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* Hdf5 1 10 Fix tools test (#796)Allen Byrne2021-06-241-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * HDFFV-10865 - merge from dev, HDFArray perf fix. * Remove duplicate setting * Whitespace changes after clang format * Undo version 11 clang format changes * Merge CMake changes from develop * test testing script merge from develop * Update supported platforms * PR#3 merge from develop * Merge gcc 10 diagnostics option from develop * Merge #318 OSX changes from develop * Merge small changes from develop * Minor non-space formatting changes * #386 copyright corrections for java folder * Merges from develop #358 patches from vtk #361 fix header guard spelling * Merge updates #358 patches from vtk #361 fix header guard spelling * format fix * Fix missing underscore and make H5public.h closer to dev * Merges from develop #340 clang -Wformat-security warnings #360 Fixed uninitialized warnings header guard underscore cleanup JNI cleanup * format alignment * Add missing test ref file * Merge #380 from develop * Finish java merges from develop * Fix java issues with tests and javadoc * Correct use of attribute access plist * Remove debug code * Remove unused variable * Change file access to read only for java tests * Split clang format operations. * More javadoc comments * Remove pre-split setting * format source * Change windows TS to use older VS. * Mostly all javadoc fixes, one argument rename. * synch file * Merge of long double fix and compiler flags * HDFFV-11229 merge changes from develop * HDFFV-11229 correct test script * HDFFV-11229 update autotools test script for two ref files * HDFFV-11229 merge dev changes for long double display in tools * Committing clang-format changes * minor whitespace * remove unneeded macro * Committing clang-format changes * Add "option" command for clang options * Rework CMake add_custom to use the BYPRODUCTS argument Update pkgconfig scripts for parallel builds. Fix install COPYING file reference. Remove unused round defines. Change CMake default setting of BUILD_CPP to off. * Fortran target depends * Remove incorrect source attribute * Revert define removal * printf specifiers and VS2015 min changes * Committing clang-format changes * Add time struct * TRILAB-227 and tools debug merges from develop * Merge various changes from dev * Issue #669 remove version from pkgcfg filename * remove version from h5cc script * doxygen changes merged from develop * Committing clang-format changes * Merge CMake fortran ninja changes from dev * Enable fortran to gcc yaml * Refactor Fortran CMake config tests and CMake test args * Merge warnings files fixes from develop * Fix cmake configure path * Update missing release note info. * Update code owners * Add known problem * Use only core library for testing dynamic plugins. CMake uses H5_HAVE_DIRECT instead of DIRECT_VFD Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Partial merge issue #642 develop branch PRs to Hdf5 1 10 (#718)Larry Knox2021-06-031-10/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Revert addition of & to 2 parameters in DSetCreatPropList::setVirtual to maintain binary compatibility. * Fix H5Eget_auto2/H5Eauto_is_v2 to not clear error stack (#625) * Removes gratuitous (double)x.yF casts (#632) * Committing clang-format changes * Removes gratuitous (double)x.yF casts * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Cleans up a const warning left over from previous constification (#633) * Committing clang-format changes * Adds consts to a few global variables * Cleans up a const warning left over from previous constification Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Purges UFAIL from the library (#637) * Committing clang-format changes * Purges UFAIL from the library * H5HL_insert change requested in PR Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Bmr dev hdffv 11223 (#640) * Fixed HDFFV-11223 (CVE-2018-14460) Description - Added checks against buffer size to prevent segfault, in case of data corruption, for sdim->size and sdim->max. - Renamed data files in an existing test to shorten their length as agreed with other developers previously. Platforms tested: Linux/64 (jelly) * Committing clang-format changes * Updated for test files * Updated for HDFFV-11223 Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Committing clang-format changes * Restore "error:" in line 2666. * Revert "Fix H5Eget_auto2/H5Eauto_is_v2 to not clear error stack (#625)" This reverts commit 426b50484841118cf633fd6147302a63a30fd746. Co-authored-by: jhendersonHDF <jhenderson@hdfgroup.org> Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com>
* Hdf5 1 10 merge of printf specifiers and VS2015 min changes (#612)Allen Byrne2021-04-3017-531/+392
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * HDFFV-10865 - merge from dev, HDFArray perf fix. * Remove duplicate setting * Whitespace changes after clang format * Undo version 11 clang format changes * Merge CMake changes from develop * test testing script merge from develop * Update supported platforms * PR#3 merge from develop * Merge gcc 10 diagnostics option from develop * Merge #318 OSX changes from develop * Merge small changes from develop * Minor non-space formatting changes * #386 copyright corrections for java folder * Merges from develop #358 patches from vtk #361 fix header guard spelling * Merge updates #358 patches from vtk #361 fix header guard spelling * format fix * Fix missing underscore and make H5public.h closer to dev * Merges from develop #340 clang -Wformat-security warnings #360 Fixed uninitialized warnings header guard underscore cleanup JNI cleanup * format alignment * Add missing test ref file * Merge #380 from develop * Finish java merges from develop * Fix java issues with tests and javadoc * Correct use of attribute access plist * Remove debug code * Remove unused variable * Change file access to read only for java tests * Split clang format operations. * More javadoc comments * Remove pre-split setting * format source * Change windows TS to use older VS. * Mostly all javadoc fixes, one