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* Comment cleanup (#2689)Quincey Koziol2023-04-111-25/+0
| | | * Clean up content and redundant logging in comments.
* Update copyright headers (#2184)Larry Knox2022-11-011-1/+0
| | | | | * Updated source file copyright headers to remove "Copyright by the Board of Trustees of the University of Illinois", which is kept in the top-level COPYING file.
* Develop clang 13 format (#1933)Allen Byrne2022-07-261-4/+4
| | | | | * Update format source to clang 13 * More format changes
* h5test.h testing macros get enclosed in do..while loops (#1721)Dana Robinson2022-05-041-10/+10
| | | | | | | * h5test.h testing macros get enclosed in do..while loops * Adds missed macro in hl C++ code * Fixes macro in Windows code
* Fixed Spelling Errors (#1166)Scot Breitenfeld2021-12-071-5/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * fixed missed closing of a dataset * fixed missed closing of a dataset * fixed typo in error return * Committing clang-format changes * minor edits * code format * Committing clang-format changes * code format * minor edit * switched from using MPI_count, to actual bytes written for H5FD_mpio_debug rw debugging * Committing clang-format changes * changed size_i in printf to reflect the I/O. * Committing clang-format changes * Fixed seg fault with xlf on BE with -qintsize=8 * fixed error function string * spelling corrections via codespell, added new spell check github actions * Committing clang-format changes * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * work around for https://github.com/codespell-project/codespell/issues/2137 * misc * added missing file * misc * misc. * misc * switch to using Codespell with GitHub Actions * misc. * misc. * fixed more sp errors * Fix new typos found by codespell. * fixed proceed with precede * fixed variable in fortran test * fixed minnum * updated spelling list Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Modified gcc/clang warning suppression macros to account for some warnings ↵Sean McBride2021-09-161-2/+2
| | | | | | | | | | | | | | | | | flags being supported by one compiler but not the other (#379) * Committing clang-format changes * Fixed GCC warning suppression pragmas to also work with clang H5_GCC_DIAG_ON remains gcc-only. Added a new H5_CLANG_DIAG_ON that's clang-only, but it's not used anywhere currently. Added a new H5_GCC_CLANG_DIAG_ON that works with both compilers, which afterall support mostly the same warnings. Changed almost all uses of H5_GCC_DIAG_ON to use H5_GCC_CLANG_DIAG_ON, with the exception of a couple, where they really were suppressing gcc-only warnings. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* More clang tidy (#908)Sean McBride2021-08-231-2/+2
| | | | | | | | | | | | | | | | | | | * Pacify clang-analyzer-unix.cstring.NullArg * Apply some bugprone-suspicious-string-compare * Apply some readability-simplify-boolean-expr * Apply some readability-make-member-function-const * Apple some bugprone-macro-parentheses * Changed an f suffix to L for `long double` * Applied some readability-uppercase-literal-suffix automatically * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Update license url (#332)Larry Knox2021-02-171-1/+1
| | | | | | * 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.
* Clang-format of source filesAllen Byrne2020-09-301-241/+256
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* Merge remote-tracking branch 'hdffv/develop' into rebased-fprintf-experimentDavid Young2020-09-271-103/+103
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| * Fix comment formatting due to tabs conversionAllen Byrne2020-09-241-11/+11
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| * File changes to affect formattingAllen Byrne2020-09-041-103/+103
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* | Merge remote-tracking branch 'hdffv/develop' into rebased-fprintf-experimentDavid Young2020-09-031-4/+4
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| * Merge remote-tracking branch 'origin/develop' into namespace_cleanup_01Quincey Koziol2020-08-071-2/+2
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| | * Removes staff email addresses from the repositoryDana Robinson2020-08-071-2/+2
| | | | | | | | | | | | Removes redundant C library headers from hl library
| * | Clean up private / package / static namespace issues (function naming, whichQuincey Koziol2020-08-061-2/+2
| |/ | | | | | | | | | | header file, FUNC_ENTER / LEAVE, etc). Removed remaining personal email addresses from library source code (still needs cleaned from other directories). Misc. warning, style, and whitespace cleanup.
