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* Merge PR #755 fix warnings files to Hdf5 1 12 1 (#757)Larry Knox2021-06-161-21/+57
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Hdf5 1 12 doxygen version correction (#658) * OESS-98 fix tools test for plugins * sync fork * Merge of changes from dev * Move problem option to bottom of the list until fixed * HDFFV-11106 - fix parsing optional args * HDFFV-11106 add note * grammer fix * Whitespace after clang formatting * Undo format version 11 changes * Update check to working version * Merge workflow and minor changes from develop * Update supported platforms * PR#3 merge from develop * Merge gcc 10 diagnostics option from develop * Merge #318 OSX changes from develop * Merge serval small changes from dev * fix typo * Minor non-space formatting changes * GH #386 copyright corrections for java folder * revert because logic requires false return * Merges from develop * Remove case statement for H5I_EVENTSET * Correct call with versioning * Remove tabs * Double underscore change * Merges from develop Remove more underscores from header guards * Merge #380 from develop * Correct date entry * Split format source and commit changes on repo push * remove pre-split setting * Change windows TS to use older VS. * HDFFV-11212 JNI export util and Javadoc * Suggested review changes * Another change found * Committing clang-format changes * Some Javadoc warning fixes * Committing clang-format changes * Updated javadoc fixes * HDFFV-11228/9 merges from develop * remove obsolete debug comment * Fix conflict * HDFFV-11229 merge changes from develop * HDFFV-11229 merge second compare from develop * HDFFV-11229 fix reference file * 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 * Update with changes from develop * 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. * Whitespace changes * Rework CMake add_custom to use the BYPRODUCTS argument * Revert CMake configure checks for round defines * With VS 2015 minimum strdup is supported * Doxygen comments merged from develop * doxygen build updates * Correct version string for map functions * TRILAB-227 and tools debug merge from develop * TRILAB-227 Enable test * Quote subset args * Use MATCHES in compiler id compare, merge from dev * Revert test enable * Add file to list * doxygen version errors * if blocks needed for build modes * Update list of test platforms Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Attempt format uniformity in RELEASE.txt. * BUG: DataSet assignment operator is missing (#503) * BUG: DataSet assignment operator is missing * Some compilers complain if the copy constructor is given explicitly but the assignment operator is implicitly set to default. * Explicitly defining the assignment operator allows us to properly handle reference counters for shared resources. * BUG: DataSet assignment operator is missing. * Mimicking code of H5DataType::operator() as suggested by @bmribler. * Added test Description: Added test for DataSet::operator= that Leengit added Platform tested: Linux/64 (jelly) * Removed Author field. * Commit clang format changes. * Entry for Leengit's github PR #503 * Removed lines left by mistake Co-authored-by: Binh-Minh Ribler <bmribler@hdfgroup.org> Co-authored-by: Larry Knox <lrknox@hdfgroup.org> * Add H5Dchunk_iter method for iterating over chunks (#6) * Add H5Dchunk_iter method for iterating over chunks This method iterates over all chunks in dataset, calling a user-supplied callback with the chunk information and optional user supplied data. The iterator is stopped when ITER_STOP is returned by the user-supplied callback or the iterator is exhausted. Existing methods to get chunk_info performs an iteration each time, so to get many or all chunks causes SUM(i) for i = 0 -> N operations for N chunks, as opposed to N operations when using this iterator for this use case. * H5Dchunk_iter: test iterating all chunks, some chunks and failing iteration. * H5D: move H5Dchunk_iter private methods to specific * trace: add H5D_chunk_iter_op_t and trace H5D.c * chunks-iter: document chunk_iter * chunk-iter: chunk add FUNC_ENTER/FUNC_LEAVE macros * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Set initial doxygen version for H5Dchunk_iter(). * Revert "Set initial doxygen version for H5Dchunk_iter()." This reverts commit d739e46d55f8c40b9333c57e9ae4f83c03572a27. * Revert "Add H5Dchunk_iter method for iterating over chunks (#6)" This reverts commit 53e113977a775a9311e7df015937f71b11f76f7b. * Add flushrefresh errors with check-passthrough-vol to known problems in RELEASE.txt. * Minor RELEASE.txt updates. * Hdf5 1 12 Remove version from pkgcfg file names (#672) * OESS-98 fix tools test for plugins * sync fork * Merge of changes from dev * Move problem option to bottom of the list until fixed * HDFFV-11106 - fix parsing optional args * HDFFV-11106 add note * grammer fix * Whitespace after clang formatting * Undo format version 11 changes * Update check to working version * Merge workflow and minor changes from develop * Update supported platforms * PR#3 merge from develop * Merge gcc 10 diagnostics option from develop * Merge #318 OSX changes from develop * Merge serval small changes from dev * fix typo * Minor non-space formatting changes * GH #386 copyright corrections for java folder * revert because logic requires false return * Merges from develop #358 patches from vtk #361 fix header guard spelling * Remove case statement for H5I_EVENTSET * Correct call with versioning * Remove tabs * Double underscore change * Merges from develop #340 clang -Wformat-security warnings #360 Fixed uninitialized warnings Remove more underscores from header guards * Merge #380 from develop * Correct date entry * Split format source and commit changes on repo push * remove pre-split setting * Change windows TS to use older VS. * HDFFV-11212 JNI export util and Javadoc * Suggested review changes * Another change found * Committing clang-format changes * Some Javadoc warning fixes * Committing clang-format changes * Updated javadoc fixes * HDFFV-11228/9 merges from develop * remove obsolete debug comment * Fix conflict * HDFFV-11229 merge changes from develop * HDFFV-11229 merge second compare from develop * HDFFV-11229 fix reference file * 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 * Update with changes from develop * 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. * Whitespace changes * Rework CMake add_custom to use the BYPRODUCTS argument * Revert CMake configure checks for round defines * With VS 2015 minimum strdup is supported * Doxygen comments merged from develop * doxygen build updates * Correct version string for map functions * TRILAB-227 and tools debug merge from develop * TRILAB-227 Enable test * Quote subset args * Use MATCHES in compiler id compare, merge from dev * Revert test enable * Add file to list * doxygen version errors * if blocks needed for build modes * Update list of test platforms * Issue #669 remove version from pkgcfg filename * remove version from h5cc script Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * More minor updates. * Update configure disablhing memory alloc sanity check for release. Last 50 lines of /mnt/scr1/SnapTest/snapshots-hdf5-branchtest4/log/moohan_0525Tue_1021 Last 50 lines of /mnt/scr1/SnapTest/snapshots-hdf5-branchtest4/log/moohan_0525Tue * Set version to 1.12.1. * Hdf5 1 12 fix warnings files (#755) * OESS-98 fix tools test for plugins * sync fork * Merge of changes from dev * Move problem option to bottom of the list until fixed * HDFFV-11106 - fix parsing optional args * HDFFV-11106 add note * grammer fix * Whitespace after clang formatting * Undo format version 11 changes * Update check to working version * Merge workflow and minor changes from develop * Update supported platforms * PR#3 merge from develop * Merge gcc 10 diagnostics option from develop * Merge #318 OSX changes from develop * Merge serval small changes from dev * fix typo * Minor non-space formatting changes * GH #386 copyright corrections for java folder * revert because logic requires false return * Merges from develop #358 patches from vtk #361 fix header guard spelling * Remove case statement for H5I_EVENTSET * Correct call with versioning * Remove tabs * Double underscore change * Merges from develop #340 clang -Wformat-security warnings #360 Fixed uninitialized warnings Remove more underscores from header guards * Merge #380 from develop * Correct date entry * Split format source and commit changes on repo push * remove pre-split setting * Change windows TS to use older VS. * HDFFV-11212 JNI export util and Javadoc * Suggested review changes * Another change found * Committing clang-format changes * Some Javadoc warning fixes * Committing clang-format changes * Updated javadoc fixes * HDFFV-11228/9 merges from develop * remove obsolete debug comment * Fix conflict * HDFFV-11229 merge changes from develop * HDFFV-11229 merge second compare from develop * HDFFV-11229 fix reference file * 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 * Update with changes from develop * 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. * Whitespace changes * Rework CMake add_custom to use the BYPRODUCTS argument * Revert CMake configure checks for round defines * With VS 2015 minimum strdup is supported * Doxygen comments merged from develop * doxygen build updates * Correct version string for map functions * TRILAB-227 and tools debug merge from develop * TRILAB-227 Enable test * Quote subset args * Use MATCHES in compiler id compare, merge from dev * Revert test enable * Add file to list * doxygen version errors * if blocks needed for build modes * Update list of test platforms * Issue #669 remove version from pkgcfg filename * remove version from h5cc script * Merge CMake and java refs from dev * Reworked CMake Fortran configure macros to allow multiple runs. * Fix CMake issue with tests not comparing test argument properly. * MAX_PRECISION defines must be defined with a value * Fix warnings files and -std * remove std for c++11 * Replace file Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Lee Newberg <35611400+Leengit@users.noreply.github.com> Co-authored-by: Binh-Minh Ribler <bmribler@hdfgroup.org> Co-authored-by: Gaute Hope <eg@gaute.vetsj.com>
* Update URL in source file Copyright headers for web copy of COPYINGLarry Knox2021-02-201-1/+1
| | | | file - files not in src or test.
