* 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 e4a9cee.

* Revert extra commits to match canonical develop.

* Add cmake variable HDF5_LIB_INFIX (#7)

* Add cmake variable HDF5_LIB_INFIX

This infix is added to all library names after 'hdf5'.
e.g. the infix '_openmpi' results in the library name 'libhdf5_openmpi.so'
This name is used in packages on debian based systems.
(see https://packages.debian.org/jessie/amd64/libhdf5-openmpi-8/filelist)

This option is useful when testing projects on debian based systems with
custom builds of hdf5 while trying to minimize differences between the
custom setup and the environment created by installing system packages.

* Added RELEASE.txt entry for HDF5_LIB_INFIX.

Co-authored-by: Larry Knox <[email protected]>

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Raphael Grimm <[email protected]>

* 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.

* Simplified hl parsing (#399)

* Stop using global variables to share parse context with the lexer.

The lexer uses an unconventional strategy for parsing lexical categories
NUMBER (decimal numbers) and STRING (double-quoted strings) that involves
sharing the parse context with the lexer using global variables. There
are a couple of problems with that. First, the lexer is too complicated
for the simple tokenization it performs—it's hard to tell if it is
correct. Second, as @seanm points out, the shared global variables
spill into the namespace shared by other libraries and application
programs—e.g., VTK.

* Regenerate source files from *.[yl].

* Replace strndup, which isn't available on Windows, with a custom
routine, `trim_quotes`, that produces a copy of its `const char *`
argument with leading and trailing double quotes ('"') removed.

While I am here, remove the unnecessary statement `BEGIN INITIAL;`,
which I should have deleted in a previous commit.

* Regenerate .c from .l.

* You haven't programmed in C until you have programmed in High-Definition
(HD) C.

* \#include "H5private.h" for HD* definitions.

* Regenerate *.[ch] from *.[yl].

* Removed workarounds for pre-standard inline keyword (#423)

Fixes -Wreserved-identifier warnings due to multiple underscores in H5_HAVE___INLINE.

* Replaces checks for fork, etc. with checks for unistd.h (#457)

* Replaces checks for fork, etc. with H5_HAVE_UNISTD_H

Code previously checked for individual POSIX API calls using
H5_HAVE_FORK, etc. The calls we use have been standardized for
decades and available via unistd.h.

Some test messages that were missing when tests are skipped
due to a lack of unistd.h were also added.

The configure checks for individual POSIX API calls will be
removed in a later commit.

* Stupid formatter

* Update h5LT files with latest flex and Bison available on jelly  (#502)

* 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 e4a9cee.

* Revert extra commits to match canonical develop.

* Added [] to H5LTanalyze.l line 126 to eliminate warning "rule could not be
matched".
Ran bin/genparser hl/src with flex v2.6.4 and Bison v3.0.4 on jelly.

* Added HD to strdup in H5LTparse.y line 338.
Ran bin/genparser hlsrc again.

* Removed line 126 from H5LTanalyze.l - previous line matches.
Added previously removed line 318 of H5LTparse.y to fix hl_test_lite
failure.
Ran bin/genparser.

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* Add cmake variable HDF5_LIB_INFIX (#7)

* Add cmake variable HDF5_LIB_INFIX

This infix is added to all library names after 'hdf5'.
e.g. the infix '_openmpi' results in the library name 'libhdf5_openmpi.so'
This name is used in packages on debian based systems.
(see https://packages.debian.org/jessie/amd64/libhdf5-openmpi-8/filelist)

This option is useful when testing projects on debian based systems with
custom builds of hdf5 while trying to minimize differences between the
custom setup and the environment created by installing system packages.

* Added RELEASE.txt entry for HDF5_LIB_INFIX.

Co-authored-by: Larry Knox <[email protected]>

* Update test/accum.c to correct merge for replacing checks for fork, etc. with checks for unistd.h (#457)

* Committing clang-format changes

Co-authored-by: H. Joe Lee <[email protected]>
Co-authored-by: Sean McBride <[email protected]>
Co-authored-by: David Young <[email protected]>
Co-authored-by: Dana Robinson <[email protected]>
Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Raphael Grimm <[email protected]>

Feature/vfd swmr

* Fixes for a couple of trivial warnings (#676)

* Committing clang-format changes

* Trivial warning fixes:

* Removes an unused done target in H5Tbit.c
* Add (void) to quiet "ignored return value" warnings in the generators
  (which generally ignore errors)

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* Removes alternative function enter/leave macro scheme (#678)

