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* Fixed HDFFV-10586, HDFFV-10588, and HDFFV-10684Binh-Minh Ribler2019-01-319-28/+163
| | | | | | | | | | | | | | | | | | | | | | | | | | Description: HDFFV-10586 CVE-2018-17434 Divide by zero in h5repack_filters Added a check for zero value HDFFV-10588 CVE-2018-17437 Memory leak in H5O_dtype_decode_helper This is actually an Invalid read issue. It was found that the attribute name length in an attribute message was corrupted, which caused the buffer pointer to be advanced too far and later caused an invalid read. Added a check to detect attribute name and its length mismatch. The fix does not cover all cases, but it'll reduce the chance of this issue when a name length is corrupted or the attribute name is corrupted. HDFFV-10684 H5Ewalk does not stop until all errors in the stack are visited The test for HDFFV-10588 has revealed a bug in H5Ewalk. H5Ewalk did not stop midway even when the call back function returns H5_ITER_STOP. This is because a condition is missing from the for loops in H5E__walk causing the callback functions unable to stop until all the errors in the stack are iterated. Quincey advised on the final fix. In this fix, "status" is switched to "ret_value" and HGOTO_ERROR to HERROR, and the for loops won't continue when "ret_value" is not 0. Platforms tested: Linux/64 (jelly) Linux/64 (platypus) Darwin (osx1011test)
* Merge branch 'hdf5_1_10' of ↵Binh-Minh Ribler2019-01-155-15/+65
|\ | | | | | | https://bitbucket.hdfgroup.org/scm/~bmribler/hdf5_1_10_bmr into hdf5_1_10
| * Merge pull request #1478 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2019-01-151-2/+4
| |\ | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit '0250b3650fbcec1f592f4a7371158d6b81db01c0': Add check for existing links in hl/fortran/src/Makefile.am.
| | * Merge branch 'hdf5_1_10' of ↵Larry Knox2019-01-151-1/+1
| | |\ | | |/ | |/| | | | https://bitbucket.hdfgroup.org/scm/~lrknox/hdf5_lrk into hdf5_1_10
| * | Merge pull request #1477 in HDFFV/hdf5 from ~BYRN/hdf5_adb:hdf5_1_10 to ↵Allen Byrne2019-01-141-1/+1
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit '1b2fc19a8f46bff2d1ac8e25dbb40322d377eef3': Correct fix for new policy Fix for new policy
| | * | Correct fix for new policyAllen Byrne2019-01-141-1/+1
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| | * | Fix for new policyAllen Byrne2019-01-141-1/+1
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| | * | Merging in latest from upstream (HDFFV/hdf5:refs/heads/hdf5_1_10)Allen Byrne2019-01-144-14/+62
| | |\ \ | | |/ / | |/| | | | | | | | | | | | | | | | | | * commit '3476c7d13d4124f7e0752f251a667bef6b4fbf68': Merge pull request #1429 in HDFFV/hdf5 from HDFFV-10596-fortran-library-names-differ to develop Work around compiler fussiness on platypus. Fix for debug assert in H5FDmpio.c
| * | | Merge pull request #1475 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2019-01-142-0/+22
| |\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit 'e61b3a7de95c23f4f24282bad41c5154643741a5': Merge pull request #1429 in HDFFV/hdf5 from HDFFV-10596-fortran-library-names-differ to develop
| | | * \ Merging in latest from upstream (HDFFV/hdf5:refs/heads/hdf5_1_10)Allen Byrne2019-01-1128-246/+1835
| | | |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit 'dadf2b5fd8689e15ee5d28c74a5956391e914809': Fix for parallel filters tests with new read-proc0-broadcast feature misc. merge clean-up misc. merge clean-up Fix for Fortran failures. merged:
| | | * \ \ Merging in latest from upstream (HDFFV/hdf5:refs/heads/hdf5_1_10)Allen Byrne2019-01-0916-30/+305
| | | |\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit 'a043211d9edf2df3ea8049bda4be6bdcbf0970e9': Delay checking if decoded message's "shareable" flag is appropriate for the message type until we've verified we understand the message type. Reduce size of H5O_msg_class_g to *not* include space for H5O_BOGUS_INVALID. Make bogus messages shareable. Add new bogus message test with shareable messages to cover the formerly problematic code. Re-run gen_bogus.c to add this test case and also to fix the bogus_invalid messages that were no longer H5O_BOGUS_INVLAID due to a new message class being added in a previous commit. Added comment to remind developers to run gen_bogus.c when adding a new message class. Remove H5O_BOGUS_INVALID_ID from H5O_msg_class_g initialization, since space for it was removed. Fortran wrappers for dataset obj header minimization API calls.