* TRILAB-192 - merge changes from developAllen Byrne2020-04-071-11/+21
| | | | Single source, config files, for warnings for both autotools and CMake. Update CMake libraries, tools, tests to use correct flags.
* Create common warnings for build systemsAllen Byrne2020-01-201-2/+17
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* Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-251-6/+4
| | | | | | | | | | hdf5_1_10 * commit '54957d37f5aa73912763dbb6e308555e863c43f4': Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh. Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1 Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
* Updated the icc flags (C flags only).derobins2016-12-021-10/+10
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* [svn-r29142] Updated the Intel files in config to use the new NO_SYMBOLS flagsDana Robinson2016-02-171-5/+2
| | | | | and modified the failsafe configure flags in ibm-aix to use the new scheme.
* [svn-r29023] Fixed typos in symbols flags that prevented using -g, etc.Dana Robinson2016-02-011-2/+2
| | | | | Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 serial autotools
* [svn-r28996] Autotools configure updates to allow separation of build type, ↵Dana Robinson2016-01-271-5/+15
| | | | | | | | | | | | | | debug symbols, asserts, profiling, and optimization. Also much refactoring, improved help, and --enable-<foo> options will now emit errors on nonsense (e.g.: --enable-foo="asdfasdf"). The libhdf5.settings.in file was also reformatted. Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 serial and parallel autotools w/ various options
* [svn-r24997] Added compiler versions for mpich to settings file and ↵Larry Knox2014-04-091-5/+6
| | | | | | | | | | | | | configure summary. For make installcheck, compile and run installed examples using the installed scripts. They were being compiled but not run. Add Fortran2003 examples to the run-ex-fortran script when fortran2003 is enabled. Set flag to -O3 in production mode for Intel compilers other than those with specified other settings. Gentoo patches: Remove unnecessary setting of LD_LIBRARY_PATH from configure. Prevent potential array subscript out of bounds error in perform/pio_engine.c and sio_engine.c. Tested with h5committest on jam, koala, ostrich and platypus, on emu and kite, and parallel tests on jam, koala and platypus with mpich built with gnu 4.8.2 and with intel compilers.
* [svn-r22020] Fix for HDFFV-7878.Larry Knox2012-03-031-1/+1
| | | | | | | gnu-flags Don't add gcc flags for intel compiler even though its version display includes "gcc". intel-flags Extend intel version to include icc-12*.
* [svn-r19566] Maintenance: Added -O3 to be used with the C Intel v 11 ↵Elena Pourmal2010-10-081-7/+7
| | | | | | | | | compilers; set default to -O for all unknown versions of the C Intel compilers. Modified apple config file to display Intel compiler information. Updated RELEASE.txt notes accordingly. Platfroms tested: jam, amani and dubna (Mac 64-bit) with Intel C, Fortran and C++ compilers.
* [svn-r19312] Description:Quincey Koziol2010-08-261-1/+1
| | | | | | | | | Bump optimization down for Intel 10.* compilers, due to apparent bad cod e generation. Tested on: Linux/64 2.6 (cobalt) w/debug & production & Intel 11.1 compilers (h5committest not appropriate)
* [svn-r13939] Problem: High level of optimazation causes test failures when ↵Elena Pourmal2007-07-051-0/+3
| | | | | | | | | | library is built with Intel 10.0 compiler. Solution: Use -O1 optimization flag with Intel 10.0 Platforms tested: abe and kagiso with Intel 10.0 and Intel 9.1 compilers; no committest is needed since this is a compiler specific change.
