* commit 'bf570b1a7ca3b9cbd4a59f0933a19ce1bcc99103': (71 commits)
Amend tests to explicitly use H5Dcreate2 and H5Dopen2
Revert malloc's back to using hard-coded type for sizeof
Minor comment refactoring
Update documentation
Finish up Parallel Compression test scaling work
Partial update for scaling parallel filters tests
Modify t_dset.c in lieu of Parallel Compression changes
Updated H5C__flush_single_entry() in H5C.c to correct duplicate metadata write bug observed in 1.10.1.
Amend MANIFEST
Add test for write parallel; read serial case
Fix uninitialized array issue in test
Test updates
Fix bug where incorrect amount of data was being read from the file
Add data verification for first half of tests
Start adding data verification
Switch tests over to use testing macros
Updates to parallel filters tests
Move test files to testpar directory
Add test file to build process
Suggested changes from code review
...
* commit '593e4038b3ab474a47e468bb3478d4ae3a6820e6':
Fix for daily test failure Fix for the compilation error from the PGI compiler.
Modifications based on comments from pull request review (1) Remove unnecessary asserts (2) Add code to insert bad offset values to the test file in gen_bad_offset.c
HDFFV-10188 force non-native type description
HDFFV-10188 emu insists on printing non-native description
Fix for HDFFV-10216 segfault in H5G_node_cmp3 with corrupt h5 file Fix H5HL_offset_into() to return error when offset exceeds heap data block size. Also fix other places that call this routine to detect error return.
HDFFV-10188 fix typo
HDFFV-10188 add missing copy commands
HDFFV-10188 Add tests and files
HDFFV-10188 enable null space test
HDFFV-10188 add release note
HDFFV-10188 - Check for empty string first
HDFFV-10188 error on NULL dataspace
* commit '1ef8577a4aaaa4120a819ff36747fdca99abdc26':
Modifications based on comments from pull request review (1) Remove unnecessary asserts (2) Add code to insert bad offset values to the test file in gen_bad_offset.c
Fix for HDFFV-10216 segfault in H5G_node_cmp3 with corrupt h5 file Fix H5HL_offset_into() to return error when offset exceeds heap data block size. Also fix other places that call this routine to detect error return.
* commit '59e94f5009a1f738d9924be942448f8cf6355b00':
Add h5repack tests for paged aggregation Add tests to h5repack.sh.in to verify options added for paged aggregation work as expected.
over.
Brings coding standards in line with the rest of the library,
enforces better software engineering principles, and makes
everything more maintainable.
* 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.
Deposit the test files in test/misc/testfiles for testh5clear.sh to use instead of depending on h5clear_gentest.
Tested on kituo, osx1010test, quail, platypus and ostrich.
* commit '2412158ed8326a3f3d62fbd947e470667d0b5951':
Add new file COPYING_LBNL_HDF5.
Revert "Clear hdf5 1.10 entries from RELEASE.txt in the develop branch. Entries"
Add LBNL license file and modify COPYING file accordingly.
Omnibus checkin for several relatively minor modifications:
Clear hdf5 1.10 entries from RELEASE.txt in the develop branch. Entries in this branch version of RELEASE.txt should be intended for the future 1.12.0 release.
Fix HDFFV-8089 Description: Some code within an "ifdef H5D_CHUNK_DEBUG" block was using outdated data structure but not caught because the case of H5D_CHUNK_DEBUG being defined was never tested. It was commented out. I defined H5D_CHUNK_DEBUG, tested, and commented out again. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* commit 'b2878dec04c120e4e3cdf00e943283e359862c84':
Move cache debugging routines into separate module.
Change file memory type for extending to default, and correct error in backward compatibility for multi VFD.
Warning and whitespace cleanup.
Improvements to the log VFD, for helping with SWMR debugging.
Minor code cleanups.
Uncomment line in test/objcopy.c, clean up whitespace and POSIX call wrapping in tools code.
git mirror or the hdf5 repository prior to the manual migration of the
hdf5 svn repository to the git repository in bitbucket.
Added entries to MANIFEST for the 2 new files.
The features is controlled via H5Pset/get_evict_on_close()
and is currently enabled by default (it will be disabled
by default in the final implementation).
