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714 Commits
Author SHA1 Message Date
Jerome Soumagne 49fe497201 Revert "Merge branch 'hdf5_1_12' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into hdf5_1_12" 
This reverts commit 9f9336a5bd, reversing
changes made to 437a1919e7.
 2019-12-09 12:16:52 -06:00
Richard Warren 0c06cfc6ef Merged HDFFV-10929_2GB_testing to hdf5_1_12 2019-12-06 16:42:36 -05:00
Jerome Soumagne dabdcf9559 Add new H5R API that abstracts object, region and attribute reference types 
Also support references to external files

Add new H5T_REF type and type conversion routines

Support conversion from H5T_REF_OBJ/DSET_REG to H5T_REF

Add H5Treclaim() API to reclaim memory of vlen/reference types

Deprecate H5Dvlen_reclaim()

Fix H5T_vlen_reclaim() and H5T_reclaim() to use private callback

Add H5T_ref_reclaim()

Move previous H5R APIs to H5Rdeprec.c

Clean up H5Ocopy

Separate H5O_copy_expand_ref() to H5Ocopy_ref()

Add support for copying new reference types

Clean up deprecated routines to go through VOL and same code path

Fix return codes in existing trefer.c test

Rename trefer.c to trefer_deprec.c

trefer.c is for new references

Add performance test for trefer

Add additional obj_copy_ref test

Make use of tokens and blobs to store references

Skip blob encoding for object references

Start adding new reference examples
 2019-10-08 15:19:21 -05:00
Jerome Soumagne 1b766420f1 Fix H5VL_blob_get to return size of blob 
Fix const in blob API

