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* 1.8/master (#317)hdf5-1_8_22Larry Knox2021-02-081-152/+153
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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-r27165] Merge 27133 & 27158 from trunk:Mohamad Chaarawi2015-06-081-3/+3
| | | | | | | | | - Add a new attribute function characterstic for format: * H5_ATTR_FORMAT(X,Y,Z) __attribute__((format(X, Y, Z))) - Rename UNUSED attribute characterstic to H5_ATTR_UNUSED. - Rename NORETURN attribute characterstic to H5_ATTR_NORETURN tested with h5committest.
* [svn-r18704] Description:Quincey Koziol2010-05-051-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | Bring r18702 from trunk to 1.8 branch: Bring r18672 from metadata journaling "merging" branch to trunk: Mostly changes to move to only using one 'user data' parameter for calls to H5AC_protect(), along with some minor reformatting code cleanups. 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 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18617] Description:Quincey Koziol2010-04-221-7/+7
| | | | | | | | | | Bring r18616 from trunk to 1.8 branch: Clean up compiler warnings. Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor to require h5committest)
* [svn-r18613] Description:Quincey Koziol2010-04-221-2/+2
| | | | | | | | | | Bring r18612 from trunk to 1.8 branch: Clean up compiler warnings & code formatting Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor to require h5committest)
* [svn-r16920] Description:Quincey Koziol2009-05-051-2/+14
| | | | | | | | | | | | | | | | | | | | | | | | | | | | Merge these trunk revisions which occurred during the 1.8.3 release code freeze back to the 1.8 branch: From Quincey: 16845 16847 16849 16851 16858 16869 16897 From Ray: 16859 16880 From Allen: 16863 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/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 10.5.6 (amazon) in debug mode Mac OS X/32 10.5.6 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r16703] Purpose: Improve performance of factory free lists.Neil Fortner2009-04-081-8/+16
| | | | | | | | | | | Description: Factory free lists were formerly implemented as block free lists. This was inefficient as factories can only be one size, and implementing them as blocks (which can be variable size) wasted computation and space. They have been rewritten with a separate implementation, which is simlar to regular free lists except they can be dynamically created and destroyed. Tested: jam, linew, smirom (h5committest)
* [svn-r16566] Description:Quincey Koziol2009-03-111-8/+8
| | | | | | | | Bring r16560 back from trunk. Tested on: Mac OS X/32 10.5.6 (amazon) debug & production (Following up with tests on more platforms)
* [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-r13814] Description:Quincey Koziol2007-05-291-1/+1
| | | | | | | | | | | | | | Change back to clearing memory buffers by default, but give users option to disable this, for performance reasons (--disable-clear-file-buffers). Also, add configure option (--enable-using-memchecker) to conveniently control making the library "play nice" with memory checking tools like valgrind and purify. Tested on: Mac OS X/32 10.4.9 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (kagiso)
* [svn-r13772] Description:Quincey Koziol2007-05-201-5/+5
| | | | | | | Reduce compiler warnings when free list manager is disabled. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13770] Description:Quincey Koziol2007-05-191-1/+4
| | | | | | | Clean up various memory leaks, etc. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13751] Description:Quincey Koziol2007-05-141-2/+2
| | | | | | | | | Reduce the number of warnings when free lists are disabled. Tested on: Mac OS X /32 10.4.9 (amazon) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [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-r12739] Added Direct I/O driver to VFD. It's only supported by SGI ↵Raymond Lu2006-10-101-1/+1
| | | | | | | | | | Altix (cobalt). There's a configure option --enable-direct-vfd/--disable-direct-vfd to enable/disable Direct I/O support. The default is enabled. There's a small test in test/vfd.c. Another way to test it is to set environment variable HDF5_DRIVER to "direct" and run "make check" in the test/ directory. There'll be some further improvement in the following checkin including allowing user to provide memory boundary value, file block size, and copying buffer size.
