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* Some refactoring prior to implementing new H5P MPI functions.Dana Robinson2019-08-141-0/+1
| | | | | | * Macro cleanup and obvious warning fixes in parallel code. * Moved H5FD comm and info dup/free wrapper code to a new H5mpi.c file and separated it to deal with each MPI type separately.
* Added the map (H5M) APIDana Robinson2019-08-131-0/+7
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* Merge reconciliation and VFD test fixesAllen Byrne2019-08-041-0/+1
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* Reverts the removal of config/conclude_fc.am while keepingDana Robinson2019-08-011-0/+1
| | | | the changes to config/gnu-fflags.
* Fixed the MANIFESTDana Robinson2019-07-301-1/+1
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* Merge pull request #1808 in HDFFV/hdf5 from ↵Dana Robinson2019-07-291-1/+0
|\ | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:gnu-flags-work to develop * commit '7d291d059da6287f769951c4854c566da0b93ce8': Parallel Fortran tests now use the MPI module instead of including mpif.h. First stab at gfortran versions. Tested on gfortran 7-9 so far. Moved the -std=f2008 option to gfortran 9 for now. Updated gfortran options. * Removed conclude_fc.am, which was causing verbose builds. Need to investigate more, though. * Added gfortran 9 warnings and flags. This will need to be separated into other version blocks based on when the options first appeared. * The standard is now explicitly set at 2008.
| * Updated gfortran options.Dana Robinson2019-07-171-1/+0
| | | | | | | | | | | | | | | | * Removed conclude_fc.am, which was causing verbose builds. Need to investigate more, though. * Added gfortran 9 warnings and flags. This will need to be separated into other version blocks based on when the options first appeared. * The standard is now explicitly set at 2008.
* | Squashed commit of the following:Larry Knox2019-07-251-0/+22
| | | | | | | | | | | | | | | | | | | | | | Merge changes from update_merged_S3_HDFS branch into develop. commit d5034315aea88629929ac0c9c59ebfafd5f21a31 Merge: 9c48823 d3fdcd8 Author: Larry Knox <lrknox@hdfgroup.org> Date: Thu Jul 25 08:24:53 2019 -0500 Merge branch 'develop' into update_merged_S3_HDFS
* | HDFFV-10845 add support for mingw toolchainAllen Byrne2019-07-171-0/+1
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* Add support for GCC9, update warnhist script, and clean up warnings.Quincey Koziol2019-07-031-0/+1
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* HDFFV-9407 Add testAllen Byrne2019-06-241-0/+1
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* HDFFV-10805 Add option to only build shared targetsAllen Byrne2019-06-181-2/+0
| | | | | HDFFV-10805 Add ONLY_SHARED_LIBS option and prefer shared over static HDFFV-10803 Update FindSZIP.cmake find module Remove unneeded modules and update java modules
* Added a warning summary script for gcc to binDana Robinson2019-06-171-0/+1
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* Merge pull request #1729 in HDFFV/hdf5 from ↵Vailin Choi2019-06-171-0/+1
|\ | | | | | | | | | | | | | | ~VCHOI/my_third_fork:bugfix/HDFFV-10800-h5ocopy-failure to develop * commit 'dfdc27b04b2e8bcd1985ba90ce6553d8b3805fda': Fix release notes based on feedback from pull request. Fix for HDFFV-10800 H5Ocopy failure: The value for the H5F_LIBVER_V18 index in H5O_fill_ver_bounds[], the format version bounds array for fill value message, should be version 3 not 2.
| * Fix for HDFFV-10800 H5Ocopy failure:Vailin Choi2019-06-121-0/+1
| | | | | | | | | | The value for the H5F_LIBVER_V18 index in H5O_fill_ver_bounds[], the format version bounds array for fill value message, should be version 3 not 2.
