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* CMake changes to byproducts - ninja warnings (#568)Allen Byrne2021-04-241-6/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * OESS-98 convert plugin option to FetchContent, add tests * Fixes for pkcfg files because of plugin option * OESS-98 fix tools test for plugins * Keep doxygen comments under 100 chars long - format hint * Whitespace * HDFFV-11144 - Reclassify CMake messages * HDFFV-11099/11100 added help text * Reworked switch statement to compare string instead * Fix typo * Update CDash mode * Correct name of threadsafe * Correct option name * Undo accidental commit * Note LLVM 10 to 11 format default changes * Update format plugin * Undo clang-format version 11 changes * One more correction * Update supported platforms * Revert whitespace changes * Correct whitespace * Changes from PR#3 * HDFFV-11213 added option to control gcc10 warnings diagnostics * HDFFV-11212 Use the new references correctly in JNI utility and tests * format source * Fix typo * Add new test file * HDFFV-11212 - update test and remove unused arg * Minor non-space formatting changes * Use H5I_INVALID_ID instead of "-1" * source formatting * add missing testfile, update jni function * Undo commit of debug code * remove mislocated file * Fix h5repack test for handling of fapls and id close * Update h5diff test files usage text * HDFFV-11212 add new ref tests for JNI export dataset * src format update * Remove blank line typo * src format typo * long double requires %Lg * Another long double foramt specifer S.B. %Lg * issue with t128bit test * Windows issue with h5dump and type. * Fix review issues * refactor function nesting and fix error checks * format fixes * Remove untested functions and javadoc quiet comments * Restore TRY block. * Change string append errors to memory exception * revert to H5_JNI_FATAL_ERROR - support functions need work * Add assertion error for h5util functions * remove duplicate function * format fix * Revert HD function error handling * Update copyright comments * GH #386 java folder copyright corrections * Whitespace * GH #359 implement and fix tools 1.6 API usage * remove excessive comments * Flip inits to correct ifdef section * rework ifdef to be simpler * format issue * Reformat ifdef inits * remove static attribute * format compliance * Update names * Revert because logic relies on float not being int * Changes noticed from creating merge of #412 * Double underscore change * Correct compiler version variable used * Remove header guard underscores * Whitespace cleanup * Split format source and commit changes on repo push * remove pre-split setting * Change windows TS to use older VS. * correct window os name * HDFFV-11212 JNI export util and Javadoc * Suggested review changes * Another change found * Committing clang-format changes * HDFFV-11113 long double in tools * HDFFV-11113 add note * Disable long double tests for now * HDFFV-11228 remove arbitrary CMake warning groups. * Make each flag a string * Some Javadoc warning fixes * Updated javadoc fixes * # WARNING: head commit changed in the meantime HDFFV-11229 Fix long double usage in tools and java Changed h5dump and h5ls to just print 128-bit for long double type. Added test and file for dataset and attributes with all three float types. * Committing clang-format changes * HDFFV-11229 Add release note * HDFFV-11229 windows testfile needed * fix typo * Remove non supported message text * HDFFV-11229 - change ldouble test to check both native and general * HDFFV-11229 add second file compare * HDFFV-11229 fix reference file * HDFFV-11229 autotools check two refs * HDFFV-11229 revert back to removal of NATIVE_LDOUBLE in tools output * Committing clang-format changes * Update release note * Update attribute type of ref file * Change source of ninja for macs * try port instead of brew * Recommended is to use brew. * Undo non long double changes * remove unneeded file * Fix perl and doxygen CMake code * Add "option" command for clang options * Rework CMake add_custom to use the BYPRODUCTS argument * Add stamp files to BYPRODUCTS * Only one copy of file exists * Fix custom cmmand depends targets * Fix fortran custom command DEPENDS * Add LD_LIBRARY_PATH to tests Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Update top-level COPYING file and remove COPYING files from subdirectories ↵Larry Knox2021-04-211-13/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | (#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>
* Fixed many -Wreserved-id-macro warnings by fixing header guard spelling (#361)Sean McBride2021-02-232-5/+5
| | | | | | | | | | | | | | | | * Fixed many -Wreserved-id-macro warnings by fixing header guard spelling Removed leading underscore(s) from header guard spelling. Used 2 regexes: ` _H5(.*)_H` ` __H5(.*)_H` Applied case-insensitively to only .h files. * Modified scripts that generate header files to not use underscore prefix Interestingly, there was already no leading underscore in the trailing comment at the end of the file * Fixed remaining -Wreserved-id-macro warning not caught by regex
* Update license url part2 (#333)Larry Knox2021-02-1726-28/+28
| | | | | | * 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.