* | Squash my changes on branch `fprintf-experiment` into one commit forDavid Young2020-07-071-3/+3
|/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | reapplication to my new warnings branch, `warnings-again`. These changes are included: commit 915551b7bf64e777dd2007386ec77b1d117770da Merge: 63858c2 a8892bb Author: David Young <dyoung@hdfgroup.org> Date: Mon Nov 25 17:39:49 2019 -0600 Merge remote-tracking branch 'hdf5/develop' into fprintf-experiment commit a8892bb42d6f6e4fbc30fae0eb2b957f81c938b9 Merge: 5c911d8 f907b51 Author: David Young <dyoung@hdfgroup.org> Date: Mon Nov 25 17:33:54 2019 -0600 Merge pull request #2055 in HDFFV/hdf5 from ~DYOUNG/vchoi_fork:add-werror-and-squash-some to develop * commit 'f907b511d06612dafc7814a7c30f2f3d2b76d52b': Oops, remove more C99 designated initializers for VS 2010 compatibility. commit 63858c22e168acaec0af8ced6641f26102cc6bb0 Merge: 20ae787 5c911d8 Author: David Young <dyoung@hdfgroup.org> Date: Mon Nov 25 17:04:42 2019 -0600 Merge remote-tracking branch 'hdf5/develop' into fprintf-experiment commit 5c911d8baf3ee7fe654269088eebdf07f59a8192 Merge: b8a5671 62208b0 Author: David Young <dyoung@hdfgroup.org> Date: Mon Nov 25 16:58:27 2019 -0600 Merge pull request #2030 in HDFFV/hdf5 from ~DYOUNG/vchoi_fork:add-werror-and-squash-some to develop * commit '62208b056a09c01855fbac7f75146be58ad6bfe5': (44 commits) Add an #include to get a function declaration. Don't use C99 designated initializers, they're not compatible with Visual Studio 2010. Quiet some more maybe-uninitialized warnings---each is a false positive, *sigh*. This is more code that may not compile with VS2010, *sigh sigh*. Always warn on maybe-uninitialized. -Wincompatible-pointer-types was not available until GCC 5, so enable it only if that's the GCC version we're using. Only promote maybe-uninitialized warnings to errors on GCC 8. Even on GCC 8, there may be false positives at low optimization levels? I need to check. Only use -Werror=cast-function-type with GCC 8 and later. Put all of the -W options back into the order I found them in so that it's easier to compare old and new config/gnu-flags. Add new source files to CMakeLists.txt. Mention the -Werror= flags in libhdf5.settings.in. free -> HDfree Promote decleration-after-statement warnings to errors. Quiet decleration-after-statement warnings. Move a statement under some declarations since some vintages of Visual Studio don't like declarations after statements. Document H5D__chunk_mem_xfree_wrapper(). Undo accidental test deletion. Oops, delete a debug printf that snuck in here. Undo my changes to the HD macros, hadn't really intended those to be on this branch.... Make errors of some more warnings. Move disabled warnings to DEVELOPER_WARNING_CFLAGS. Put just one warning option on a line, and sort some of the options. Cast to the parameter type, H5VL_token_t *, instead of to unsigned char *. Change hdset_reg_ref_t and H5R_ref_t from arrays of unsigned char to structs containing those arrays. Encapsulating the arrays in this way makes it easier to write and think about pointers to these types, casts to/from these types, etc. ... commit 20ae7877e33931b95e8c3502b027d6c3fe94a11f