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* Clang-format of source filesAllen Byrne2020-09-301-5839/+5413
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* Use the right format string, "%zu", for size_t.David Young2020-09-271-1/+1
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* Merge remote-tracking branch 'hdffv/develop' into rebased-fprintf-experimentDavid Young2020-09-271-990/+989
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| * Fix comment formatting due to tabs conversionAllen Byrne2020-09-241-45/+44
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| * File changes to affect formattingAllen Byrne2020-09-041-985/+985
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* | Merge remote-tracking branch 'hdffv/develop' into rebased-fprintf-experimentDavid Young2020-09-031-743/+1634
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| * Minor copy edits to comments -- no code changes.inactive/mdc_sl_optmainzer2020-08-171-1/+1
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| * Merge branch 'develop' into mdc_sl_optmainzer2020-08-151-340/+193
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| | * Clean up private / package / static namespace issues (function naming, whichQuincey Koziol2020-08-061-340/+192
| | | | | | | | | | | | | | | | | | 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.
| * | Tab to space conversions.mainzer2020-08-141-103/+101
| | | | | | | | | | | | | | | | | | | | | | | | Re-applied tab to space conversions accidentally reverted in the commit of the metadata cache skip list optimization, and performed some additional tab to space conversions in passing. Tested parallel / debug on Jelly.
| * | When flushing, the metadata cache attempts to flush entries in increasingmainzer2020-08-051-322/+1362
| |/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | address order. To facilitate this, the metadata cache needs a list of of dirty entries in increasing address order. This is implemented via a skip list of all dirty entries in the cache. To date this skip list has been maintained at all times. However, profiling indicates that we can avoid significant overhead by constructing the skip list of dirty entries just before a flush, taking it down afterwareds, and not maintaining it during normal operation. This commit implements this optimization for both serial and parallel. Tested serial and parallel, debug and production on charis and jelly.
* | Squash my changes on branch `fprintf-experiment` into one commit forDavid Young2020-07-071-5/+5
|/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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 Koziol2020-04-201-206/+206
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* fix unused related warningskmu2020-01-131-3/+7
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* Updated configure & CMake compiler flags for GCC 8.x, along with correspondingQuincey Koziol2019-06-281-6/+9
| | | | | changes to warnhist script (and some extra improvements for condensing C++ and Java warnings), and fixed a bunch of warnings.
* Added an H5MM_memcpy call that checks for buffer overlap.Dana Robinson2019-03-161-7/+7
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* Merge in latest from developJordan Henderson2019-02-121-0/+4
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| * Modification based on feedback from pull request.Vailin Choi2019-02-051-1/+1
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| * There is performance issue when closing an object. The slow down is due to ↵Vailin Choi2019-02-051-0/+4
| | | | | | | | | | | | | | | | | | | | the search of the "tag_list" to find out the "corked" status of an object. The fix: (1) Add a counter "num_objs_corked" in the cache structure to track the number of "corked" objects. (2) Skip the search of "tag_list" if the counter is zero i.e. no "corked" objects.
* | Fix some collective metadata read issuesJordan Henderson2019-02-121-42/+13
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* Squash merge of MDC logging changes.Dana Robinson2018-12-211-7/+8
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* Normalization with vol_integration (misc internal and datatype)Dana Robinson2018-09-201-18/+15
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* Fixed HDFFV-10404Binh-Minh Ribler2018-07-131-12/+12
| | | | | | | | | Description: Applied the typo fixes from user's report. The previous pull request couldn't be merged because it was too old, and it was too complicated for me to resolve conflicts. Platform tested: Linux/64 (jelly) - very minor
* Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-420/+249
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* Better segregate clean & dirty LRU lists so that they are only defined whenQuincey Koziol2017-09-301-0/+8
| | | | the H5C_MAINTAIN_CLEAN_AND_DIRTY_LRU_LISTS macro is defined.