* [svn-r13312] Updated copyright notice.Albert Cheng2007-02-141-2/+3
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* [svn-r12579] Description:Elena Pourmal2006-08-151-1/+5
| | | | | | | | | | | -O3 flag causes compilation problems on most of the platforms with Intel compiler. The problem exists in all vesrions of icc compiler up to the newest 9.1 Solution: Use less agressive default setting O2 to avoid headache Platforms tested: Linux 2.6 ia64 at UCAR (hal), cobalt (NCSA)
* [svn-r12301] Purpose:James Laird2006-04-251-2/+2
| | | | | | | | | | | | | | H5_CFLAGS change Description: Converted a few platforms to use H5_CFLAGS to "test the waters" Solution: Modified a few config/* files to use H5_CFLAGS for non-essential flags. Platforms tested: mir, heping
* [svn-r11614] Frank Baker2005-10-281-1/+1
| | | | | | | Description: Correct typo in copyright notice. Platforms tested: Ran hdf5/bin/chkcopyright without errors.
* [svn-r11592] Frank Baker2005-10-211-0/+13
| | | | | | | | Description: Add source code copyright notice; comment symbols vary by type of file. Platforms tested: No changes that should cause any problems. Nonetheless, the tree will be checked out fresh and tests run immediately post-commit.
* [svn-r9691] Description:Albert Cheng2004-12-181-3/+3
| | | | | | | | | | mpich 1.2.6 does not like the tweaking of using -O2 flag. Comment out the Tweaking since it caused problems to mpich1.2.6. Need to investigate the reasons and effects to tweak. Platforms tested: Tested in heping using mpich 1.2.6 and in eirene uisng mpich 1.2.6.
* [svn-r9631] Purpose:Albert Cheng2004-12-071-2/+3
| | | | | | | | | | | | | | Improvement Description: Added strip option to PROD_CFLAGS to remove symbols for smaller production file size. Solution: Platforms tested: Misc. update:
* [svn-r9629] Purpose:Albert Cheng2004-12-071-3/+3
| | | | | | | | | | | | | | Bug fix. Description: Last commit would impose $arch even if user has provided his own $CFLAGS. Fixed it. Removed the wording of gnu-flags inherited from the copy. Platforms tested: Tested in tg-ncsa. Misc. update:
* [svn-r9625] Purpose:Quincey Koziol2004-12-071-7/+1
| | | | | | | | | | Code cleanup Description: Clean/fix up compiler flags to be more consistent after recent changes. Platforms tested: None - eyeballed - very minor
* [svn-r9623] Purpose:Albert Cheng2004-12-061-2/+3
| | | | | | | | | | | | Bug fix. Description: Restored correct setting of compilers (-Wall etc for debug flags only, c99 by default,...) that were wiped out by the commits before. Platforms tested: Tested in TG-NCSA, both production and development mode. (Still need to figure out the proper flag to use for Profile.)
* [svn-r9619] Purpose:Albert Cheng2004-12-061-9/+12
| | | | | | | | | | Bug fix. Description: v8.0 -O3 infinite loops when compiling test/tselect.c. Use -O2. Platforms tested: Only tested in TG-NCSA, use both default and --disable-production options.
* [svn-r9611] Purpose:Quincey Koziol2004-12-031-1/+1
| | | | | | | | | | | | | Bug fix Description: Correct typo in ia64 configure script. Update intel compiler detection to handle Itanium versions of compilers Platforms tested: Teragrid machine (tg-login) w/icc 7.1 & 8.x Linux 2.4 (verbena) w/icc
* [svn-r9515] Purpose: Bug fixRaymond Lu2004-11-081-0/+13
| | | | | | | | Description: For Intel 8.1 compiler, C99 standard has to be enabled to define macro ULLONG_MAX in its own header file limits.h. Solution: Add flag -std=c99 to Intel compiler if the version is 8.1. Platforms tested: Tested v1.6 because this is a very simple change.
* [svn-r9491] Purpose:Quincey Koziol2004-10-311-1/+1
| | | | | | | | | | | Bug fix Description: "Teach" the configure scripts about Intel 7.1 compilers, which don't have _quite_ the same compiler flags Platforms tested: Linux 2.4 (eirene)
* [svn-r9407] Purpose:Quincey Koziol2004-10-121-5/+0
| | | | | | | | | | | | | | | | | | | | Code cleanup/bug fix Description: Remove the undocumented "$NOFP" shell variable which would allow production builds without removing the stack frame. This was cascading between C and FORTRAN builds and causing problems. Solution: Hard-code removing the stack frame for now. Users would have needed to read the configure scripts anyway, so there's not really much benefit to the extra knob. Users who need this functionality (production builds with stack frames) are debugging probably, so they will need to modify the script and build their own version of the library now. Platforms tested: Linux 2.4 (verbena) Too minor to require h5committest
* [svn-r9385] *** empty log message ***Quincey Koziol2004-10-091-0/+86
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