Merge: 46f8c61 edd5297 Author: David Young <dyoung@hdfgroup.org> Date: Fri Nov 22 15:34:09 2019 -0600 Merge remote-tracking branch 'origin/add-werror-and-squash-some' into fprintf-experiment commit 46f8c613d5117a8be5bc8385a072daa0b4262f06 Author: David Young <dyoung@hdfgroup.org> Date: Fri Nov 22 15:29:00 2019 -0600 GCC really wants us to use `ll` to format `long long`, so try to make that work before any other format modifier. Seems like we're not compiling the autoconf test program with -Werror=format ? Probably should. commit eee35b8ef3759c391327cd48a9b3c56b6f8abc99 Author: David Young <dyoung@hdfgroup.org> Date: Fri Nov 22 15:28:05 2019 -0600 It's hard to know just how wide an HDoff_t will be, and I don't think POSIX or C standards provide a PRI macro for it, so cast to intmax_t and format using PRIdMAX. commit 86eab12df7a89b546a38e99f8178dd2adbcb3433 Author: David Young <dyoung@hdfgroup.org> Date: Fri Nov 22 15:26:25 2019 -0600 URemove some casts.se the right format string for the argument. Here and there stop casting a printf argument. commit f722f7cbecbaa99449941484b014426f62f1bed5 Merge: 58e3743 6d5ec83 Author: David Young <dyoung@hdfgroup.org> Date: Fri Nov 22 14:44:16 2019 -0600 Merge branch 'add-werror-and-squash-some' into fprintf-experiment commit 58e3743b7faa9836606ee91798fe80dfc0040da7 Author: David Young <dyoung@hdfgroup.org> Date: Wed Nov 20 21:07:21 2019 -0600 Remove custom HDfprintf implementation, using the standard library's, instead. Take a swipe at repairing fprintf format strings, mainly replacing "%Hu" with "%" PRIuHSIZE, "%a" with "%" PRIuHADDR, "%Zu" with "%zu". Here and there remove an awkward cast of a printf argument to `long long` and use PRI[doux]8, PRI[doux]32, or PRI[doux]64, instead. Change occurrences of "%t" to "%s" and perform a suitable change of argument, `cond` -> `cond ? "TRUE" : "FALSE"`. Some occurrences of %Hu, %a, and %t remain, they just weren't flagged by the compiler because of #ifdef'age. commit d4366909293fa970c23512ac80e5d865d76cddbf Author: David Young <dyoung@hdfgroup.org> Date: Wed Nov 20 20:54:32 2019 -0600 Promote format-string warnigns to errors.
* Trim trailing whitespaceQuincey Koziol2020-04-201-2/+2
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* Reduce differences between my -Werror branch and `develop`:David Young2020-01-291-3/+2
| | | | | | | | Rename index -> idx, fileno -> fnumber, fileno -> fno to avoid GCC shadowed declaration warnings about index(3). Convert #pragma GCC diagnostic push/pop/ignored to the HDF5 library's H5_GCC_DIAG_OFF()/H5_GCC_DIAG_ON() macros.
* Updates to warnhist script, along with a few cleanups, and add some commentsQuincey Koziol2019-07-101-0/+9
| | | | to warning cleanups that are a bit obscure.
* C and POSIX call cleanupDana Robinson2019-01-111-2/+2
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* Rework of the POSIX file open permissions and macros to clean upDana Robinson2017-04-281-3/+3
| | | | | | HDopen() calls. Also fixed a minor const warning in the core VFD.
* Changed the Windows POSIX open() file permissions to be correctDana Robinson2017-04-281-3/+3
| | | | according to MSDN. Partial fix for HDFFV-9630.
* Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-251-6/+4
| | | | | | | | | | hdf5_1_10 * commit '54957d37f5aa73912763dbb6e308555e863c43f4': Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh. Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1 Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
* [svn-r30219] Description:Quincey Koziol2016-07-221-4/+4
| | | | | | | | | More warning cleaups: down to 770 warnings (from ~940) in 134 files (from 148), with 28 unique kinds of warnings (from 31). Tested on: MacOSX/64 10.11.5 (amazon) w/serial & parallel (h5committest forthcoming)
* [svn-r28568] Normalization of test/big.c with revise_chunks.Dana Robinson2015-12-111-8/+8
| | | | | Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 serial only
* [svn-r27851] Description:Quincey Koziol2015-09-221-6/+6
| | | | | | | | | Normalization changes that wouldn't otherwise be necessary if the VDS branch wasn't coming in shortly. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
* [svn-r27800] Minor warning fixes in the library tests.Dana Robinson2015-09-161-1/+1
| | | | Tested on: jam (too minor for h5committest)
* [svn-r27768] Description:Quincey Koziol2015-09-141-3/+3
| | | | | | | | | | | | | | | | | | | | | | Complete revamp of package initialization/shutdown mechanism in the library. Each package now has a single init/term routine. This new way should avoid packages being re-initialized during library shutdown and is also be _much_ more proactive about giving feedback for resource leaks internal to the library. Introduces a new "module" header file for packages in the library (e.g src/H5Fmodule.h) which sets up some necessary package configuration macros for the FUNC_ENTER/LEAVE macros. (The VFL drivers have their own slightly modified version of this header, src/H5FDdrvr_module.h) Also cleaned up a bunch of resources leaks all across the library and tests, along with addressing many warnings, as I encountered them. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel Linux/64 3.10.x (kituo) w/serial & parallel Linux/64 2.6.x (ostrich) w/serial
* [svn-r24358] Changed the big test so that it runs using the h5_fileaccess() ↵Dana Robinson2013-10-251-149/+171
| | | | | | | | | | | | fapl. The previous behavior was to execute a sec2, stdio, and family test everytime it ran, which was very inefficient under check-vfd. Tested on: 32- and 64-bit LE linux (jam and koala) 64-bit BE linux (ostrich) 64-bit OS-X 10.6 (fred)
* [svn-r24214] Put in proper error message if unexpected switch values happened.Albert Cheng2013-09-281-1/+2
| | | | Tested: h5committest.
* [svn-r24202] Bug fix: HDFFV-8271 Big.c error in address generated by random ↵Albert Cheng2013-09-261-1/+2
| | | | | | | | | | | | | | | | | | number. Description: There is a bug in the current big.c tests. In a nut-shell, the writing part randomly picks 50 locations and write 4KB from that location. Random location range is from byte 0 to end of dataset. There is the problem--if the random location is greater than (end of dataset - 4KB), then error. Solution: Adjust the random number to be at least 4KB less than the end of the dataset. That allows it write 4KB more from the generated starting position. Tested: h5comittest plus jam serial build and test.
* [svn-r23984] Merged 2 23932 from reduced_warnings branch:Larry Knox2013-08-091-1/+4
| | | | | | | | | | | | | | | | | Changes applied to eliminate several compiler warnings in the test directory in files: dt_arith.c filter_fail.c big.c dynlib2.c dynlib3.c Also an HDassert(0 && "Unknown type"); statement was added to all 29 combination s of case OTHER: default: See crucible review HDF5-145 for more details. Tested with h5committest.
* [svn-r22024] Add HD prefix to tools library based tests. Cleaned ↵Allen Byrne2012-03-051-289/+289
| | | | | | allocation/free in tests. Tested: local linux/ changes h5committetest against 1.8 version
* [svn-r19817] Bug 1917: Big.c test.Albert Cheng2010-11-171-43/+97
| | | | | | | | Changed the test to run Huge Dataset (tens of GB), Xtra large dataset(4GB big), Large dataset (2GB big), or merely 1GB big, depending on if the file system supports sparse file or if it supports larger than 32bigs I/O. Tested: h5committest, jam (serial), Windows (Bangan which is Windows 7, 32bits).
* [svn-r19795] Cleaned up some part of the code. It now works on all Unix and ↵Albert Cheng2010-11-161-36/+26
| | | | | | Windows 7 platforms.
