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* 1.10 Move error-stack text to top of usage display #1564 (#1567)Allen Byrne2022-04-148-16/+32
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* 1 10 Merge of long double fix and compiler flags (#531)Allen Byrne2021-04-198-3/+1271
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * HDFFV-10865 - merge from dev, HDFArray perf fix. * Remove duplicate setting * Whitespace changes after clang format * Undo version 11 clang format changes * Merge CMake changes from develop * test testing script merge from develop * Update supported platforms * PR#3 merge from develop * Merge gcc 10 diagnostics option from develop * Merge #318 OSX changes from develop * Merge small changes from develop * Minor non-space formatting changes * #386 copyright corrections for java folder * Merges from develop #358 patches from vtk #361 fix header guard spelling * Merge updates #358 patches from vtk #361 fix header guard spelling * format fix * Fix missing underscore and make H5public.h closer to dev * Merges from develop #340 clang -Wformat-security warnings #360 Fixed uninitialized warnings header guard underscore cleanup JNI cleanup * format alignment * Add missing test ref file * Merge #380 from develop * Finish java merges from develop * Fix java issues with tests and javadoc * Correct use of attribute access plist * Remove debug code * Remove unused variable * Change file access to read only for java tests * Split clang format operations. * More javadoc comments * Remove pre-split setting * format source * Change windows TS to use older VS. * Mostly all javadoc fixes, one argument rename. * synch file * Merge of long double fix and compiler flags * HDFFV-11229 merge changes from develop * HDFFV-11229 correct test script * HDFFV-11229 update autotools test script for two ref files * HDFFV-11229 merge dev changes for long double display in tools * Committing clang-format changes * minor whitespace * remove unneeded macro * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Hdf5 merge issue 488 v110 (#535)Larry Knox2021-04-022-0/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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. * Cleans up a couple of MSVC warnings in testhdf5 (#475) * Fixes a few testhdf5 warnings raised in Visual Studio Visual Studio is grumpier about treating pointers like integers than gcc. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Fix typos and grammar errors. (#476) * Suppresses the tcheck_version test's abort dialog on Windows (#477) * Suppresses the tcheck_version test's abort dialog on Windows Windows raises a modal abort/retry/ignore dialog box when CRT calls abort(). This change installs a report hook that suppresses the dialog so that the CMake tests don't time out waiting for a nonexistent user to click a dialog box. * Committing clang-format changes * Removes __cdecl from callback Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Purge the buffer used in type conversion. (#263) Some of the uniniitialized bits in the buffer may get carried through all the way to disk, creating a risk for leaks. We observed an msan error during the floating point output conversion. Due to the encoding certain bits could remain untouched during the conversion. In this draft we zero initialize the dbuf used by every convertor. * Fixed HDFFV-10480 (CVE-2018-11206) and HDFFV-11159 (CVE-2018-14033) (#405) * Fixed HDFFV-10480 (CVE-2018-11206) and HDFFV-11159 (CVE-2018-14033) Description Checked against buffer size to prevent segfault, in case of data corruption. + HDFFV-11159 CVE-2018-14033 Buffer over-read in H5O_layout_decode + HDFFV-10480 CVE-2018-11206 Buffer over-read in H5O_fill_new[/old]_decode Platforms tested: Linux/64 (jelly) * Accidentally left in another occurrence of the previous patch from user after a more correct fix was applied, that is the check now accounted for the previous advance of the buffer pointer. Removed it. * Typo * Fixed format issues. * Added test. * Changed arguments to ADD_H5_TEST * Fixing arguments to ADD_H5_TEST again. * Fixing arguments again. * Took out the CMake changes until Allen can help. * Added files: tCVE_2018_11206_fill_old.h5 tCVE_2018_11206_fill_new.h5 * Revert "Took out the CMake changes until Allen can help." This reverts commit c21324d6e0044994c5cd24b0671e7d1dd41096cc. * Revert "Fixing arguments again." This reverts commit 5832a70674339e4b524749adde5a181f8c3a446a. * Revert "Fixing arguments to ADD_H5_TEST again." This reverts commit b45de823c22ce83a388d46466ef7c04b66ff05ed. * Revert "Changed arguments to ADD_H5_TEST" This reverts commit 16719824f57e52158451ddd261788c0dcaa3ec55. * Added first argument to ADD_H5_TEST for HDFFV-10480 fix. * Changed