Add H5HG_HEAP_ID_SIZE macro to return native blob size

Add maximum size for blobs

Fix blob API callbacks to pass VOL file object

Add public wrappers for blob VOL API

Implement passthrough blob callbacks

Update H5Tvlen after callback changes

Update trace information for H5VL blob routines

Fix public header inclusion in native and passthru headers
 2019-10-08 15:18:34 -05:00
Allen Byrne b6f9fcaec5 Cleanup whitespace and comments compared to develop 2019-10-02 09:22:11 -05:00
Dana Robinson 5b6bd7c922 Added the map (H5M) API 2019-08-13 01:36:42 -07:00
Larry Knox c3c044cc00 Escape { and } in regex as required by sh in updated cori.nersc.gov. 
Tested change on jam, jelly, emu, ostrich and osx1011test.
 2019-08-07 11:51:06 -05:00
Larry Knox 8008294578 Squashed commit of the following: 
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
 2019-07-25 11:47:12 -05:00
Quincey Koziol db7c43d375 Updates to warnhist script, along with a few cleanups, and add some comments 
to warning cleanups that are a bit obscure.
 2019-07-09 22:15:36 -05:00
Quincey Koziol 43aa32ff4f Cleaned up code that genericizes warning output, and add "-u" option to 
leave unique types in warnings (i.e. don't genericize output).  Also fixed
the '-S' option to work correctly.
 2019-07-05 13:31:38 -05:00
Quincey Koziol 3b594992d6 Add support for GCC9, update warnhist script, and clean up warnings. 2019-07-02 23:43:45 -05:00
Quincey Koziol d5130bb573 Updated configure & CMake compiler flags for GCC 8.x, along with corresponding 
changes to warnhist script (and some extra improvements for condensing C++
and Java warnings), and fixed a bunch of warnings.
 2019-06-28 09:10:43 -05:00
Quincey Koziol 1ccbdfee58 Add support for GCC 7.x warnings, update warnhist script to account for them, 
clean up warnings.
 2019-06-21 10:05:34 -05:00
Dana Robinson 72dd01b76b Added a warning summary script for gcc to bin 2019-06-17 13:35:08 -07:00
Larry Knox 3dfc80a28a Moved h5cc.in and h5redeploy.in from tools/misc to bin directory. They 
should always be built and installed whether tools are enabled or
disabled.  Also added Makefile.am to bin to build h5redeploy and
to install and uninstall them.  h5cc is created from h5cc.in by
configure.
 2019-06-14 10:47:09 -05:00
M. Scot Breitenfeld 6546c764d3 updated -E option 2019-05-10 16:07:12 -05:00
M. Scot Breitenfeld 44fdc3bf96 remove -M option 2019-05-10 15:45:47 -05:00
M. Scot Breitenfeld 19d2cea9ae added -M HPC to ctest command 2019-05-10 14:34:56 -05:00
M. Scot Breitenfeld cf6f2f039d Adding cross-compilation for theta (ANL) and qsub (COBALT) batch controls. 2019-05-09 16:45:22 -05:00
Larry Knox df35529e3d Putting ctest command in variable CMD did not work for skipping failing 
tests.
 2019-05-06 16:38:38 -05:00
Dana Robinson ff51724bdb Renamed the autotools check-vol target to check-passthrough-vol. 2019-04-11 10:46:22 -07:00
Dana Robinson 32ea4e72f1 Merge branch 'develop' into c_stdlib_posix_call_cleanup 2019-02-19 14:49:20 -08:00
Larry Knox f69e11efa8 Remove ' ' (typo). 2019-02-16 19:02:44 -06:00
Allen Byrne 6f71b2cdcf Refactor mpi test names 2019-02-11 12:42:46 -06:00
Allen Byrne edcbc9966f Refactor parallel test names 2019-02-11 12:01:25 -06:00
Larry Knox 6c2a4b728f Add LOCAL_BATCH_SCRIPT_ARG variable for submitting account information 
and other batch command variations with ctest command.
 2019-02-04 08:46:57 -06:00
Larry Knox c348d453b5 Correct H5DIFF to PH5DIFF in *ctestS.sl.in.cmake list of parallel tests 
reserved for *ctestP.sl.cmake.
Revise options to run batch tests and alternative options for cross
compile in HPC/*-HDF5options.cmake.
 2019-02-02 08:02:48 -06:00
Larry Knox cc7ce0eb8b Change examples file to zip for CMake zip file. 2019-02-01 12:19:28 -06:00
Larry Knox eb84f922c8 Update bin/release for filename changes and HPC-CMake tar file 
corrections.
 2019-02-01 10:21:53 -06:00
Larry Knox 5352bf4971 Add new files to MANIFEST. 
Update permissions for raybsub to 755.
 2019-02-01 08:57:52 -06:00
Larry Knox bae744199b Add more specific batch scripts. 
Add script raybsub to handle submitting .lsf files on ray with bsub <
script.lsf syntax that we couldn't handle with CMake.
Add hpc-cmake-tgz option for bin/release.
 2019-01-31 14:22:52 -06:00
Larry Knox 252beb50b6 Account info can be submitted as an argument to run the batch scripts. 
Special versions for sandia are not needed.
 2019-01-28 12:52:14 -06:00
Larry Knox cee36ca40d Remove knl configuration from ctestS.sl.in.cmake. 
Add sandia batch files with account info.
 2019-01-27 17:55:44 -06:00
Larry Knox b91cb20c69 Add batch files with batch parameters specific to cori and ray. 
Release.txt entry for skipping long double dt_arith tests on ppc64.
 2019-01-26 16:44:09 -06:00
Dana Robinson 536a32c59b C and POSIX call cleanup 2019-01-10 17:51:42 -08:00
Larry Knox 25fe692c5c Configure build directory in batch scripts. 2019-01-05 07:49:19 -06:00
Larry Knox 72124031ec Add libhdf5_hl_fortran symlinks for libhdf5hl_fortran files. 
Set ctest*.lsf.in.cmake scripts for sierra.
Correct src/CMakelists.txt syntax error.
 2018-12-31 09:20:27 -06:00
Larry Knox 126d1e6176 Add .lsf batch scripts and insert the build directory into the scripts 
during configuration.
 2018-12-28 16:50:48 -06:00
Quincey Koziol d442fe2d98 Add support for "make check-vol", along with a few minor cleanups, etc. 2018-11-28 19:07:30 -06:00
Quincey Koziol 2db4b6df13 Update API tracing info for VOL functions and regenerate trace macros for VOL 
API calls.
 2018-11-28 10:22:29 -06:00
Quincey Koziol f9b625ef5d Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into stackable_vol 2018-11-21 23:13:04 -06:00
Larry Knox 6cbd463d41 Add script and changes to wait for H5Tinit.c 
Add more sample batch scripts, specifically for sbatch, not for knl
cross compile.
Don't run parallel tests when no parallel test script is configured in
HDF5options.cmake.
 2018-11-14 11:19:28 -06:00
Quincey Koziol ca1b9025fe Switch switch remainder of API routines to use VOL callbacks. 2018-11-10 11:54:20 -06:00
Quincey Koziol ef9ffc630a Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into stackable_vol 2018-11-06 10:44:17 -06:00
hdftest be0d6b206a Update HDF5-Examples version to be included in CMake-* tar/zip files. 2018-11-05 12:40:04 -06:00
Quincey Koziol deb75622ca Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into stackable_vol 2018-11-04 00:25:36 -05:00
Larry Knox f031cc7b7a Add script to run tests with sbatch when not cross compiling. 
Add new files to MANIFEST.
 2018-10-29 16:17:10 -05:00
Larry Knox b24259ed8c Add files and changes to cross compile with CrayLinuxEnvironment and run 
ctest tests with a batch job on knl compute nodes.
 2018-10-29 14:24:08 -05:00
Quincey Koziol 50dd616eb5 Correct error with parsing of "FUNC_ENTER_API_NOINIT" 2018-10-27 17:38:32 -05:00
Dana Robinson e962df1591 VOL FEATURE 2018-10-10 08:10:15 -07:00