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* Various merges from develop (#3135)Allen Byrne2023-06-194-190/+3
| | | | | | | | | * Merges from develop/1.14 * Fix doxygen warnings * Fix spelling * Fix doxygen ref * Add braces * Fix format * Remove unused file
* Revert the removal of HDF5GroupInfo class and deprecate. (#2636)Allen Byrne2023-03-273-0/+194
| | | | | | | | | * Revert the removal of HDF5GroupInfo class and deprecate. * revert H5_QUARTER_HADDR_MAX removal --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Add Option to not build gif tools and remove javadoc option (#2611)Allen Byrne2023-03-201-12/+0
| | | | | | | * Add Option to not build gif tools and remove javadoc option * Remove old option * Fix CMake command format
* Gather latest CMake changes from develop (#2609)Allen Byrne2023-03-203-3/+1
| | | | Add HDF5_SRC_INCLUDE_DIRS variable cleanup cmake comments and documentation
* Update copyright headers. (#2527)Larry Knox2023-03-1028-28/+0
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* 1.10: Add spelling check to CI and fix errors. (#2442)Allen Byrne2023-02-166-7/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Update CI and support files to match latest from 1.14 * Correct spelling * More spelling corrections * spelling fixes in testpar * Fix spelling errors in tools * More tools spelling fixes * Spelling fixes for rest of tools and some src * Fix spelling errors in src files, pt 2 * Fix spelling in src pt3 * Fix spelling errors pt4 * Fix spelling errors pt5 * Spelling fix pt6 * fix spelling error examples * fix spelling in tests * fix spelling errors in test pt2 * Fix spelling errors in test pt3 * fix spelling in test pt4 * Fix spelling errors in hl * fix spelling errors in c++ * Spelling fixes for fortran * spelling fixes for bin and java * Add relative path * Change spelling action to use a file for list of ignore words * Fix spelling ignore list * remove unused file
* 1.10 Merge HDFGroup#2175 Implement option for using CMake GNUInstallDirs (#2222)Allen Byrne2022-11-051-1/+1
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* 1.10 Fix some Java warnings (#2147)Allen Byrne2022-10-061-1/+1
| | | | | * Fix some Java warnings * fix formatting
* Main Getting Started page and the three HDF Resources have pages. (#2092)Allen Byrne2022-09-092-4/+61
| | | | | | | | HDFView is still under construction, but mostly there. Merge the Fortran doxygen changes from develop PR, updated RM index. Adjusted references to UG and created some TODOs for missing UG modules Some may just need a reference back to a section of the user guide. Made some Fortran doxygen changes for overall consistency.
* Update java code with doxygen tags, add menu files. (#1972)Allen Byrne2022-08-0952-970/+2190
| | | | | | | | | | | | | | | | | * Update java code with doxygen tags, add menu files. * Add -Xdoclint:none to autotools javadoc command * Committing clang-format changes * Add fortran RM list descriptions * delete empty file * doc tag location changes * Spelling corrections Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* 1.10 clang 13 format #1933 (#1940)Allen Byrne2022-07-291-2/+2
| | | | | * clang 13 format #1933 * Correct workflow
* 1 10 Add utility JNI function for 1.10 style references (#1890)Allen Byrne2022-07-181-0/+23
| | | | | | | | | | | * Add utility JNI function for 1.10 style references * Clarify text * Correct signature * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* 1 10 HDFFV-11310 implement JNI VL support for primitive types (#1858)Allen Byrne2022-07-122-6/+28
| | | | | | | | | | | | | | | | | | | | | | | | | * HDFFV-11310 - implement vlen read/write for atomic types. * HDFFV-11310 - VL read/write function for primitive types * Add read/write VL option * fix function name typo * remove debugging prints * Remove more debugging code * Correct note to match change in code. * HDFFV-11318 add VL references as byte arrays * Fix unreleased allocations, fix debug * Fix format * Fix formatting * Correct typo
* Add datasets UG chapter, plus fix doxygen refs (#1841)Allen Byrne2022-07-052-23/+45
| | | | | * Add datasets UG chapter, plus fix doxygen refs * Remove duplicates
* Hdf5 1 10 sync (#1795)Allen Byrne2022-06-091-0/+4
| | | | | * Branch sync updates and spelling * Revert format of getenv
* Update version to 1.10.10-1 (#1783)Larry Knox2022-05-191-1/+1
| | | | Update so numbers to match 1.10.9 release. Clear 1.10.9 entries from RELEASE.txt.