argument rename. * synch file * Merge of long double fix and compiler flags * HDFFV-11229 merge changes from develop * HDFFV-11229 correct test script * HDFFV-11229 update autotools test script for two ref files * HDFFV-11229 merge dev changes for long double display in tools * Committing clang-format changes * minor whitespace * remove unneeded macro * Committing clang-format changes * Add "option" command for clang options * Rework CMake add_custom to use the BYPRODUCTS argument Update pkgconfig scripts for parallel builds. Fix install COPYING file reference. Remove unused round defines. Change CMake default setting of BUILD_CPP to off. * Fortran target depends * Remove incorrect source attribute * Revert define removal * printf specifiers and VS2015 min changes * Committing clang-format changes * Add time struct Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* 110 copying update (#564)Larry Knox2021-04-261-13/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * close #195. (#196) * Update HDF5PluginMacros.cmake * Update HDF5PluginMacros.cmake * Modify temporary rpath for testing in java example scripts. (#230) * Fix undefined left shifting of negative numbers (#338) Undefined Bahavior Sanitizer errored here about left shifting negative numbers. * Update license url (#332) * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - src and test directories. * Cleans up a couple of MSVC warnings in testhdf5 (#475) * Fixes a few testhdf5 warnings raised in Visual Studio Visual Studio is grumpier about treating pointers like integers than gcc. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Fix typos and grammar errors. (#476) * Suppresses the tcheck_version test's abort dialog on Windows (#477) * Suppresses the tcheck_version test's abort dialog on Windows Windows raises a modal abort/retry/ignore dialog box when CRT calls abort(). This change installs a report hook that suppresses the dialog so that the CMake tests don't time out waiting for a nonexistent user to click a dialog box. * Committing clang-format changes * Removes __cdecl from callback Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Update top-level COPYING file and remove COPYING files from subdirectories. * Update top-level COPYING file and remove COPYING files from subdirectories (#561) * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING (license) file. * Add release_docs/code-conventions.md file. * Add script to test h5py. * Fix script error. * Add file h5pytest.yml. * Test declaration of counter variables in for loops. * Committing clang-format changes * Committing clang-format changes * Added [] to line 126 of H5LTanalyze.l. Ran bin/genparser with flex v2.6.4 and Bison v3.0.4 on jelly. * Revert "Added [] to line 126 of H5LTanalyze.l." This reverts commit e4a9cee441efa75b16a8ee030c86189e186dd266. * Revert extra commits to match canonical develop. * Update top-level COPYING file and remove COPYING files from subdirectories. * Remove subdirectory COPYING files from MANIFEST. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org> Co-authored-by: Sean McBride <sean@rogue-research.com> Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Hdf5 merge issue 487 v110 (#533)Larry Knox2021-04-011-1/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Cleans up a couple of MSVC warnings in testhdf5 (#475) * Fixes a few testhdf5 warnings raised in Visual Studio Visual Studio is grumpier about treating pointers like integers than gcc. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Fix typos and grammar errors. (#476) * Suppresses the tcheck_version test's abort dialog on Windows (#477) * Suppresses the tcheck_version test's abort dialog on Windows Windows raises a modal abort/retry/ignore dialog box when CRT calls abort(). This change installs a report hook that suppresses the dialog so that the CMake tests don't time out waiting for a nonexistent user to click a dialog box. * Committing clang-format changes * Removes __cdecl from callback Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Committing clang-format changes Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org>
* Hdf5 1 10 update license url part2 (#404)Larry Knox2021-03-0129-29/+29
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * close #195. (#196) * Update HDF5PluginMacros.cmake * Update HDF5PluginMacros.cmake * Modify temporary rpath for testing in java example scripts. (#230) * Fix undefined left shifting of negative numbers (#338) Undefined Bahavior Sanitizer errored here about left shifting negative numbers. * Update license url (#332) * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - src and test directories. * Update license url part2 (#333) * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - files not in src or test. * Update URL in source file Copyright headers for web. Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org> Co-authored-by: Sean McBride <sean@rogue-research.com>
* 1 10 Whitespace changes after clang-format run (#287)Allen Byrne2021-01-291-3/+3
| | | | | | | | | * HDFFV-10865 - merge from dev, HDFArray perf fix. * Remove duplicate setting * Whitespace changes after clang format * Undo version 11 clang format changes
* OESS-98 add CMake option to build plugins project within hdf5Allen Byrne2020-10-161-2/+2
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* Source formattedAllen Byrne2020-10-0127-15662/+13624
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* Merge of clang-format changes from developAllen Byrne2020-09-302-4/+19
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* Merge of dataspace improvements from develop.Dana Robinson2020-07-162-70/+62
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* Normalization of H5S package with developDana Robinson2020-07-081-1/+1
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* Removed trailing whitespace from source files.Dana Robinson2020-05-2610-59/+59
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* Updated code in H5Xtest.c files and associated tests.Dana Robinson2020-05-184-5/+5
| | | | Reverted overlong-strings warning that gives jam issues.