* Fix DS examples (#307)Scot Breitenfeld2021-02-041-1/+2
| | | | | * fixed missed closing of a dataset * fixed missed closing of a dataset
* Reclassify CMake messages - HDFFV-11144 (#253)Allen Byrne2021-01-131-1/+1
| | | | | | | | | | | | | * OESS-98 convert plugin option to FetchContent, add tests * Fixes for pkcfg files because of plugin option * OESS-98 fix tools test for plugins * Keep doxygen comments under 100 chars long - format hint * Whitespace * HDFFV-11144 - Reclassify CMake messages
* dev -Update pkgconfig settings with version - #218 (#220)Allen Byrne2020-12-221-2/+2
| | | | | | | | | | | * OESS-98 convert plugin option to FetchContent, add tests * Fixes for pkcfg files because of plugin option * OESS-98 fix tools test for plugins * Pkgconfig fix - #218 * Update all pkgconfig settings with version
* OESS-98 convert plugin option to FetchContent, add tests (#155)Allen Byrne2020-12-161-0/+48
| | | | | | | | | | | * OESS-98 convert plugin option to FetchContent, add tests * Fixes for pkcfg files because of plugin option * Update other test machines * OESS-98 fix tools test for plugins * HDFFV-10865 performance improvement for java array
* Clang-format of source filesAllen Byrne2020-09-307-2265/+1870
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* OESS-98 merge with clang-format changesAllen Byrne2020-09-251-3/+3
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* CMake and script changes for clang-formatAllen Byrne2020-09-041-2/+13
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* Removes staff email addresses from the repositoryDana Robinson2020-08-077-80/+80
| | | | Removes redundant C library headers from hl library
* HDFFV-11116 Add option for install location of Fortran MOD filesAllen Byrne2020-07-091-1/+20
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* Merge pull request #2610 in HDFFV/hdf5 from ↵David Young2020-06-161-2/+2
|\ | | | | | | | | | | | | ~DYOUNG/werror:hdffv-11060-examples-destdir to develop * commit '4cebd8aa6c965fe2e5dde6dbff36b2be3ca58bf1': Make examples installation respect DESTDIR. Fixes HDFFV-11060.
| * Make examples installation respect DESTDIR. FixesDavid Young2020-05-261-2/+2
| | | | | | | | HDFFV-11060.
* | Removed trailing space from Fortran files.Dana Robinson2020-05-268-252/+252
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* Trim trailing whitespaceQuincey Koziol2020-04-208-72/+72
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* Remove overzealous additionsAllen Byrne2020-04-052-3/+1
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* Flag construction must be after compiler detectionAllen Byrne2020-04-053-59/+27
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* TRILAB-192 add c++ and fortran warnings build systems one fileAllen Byrne2020-04-053-43/+24
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* TRILAB-142 Change minimum CMake version to 3.12Allen Byrne2020-02-214-4/+4
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* HDFFV-11012 - add correct fortran include path propertiesAllen Byrne2020-02-041-2/+2
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* HDFFV-11001 fix if blockAllen Byrne2020-01-151-3/+2
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* HDFFV-11001 need to qualify all by parallel or serial typesAllen Byrne2020-01-152-2/+2
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* HDFFV-11001 Add fine control over testingAllen Byrne2020-01-153-4/+7
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* Let us override the examples directory using --with-examplesdir=DIR.David Young2019-10-032-3/+3
| | | | | | | | | This is handy for NetBSD where HDF5 examples are installed by convention in $prefix/share/examples/hdf5/ rather than in ${prefix}/share/hdf5_examples/, which is the HDF5 default. Place hdf5_examples/ under ${datarootdir} which on most systems will be ${prefix}/share/, anyway.
* Under the examples directories, always find the installed HDF5David Young2019-10-031-1/+1
| | | | | | | | | | executables and scripts using @prefix@ instead of a relative path, because the number of ../ in the relative path will be different on NetBSD than on other systems. Examples on NetBSD are installed at ${prefix}/share/examples/hdf5/ instead of at ${prefix}/share/hdf5_examples/, by convention. It may be the same on other BSDs, I'm not sure.
* Merge pull request #1826 in HDFFV/hdf5 from ↵Dana Robinson2019-08-013-4/+3
|\ | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:develop_minor_pr to develop * commit '4227b8948d7091205b4f8dc1271d7dcae01bb0fb': Reverts the removal of config/conclude_fc.am while keeping the changes to config/gnu-fflags. Fixed a couple of typos.
| * Reverts the removal of config/conclude_fc.am while keepingDana Robinson2019-08-013-4/+3
| | | | | | | | the changes to config/gnu-fflags.
* | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-07-293-3/+4
|\ \ | |/ | | | | | | | | | | | | * commit 'd169391529f253a9903b8e6cacf38c59ceefab07': Parallel Fortran tests now use the MPI module instead of including mpif.h. First stab at gfortran versions. Tested on gfortran 7-9 so far. Moved the -std=f2008 option to gfortran 9 for now. Updated gfortran options. * Removed conclude_fc.am, which was causing verbose builds. Need to investigate more, though. * Added gfortran 9 warnings and flags. This will need to be separated into other version blocks based on when the options first appeared. * The standard is now explicitly set at 2008.
| * Merge pull request #1808 in HDFFV/hdf5 from ↵Dana Robinson2019-07-293-3/+4
| |\ | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:gnu-flags-work to develop * commit '7d291d059da6287f769951c4854c566da0b93ce8': Parallel Fortran tests now use the MPI module instead of including mpif.h. First stab at gfortran versions. Tested on gfortran 7-9 so far. Moved the -std=f2008 option to gfortran 9 for now. Updated gfortran options. * Removed conclude_fc.am, which was causing verbose builds. Need to investigate more, though. * Added gfortran 9 warnings and flags. This will need to be separated into other version blocks based on when the options first appeared. * The standard is now explicitly set at 2008.
| | * Updated gfortran options.Dana Robinson2019-07-173-3/+4
| | | | | | | | | | | | | | | | | | | | | | | | * Removed conclude_fc.am, which was causing verbose builds. Need to investigate more, though. * Added gfortran 9 warnings and flags. This will need to be separated into other version blocks based on when the options first appeared. * The standard is now explicitly set at 2008.
* | | HDFFV-10529 Update CMake tests to use test fixturesAllen Byrne2019-07-232-13/+18
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* | HDFFV-10845 use of TARGETFILE disables auto emulatorAllen Byrne2019-07-172-2/+4
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* | HDFFV-10845 add_custom_command requires emulatorAllen Byrne2019-07-171-2/+2
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* HDFFV-10581 fix locations for static pdb filesAllen Byrne2019-07-081-2/+2
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* Add support for GCC 7.x warnings, update warnhist script to account for them,Quincey Koziol2019-06-213-4/+4
| | | | clean up warnings.
* HDFFV-10805 Add option to only build shared targetsAllen Byrne2019-06-184-187/+166
| | | | | HDFFV-10805 Add ONLY_SHARED_LIBS option and prefer shared over static HDFFV-10803 Update FindSZIP.cmake find module Remove unneeded modules and update java modules
* Add options to enable or disable building tools and tests. The defaultLarry Knox2019-06-061-1/+7
| | | | is enabled for each.
* HDFFV-10738 Wrong INTENT for H5LTread_dataset_double_fM. Scot Breitenfeld2019-03-254-31/+31
| | | | | | Fixed. Also fixed INTENT issues for H5DS, H5IM and H5TB when reading or getting.
* HDFFV-10703 Update CMake commands to latest standardAllen Byrne2019-02-152-4/+4
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* Remove install-exec-hook from hl/fortran/Makefile.am.Larry Knox2019-01-072-14/+4
| | | | Add check for existing links in hl/fortran/src/Makefile.am.
* Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Larry Knox2019-01-051-0/+14
|\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit '0e34f0feaaeb6d2286f87f695f25fae45c070a42': (26 commits) HDFFV-10664 update reference file HDFFV-10664 update reference files HDFFV-10664 add missing function and check for restriction Remove "bad" statements at end of TEST_ERROR. Formerly arguments to FAIL_PUTS_ERROR Add RELEASE.txt entry for HDFFV-10596. Add semicolon at end of TEST_ERROR() invocation for consistency. Uninstall should remove the libhdf5_hl_fortran links. Add symlinks named libhdf5_hl_fortran* to libhdf5hl_fortran in Makefile.am to match cmake install and the name pattern for other hl lib files. Change FAIL_PUTS_ERROR to TEST_ERROR. Cleaned up the parallel flush test and set t_pflush1 to always fail. Also set CMake to handle this. Update calls: H5Dcreate to H5Dcreate2, H5Acreate to H5Acreate2. Removed a comment. Fix comment Align H5Lcreate_ud behavior with documentation for NULL udata pointer Update toolchain comment Use c99 standard cmake variable Add PGI toolchain Correction based on code review. HDFFV-10664 add check for state before set call HDFFV-10546 refactor variable name ...
| * Uninstall should remove the libhdf5_hl_fortran links.Larry Knox2019-01-041-0/+1
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| * Add symlinks named libhdf5_hl_fortran* to libhdf5hl_fortran inLarry Knox2019-01-041-0/+13
| | | | | | | | | | | | | | Makefile.am to match cmake install and the name pattern for other hl lib files. Add missing ';' to test/dsets.c line 13075.
* | Add libhdf5_hl_fortran symlinks for libhdf5hl_fortran files.Larry Knox2018-12-311-0/+12
|/ | | | | Set ctest*.lsf.in.cmake scripts for sierra. Correct src/CMakelists.txt syntax error.
* HDFFV-10537: Remove installation of Fortran test mod filesM. Scot Breitenfeld2018-11-091-12/+0
| | | | Removed from autools install, cmake does not have this issue.
* Change prefix in example scripts to relative path to bin. This was doneLarry Knox2018-08-231-1/+1
| | | | | for 1.8, and works wherever installed without the need to replace the original prefix.
* Add mpi include folders for fortran C objectsAllen Byrne2018-06-061-2/+2
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* Remove link flag from compile commandAllen Byrne2018-05-222-2/+0
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