* [svn-r12560] Description:Quincey Koziol2006-08-101-3/+3
| | | | | | | Correct some typos in comments Testing: None needed
* [svn-r12320] Purpose:Quincey Koziol2006-05-021-1/+1
| | | | | | | | | | code cleanup Description: Finish H5FS->H5CS internal API name changes... Platforms tested: FreeBSD 4.11 (sleipnir) w/ & w/o --enable-codestack
* [svn-r11852] Purpose:Quincey Koziol2006-01-021-18/+18
| | | | | | | | | | | Code cleanup/update Description: Update compiler flags for gcc 4.1.x & start cleaning up some of the C++ compatibility Platforms tested: FreeBSD 4.11 (sleipnir) w/gcc 4.1 and/or g++
* [svn-r11282] Purpose:Quincey Koziol2005-08-201-23/+61
| | | | | | | | | | | | | | | | | New debugging feature Description: Add some code to track where memory from the internal free list allocator is allocated within the library. It's not quite ready for "prime time" yet, but it's close enough to be useful. This is disabled by default and requires the H5FL_TRACK macro in src/H5FLprivate.h to be uncommented to activate during debugging. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 Too minor to require full h5committest
* [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-r10857] Purpose:Quincey Koziol2005-06-031-1/+1
| | | | | | | | | | Code cleanup Description: Re-enable free-list management in the library Platforms tested: None - eyeballed - too minor to require h5committest
* [svn-r10847] Purpose: Bug fixRaymond Lu2005-06-021-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: See details from Bug #213. Family member file size wasn't saved anywhere in file. When family file is opened, the first member size determine the member size. Solution: This is the fourth step of checkin. A test suit is added for h5repart, including a program to generate the test files, a script file to run h5repart, and a program to verify repartitioned files can be opened by the library. There's a change from the first step of checkin. Family name template is no longer saved in the superblock because different pathname can make the name different. In the third step of checkin, h5repart has been modified. If h5repart is used to change the size of family member file, the new size(actual member size) is saved in the superblock. In the second step of checkin, multi driver is checked against the driver name saved in superblock. Wrong driver will result in a failure with an error message indicating multi driver should be used. This change includes split driver because it's a special case for multi driver. In the first step of checkin. Family member size and name template(unused at this stage) are saved in file superblock. When file is reopened,the size passed in thrin superblock. A different size will trigger a failure with an error message indicating the right size. Wrong driver to open family file will cause a failure, too. Platforms tested: h5committest and fuss. Misc. update: MANIFEST
* [svn-r10618] Purpose:Quincey Koziol2005-04-161-1/+1
| | | | | | | | | | | | | Bug fix Description: Correct typo in "base array" free list macro when free list macros are disabled. Platforms tested: FreeBSD 4.11 (sleipnir) Solaris 2.9 (shanti) Too minor to require h5committest
* [svn-r10580] Purpose:Quincey Koziol2005-04-081-12/+21
| | | | | | | | | | | Code optimization Description: Add "base" size to array free list code, to accomodate skip list nodes. Platforms tested: FreeBSD 4.11 (sleipnir) Solaris 2.9 (shanti)
* [svn-r10547] Purpose:Quincey Koziol2005-04-051-1/+1
| | | | | | | | | | | Bug fix (sorta) Description: Re-enable free-lists in library. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r10535] Purpose: Spliting TestRaymond Lu2005-04-041-1/+1
| | | | | | | | | | | | Description: Split test/dtypes.c because it's so big. Moved all integer-integer, floating-floating, integer-floating, floating-integer, derived integer, derived floating conversion tests to a new test program, dt_atomic.c. The test remains the same basically. Platforms tested: fuss and h5committest Misc. update: MANIFEST
* [svn-r9978] Purpose:Xuan Bai2005-02-101-16/+16
| | | | | | | | | | | | | | | | | | | Bug fix. Description: Quincey changed "entern H5_DLL" to "H5_DLLVAR" in hdf5/src/H5FLprivate.h which caused some symbols can not be exported correctly by HDF5 DLL. Solution: Change "H5_DLLVAR" back to "extern H5_DLL". Platforms tested: Visual C++ 6.0 on Windows XP. .NET 2003 on Windows XP. Heping (Linux 2.4). (Note: I talked with Elena and Quincey about this failure. Quincey asked me to check in this fix.) Misc. update:
* [svn-r9939] Purpose:Quincey Koziol2005-02-041-16/+16
| | | | | | | | | | | | | New feature Description: Expand v2 B-tree code to support splitting the root node when enough records are inserted and move metadata cache callbacks into their own source file. Platforms tested: FreeBSD 4.11 (sleipnir) w/parallel Too minor for h5committest
* [svn-r9928] Purpose:Quincey Koziol2005-02-031-0/+35
| | | | | | | | | | | | | New feature Description: Add basic code for new B-tree implementation. They don't do much yet, aren't hooked up to anything yet and the format may change, but I'd like to start getting them into the daily tests. Platforms tested: FreeBSD 4.11 (sleipnir) w/parallel Too minor to require h5committest
* [svn-r8946] Purpose:Quincey Koziol2004-07-261-2/+2
| | | | | | | | | | | | | | | | | | Code cleanup, sorta Description: Added ifdef sections for "H5_USING_PURIFY" in various places in the code, which are designed to reduce the spurious "uninitialized memory read" warnings from purify which are actually OK. Note that this macro will have to be turned on by adding it to the CFLAGS for the build - I didn't think it was important enough to add a configure flag for. Also, the changes in H5HG.c optimize the walks through the objects in a heap to only look at the 'used' entries instead of all the 'allocated' entries. Platforms tested: Solaris 2.7 (arabica) w/purify Not tested by h5committest