| | | | | | * Add check for existing links in hl/fortran/src/Makefile.am.Larry Knox2019-01-151-2/+4
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| | * | | | Merge pull request #1429 in HDFFV/hdf5 from ↵Larry Knox2019-01-142-0/+22
| |/ / / / | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | HDFFV-10596-fortran-library-names-differ to develop * commit 'f4c9ec5d41aa53829617274d3286f1e9a45ae57e': Add RELEASE.txt entry for HDFFV-10596. Uninstall should remove the libhdf5_hl_fortran links. Add symlinks named libhdf5_hl_fortran* to libhdf5hl_fortran in Makefile.am to match cmake install and the name pattern for other hl lib files.
| * | | | Merge pull request #1474 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2019-01-141-13/+39
| |\ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit '1ba63f95d3d600be43f2d3e00f204d36d6e9a1a4': Work around compiler fussiness on platypus.
| | * | | | Work around compiler fussiness on platypus.Quincey Koziol2019-01-141-13/+39
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| * | | | Merge pull request #1473 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:hdf5_1_10 to ↵Dana Robinson2019-01-141-1/+1
| |\ \ \ \ | | |_|_|/ | |/| | | | | | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit '110eabd3e559a1e6002e96633a9ac892c21c1211': Fix for debug assert in H5FDmpio.c
| | * | | Fix for debug assert in H5FDmpio.cDana Robinson2019-01-141-1/+1
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* | | | Fixed HDFFV-10578Binh-Minh Ribler2019-01-153-3/+19
|/ / / | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: - HDFFV-10578 - CVE-2018-17234 Memory leak in H5O__chunk_deserialize() Actually, the leak was in h5tools_util. Applied Neil's fix. - Changed an assert to if/HGOTO_ERROR to fail gracefully. Platforms tested: Linux/64 (jelly) Linux/64 (platypus) Darwin (osx1010test)
* | | Merge pull request #1470 in HDFFV/hdf5 from hdf5_10_0_squash to hdf5_1_10Scot Breitenfeld2019-01-1127-242/+1831
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit 'c9cf24506b4fb1c50ea553d3ab962c37ac86760a': Fix for parallel filters tests with new read-proc0-broadcast feature misc. merge clean-up misc. merge clean-up merged:
| * | | Fix for parallel filters tests with new read-proc0-broadcast featureJordan Henderson2019-01-111-4/+8
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| * | | misc. merge clean-upM. Scot Breitenfeld2019-01-111-3/+0
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| * | | misc. merge clean-upM. Scot Breitenfeld2019-01-113-47/+40
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| * | | merged:M. Scot Breitenfeld2019-01-1027-218/+1813
| | |/ | |/| | | | | | | | | | HDFFV-10652 HDFFV-10443
* | | Merge pull request #1469 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:hdf5_1_10 to ↵Dana Robinson2019-01-111-4/+4
|\ \ \ | |/ / |/| | | | | | | | | | | | | | hdf5_1_10 * commit 'b52def6b9a38e6b24848d69e5eb37da0be97a94c': Fix for Fortran failures.
