Add HDF5_DISABLE_TESTS_REGEX option to skip tests #3859

byrnHDF · 2023-11-16T20:20:02Z

No description provided.

lrknox · 2023-11-19T00:47:52Z

tools/test/h5repack/CMakeTests.cmake

@@ -314,7 +323,7 @@
            NAME H5REPACK-${testname}
            COMMAND ${CMAKE_COMMAND} -E echo "SKIP ${ARGN} ${PROJECT_BINARY_DIR}/testfiles/${testfile} ${PROJECT_BINARY_DIR}/testfiles/out-${testname}.${testfile}"
        )
-        set_property(TEST H5REPACK-${testname} PROPERTY DISABLED)
+        set_property(TEST H5REPACK-${testname} PROPERTY DISABLED true)


Is this missing if ("H5REPACK-${testname}" MATCHES "${HDF5_DISABLE_TESTS_REGEX}")? When I tested, not specifying H5REPACK nor H5IMPORT, there were 25 H5REPACK tests and 2 H5IMPORT tests that were disabled.

lrknox

Those skips were caused by non-functioning Zlib and Szip tar.gz files. Running it again with updated tar.gz file skipped only the designated ph5diff and t_bigio tests.

brtnfld · 2023-11-20T18:14:27Z

Will you create an issue for autotools to have the same functionality?

brtnfld · 2023-11-20T18:18:53Z

CMakeTests.cmake

@@ -23,6 +23,9 @@
  math (EXPR CTEST_LONG_TIMEOUT "${DART_TESTING_TIMEOUT} * 2")
  math (EXPR CTEST_VERY_LONG_TIMEOUT "${DART_TESTING_TIMEOUT} * 3")

+  option (HDF5_DISABLE_TESTS_REGEX "Pattern to set tests to DISABLED" "")


Maybe "exclude" would be more precise than "disable", "Pattern used to exclude specific tests"

Not really, the tests are being skipped by disabling the execution of the tests. Besides the CMake property is DISABLED

I think making things clear for the user should be a priority. So far, we have used "ENABLE" and "DISABLE" as boolean values.

at least: "Pattern used to mark specific tests as DISABLED"

Changed option text

@brtnfld, is this good now?

byrnHDF · 2023-11-20T18:32:34Z

Will you create an issue for autotools to have the same functionality?
#3864 created.

* 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

Add HDF5_DISABLE_TESTS_REGEX option to skip tests

edb2a51

byrnHDF self-assigned this Nov 16, 2023

byrnHDF requested review from lrknox, derobins, fortnern, jhendersonHDF, qkoziol, vchoi-hdfgroup, bmribler, glennsong09, mattjala and brtnfld as code owners November 16, 2023 20:20

byrnHDF added 2 commits November 16, 2023 16:24

Set a default value for regex

1d68e45

Add disabled regex to non-tools test folders

f89ee1c

byrnHDF requested a review from epourmal as a code owner November 16, 2023 22:51

Add tool tests to DISABLED check

b9db801

lrknox approved these changes Nov 17, 2023

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Add line for CMake

537d73d

lrknox requested changes Nov 19, 2023

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lrknox approved these changes Nov 19, 2023

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brtnfld reviewed Nov 20, 2023

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byrnHDF mentioned this pull request Nov 20, 2023

Update HDF5Examples directory autotools build to match CMake functionality #3863

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Rework option text

4ed2f9f

lrknox merged commit 3ea21cc into HDFGroup:develop Nov 22, 2023
45 checks passed

jhendersonHDF pushed a commit to jhendersonHDF/hdf5 that referenced this pull request Dec 7, 2023

Add HDF5_DISABLE_TESTS_REGEX option to skip tests (HDFGroup#3859)

02201e3

byrnHDF deleted the develop-disabled branch December 19, 2023 22:17

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Add HDF5_DISABLE_TESTS_REGEX option to skip tests #3859

Add HDF5_DISABLE_TESTS_REGEX option to skip tests #3859

byrnHDF commented Nov 16, 2023

lrknox Nov 19, 2023

lrknox left a comment

brtnfld commented Nov 20, 2023

brtnfld Nov 20, 2023 •

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brtnfld Nov 20, 2023

byrnHDF Nov 21, 2023

lrknox Nov 21, 2023

byrnHDF commented Nov 20, 2023

Add HDF5_DISABLE_TESTS_REGEX option to skip tests #3859

Add HDF5_DISABLE_TESTS_REGEX option to skip tests #3859

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byrnHDF commented Nov 16, 2023

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