* Reinstate java API removed in 1.10.8 (#1697)Allen Byrne2022-04-291-5/+32
| | | | | | | * Revert java API removal with JNI private function * Fix name typo * Correct format
* Add java to format source (#1690)Allen Byrne2022-04-2655-3245/+3655
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* Merge various cleanup java test, test files, comments (#1364)Allen Byrne2022-01-194-17/+17
| | | Plus some spelling corrections
* 1.10 Merge Add javadoc to packages - HDFFV-11285 (#1199)Allen Byrne2021-11-206-9/+278
| | | | | * Merge Add javadoc to packages - HDFFV-11285 * Correct list
* Merge Correct java exception declarations #1121 (#1123)Allen Byrne2021-10-251-6/+9
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* Update version to 1.10.9-1. (#1069)Larry Knox2021-10-031-2/+2
| | | Clear 1.10.8 entries out of RELEASE.txt.
* Fix javadoc and java warnings (#1011)Allen Byrne2021-09-163-46/+461
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* Update copyright headers with reproduction notice in 5 files (#993) (#1002)Larry Knox2021-09-092-16/+14
| | | | | | | | | | | * Update copyright headers with reproduction notice in 5 files that did not match terms in COPYING file . * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* 1 10 - Mostly all javadoc warning fixes (#508)Allen Byrne2021-03-2512-56/+387
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* 1 10 Fix java data export functions (#450)Allen Byrne2021-03-105-307/+264
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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
* 1 10 merge java copyright header changes (#392)Allen Byrne2021-03-0138-38/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | * 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
* Hdf5 1 10 update license url part2 (#404)Larry Knox2021-03-0166-66/+66
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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>
* HDFFV-10865 - merge from dev, HDFArray perf fix. (#234)Allen Byrne2020-12-291-184/+120
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* HDFFV-10868 merge java changes from developAllen Byrne2020-11-0342-324/+3718
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* Updated HDF5 1.10 support branch version number to 1.10.8-0Larry Knox2020-08-191-2/+2
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* Fix javadoc warningAllen Byrne2020-08-161-0/+4
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* Brings file locking changes from developDana Robinson2020-08-141-0/+45
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* Removed trailing whitespace from source files.Dana Robinson2020-05-261-1/+1
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* Merge CMake and tools changes from developAllen Byrne2020-02-276-8/+64
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* Update version for HDF5_1_10Larry Knox2019-12-111-2/+2
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* Merge S3 code from develop to 1.10Allen Byrne2019-09-135-0/+243
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* HDFFV-10887 merge from developAllen Byrne2019-08-201-4/+3
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* HDFFV-10805 Merge SHARED ONLY option from developAllen Byrne2019-06-201-1/+1
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* Fix typosAllen Byrne2019-02-261-0/+4
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* Update version on hdf5_1_10 branch to 1.10.6-snap0.Larry Knox2019-02-181-2/+2
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* Cleanup F2003 option for CMakeAllen Byrne2019-02-061-65/+54
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* Java html fix and cmake updateAllen Byrne2019-01-242-63/+71
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* Fix deprecated H5Pget_versionAllen Byrne2019-01-091-0/+2
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* HDFFV-10674, 10664, 10674Allen Byrne2019-01-071-3/+74
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* Merge CMake changes from developAllen Byrne2018-12-201-52/+52
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* HDFVIEW-4 add H5A read/write functions to match H5DAllen Byrne2018-12-131-54/+323
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* Update versionLarry Knox2018-09-051-2/+2
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* Merge CMake and Java OSX changes from developAllen Byrne2018-08-231-1/+1
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* HDFFV-10547 add option to package examplesAllen Byrne2018-08-201-7/+8
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