* [svn-r19764] Updated NPROCS default value from 3 to 6.Albert Cheng2010-11-111-121/+223
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* [svn-r19167] Bug fix: 1917.Albert Cheng2010-08-031-5/+4
| | | | | | | | | | | | | | | | | | | Description: test/big incorrectly determined not able to write files larger than 2GB and skipped the SEC2 and STDIO driver tests. The reason was because it was using off_t while the SEC2 driver is using lseek64 which expects off64_t type. Solution: Created a new HDoff_t which is set to off_t or off64_t or other appropriate type depending on which of lseek or lseek64 is available. Changed SEC2 file driver and the big test to use this common definition. Tested: In BP (AIX), using --enable and --disable-largefile, for both 32 and 64 bits modes. Did not do h5committest because: 1. the error was exposed in the remote BP machine; 2. the change is trivial. Note that STDIO driver failed when --disable-largefile is used. That is an error in the STDIO driver code that is being fixed.
* [svn-r16847] Description:Quincey Koziol2009-04-231-6/+2
| | | | | | | | | | | | | Bring r16846 from revise_chunks branch back to trunk: Fix broken (for how long?) H5_ASSIGN_OVERFLOW macro to actually detect overflows during assignments, along with several errors it [now] detected. Cleaned up a fix minor warnings and/or pieces of code also. Tested on: FreeBSD/32 6.3 (duty) in debug mode (h5committest not needed - multi-platform test performed on branch)
* [svn-r16489] Fixed bug #1459 by eliminating the macro long_long and ↵Allen Byrne2009-02-181-4/+4
| | | | | | | | | | | replacing all instances with long long. Tested: h5comittest fedora 10 x64 Vista 32, VS2005, IVF101 XP32, Cygwin
* [svn-r15800] Description:Quincey Koziol2008-10-071-17/+22
| | | | | | | | | | | | | | | | | | | | | | | Bring file free space branch changes through r15795 into trunk, which includes a fair bit of code cleanup & rearrangement along with a couple of bug fixes also. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15628] Description:Quincey Koziol2008-09-161-1/+1
| | | | | | | | | | | | | Remove trailing whitespace from C/C++ source files, with the following script: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Tested on: Mac OS X/32 10.5.5 (amazon) No need for h5committest, just whitespace changes...
* [svn-r15007] Purpose: configure cleanupMike McGreevy2008-05-151-6/+0
| | | | | | | Description: cleaning up configure related to removal of --disable-hsizet flag, which we no longer support. Tested: kagiso
* [svn-r14199] Description:Quincey Koziol2007-10-111-4/+4
| | | | | | | | | | | | | | | | | | | | | Add H5Dcreate to API versioned routines, replacing internal usage with H5Dcreate2 Fix thread-safe error stack initialization for API versioned error stack printing routines. Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode
* [svn-r14193] Description:Quincey Koziol2007-10-081-65/+70
| | | | | | | | | | | | | | | | | | | Make H5Dopen versioned and change all internal usage to use H5Dopen2 Add simple regression test for H5Dopen1 Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode
* [svn-r14104] Description:Quincey Koziol2007-08-231-1/+1
| | | | | | | | | | | | | Pursue calls to H5Gcreate() relentlessly and ruthlessly exterminate them, leaving only a few tame specimens in text files and comments. ;-) Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty) Linux/32 2.6 (kagiso) Linux/64 2.6 (smirom) Solaris/32 5.10 (linew)
* [svn-r13832] Some minor changes - let each driver use its own file name ↵Raymond Lu2007-06-041-2/+7
| | | | | | respectively. Tested on smirom because it's simple change.
* [svn-r13694] 1. changed the HDlseek to be lseek64 and HDfseek to be fseeko ↵Raymond Lu2007-04-231-4/+56
| | | | | | | | | if available, to support big files. 2. added a check in test/big.c to make sure the system supports big file. Tested on smirom because already tested the same changes for v1.6 on liberty, smirom, copper, and sol.
* [svn-r13605] Add big file test for SEC2.Raymond Lu2007-04-061-0/+19
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* [svn-r13596] Update document and comments. No test needed.Raymond Lu2007-04-051-1/+3
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