Sync 1.14 branch with develop (#3887)

* Preserve MPI-I/O file hints when fapl is closed (#3755)

* Fix for issue #3025: Save the MPI info in the file struct so H5Fget_access_plist() can retrieve it from there.

* Add compression tests for subfiling (#3769)

* Fix typo in comment (#3775)

* Fixed a file handle leak in the core VFD (#3779)

When opening a file with the core VFD and a file image, if the file
already exists, the file check would leak the POSIX file handle.

Fixes GitHub issue #635

* Fix a format string warning in the C++ examples (#3776)

* Cancel running GitHub workflows on push to same PR (#3772)

* Cancel running GitHub workflows on push to same PR

* Remove github.sha from workflow concurrency groups

* Print some messages in parallel tests on MPI rank 0 only (#3785)

Avoids overly verbose output from all processes emitting progress, etc. info.

* Avoid attempted use of NULL pointer in parallel compression code (#3786)

The parallel compression test code tests for the case where all MPI ranks have no selection in a dataset when writing to it. Add an early exit to the code to avoid attempting to use a NULL pointer due to there being no work to do.

* Don't install h5tools_test_utils test program on system (#3793)

* Add Doxygen to H5FDsplitter.h (#3794)

* H5FD_CURR_SPLITTER_VFD_CONFIG_VERSION
* H5FD_SPLITTER_PATH_MAX
* H5FD_SPLITTER_MAGIC
* H5FD_splitter_vfd_config_t
* H5Pset_fapl_splitter()
* H5Pget_fapl_splitter()

* Update Doxygen initializers & identifiers in VFDs (#3795)

* Add Doxygen for all H5FD_<VFD> initializers
* Add Doxygen for all H5FD_<VFD>_VALUE values
* Mark H5FD_<vfd>_init() calls private in Doxygen

* Fix memory corruption in 'MPI I/O FAPL preserve' test (#3806)

* Fix usage of h5_clean_files in t_pflush2.c (#3807)

* Fix parallel driver check in h5_fixname_real (#3808)

* Fix a couple usages of MPI_Info_get (#3809)

* Remove H5system.c warning on Windows oneAPI. (#3812)

* Add processing of NVHPC flags in linux-gnulibc1 file (#3804)

* Disable testing as tests are failing the same as in CMake

* Use the current toolchain for examples as default (#3810)

* Fix misc. warnings from GCC when compiling with -fsanitize=undefined (#3787)

* Set NVHPC maximum optimization level to -O1 for now (#3800)

* Set NVHPC maximum optimization level to -O1 for now

Compiling HDF5 with NVHPC 23.5 - 23.9 results in test failures in
4 different test files that need to be resolved. Since those tests
pass with an optimization level of -O1 (and -O0) and it is currently
unclear whether the test failures are due to issues in HDF5 or issues
in the 'nvc' compiler, set the maximum optimization level for NVHPC
to -O1 until the test failures are resolved.

* Disable nvhpc Java testing in CMake and amend known issues

* Re-enable testing of Autotools nvhpc

* Update some doxygen links to local refs (#3814)

* Rework MPI Info FAPL preserve PR to use VFD 'ctl' operations (#3782)

* Removed the use of C wrappers from H5P APIs. (#3824)

* fix seg fault on frontier/cray

* fix seg fault on frontier/cray

* fix seg fault on frontier/cray

* removed the use of h5pclose_c

* removed the use of h5pclose_c

* Fortran Wrappers H5VLnative_addr_to_token_f and H5VLnative_token_to_address_f (#3801)

* Added H5VLnative_addr_to_token_f and H5VLnative_token_to_address_f

* Added H5VLnative_addr_to_token_f and H5VLnative_token_to_address_f tests

* Create test for H5Pget_dxpl_mpio (#3825)

* Create test and add to testphdf5

* Renamed h5fuse.sh to h5fuse (#3834)

* provide an alternative to mapfile for older bash

* Disable FP exceptions in H5T init code (#3837)

The H5T floating-point datatype initialization code can raise exceptions when handling signaling NaNs. This change disables FE_INVALID exceptions during initialization.

Also removes the -ieee=full change for NAG Fortran as that shouldn't be necessary anymore.

Fixes #3831

* Add intel oneapi windows build to CI CMake (#3836)

* Remove printf format warning on Windows oneAPI. (#3838)

* Correct ENV variables (#3841)

* Remove Autotools sed hack (#3848)

configure.ac contains a sed line that cleans up incorrect library
flags which was added to paper over some bugs in earlier versions
of the Autotools. These issues are not a problem with the current
versions of the Autootols.

