in the class hierarchy, in relation to its parent class, etc. Solution: Added an internal function "H5P_get_class_path" and a testing function "H5Pget_class_path_test" that builds the full path of a generic property class back to the top of its class hierarchy. This implementation uses '/' characters to delimit the components of the class path, but no special cases are currently supported for having a '/' character as part of the actual class name. Should this become an issue, code to support (and test) it will need to be added. Platforms tested: FreeBSD 4.6 (sleipnir) (not major enough to justify triple-test)
* [svn-r5951] Raymond Lu2002-09-301-0/+4
| | | | | | | | | | | Purpose: New API functions Description: Added API functions to return pointer to low-level file handle (H5Fget_vfd_handle and H5FDget_vfd_handle) and related property list setting functions(H5Pset_family_offset and H5Pset_multi_type). Platforms tested: Linux 2.2(eirene), Solaris 2.7(arabica), IRIX64 6.5(modi4)
* [svn-r5931] MuQun Yang2002-09-201-23/+23
| | | | | | | | | | | | Purpose: __DLL__ is a keyword in some platforms and __DLL__ is also defined as a macro for windows DLL applications. That causes problems. Description: Solution: Use H5_DLL*** to replace __DLL***__ at all header files. Change the macro defination at H5api_adpt.h. Platforms tested: linux2.2.18smp, irix64, solaris 2.7 and windows 2000
* [svn-r5871] Purpose:Quincey Koziol2002-08-121-0/+1
| | | | | | | | | | | | | | | | Code cleanup Description: Combined H5P_isa_class and H5I_object functionality into a new internal H5P API function: H5P_object_verify, which checks that a property list is the appropriate class and then returns the property list object associated with the property list ID. This reduces the source code by about 200 LOC and trims the library binary some more. Platforms tested: FreeBSD 4.6 (sleipnir)
* [svn-r5652] Purpose:Quincey Koziol2002-06-171-0/+6
| | | | | | | | | | | | Code cleanup Description: Use dataset transfer property list to hold information about the MPI types for the current transfer, instead of setting pseudo-global variables in the file's struct. Platforms tested: Linux 2.2.x (eirene) w/parallel & IRIX64 6.5 (modi4) w/parallel & FORTRAN
* [svn-r5259] Purpose:Quincey Koziol2002-04-251-2/+2
| | | | | | | | | | | | | | | | Code cleanup Description: Previously, the I/O pipeline (pline), external file list (efl) and fill- value (fill) structs were passed down the raw data function call chain, even into and/or through functions which didn't use them. Since all three of these pieces of information are available from the dataset creation property list, just pass the dataset creation property list down the function call chain and query for the information needed in a particular function. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5170] Raymond Lu2002-04-111-0/+2
| | | | | | | | | | | Purpose: New feature Description: Fill-value's behaviors for contiguous dataset have been redefined. Basicly, dataset won't allocate space until it's necessary. Full details are available at http://hdf.ncsa.uiuc.edu/RFC/Fill_Value, at this moment. Platforms tested: Linux 2.2.
* [svn-r4626] Purpose:Quincey Koziol2001-11-201-77/+27
| | | | | | | | Code cleanup Description: Moved parts of the H5P stuff into the new H5Ppkg.h header file from here. Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4584] Raymond Lu2001-11-021-9/+1
| | | | | | | | | Purpose: Switch from old property list to new generic property list. Description: Mainly changed H5Pcreat, H5Pclose, H5Pcopy. Platforms tested: IRIX64 6.5, FreeBSD, SunOS 5.7.
* [svn-r4573] Raymond Lu2001-10-251-6/+1
| | | | | | | Purpose: Switch mount property list to the new generic property list. Platforms tested: IRIX64 6.5, SunOS 5.7, FreeBSD.
* [svn-r4569] Raymond Lu2001-10-241-1/+1
| | | | | | | | | Purpose: Generic Property List Change Description: Changed file access list to the new generic list. Platforms tested: IRIX64, SunOS5.7, FreeBSD
* [svn-r4543] Raymond Lu2001-10-151-1/+0
| | | | | | | Purpose: Changed the file creation property list to the new generic property list. Platform tested: IRIX64, SunOS5.7, FreeBSD
* [svn-r4518] Purpose:Quincey Koziol2001-10-031-1/+1
| | | | | | | | Code cleanup Description: Clean up some small compiler warnings. Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4517] Raymond Lu2001-10-031-1/+1
| | | | | | | | Purpose: Changed to the new generic property list for dataset creation property list. Platforms tested: Arabica, modi4 and Hawkwind
* [svn-r4482] Purpose:Quincey Koziol2001-09-261-4/+4
| | | | | | | | | | | | | | | | | | | | | | Kludge Description: Since we're only about halfway through converting the internal use of property lists from the "old way" to the generic property lists, we turned off snapshots to avoid exposing lots of API changes to users, until the APIs settled down. Getting the snapshots rolling again seems to have become a priority, so some changes are going to have to be made now that were going to be postponed until we were completely finished with the conversion. This requires that the old API functions be able to deal with both the old and new property lists smoothly. Solution: Kludge together the property list code so that they can transparently handle dealing with both the old and new property lists Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4437] Purpose:Quincey Koziol2001-09-121-2/+2
| | | | | | | | | Adding Feature Description: Added new H5Pcopy_prop function to copy a property (value) from one property list or class to another. Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4355] Purpose:Quincey Koziol2001-08-141-9/+9
| | | | | | | | | | | | | | | | | | | | | | Code cleanup (sorta) Description: When the first versions of the HDF5 library were designed, I remembered vividly the difficulties of porting code from a 32-bit platform to a 16-bit platform and asked that people use intn & uintn instead of int & unsigned int, respectively. However, in hindsight, this was overkill and unnecessary since we weren't going to be porting the HDF5 library to 16-bit architectures. Currently, the extra uintn & intn typedefs are causing problems for users who'd like to include both the HDF5 and HDF4 header files in one source module (like Kent's h4toh5 library). Solution: Changed the uintn & intn's to unsigned and int's respectively. Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4329] Purpose:Quincey Koziol2001-08-121-0/+1
| | | | | | | | | | | | | | Bug Fix Description: The datatype conversion buffer size was only halfway converted from hsize_t to size_t and was causing problems. Also, the H5P_peek_<foo> routines have a bunch of identical code. Solution: Finished converting the datatype conversion buffer size to size_t and cleaned up the implementation of the H5P_peek_<foo> routines to call a common routine instead of reimplementing a bunch of code. Platforms tested: Solaris 2.7 (arabica)
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