| * | Fix for Fortran failures.Dana Robinson2019-01-111-4/+4
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* | Merge pull request #1457 in HDFFV/hdf5 from ~BYRN/hdf5_adb:hdf5_1_10 to ↵Allen Byrne2019-01-099-528/+515
|\ \ | |/ | | | | | | | | | | | | | | hdf5_1_10 * commit '46f63b0faafe574ca2a32380ea85cac8206b1028': Fix deprecated H5Pget_version Fix java regex Merge CMake changes from develop
| * Fix deprecated H5Pget_versionAllen Byrne2019-01-094-52/+24
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| * Fix java regexAllen Byrne2019-01-091-36/+36
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| * Merge CMake changes from developAllen Byrne2019-01-085-476/+491
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* | Merge pull request #1459 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:hdf5_1_10 to ↵Dana Robinson2019-01-097-5/+252
|\ \ | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit '688074781ac7be2b7e799e8804378ba1f1563db1': Fortran wrappers for dataset obj header minimization API calls.
| * | Fortran wrappers for dataset obj header minimization API calls.Dana Robinson2019-01-097-5/+252
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* | Merge pull request #1463 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:hdf5_1_10 to ↵Neil Fortner2019-01-099-25/+53
|\ \ | |/ |/| | | | | | | | | | | hdf5_1_10 * commit '55806ff1be0d559a204e84e595403b309239085f': Delay checking if decoded message's "shareable" flag is appropriate for the message type until we've verified we understand the message type. Reduce size of H5O_msg_class_g to *not* include space for H5O_BOGUS_INVALID. Make bogus messages shareable. Add new bogus message test with shareable messages to cover the formerly problematic code. Re-run gen_bogus.c to add this test case and also to fix the bogus_invalid messages that were no longer H5O_BOGUS_INVLAID due to a new message class being added in a previous commit. Added comment to remind developers to run gen_bogus.c when adding a new message class. Remove H5O_BOGUS_INVALID_ID from H5O_msg_class_g initialization, since space for it was removed.
| * Delay checking if decoded message's "shareable" flag is appropriate forNeil Fortner2019-01-098-19/+52
| | | | | | | | | | | | | | | | | | | | | | | | | | | | the message type until we've verified we understand the message type. Reduce size of H5O_msg_class_g to *not* include space for H5O_BOGUS_INVALID. Make bogus messages shareable. Add new bogus message test with shareable messages to cover the formerly problematic code. Re-run gen_bogus.c to add this test case and also to fix the bogus_invalid messages that were no longer H5O_BOGUS_INVLAID due to a new message class being added in a previous commit. Added comment to remind developers to run gen_bogus.c when adding a new message class. Remove H5O_BOGUS_INVALID_ID from H5O_msg_class_g initialization, since space for it was removed.
| * Remove H5O_BOGUS_INVALID_ID from H5O_msg_class_g initialization, sinceNeil Fortner2019-01-091-6/+1
|/ | | | space for it was removed.
* Merge pull request #1449 in HDFFV/hdf5 from ↵Larry Knox2019-01-082-14/+14
|\ | | | | | | | | | | | | ~JAKE.SMITH/hdf5:dset_ohdr_minimize_110 to hdf5_1_10 * commit '00f835f6403728c3caf298636522e526996010a2': Fix fapl passed into h5_fixname() calls in minimized tests. Fix creation of duplicate, unclosed FAPL. Fix wrong statement-string after TEST_ERROR macro (refactoring mistake).
| * Fix fapl passed into h5_fixname() calls in minimized tests.Jacob Smith2019-01-072-14/+14
| | | | | | | | | | Fix creation of duplicate, unclosed FAPL. Fix wrong statement-string after TEST_ERROR macro (refactoring mistake).