There is a bug in the code where the eviction of tagged
metadata fails due to some of the metadata being dirty,
resulting in error return values and test failures.
Bring object/dataset/group/named datatype features from revise_chunks
branch to trunk. Also CMake support for h5format_convert and a bunch of
misc. cleanups.
Tested on:
MacOSX/64 10.11.5 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Extract query routines into separate source module.
Tested on:
MacOSX/64 10.11.5 (amazon) w/serial & parallel
(h5committest not required on this branch)
Bring r29934 from revise_chunks branch to trunk:
(1) Fix for HDFFV-9434: throw an error instead of assertion when v1 btree level hits the 1 byte limit.
(2) Modifications to better handle error recovery when conversion by h5format_convert fails.
Tested on:
MacOSX/64 10.11.5 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Bring h5format_convert tool from revise_chunks branch to trunk.
Tested on:
MacoSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Bring H5LD* routines from revise_chunks branch to trunk.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Bring H5DOappend(), H5P[s|g]et_object_flush_cb, and H5P[s|g]et_append_flush
from revise_chunks branch to trunk. Brings along updated metadata cache
entry tagging, and the internal object flush routine.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Minor rearrangements, to align with revise_chunks branch
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Bring over some of the tool testing for the new chunk indices.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Bring 'none' chunk index from revise_chunks branch to trunk.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production (w/check-vfd)
(h5committest forthcoming)
Bring "single" chunk index from revise_chunks branch to trunk.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production (w/check-vfd)
(h5committest forthcoming)
Bring over more dataset tests from the revise_chunks branch.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
Bring support for earray and v2 B-trees from revise_chunks branch to
trunk.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
bin/release uses the content of MANIFEST file to build the release tarball. But all the files generated by autogen had been removed. Therefore the release would not contain those needed generated files for a proper release.
Solution: Added all those generated files to the tail of MANIFEST and titled it accordingly. (Somehow bin/chkmanifest does not complain against these entries though they are not svn managed. This needs further investigation.)
Test: bin/release generated the release tarball in jam, then use it in Platypus to do a full build (--enable-fortran --enable-cxx). All passed.
This was giving a lot of users headaches and the parser code rarely
changes. There is now a new script (bin/genparser) which can be
run as needed.
Tested on: Ubuntu 15.10 (x86_64 Linux 4.2.0)
gcc 5.2.1, flex 2.5.39, bison 3.0.2
compatible between 32 and 64 bit systems.
Expand cross platform property list encode/decode testing.
Fix warning in H5P__fill_value_enc.
Tested: jam, koala, ostrich (h5committest), ummon
NOTES:
- Developers will have to run autogen.sh before building with the autotools.
- autogen.sh takes the -p option to mimic the old bin/reconfigure behavior.
- The generated error, overflow and version headers have been left in place.
- The generated H5LT parser code has also been left in place.
- There are no changes for CMake users at this time.
Tested on: h5committest
Removes .pl extension from Perl scripts. This may be returned in the future,
but it's best to keep the script names unchanged while we merge with the
trunk.
Tested on: h5committest
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
Updates to older special config files in configure.ac:
- solaris2.x renamed to solaris. There are recent changes to this file
but the "2.x" is misleading since the changes are applied to all
versions.
- Removed support for OSF 4.x/5.x (Digital and Tru64 Unix). We no
longer have the config files for these.
Tested on: h5committest
gen_* files in test/. These files will remain distributable since
they are needed if a user specifies --enable-build-all.
Fixes HDFFV-8236
Tested on: jam (bin/chkmanifest only)
Align w/vds branch: Whitespace cleanup, move common code for opening a
dataset into a new routine, misc. style cleanups.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial & parallel
(h5committest upcoming)
The only remaining code consists of a few floating-point tests
that rely on pre-generated and checked-in VMS files. These have
been left alone, even though they will not be possible to
recreate, since testing VMS float behavior is still important.
Tested on: h5committest
Split parallel metadata cache code into separate source code modules.
Tested on:
MacOSX/64 10.10.3 (amazon) w/serial & parallel
(too minor for h5committest)