The sed line causes problems on MacOS, so it has been removed.

Fixes #3843

* Make filter unregister callbacks safe for VOL connectors (#3629)

* Make filter callbacks use top-level API functions

When using VOL connectors, H5I_iterate may not provide
valid object pointers to its callback. This change keeps
existing functionality in H5Zunregister() without using
potentially unsafe pointers.

* Filter callbacks use internal API

* Skip MPI work on non-native VOL

* Add extra space in comments for consistency (#3852)

* Add extra space in comments for consistency

* uncomment tfloatsattrs test

* Update Actions badges to link to relevant workflow (#3850)

* Add CMake long double cross-compile defaults (#3683)

HDF5 performs a couple of checks at build time to see if long double
values can be converted correctly (IBM's Power architecture uses a
special format for long doubles). These checks were performed using
TRY_RUN, which is a problem when cross-compiling.

These checks now use default values appropriate for most non-Power
systems when cross-compiling. The cache values can be pre-set if
necessary, which will preempt both the TRY_RUN and the default.

Affected values:
    H5_LDOUBLE_TO_LONG_SPECIAL      (default no)
    H5_LONG_TO_LDOUBLE_SPECIAL      (default no)
    H5_LDOUBLE_TO_LLONG_ACCURATE    (default yes)
    H5_LLONG_TO_LDOUBLE_CORRECT     (default yes)
    H5_DISABLE_SOME_LDOUBLE_CONV    (default no)

Fixes GitHub #3585

* Updates for building and testing VOL connectors

* Fix issue with HDF5_VOL_ALLOW_EXTERNAL CMake variable

* Initialize parallel testing with MPI_THREAD_MULTIPLE when testing API

* Add CMake variable to allow specifying a VOL connector's package name

* Remove call to MPI_Init in serial API tests

While previously necessary, it now interferes with VOL connectors that
may need to be initialized with MPI_THREAD_MULTIPLE

* Fixes for CI and presets (#3853)

* Change dest for doxygen (#3856)

* Implement selection vector I/O with collective chunk filling (#3826)

* Changes for ECP-344: Implement selection vector I/O with collective chunk filling.
Also fix a bug in H5FD__mpio_write_vector() to account for fixed size optimization
when computing max address.

* Fixes based on PR review comments:
For H5Dchunk.c: fix H5MM_xfree()
For H5FDmpio.c:
1) Revert the fix to H5FD__mpio_write_vector()
2) Apply the patch from Neil on the proper length of s_sizes reported by H5FD__mpio_vector_build_types()

* Put back the logic of dividing up the work among all the mpi ranks similar to the
original H5D__chunk_collective_fill() routine.

* Add a test to verify the fix for the illegal reference problem in H5FD__mpio_write_vector().

* Do not publish compression headers or docs (#3865)

* Fix typo: look -> loop (#3866)

* Moved the README to markdown and expanded its overview of the files, file generation, and other Fortran wrapper development practices as mentioned in the HDF5 architectural document. I added a new figure and included the SVG file and the original xfig file it was generated from. (#3862)

* Add HDF5_DISABLE_TESTS_REGEX option to skip tests (#3859)

* Fix typo in error message for `MPI_Type_dup`. (#3867)

* Complete the `if command line option` sentence. (#3868)

* Fix h5dump segmentation fault when --vfd-value option is used (#3873)

* Updated URL in funding.yml (#3882)

Using new shortened URL, might look better.

* Remove unused variable from unmerged changes

* Update src/H5Tinit_float.c

1 files changed, 21 insertions, 25 deletions

diff --git a/testpar/t_mpi.c b/testpar/t_mpi.c
index eff39d0..0f1e27b 100644
--- a/testpar/t_mpi.c
+++ b/testpar/t_mpi.c
@@ -53,14 +53,14 @@ test_mpio_overlap_writes(char *filename)
     MPI_Offset     mpi_off;
     MPI_Status     mpi_stat;
 
-    if (VERBOSE_MED)
-        printf("MPIO independent overlapping writes test on file %s\n", filename);
-
     nerrs = 0;
     /* set up MPI parameters */
     MPI_Comm_size(MPI_COMM_WORLD, &mpi_size);
     MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
 