* | Merge pull request #1442 in HDFFV/hdf5 from ~VCHOI/my_hdf5_fork:hdf5_1_10 to ↵Vailin Choi2019-01-0710-20/+316
|\ \ | |/ |/| | | | | | | | | | | | | | | hdf5_1_10 * commit '1a50622733c14d89b3fd8c6bab684af9205a3b96': Fix for daily test failure: too many arguments to function 'H5Gopen1'. Fix the git merge leftover in RELEASE.txt. Fix the git merge leftovers in RELEASE.txt. Fix for HDFFV-10659: The library aborts with "infinite loop closing library" after deleting attributes in densed storage. The fix: When deleting attribute nodes from the name index v2 B-tree, if an attribute is found in the intermediate B-tree nodes, which may be merged/redistributed in the process, we need to free the dynamically allocated spaces for the intermediate decoded attribute.
| * Fix for daily test failure: too many arguments to function 'H5Gopen1'.vchoi2019-01-071-1/+1
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| * Fix the git merge leftover in RELEASE.txt.Vailin Choi2019-01-061-0/+1
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| * Fix the git merge leftovers in RELEASE.txt.Vailin Choi2019-01-061-5/+0
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| * Fix for HDFFV-10659: The library aborts with "infinite loop closing library"Vailin Choi2019-01-0610-20/+320
| | | | | | | | | | | | | | | | after deleting attributes in densed storage. The fix: When deleting attribute nodes from the name index v2 B-tree, if an attribute is found in the intermediate B-tree nodes, which may be merged/redistributed in the process, we need to free the dynamically allocated spaces for the intermediate decoded attribute.
* | Merge pull request #1447 in HDFFV/hdf5 from ~BYRN/hdf5_adb:hdf5_1_10 to ↵Allen Byrne2019-01-0722-125/+476
|\ \ | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit 'f7d530dd275e176e59b26c1b7363ba16b3ab6c9c': HDFFV-10674, 10664, 10674
| * | HDFFV-10674, 10664, 10674Allen Byrne2019-01-0722-125/+476
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* | Merge pull request #1446 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:hdf5_1_10 to ↵Dana Robinson2019-01-077-7/+85
|\ \ | |/ |/| | | | | | | | | hdf5_1_10 * commit '257e05e1b2465a6876eec6995419b8f358e0ec84': Merged the rest of the parallel flush test code.
| * Merged the rest of the parallel flush test code.Dana Robinson2019-01-077-7/+85
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* Merge pull request #1437 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:hdf5_1_10 to ↵Dana Robinson2019-01-063-245/+273
|\ | | | | | | | | | | | | hdf5_1_10 * commit 'd617b56aacd403b6b99b5a661461b5d84a03e185': Cherry pick of CMake parallel flush fixes.
| * Cherry pick of CMake parallel flush fixes.Dana Robinson2019-01-053-245/+273
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* Merge pull request #1431 in HDFFV/hdf5 from ↵Binh-Minh Ribler2019-01-053-11/+50
|\ | | | | | | | | | | | | | | ~BMRIBLER/hdf5_1_10_bmr:hdf5_1_10 to hdf5_1_10 * commit '82dd54c26b11245c36f65a044e9b717dc2c337e0': Revised text Fixed CVE division-by-zero issues Description: Fixed HDFFV-10577 and similar issues found in H5Dchunk.c. All the occurrences are in: H5D__create_chunk_map_single H5D__create_chunk_file_map_hyper H5D__chunk_allocate H5D__chunk_update_old_edge_chunks H5D__chunk_prune_by_extent H5D__chunk_copy_cb H5D__chunk_collective_fill Also updated RELEASE.txt for the chunk query functions and removed some blank lines in chunk_info.c. Platforms tested: Linux/64 (jelly) Linux/64 (platypus) Darwin (osx1010test)
| * Revised textBinh-Minh Ribler2019-01-041-3/+4
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| * Merge branch 'hdf5_1_10' of ↵Binh-Minh Ribler2019-01-04215-7083/+8870
| |\ | | | | | | | | | https://bitbucket.hdfgroup.org/scm/~bmribler/hdf5_1_10_bmr into hdf5_1_10
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