argument 0 to 1 * Revert "Changed argument 0 to 1" This reverts commit b343d6613ba681b43248dd5820e96389984ebcf7. * Revert "Added first argument to ADD_H5_TEST for HDFFV-10480 fix." This reverts commit b8a0f9a9e8ec8e6c6ff38d33195d63edff76a563. * Added first argument and corrected the second. * Updated fixes for HDFFV-10480 and HDFFV-11159/HDFFV-11049 * Improved error messages. * Added description of the current HDF5 branches; added a draft of contribution policy. (#445) * Added description of the current HDF5 branches. * Removed capitalization in from Develop, Release, Feature to reflect the real naming schema * Added a draft of contributions guidance document. * Fixed typos. * Fixed section title. * Fixed typo. * Fixed typos and formatting. * Fixed many typos and simplified the text (e.g., removed testing instructions and left pointers to where to find them, etc.) * Fixed a typo. Please enter the commit message for your changes. Lines starting * Added contributing.md file and rearranged doc entries in alphabetical order. * ddressed Gerd's review comments; found and fixed more typos. * Addressed comments from Larry and Scot. * Fix CMake error message location. (#478) Print error message if Perl is not found. * Committing clang-format changes * Update MANIFEST. Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org> Co-authored-by: Sean McBride <sean@rogue-research.com> Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Yu Feng <rainwoodman@gmail.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> Co-authored-by: epourmal <epourmal@hdfgroup.org>
* 1 10 Merges from develop (#424)Allen Byrne2021-03-041-0/+11
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * HDFFV-10865 - merge from dev, HDFArray perf fix. * Remove duplicate setting * Whitespace changes after clang format * Undo version 11 clang format changes * Merge CMake changes from develop * test testing script merge from develop * Update supported platforms * PR#3 merge from develop * Merge gcc 10 diagnostics option from develop * Merge #318 OSX changes from develop * Merge small changes from develop * Minor non-space formatting changes * #386 copyright corrections for java folder * Merges from develop #358 patches from vtk #361 fix header guard spelling * Merge updates #358 patches from vtk #361 fix header guard spelling * format fix * Fix missing underscore and make H5public.h closer to dev * Merges from develop #340 clang -Wformat-security warnings #360 Fixed uninitialized warnings header guard underscore cleanup JNI cleanup * format alignment * Add missing test ref file
* HDFFV-11096 Correct h5dump usage textAllen Byrne2020-10-058-16/+16
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* h5dump object reference fixedAllen Byrne2020-03-011-32/+256
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* Merge CMake and tools changes from developAllen Byrne2020-02-2728-2577/+2149
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* Merge S3 code from develop to 1.10Allen Byrne2019-09-1313-0/+125
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* HDFFV-10876 link fix and compile issueAllen Byrne2019-08-271-1/+0
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* HDFFV-9407 Merge test addition from developAllen Byrne2019-06-251-0/+0
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* HDFFV-10632 separate stderr and stdout in testsAllen Byrne2018-12-1321-23/+0
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* Add swmr tests, fix java scriptAllen Byrne2018-07-272-0/+329
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* Revert Sencode h5dump testAllen Byrne2018-07-272-5/+0
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* Fix for HDFFV-10333:Vailin Choi2018-07-262-0/+5
| | | | | | | | | 1) Check for valid object header version for a refcount messge 2) Check for invalid fill value size 3) Check for invalid dimension size in a layout message 4) Add --enable-error-stack option to h5stat 5) Add error checks to h5stat.c 6) Add tests to h5stat and h5dump
* HDFFV-10384 and includes cleanup merged from devlopAllen Byrne2018-02-168-16/+16
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* HDFFV-10188 Force non-native type descriptionAllen Byrne2017-08-231-1/+1
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* HDFFV-10188 merge fix and tests from developAllen Byrne2017-08-214-0/+79
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* HDFFV-10219 and HDFFV-10256 merge from developAllen Byrne2017-08-042-0/+20
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* Test split tbitfields.h5.xml into big and little endian files. ↵lrknox2017-05-271-103/+0
| | | | tbitfields.h5.xml was removed from MANIFEST but the file still needs to be removed, as it was in the develop branch.