* | Merge pull request #1738 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to developLarry Knox2019-06-151-2/+4
|\ \ | | | | | | | | | | | | * commit '6c3f90ae222a8d4e8d8edf172a6745028209b75c': Update MANIFEST for move of h5cc.in and h5redeploy.in to bin directory.
| * | Update MANIFEST for move of h5cc.in and h5redeploy.in to bin directory.Larry Knox2019-06-151-2/+4
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* | | Merge branch 'develop' into vol_dev_headersDana Robinson2019-06-141-2/+3
|\ \ \ | |/ / | | | | | | | | | Also moved the wrapper functions from the H5VLconnector.h to H5VLconnector_passthru.h
| * | Merge pull request #1708 in HDFFV/hdf5 from ~BRTNFLD/hdf5_msb:H10621 to developScot Breitenfeld2019-06-121-1/+2
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit '0742c15fca95965ed4eb87c6d54f41bb07bd4526': makefile clean-up move the vol_info to an optional parameter added H5Pset_vol added vol connector added test for vol_connector removed H5VL constants removed VOLL NULL connector and replaced it with native VOL added connector_name test added missing files add tests added more tests added missing files Implemented VOL APIs and C constants, no tests Implemented VOL APIs and C constants, no tests initial API impl.
| | * | removed VOLL NULL connector and replaced it with native VOLM. Scot Breitenfeld2019-05-161-1/+1
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| | * | Merge branch 'develop' into H10621M. Scot Breitenfeld2019-04-241-2/+10
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| | * \ \ Merge branch 'develop' into H10621M. Scot Breitenfeld2019-03-071-44/+115
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| | * | | | Implemented VOL APIs and C constants, no testsScot Breitenfeld2018-12-071-0/+1
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| * | | | | Modified Makefile.ams for h5repack, h5watch and gif2h5 to allowLarry Knox2019-06-121-1/+1
| | |_|_|/ | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | disabling tests. Moved h5cc.in from tools/src/misc to src directory to always create h5cc whether or not tools are enabled. Added configuration status of tools and tests to libhdf5.settings.
* | | | | Split VOL connector routines into separate headers:Dana Robinson2019-05-241-0/+2
|/ / / / | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * H5VLconnector.h for terminal connector things * H5VLconnector_passthru.h for passthrough connector things Note that these headers are arranged such that they are included in hdf5.h so VOL connectors only need to include that. The separation into multiple headers is mainly for readability.
* | | | added -M HPC to ctest commandM. Scot Breitenfeld2019-05-101-4/+0
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* | | | Adding cross-compilation for theta (ANL) and qsub (COBALT) batch controls.M. Scot Breitenfeld2019-05-091-0/+2
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* | | Merge pull request #1600 in HDFFV/hdf5 from ↵Ray Lu2019-04-181-0/+6
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~SONGYULU/hdf5_ray:HDFFV-10658-performance-drop-from-1-8 to develop * commit 'b5ef82a1786605ae86502bc82086047720b7d4ca': (21 commits) Moving the handling of null prefix into H5_combine_path. Changing the prefix of external file and VDS from empty string to null for performance improvement. Improving the condition checking of empty string. Replacing string operation strdup with assignment for empty string. Adding back links_env.out which I accidentally removed in my previous commit. Taking out two unnecessary diff output files. Taking out unnecessary diff files for output. Adding some comments. Some coding style changes. Adding the standard output files for the external_env.c and vds_env.c tests. Small correction for my previous commit. Forgot to add external_common.c and external_common.h. Updated CMake for the splitting of external.c and vds.c. Minor fix: removal of unnecessary enum values. Minor fixes: updating the test vds_env.c according to the set up of vds.c. Left out this file in previous commit. HDFFV-10658 - setting and getting properties in API context: 1. switched to use the existing H5F_prefix_open_t for enum type; 2. put the common private function used by external.c and external_env.c into external_common.c This commit basically has the following changes: 1. restored the datatype, dataspace, and LCPL of the dataset for VOL connector back to the properties. 2. splitted external.c and vds.c because they called HDsetenv in the program, instead using shell scripts to set the environment variables. 3. changed H5CX_get_vds_prefix and H5CX_get_ext_file_prefix to use H5P_peek instead of H5P_get. HDFFV-10658: I left out this file in my previous commit. HDFFV-10658: 1. moving HDgetenv to dataset initialization stage to reduce the overhead; 2. restoring the retrieval of three vol properties to H5P_get instead of using API context to prepare for Quincey's upcoming refactoring work. ...
