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* Trim trailing whitespaceQuincey Koziol2020-04-20147-2473/+2473
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* Fixed some minor cmp callback bugs and cleaned warnings.Dana Robinson2020-04-171-3/+5
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* Fixed problems with S3 and HDFS VFDs.Dana Robinson2020-04-171-1/+6
| | | | | | * Updated info struct parameter to correct info_string * Fixed Makefile.am where the S3 VFD was listed twice, causing duplicated symbols errors.
* Merge pull request #2452 in HDFFV/hdf5 from ↵Jake Smith2020-04-1111-5/+4020
|\ | | | | | | | | | | | | | | | | | | | | | | ~JAKE.SMITH/hdf5:feature/vfd_splitter_mirror_a to develop Add Splitter VFD and Mirror VFD. * commit '664fc6af47e369152727ff66d68d8532feb0e210': Add enable-mirror-vfd flag to configure options. Tidying of Mirror VFD. Add function header comment for `mirror_writer:run_writer()`. Add Splitter VFD to library.
| * Merge branch 'develop' of ↵Jacob Smith2020-04-0721-370/+682
| |\ | | | | | | | | | https://bitbucket.hdfgroup.org/scm/~jake.smith/hdf5 into feature/vfd_splitter_mirror_a
| * | Tidying of Mirror VFD.Jacob Smith2020-04-072-8/+15
| | | | | | | | | | | | | | | | | | | | | * Rename server-stop utility to mirror_server_stop. * Remove external dependency on bzero(). * Modify test/use_common to use only the public API. * Rename internal bitswap macro to follow convention.
| * | Add Splitter VFD to library.Jacob Smith2020-03-1311-5/+4013
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * "Simultaneous and equivalent" Read-Write and Write-Only channels for file I/O. * Only supports drivers with the H5FD_FEAT_DEFAULT_VFD_COMPATIBLE flag for now, preventing issues with multi-file drivers. Add Mirror VFD to library. * Write-only operations over a network. * Uses TCP/IP sockets. * Server and auxiliary server-shutdown programs provided in a new directory, `utils/mirror_vfd`. * Automated testing via loopback ("remote" of localhost).
* | | Merge pull request #2502 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:develop_minor ↵Dana Robinson2020-04-093-20/+55
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | to develop * commit '35c0d5cdfcfaa84f59e1c596ba1ccaeb28e3d83d': Fix for passthrough VOL not passing tools tests due to incorrect optional callback queries.
| * | | Fix for passthrough VOL not passing tools tests due to incorrectDana Robinson2020-04-083-20/+55
| | |/ | |/| | | | | | | optional callback queries.
* | | Merge pull request #2496 in HDFFV/hdf5 from ↵Vailin Choi2020-04-081-3/+3
|\ \ \ | |/ / |/| | | | | | | | | | | | | | | | | ~VCHOI/my_third_fork:bugfix/dtype_close_on_error to develop * commit 'db9155c2f34bbf77a1cda01904805fe5c993b6d5': Fix according to PR feedback. Fix an error in previous merge: should use NULL instead of FAIL.
| * | Fix according to PR feedback.vchoi2020-04-071-1/+1
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| * | Fix an error in previous merge: should use NULL instead of FAIL.vchoi2020-04-071-2/+2
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* | | Update printf pointer syntax and revert fortran to f2003Allen Byrne2020-04-061-106/+106
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* | | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2020-04-062-2/+2
|\ \ \ | |/ / | | | | | | | | | | | | | | | * commit '4830a1796441abbb5a4fbd2cff9a651f2a0d066e': Updated tools dump output when dataset offset is undefined. Added checks for native optional call support in some of the tools. Misc changes for h5dump VOL changes.
| * | Added checks for native optional call support in some of the tools.Dana Robinson2020-04-021-1/+1
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| * | Merge branch 'develop' into tools_vol_updateDana Robinson2020-04-022-41/+92
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| * | | Misc changes for h5dump VOL changes.Dana Robinson2020-03-301-1/+1
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* | | | TRILAB-192 add c++ and fortran warnings build systems one fileAllen Byrne2020-04-051-6/+2
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* | | Merge pull request #2461 in HDFFV/hdf5 from ↵Vailin Choi2020-04-021-2/+12
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | ~VCHOI/my_third_fork:bugfix/dtype_close_on_error to develop * commit 'afdcac28b85d690eebc80ab568fa5266081baaaa': A fix in the cleaning up code for datatype when datatype initialization via H5D__init_type() fails. This is triggered by the tests for revised references when the libver bounds setting does not allow version 4 datatype message to be created. The test failure is abort core dumped. This is due to the datatype initialization fails before the datatype ID is registered. The datatype cleanup code should provide for the above situation. The code to fix the problem is the same as what is done in H5D__open_oid().