* [svn-r8922] Purpose: Restore the original codeRaymond Lu2004-07-211-1/+1
| | | | | | | | Description: Line 38, "#define H5_NO_FREE_LISTS" were commented out during debugging Solution: put back in. Platforms tested: No test needed
* [svn-r8921] Purpose: new featureRaymond Lu2004-07-211-1/+1
| | | | | | | | | | | | | | Description: This is the second step of checkin for encoding and decoding objects. H5Tencode and H5Tdecode have been committed in the previous step. H5Sencode and H5Sdecode are checked in this time. Solution: Given object ID, these functions encode and decode object information into and from binary buffer and return new object ID. They take advantage of the existing codes of object header message and encode in the same format. Platforms tested: fuss and h5committest. Misc. update: RELEASE.txt
* [svn-r8301] Purpose:Quincey Koziol2004-04-061-14/+73
| | | | | | | | | | | | | Code optimization Description: Move handling for free list arrays that have no maximum size to separate set of routines and optimize computations for free list arrays with maximum size to avoid re-computing sizes all the time. Platforms tested: h5committest Solaris 2.7 (arabica)
* [svn-r7988] Purpose:Quincey Koziol2003-12-291-1/+1
| | | | | | | | | | | Bug fixes & code cleanup Description: Back out some of the debugging that was inadvertently checked in recently. Platforms tested: FreeBSD 4.9 (sleipnir) too minor to require h5committest
* [svn-r7984] Purpose: bug fixRaymond Lu2003-12-291-1/+1
| | | | | | | Description: VL datatype fails in certain way(hard to describe) Platforms tested: h5committest
* [svn-r6936] Purpose:Quincey Koziol2003-05-311-3/+3
| | | | | | | | | | | | | | | Bug fix Description: When free lists where disabled, the macros for array free list operations could possibly expand in ways that allowed incorrect numbers of objects to be operated on. Solution: Put parentheses around macro arguments when performing operations with them. Platforms tested: h5committestted (although Fortran tests failed for some reason)
* [svn-r6546] Purpose:Bill Wendling2003-03-311-4/+14
| | | | | | | | | | | | Update Description: Updated copyright statement in files which hadn't been updated yet. Platforms tested: Linux (Only comment change) Misc. update:
* [svn-r6278] Purpose:Quincey Koziol2003-01-141-30/+51
| | | | | | | | | | | | Code cleanup Description: Add 'H5_DLL' macro to H5FL macros, in order to allow Windows builds to work. Platforms tested: FreeBSD 4.7 (sleipnir) Visual Studio 6.0
* [svn-r6252] Purpose:Quincey Koziol2003-01-091-9/+29
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r5959] Raymond Lu2002-10-041-0/+1
| | | | | | | Purpose: Performance improvement for compact dataset. Platforms tested: Linux 2.2(eirene), Solaris 2.7(arabica), IRIX64 6.5(modi4)
* [svn-r5931] MuQun Yang2002-09-201-11/+11
| | | | | | | | | | | | 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-r5787] Purpose:Quincey Koziol2002-07-121-1/+1
| | | | | | | | | | Update code Description: Re-enable free-lists, which were accidentally disabled from last checkin. Platforms tested: FreeBSD 4.6 (sleipnir)
* [svn-r5785] Purpose:Quincey Koziol2002-07-121-0/+37
| | | | | | | | | | Code update Description: Re-arrange to disable free-list code in a more transparent way. Platforms tested: FreeBSD 4.6 (sleipnir)
* [svn-r4978] Purpose:Quincey Koziol2002-02-171-1/+1
| | | | | | | | Code cleanup Description: Cleanup compiler warnings found by the SGI compiler and gcc 3.0 Platforms tested: FreeBSD 4.5 w/gcc 3.0 (hack) && IRIX64 (modi4)
* [svn-r4842] Purpose:Quincey Koziol2002-01-171-20/+9
| | | | | | | | | | | | Feature improvement Description: Re-write how the free-list headers were used, to reduce the amount of space added to each malloc request. Reduced header for array and block free list items from 24 bytes to 8 bytes and eliminated the header for fixed-size free list items entirely. This should reduce the amount of memory that the library uses. Platforms tested: FreeBSD 4.5 (sleipnir) & IRIX64 6.5 (modi4)
* [svn-r4355] Purpose:Quincey Koziol2001-08-141-15/+15
| | | | | | | | | | | | | | | | | | | | | | 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-r4038] Purpose:Quincey Koziol2001-06-211-11/+11
| | | | | | | | | | | | | Code clean/bug fix Description: H5FL (free-list manager) code currently is taking an hsize_t as the size of a memory block to allocate. On many machines, the size of an hsize_t is greater than the size of a size_t, potentially leading to incorrect memory allocations in rare circumstances. Solution: Changed hsize_t parameters and variables to size_t. Platforms tested: FreeBSD 4.3 (hawkwind)
* [svn-r3781] Purpose:Bill Wendling2001-04-051-3/+3
| | | | | | | | | | | | | | | | | | Update Description: Changed #include <hdf_file.h> construct to #include "hdf_file.h" so that the GNU compiler can more easily pick up the dependencies which it places in the .depend and Dependencies files. Also regenerated the Dependencies to go along with this. Platforms tested: Linux
* [svn-r3252] Purpose:Quincey Koziol2001-01-091-7/+7
| | | | | | | | | | | | | Code cleanup. Description: Fixed _lots_ (I mean _tons_) of warnings spit out by the gcc with the extra warnings. Including a few show-stoppers for compression on IRIX machines. Solution: Changed lots of variables' types to more sensible and consistent types, more range-checking, more variable typecasts, etc. Platforms tested: FreeBSD 4.2 (hawkwind), IRIX64-64 (modi4)
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