| * | | Some coding style changes.Songyu Lu2019-04-111-0/+2
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| * | | Merge branch 'develop' of ↵Songyu Lu2019-04-091-0/+1
| |\ \ \ | | | | | | | | | | | | | | | https://bitbucket.hdfgroup.org/scm/~songyulu/hdf5_ray into HDFFV-10658-performance-drop-from-1-8
| * | | | HDFFV-10658 - setting and getting properties in API context:Songyu Lu2019-04-091-0/+4
| | | | | | | | | | | | | | | | | | | | | | | | | 1. switched to use the existing H5F_prefix_open_t for enum type; 2. put the common private function used by external.c and external_env.c into external_common.c
* | | | | Renamed the HDF5_TEST_VOL option to HDF5_TEST_PASSTHROUGH_VOL.Dana Robinson2019-04-111-1/+1
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* | | | HDFFV-10365: Changes as described in the RFC: H5Sencode/H5Sdecode Format Change.Vailin Choi2019-04-061-0/+1
|/ / / | | | | | | | | | This also addresses HDFFV-10255: H5Sencode/decode performance issue.
* | | Fixed the MANIFESTDana Robinson2019-03-071-1/+2
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* | Fixes for JNI updatesJordan Henderson2019-02-121-0/+26
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* | CMake script changes to simplify executionAllen Byrne2019-02-081-2/+5
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* | Remove obsolete fileAllen Byrne2019-02-061-1/+0
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* | Add new files to MANIFEST.Larry Knox2019-02-011-0/+10
| | | | | | | | Update permissions for raybsub to 755.
* | Added data file for test and updated MANIFESTBinh-Minh Ribler2019-01-251-0/+1
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* | Fixed the MANIFESTDana Robinson2019-01-091-6/+6
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* | Add PGI toolchainAllen Byrne2019-01-021-0/+1
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* | Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Vailin Choi2019-01-021-6/+10
|\ \ | | | | | | | | | | | | | | | | | | | | | develop Resolve conflicts: Conflicts: test/Makefile.am
| * \ Merge pull request #1400 in HDFFV/hdf5 from ↵Dana Robinson2018-12-311-0/+1
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:openmpi_tweaks to develop * commit 'd6c2a96ac2f103d90b96d5b39814810e6a31ef99': Updated the parallel install docs. Eliminated the need for a separate script variable. Added a helpful message to the flush script. Added a shell script so we can run the parallel flush test on OpenMPI.
| | * \ Merge branch 'develop' into openmpi_tweaksDana Robinson2018-12-311-1/+20
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| | * | | Added a shell script so we can run the parallel flush testDana Robinson2018-12-201-0/+1
| | | | | | | | | | | | | | | | | | | | on OpenMPI.
| * | | | Merge branch 'develop' into yay_pluginsDana Robinson2018-12-281-1/+3
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| * | | | Added a simple test for registration of VOL connector plugins.Dana Robinson2018-12-271-6/+9
| | | | | | | | | | | | | | | | | | | | | | | | | Autotools only for right now, but this will be fleshed out in future work.
* | | | | Changes based on feedback from pull request.Vailin Choi2018-12-311-2/+2
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* | | | | Fix for HDFFV-10659: The library abort with "infinite loop closing library"Vailin Choi2018-12-281-1/+2
| |/ / / |/| | | | | | | | | | | | | | | | | | | | | | | | | | | 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 branch 'develop' into md_cache_logging_squashDana Robinson2018-12-281-0/+5
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