| * | | A fix in the cleaning up code for datatype when datatype initialization via ↵vchoi2020-03-231-2/+12
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | H5D__init_type() fails. This is triggered by the tests for revised references when the libver bounds setting does not allow version 4 datatype message to be created. The test failure is abort core dumped. This is due to the datatype initialization fails before the datatype ID is registered. The datatype cleanup code should provide for the above situation. The code to fix the problem is the same as what is done in H5D__open_oid().
* | | | Changed default dataset shared struct to initialize hid_t IDs toDana Robinson2020-04-021-0/+3
| | | | | | | | | | | | | | | | H5I_INVALID_HID.
* | | | Merge pull request #2363 in HDFFV/hdf5 from ~DYOUNG/werror:thread_id to developDavid Young2020-04-011-39/+77
|\ \ \ \ | |_|/ / |/| | | | | | | | | | | | | | | * commit '63c95faf49559ea66e3066427961095b69fdb213': Remove tongue-in-cheek credit for Rusty Shackleford and Dale Alvin Gribble. Follow HDF5 conventions.
| * | | Remove tongue-in-cheek credit for Rusty Shackleford and Dale Alvin Gribble.David Young2020-02-101-21/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Delete the comment questioning whether pthread_mutex_lock is allowed in a key destructor, since pthread_key_create(3) provides the answer: There is no notion of a destructor-safe function. If an application does not call pthread_exit() from a signal handler, or if it blocks any signal whose handler may call pthread_exit() while calling async-unsafe functions, all functions may be safely called from destructors. Delete redundant comment.
| * | | Follow HDF5 conventions.David Young2020-02-071-30/+89
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* | | | TRILAB-192 restrict extensive warnings to librariesAllen Byrne2020-03-241-0/+6
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* | | | Merge pull request #2445 in HDFFV/hdf5 from alloc_stats to developQuincey Koziol2020-03-238-212/+439
|\ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | * commit 'b51585a9110c4322c52f9dcdc60cd26c3ea44546': Revise API for H5get_alloc_stats() to take a struct instead of separate values. Add routines to query the library's free list sizes and allocation stats.
| * | | | Revise API for H5get_alloc_stats() to take a struct instead of separate values.Quincey Koziol2020-03-204-61/+33
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| * | | | Merge remote-tracking branch 'origin/develop' into alloc_statsQuincey Koziol2020-03-204-3/+17
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| * | | | Merge remote-tracking branch 'origin/develop' into alloc_statsQuincey Koziol2020-03-185-5/+23
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| * \ \ \ \ Merge remote-tracking branch 'origin/develop' into alloc_statsQuincey Koziol2020-03-121-5/+5
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| * | | | | Add routines to query the library's free list sizes and allocation stats.Quincey Koziol2020-03-108-212/+467
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* | | | | | Merge pull request #2402 in HDFFV/hdf5 from ↵David Young2020-03-231-1/+1
|\ \ \ \ \ \ | |_|_|_|/ / |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DYOUNG/werror:break-out-warnings to develop * commit '2f09d8f3c8a4a44932c1b8ffb0f6ea2219059a5c': Move the GNU warnings configuration under config/gnu-warnings/ and trim the filename prefixes. Update config/gnu-flags to suit. By default, demote warnings promoted to errors back to warnings. Incorporate the H5_ECFLAGS into the library CFLAGS. Now a bunch of errors will occur. Next commit will demote the warnings promoted to errors back to warnings again. Break out warnings into more files that autoconf and CMake can share. This change temporarily disables the warnings that were promoted to errors, but I will add those warnings back as warnings, not errors, in the next commit.
| * | | | | Incorporate the H5_ECFLAGS into the library CFLAGS. Now a bunch of errors willDavid Young2020-02-251-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | occur. Next commit will demote the warnings promoted to errors back to warnings again.