* Style cleanups and misc. bugfixes discovered during full SWMR development.Quincey Koziol2017-09-231-18/+29
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* Updated H5C__flush_single_entry() in H5C.c to correctmainzer2017-08-151-8/+18
| | | | | | | duplicate metadata write bug observed in 1.10.1. Tested parallel/production on jelly parallel/debug & parallel/production on charis (in develop branch)
* 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.
* Checkin of additions to cache image parallel test code andmainzer2017-03-161-6/+15
| | | | | | | | | | | | associated bug fixes. Also, modifications to H5PB_dest() to flush the page buffer before destroying the page buffer. This is necessary, as when persistant free space managers are enabled, the page buffer will typically contain dirty FSM data at page buffer destroy time. Tested serial/debug, serial/production, serial/check-vfd/debug, parallel/debug, parallel/production on Jelly.
* Final merge of page buffering branch to developQuincey Koziol2017-03-141-2/+124
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* Merge in reentrency changes to "make space in cache" from page_buffering branch.Quincey Koziol2017-03-131-0/+20
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* Minor cleanups and bring over "prefetched dirty" fixes for entries loaded fromQuincey Koziol2017-03-121-10/+32
| | | | a cache image.
* Remove some usage of "prefetched_dirty" flag (which hasn't been merged from theQuincey Koziol2017-03-101-1/+0
| | | | | page_buffering branch yet. Also, bring over improvements to flush candidate entries for parallel code.
* Align with incoming page buffering changes: minor cleanups, centralize removingQuincey Koziol2017-03-071-30/+35
| | | | entries from collective metadata read list
* Misc. small cleanups to sync against incoming page buffering changes.Quincey Koziol2017-03-021-47/+17
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* Normalize against incoming page buffering changes.Quincey Koziol2017-03-011-17/+534
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* Corrected version of 4b5e05c084f93c35dae946c2c9e814d565a613b0:Quincey Koziol2017-02-281-5/+5
| | | | | Fix some more signed -> unsigned value issues with cache data structures, also misc. style cleanups. All to align w/incoming page_buffering changes.
* Align w/incoming page buffering changes.Quincey Koziol2017-02-251-93/+25
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* Misc. style cleanups from the page_buffering branch.Quincey Koziol2017-02-181-411/+218
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* Simplify H5C__serialize_single_entry(), using H5C__generate_image()Quincey Koziol2017-02-021-20/+27
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* Cache image feature and testingQuincey Koziol2017-01-291-34/+231
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* Bring change to use array of metadata cache entry classes for H5C_createQuincey Koziol2017-01-281-71/+15
| | | | instead of array of class names from cache image branch.
* Switch list lengths to unsigned integers (to align better w/cache image merge)Quincey Koziol2017-01-281-115/+70
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* Commit Vailin's fix for the h5format_convert test failure.lrknox2017-01-261-0/+5
| | | | | | DAILYTEST-256 #2. Tested on emu, kituo, mayll, ostrich, and osx1011dev with previously failing test configurations.
* Bring changes to metadata cache "get entry status" call and newQuincey Koziol2017-01-061-16/+262
| | | | | "child serialized / unserialized" messages and support from the cache image branch.
* Bring file shutdown code from cache image branchQuincey Koziol2017-01-051-0/+181
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* Merge code from cache image branch to split FSM ring into two types: raw dataQuincey Koziol2017-01-041-7/+5
| | | | and metadata. Also, some more ring reset safeties and minor code cleanups.
* Remove 'const' from cache client pre_serialize callback, to reduce warnings,Quincey Koziol2017-01-031-3/+3
| | | | | and correspondingly remove 'const' from some internal routines. Also rename some H5MF* routines to reflect their static/package usage.
* Align with incoming cache_image branch changes: use the index list (instead ofQuincey Koziol2017-01-021-102/+133
| | | | | the hash buckets) for scanning the entries during a flush, and also add in counters for tracking operations during cache flushes.
* Bring support for doubly-linked list of all entries in cache from incomingQuincey Koziol2016-12-301-6/+15
| | | | cache image branch.
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