* Committing clang-format changes

* Converted BEGIN_FUNC, etc. macros to FUNC_ENTER

* Rips out the BEGIN_FUNC, etc. macros

* Removes 'end if', etc. comments from H5HL package

* Committing clang-format changes

* Fixes an H5EA iterate issue

* Fixes an issue in the H5FA iterator code

* Further cleanup in bin/trace after macro removal

* Iterator changes in H5EA and H5FA

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* Various CMake changes (#679)

* Committing clang-format changes

* Several CMake updates:

* Removes unused HDF5_ENABLE_HSIZET
* Switches TEST_SHELL_SCRIPTS to ON
* Sets SH_PROGRAM to bash instead of sh

* Set default build type back to RelWithDebInfo

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* err_compat test cleanup (#681)

* Committing clang-format changes

* Cleans up err_compat test and output

* Formatted source

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* CMake fix for sporadic flush2 failures (#692)

* Committing clang-format changes

* Runs the flush1/flush2 tests in their own directory

Avoids file deletions by other tests.

* Revert "Runs the flush1/flush2 tests in their own directory"

This reverts commit 746c048.

Also pulls the flush files from the clean list, which is a simpler fix.

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* Ubsan fixes (#498)

* Fixed use of null pointer identified by UBSan

UBSan warned:
runtime error: member access within null pointer of type 'named_dt_t' (aka 'struct named_dt_t')

with these two tests:
H5REPACK-committed_dt_DFF
H5REPACK-committed_dt

Reformulated per @gnuoyd suggestion.

* Fixed undefined float -> unsigned char conversion in HL_test_image

* Removed dead skip_overflow_tests_g global

The global `skip_overflow_tests_g` was being set but never read.

* Don't treat 2d array as 1d array, fixing UBSan complaint in `CPP_testhdf5`

* Committing clang-format changes

* Remove extra ']' in line 730.

* Committing clang-format changes

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Larry Knox <[email protected]>

* 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 <[email protected]>
Co-authored-by: Larry Knox <[email protected]>

* Hdf5 merge pr7 (#516)

* 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 e4a9cee.

* Revert extra commits to match canonical develop.

* Add cmake variable HDF5_LIB_INFIX (#7)

* Add cmake variable HDF5_LIB_INFIX

This infix is added to all library names after 'hdf5'.
e.g. the infix '_openmpi' results in the library name 'libhdf5_openmpi.so'
This name is used in packages on debian based systems.
(see https://packages.debian.org/jessie/amd64/libhdf5-openmpi-8/filelist)

This option is useful when testing projects on debian based systems with
custom builds of hdf5 while trying to minimize differences between the
custom setup and the environment created by installing system packages.

* Added RELEASE.txt entry for HDF5_LIB_INFIX.

Co-authored-by: Larry Knox <[email protected]>

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Raphael Grimm <[email protected]>

* Fixes a segfault when H5Pset_mdc_log_options is called multiple times on a fapl (#601)

* Committing clang-format changes

* Fixes a segfault when H5Pset_mdc_log_options() is called multiple times

An internal string is incorrectly freed when the API call is invoked
multiple times on a property list, which will usually cause a segfault
to occur. On the first call the log location is NULL so the problem
doesn't occur.

Fixes HDFFV-11239

* Fixes typos

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* Fix for a segfault when H5Pset_fapl_log is passed an invalid fapl ID (#607)

* Committing clang-format changes

* Fixes an issue where H5Pset_fapl_log sefaults when passed an invalid
fapl ID

This was due to a pointer-containing struct being memset after the first
internal API call. If the first call failed, the error condition would
check if the pointer was not NULL and then attempt to free it if not.
This would lead to the freeing of a wild pointer if an invalid fapl ID
were passed in.

This was fixed by reordering the memset and adding a test to ensure the
problem stays fixed.

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

* Fixes crashes when size_hint > UINT32_MAX is passed to H5Gcreate1 (#611)

* Committing clang-format changes

* Fixes incorrect size_hint handling in H5Gcreate1

* Updates the size hint type for group creation

* Updates the RELEASE.txt note

* Revert "Updates the RELEASE.txt note"

This reverts commit 3df386a.

* Reverts previous behavior to use a uint32_t struct field

* Updates RELEASE.txt

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>

Co-authored-by: Dana Robinson <[email protected]>
Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Sean McBride <[email protected]>
Co-authored-by: Lee Newberg <[email protected]>
Co-authored-by: Binh-Minh Ribler <[email protected]>
Co-authored-by: Raphael Grimm <[email protected]>

Checking in John's fix for production build.  Skipping the review process and merge it directly.