Sync develop changes March 25 - March 28 to hdf5_1_14 #4284
Commits on Mar 29, 2024
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Take user block into account when returning chunk addresses (HDFGroup…
…#4236) Both H5Dchunk_iter() and H5Dget_chunk_info(_by_coord)() did not take the size of the user block into account when reporting addresses. Since the HDFGroup#1 use of these functions is to root around in the file for the raw data, this is kind of a problem. Fixes GitHub issue HDFGroup#3003
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Re-revert to using autoreconf in autogen.sh (HDFGroup#4253)
We previously tried removing the per-tool invocation of the Autotools and instead simply invoked autoreconf (PR HDFGroup#1906). This was reverted when it turned out that the NAG Fortran compiler had trouble with an undecorated -shared linker flag. It turns out that this is due to a bug in libtool 2.4.2 and earlier. Since this version of libtool is over a decade old, we're un-reverting the change. We've added a release note for anyone who has to build from source on elderly platforms. Fixes HDFGroup#1343
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Rewrite H5T__path_find_real for clarity (HDFGroup#4225)
* Move conversion path free logic to helper function
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Remove an error check regarding large cache objects (HDFGroup#4254)
* Remove an error check regarding large cache objects In PR#4231 an assert() call was converted to a normal HDF5 error check. It turns out that the original assert() was added by a developer as a way of being alerted that large cache objects existed instead of as a guard against incorrect behavior, making it unnecessary in either debug or release builds. The error check has been removed. * Update RELEASE.txt
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Improve the CMake clang -fsanitize=memory flags (HDFGroup#4267)
-fsanitize=memory is almost useless without using -fsanitize-memory-track-origins=2 and we shoud probably add -fno-optimize-sibling-calls as well.
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MPI type correction (HDFGroup#4268)
* corrected type for MPI_*_f2c APIs * fixed return type of callback * reset compilation flags of logical test program
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Clean up test/cmpd_dtransform.c (HDFGroup#4270)
* Clean up test/cmpd_dtransform.c * Fix uninitialized memory warning from sanitizers * FAIL_STACK_ERROR --> TEST_ERROR * Emit output * Delete test file when done * Fix typo * H5Fdelete() --> remove()
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Minor fixes after merge of file format security fixes (HDFGroup#4263)
* Update H5_IS_BUFFER_OVERFLOW to account for 'size' of 0 * Invert a few checks to avoid function call
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Addresses configuration fortran testing flags (HDFGroup#4276)
* turn warnings to errors in fortran configure test * Intel fortran test fix
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Fix range check in H5_addr_overlap (HDFGroup#4278)
When the H5_addr_overlap macro was updated to use H5_RANGE_OVERLAP, it failed to take into account that H5_RANGE_OVERLAP expects the range to be inclusive. This lead to an assertion failure in H5MM_memcpy due to a memcpy operation on overlapping memory. This has been fixed by subtracting 1 from the calculated high bound values passed to H5_RANGE_OVERLAP
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Fix potential buffer read overflows in H5PB_read (HDFGroup#4279)
H5PB_read previously did not account for the fact that the size of the read it's performing could overflow the page buffer pointer, depending on the calculated offset for the read. This has been fixed by adjusting the size of the read if it's determined that it would overflow the page.
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