* Fix errors: ISO C90 forbids mixed declarations and codeLarry Knox2020-04-271-2/+6
| | | | [-Werror=declaration-after-statement]
* Fix Werror issues, whitespace, casts and unused varsAllen Byrne2020-04-163-281/+278
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* TRILAB-192 - merge changes from developAllen Byrne2020-04-071-0/+2
| | | | Single source, config files, for warnings for both autotools and CMake. Update CMake libraries, tools, tests to use correct flags.
* Merging in latest from upstream (HDFFV/hdf5:refs/heads/hdf5_1_10)Allen Byrne2020-03-011-3/+3
|\ | | | | | | | | | | | | | | * commit '42106363903e7a7d4a0c2cd1b38aad9a54f2eeff': Fixed configure issue when building HDF5 with NAG Fortran 7.0. Fixed issue building HDF5 with NAG Fortran 7.0. revert type cast Merge pull request #2244 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/intel_warnings to develop
| * Merge pull request #2432 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/type_cast_10 to ↵Kimmy Mu2020-02-291-3/+3
| |\ | | | | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit 'a0881fa1cfbb735a013581c53f8003a13fb0383a': revert type cast Merge pull request #2244 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/intel_warnings to develop
| | * revert type castkmu2020-02-281-3/+3
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| | * Merge pull request #2244 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/intel_warnings ↵Kimmy Mu2020-01-101-2/+2
| | | | | | | | | | | | | | | | | | | | | to develop * commit '6b1b4b3c0bdd803835efe8c531965bb9900a5363': fix test assert fail error
* | | Merge CMake and tools changes from developAllen Byrne2020-02-271-1/+1
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* | Added new CMake options for testsAllen Byrne2020-01-191-1/+3
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* | Merge pull request #2244 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/intel_warnings ↵Kimmy Mu2020-01-141-2/+2
|/ | | | | | | to develop * commit '6b1b4b3c0bdd803835efe8c531965bb9900a5363': fix test assert fail error
* merge intel warning fixKimmy Mu2020-01-092-6/+6
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* Fix MPI depends nameAllen Byrne2019-10-231-0/+3
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* Whitespace and benign synchro changesAllen Byrne2019-10-021-4/+4
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* Mostly whitespace, HD prefix and remove obsolete #if blocksAllen Byrne2019-08-284-413/+380
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* fix get gethostname for windowsAllen Byrne2019-08-282-1/+6
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* HDFFV-10876 link fix and compile issueAllen Byrne2019-08-271-1/+1
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* OESS-29 Update HD prefix and compare against developAllen Byrne2019-08-2316-1094/+1087
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* Fix test tmp dir usageAllen Byrne2019-08-154-357/+290
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* Merge fixes and code reconciliation wit developAllen Byrne2019-08-051-31/+37
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* Add missing functionAllen Byrne2019-08-011-0/+7
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* Cleanup when merging to other branchesAllen Byrne2019-07-303-9/+7
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* HDFFV-10845, 10529 and CMake changes from developAllen Byrne2019-07-245-234/+225
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* Merge from develop, mostly HDFFV-10845Allen Byrne2019-07-121-786/+757
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* HDFFV-10805 Merge SHARED ONLY option from developAllen Byrne2019-06-203-14/+27
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* Updates from developAllen Byrne2019-06-101-4/+33
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* CMake fixesAllen Byrne2019-04-041-1/+1
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* HDFFV-10703 - Update CMake variable handlingAllen Byrne2019-02-213-22/+22
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* TRILAB-111 Update MPI CMakeAllen Byrne2019-02-133-9/+91
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* Fix some collective metadata read issuesJordan Henderson2019-02-124-23/+336
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* Fix test issue in testpar/t_dset.c with MPI-2 implementationsJordan Henderson2019-02-071-0/+2
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* Updates to t_filters_parallel for missing filtersJordan Henderson2019-01-221-139/+220
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* merged:M. Scot Breitenfeld2019-01-104-75/+526
| | | | | HDFFV-10652 HDFFV-10443
* Merged the rest of the parallel flush test code.Dana Robinson2019-01-072-2/+74
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* Cherry pick of CMake parallel flush fixes.Dana Robinson2019-01-053-245/+273
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* Merge of logging framework updates.Dana Robinson2018-12-311-251/+212
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* Replaced all MPI-1 calls with MPI-2 equivalents (from develop).Dana Robinson2018-12-311-11/+11
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