* merge from develop and apply HDFFV-8611Allen Byrne2017-05-245-16/+515
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* Final merge of page buffering branch to developQuincey Koziol2017-03-147-71/+20
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* HDFFV-10118 fix dataAllen Byrne2017-01-201-6/+15
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* HDFFV-10118 change h5ls to not display extra infoAllen Byrne2017-01-201-22/+6
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* HDFFV-10118 fixed plugin tests for toolsAllen Byrne2017-01-203-3/+3
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* HDFFV-9994 - correct reference fileAllen Byrne2017-01-171-20/+26
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* HDFFV-9994 add UD tests for toolsAllen Byrne2017-01-173-0/+47
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* Bring SWMR-related tools changes from revise_chunks to develop.Quincey Koziol2016-12-111-0/+61
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* [svn-r30232] HDFFV-9953, -9955: Add new testfiles to h5dump generator and tests.Allen Byrne2016-08-014-0/+1099
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* [svn-r30194] Convert usage function to use standard tools macros.Allen Byrne2016-07-182-4/+4
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* [svn-r29779] Description:Quincey Koziol2016-04-242-0/+36
| | | | | | | | Bring over some of the tool testing for the new chunk indices. Tested on: MacOSX/64 10.11.4 (amazon) w/serial, parallel & production (h5committest forthcoming)
* [svn-r29274] HDFFV-9698: fix subsetting issues with h5dumpAllen Byrne2016-03-047-0/+322
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* [svn-r29261] HDFFV-9241: Print fill value as "DEFAULT" instead of value 0Allen Byrne2016-03-0315-17/+17
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* [svn-r29259] HDFFV-9066: Improve h5dump usage statement for -O F, -ddl=F option.Allen Byrne2016-03-038-8/+8
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* [svn-r29257] HDFFV-9705: h5dump should not print filters or allocation time ↵Allen Byrne2016-03-038-48/+0
| | | | info for VDS files
* [svn-r29186] HDFFV-9654: add VDS options to h5dumpAllen Byrne2016-02-2321-0/+1003
| | | | includes new data files
* [svn-r29179] Revert of 29177 which breaks the autotools build.Dana Robinson2016-02-228-16/+0
| | | | | Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 autotools serial
* [svn-r29177] HDFFV-9654: add VDS options to h5dumpAllen Byrne2016-02-228-0/+16
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* [svn-r28865] HDFFV-9639: Fix double-free error by setting freed var to NULL.Allen Byrne2016-01-121-0/+31
| | | | | Verified issue with "h5dump tgroup.h5 non_existing.h5" Applied patch and retested.
* [svn-r28115] Replace unreadable, unused test file with newly generated file ↵Larry Knox2015-10-161-0/+0
| | | | that can be read by h5dump from HDF5 1.6.10, 1.8.6, 1.8.16 and trunk.
* [svn-r27646] Add version number to VDS global heap object encoding.Neil Fortner2015-09-0123-0/+0
| | | | | | | | | Fix handling of layout version number. Other minor fixes/cleanup. NOTE: This commit changes the file format for VDS, all files must be re-generated. Tested: ummon
* [svn-r27266] Change tests to use simple mode - eliminates native type use.Allen Byrne2015-06-226-6/+6
| | | | Combine float checks and int checks to eliminate possible conflicts
* [svn-r27218] Add VDS tests to h5lsAllen Byrne2015-06-166-0/+74
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* [svn-r27195] Add h5dump cmake tests and files.Allen Byrne2015-06-1288-0/+1694
| | | | | | | Add tools gen cmake files move testfiles for pbits to subdir as well as vds Tested: local linux
* [svn-r25745] Testfiles for h5dump bitfields and opaquesAllen Byrne2014-10-272-0/+293
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* [svn-r24482] HDFFV-8635: remove test of whole file and just test dsets that ↵Allen Byrne2013-12-021-353/+49
| | | | | | have szip compression. Tested local linux with cmake and autotools
* [svn-r24471] JAVA-1798: Add the testfiles for hdf-java and the h5dump tests ↵Allen Byrne2013-11-276-0/+1861
| | | | | | including the test to read filter data. Tested: cmake and autotools - local linux
* [svn-r24467] tfilters.h5 was created and checked in on 21 Feb 05, rev 10060, ↵Allen Byrne2013-11-263-3/+3
| | | | | | | | and never regenerated. The code for scaleoffset continued to change and the number of params for scaleoffset changed from 7 to 20 on the checkin of 23 Mar 05, rev 10384. The h5dump tests only looked at headers and never the data. Data reads would fail with invalid number of params (7 expected 20). Regenerated file and replacement ddls updated. New h5dump test will be added to read the data.
* [svn-r24411] Correct file generationAllen Byrne2013-11-072-384/+384
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* [svn-r24408] Add compound integer tests filesAllen Byrne2013-11-064-0/+1508
| | | | Tested: local linux cmake
* [svn-r24104] HDFFV-8345: add User Defined filters to h5repack.Allen Byrne2013-09-061-13/+0
| | | | | | Reviewed in H5T-61 Tested: local linux - cmake and autotools
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