* | | | | | Fix shutdown errors when using the HDF5_VOL_CONNECTOR environmentDana Robinson2020-03-183-2/+16
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | variable to set a dynamically loaded plugin as the default VOL connector. Fixes HDFFV-11057
* | | | | | Merge branch 'develop' into develop_minorDana Robinson2020-03-185-5/+23
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| * | | | | Merge pull request #2451 in HDFFV/hdf5 from ↵Vailin Choi2020-03-165-5/+23
| |\ \ \ \ \ | | |_|_|/ / | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | ~VCHOI/my_third_fork:bugfix/develop_seg_fault_sel_compat to develop * commit '81b1ed4e1724b8a6a731ab2b8fb03234a8b49d15': Fix issues when deserializing point/all/none selection with version beyond the library's supported version: (1) Verify the decoded version before proceeding further with deserialization (2) Close the dataspace if errors occurred after opening the dataspace
| | * | | | Fix issues when deserializing point/all/none selection with version beyond ↵Vailin Choi2020-03-135-5/+23
| | | |/ / | | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | the library's supported version: (1) Verify the decoded version before proceeding further with deserialization (2) Close the dataspace if errors occurred after opening the dataspace
* | | | | Very minor comment change in H5VLconnector.h.Dana Robinson2020-03-121-1/+1
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* | | | Merge pull request #2378 in HDFFV/hdf5 from ↵David Young2020-03-121-5/+5
|\ \ \ \ | |/ / / |/| | | | | | | | | | | | | | | | | | | ~DYOUNG/werror:dont-crash-on-close to develop * commit '093c2c7e69bc4a40e9d49eece1d6fdcf54e8ecb0': Avoid a crash, don't check if we're flushing when the file is closing: there's no need to check if the metadata cache is flushing if we already know the file is closing, because the condition we rely on is "closing OR flushing." Further, the cache may have already gone away, so sometimes calling into the cache to see if it's flushing will crash the program.
| * | | Avoid a crash, don't check if we're flushing when the file is closing:David Young2020-02-131-5/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | there's no need to check if the metadata cache is flushing if we already know the file is closing, because the condition we rely on is "closing OR flushing." Further, the cache may have already gone away, so sometimes calling into the cache to see if it's flushing will crash the program.
* | | | Merge pull request #2351 in HDFFV/hdf5 from ↵David Young2020-03-052-6/+2
|\ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DYOUNG/werror:b-bye-HDpthread_self to develop * commit '224cb4a03406ed72e02d026efeab47fdf7f6b33b': Use a naked pthread_self() call in the HDF5 thread wrappers.
| * | | | Use a naked pthread_self() call in the HDF5 thread wrappers.David Young2020-02-062-6/+2
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* | | | Fix incorrect FUNC_LEAVE macro (should match FUNC_ENTER_*_TAG).Jacob Smith2020-02-282-3/+3
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* | | | Switch the 'get offset' operation from a dataset 'get' callback to a [native]Quincey Koziol2020-02-285-37/+21
| |_|/ |/| | | | | | | | dataset 'optional' operation.
* | | TRILAB-142 Change minimum CMake version to 3.12Allen Byrne2020-02-211-1/+1
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* | | Merge developJordan Henderson2020-02-21208-6115/+17611
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| * | | Replace the old H5F_DECODE_LENGTH() implementation with one thatDavid Young2020-02-191-1/+1
| | | | | | | | | | | | | | | | initializes the variable it's loading on every path.
| * | | Merge pull request #2367 in HDFFV/hdf5 from ~DYOUNG/werror:unused to developDavid Young2020-02-198-23/+53
| |\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit '50aac126d7c4082c2aeb0f3a68cad26bd1cd9783': Start to document the function/parameter/variable attribute macros. Filter all of the new _USED / _UNUSED type modifiers. H5_HAVE_PARALLEL, _DEBUG_API, etc. Add attributes to some variables and parameters that are unused under some configurations.
| | * | | H5_HAVE_PARALLEL, _DEBUG_API, etc. Add attributes to some variables andDavid Young2020-02-108-23/+53
| | |/ / | | | | | | | | | | | | parameters that are unused under some configurations.
| * | | Merge pull request #2369 in HDFFV/hdf5 from ~DYOUNG/vs2010:develop to developDavid Young2020-02-173-13/+41
| |\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Merged per discussion with Elena. * commit 'b4697f969295245840350e17d75d92a0fdd7e7a9': Use HD prefix. Delete unhelpful comment per Jordan's question. Make sure that H5TS_thread_id() is available as either a function or a macro in all configurations. Provide local copies of err(3)- and errx(3)-alike functions for Visual Studio compatibility. Provide C99/POSIX.1 format strings PRI[doux]{8,16,32,64,MAX,PTR} on systems that are missing <inttypes.h>.
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