+    if (VERBOSE_MED && MAINPROCESS)
+        printf("MPIO independent overlapping writes test on file %s\n", filename);
+
     /* Need at least 2 processes */
     if (mpi_size < 2) {
         if (MAINPROCESS)
@@ -211,7 +211,7 @@ test_mpio_gb_file(char *filename)
     MPI_Comm_size(MPI_COMM_WORLD, &mpi_size);
     MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
 
-    if (VERBOSE_MED)
+    if (VERBOSE_MED && MAINPROCESS)
         printf("MPI_Offset range test\n");
 
     /* figure out the signness and sizeof MPI_Offset */
@@ -274,12 +274,13 @@ test_mpio_gb_file(char *filename)
     /*
      * Verify if we can write to a file of multiple GB sizes.
      */
-    if (VERBOSE_MED)
+    if (VERBOSE_MED && MAINPROCESS)
         printf("MPIO GB file test %s\n", filename);
 
     if (sizeof_mpi_offset <= 4) {
-        printf("Skipped GB file range test "
-               "because MPI_Offset cannot support it\n");
+        if (MAINPROCESS)
+            printf("Skipped GB file range test "
+                   "because MPI_Offset cannot support it\n");
     }
     else {
         buf = (char *)malloc(MB);
@@ -294,7 +295,8 @@ test_mpio_gb_file(char *filename)
         mrc = MPI_File_open(MPI_COMM_WORLD, filename, MPI_MODE_CREATE | MPI_MODE_RDWR, info, &fh);
         VRFY((mrc == MPI_SUCCESS), "MPI_FILE_OPEN");
 
-        printf("MPIO GB file write test %s\n", filename);
+        if (MAINPROCESS)
+            printf("MPIO GB file write test %s\n", filename);
 
         /* instead of writing every bytes of the file, we will just write
          * some data around the 2 and 4 GB boundaries.  That should cover
@@ -333,7 +335,8 @@ test_mpio_gb_file(char *filename)
          */
         /* open it again to verify the data written */
         /* but only if there was no write errors */
-        printf("MPIO GB file read test %s\n", filename);
+        if (MAINPROCESS)
+            printf("MPIO GB file read test %s\n", filename);
         if (errors_sum(writerrs) > 0) {
             printf("proc %d: Skip read test due to previous write errors\n", mpi_rank);
             goto finish;
@@ -377,7 +380,8 @@ test_mpio_gb_file(char *filename)
         mrc = MPI_Barrier(MPI_COMM_WORLD);
         VRFY((mrc == MPI_SUCCESS), "Sync before leaving test");
 
-        printf("Test if MPI_File_get_size works correctly with %s\n", filename);
+        if (MAINPROCESS)
+            printf("Test if MPI_File_get_size works correctly with %s\n", filename);
 
         mrc = MPI_File_open(MPI_COMM_WORLD, filename, MPI_MODE_RDONLY, info, &fh);
         VRFY((mrc == MPI_SUCCESS), "");
@@ -432,7 +436,6 @@ finish:
 static int
 test_mpio_1wMr(char *filename, int special_request)
 {
-    char          hostname[128];
     int           mpi_size, mpi_rank;
     MPI_File      fh;
     char          mpi_err_str[MPI_MAX_ERROR_STRING];
@@ -456,19 +459,8 @@ test_mpio_1wMr(char *filename, int special_request)
     }
 
     /* show the hostname so that we can tell where the processes are running */
-    if (VERBOSE_DEF) {
-#ifdef H5_HAVE_GETHOSTNAME
-        if (gethostname(hostname, sizeof(hostname)) < 0) {
-            printf("gethostname failed\n");
-            hostname[0] = '\0';
-        }
-#else
-        printf("gethostname unavailable\n");
-        hostname[0] = '\0';
-#endif
-        PRINTID;
-        printf("hostname=%s\n", hostname);
-    }
+    if (VERBOSE_DEF)
+        h5_show_hostname();
 
     /* Delete any old file in order to start anew. */
     /* Must delete because MPI_File_open does not have a Truncate mode. */
@@ -1005,6 +997,10 @@ test_mpio_special_collective(char *filename)
 static int
 parse_options(int argc, char **argv)
 {
+    int mpi_rank;
+
+    MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
+
     while (--argc) {
         if (**(++argv) != '-') {
             break;
@@ -1053,7 +1049,7 @@ parse_options(int argc, char **argv)
                 return (1);
             }
         H5Pclose(plist);
-        if (VERBOSE_MED) {
+        if (VERBOSE_MED && MAINPROCESS) {
             printf("Test filenames are:\n");
             for (i = 0; i < n; i++)
                 printf("    %s\n", filenames[i]);