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feature/parallel_filters
* commit '56e5b4ed05fb3bad51c226ec5b567871a45e0bce': (112 commits)
updated AM_SILENT_RULES syntax
Added a check for AM_SILENT_RULES before enabling it.
Fix alignment
Fix vds tests
Correct result code for strings test
Add extension to filename
HDFFV-10128 fix string compare and add tests
Description: Only format changes: mostly tabs vs. spaces Platforms tested: Linux/64 (jelly) - very minor
Lowercase math and set CMake commands
Added "flush" and "refresh" to testflushrefresh.sh error output so it's easier to see where errors in the script occur.
Misc. small cleanups to sync against incoming page buffering changes.
Update CMake formatting
Update CMake files and formatting
Normalize against incoming page buffering changes.
HDFFV-10120 verify nozlib checking with tools tests
cmake non-code typo
Correct issues from pull request reviews.
Corrected version of 4b5e05c084f93c35dae946c2c9e814d565a613b0: Fix some more signed -> unsigned value issues with cache data structures, also misc. style cleanups. All to align w/incoming page_buffering changes.
Revert "Fix some more signed -> unsigned value issues with cache data structures, also"
Added virtual to list
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Adds /*out*/ parameters to H5O_close() and H5F_try_close() so
that H5D/G_close() will know when H5O_close() has triggered a
file close and thus the file struct is not reliable.
Also removes the H5F_CLOSING() macro and related which were
formerly used to check if the file was closing.
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the evict-on-close code in H5G_close() to H5D_close().
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- Fixed a missing line in H5Dint.c
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- Removed commented-out debug code from H5Dint.c
- Added blank lines to eliminate delta in a fortran file.
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Tested on jam, osx1010test, moohan, platypus, emu, kite, kituo, mayll, ostrich, quail.
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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)
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Bring metadata cache corking to trunk.
Tested on:
MacOSX/64 10.11.5 (amazon) w/serial, parallel & production
(h5committest forthcoming)
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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)
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Bring h5format_convert tool from revise_chunks branch to trunk.
Tested on:
MacoSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
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Add new files for repack tests.
Add repack tests for VDS files.
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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)
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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)
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Bring updated layout and EFL property comparisons and new "latest format"
flags from revise_chunks branch.
Tested on:
MacOSX/64 10.11.4 (amazon) w/serial, parallel & production
(h5committest forthcoming)
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Bring "don't filter partial edge chunks" capability from revise_chunks
to trunk.
Tested on:
MacOSX/64 10.11.4 (amazon) w/debug, production & parallel
(h5committest forthcoming)
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Corrects a problem where H5Dget_access_plist() returns a dapl that
does not contain all dapl fields.
Tested on: 64-bit Ubuntu 15.10 w/ gcc 5.2.1
autotools serial
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Tested on jam, ostrich, platypus, kite, quail, osx1010test, emu, mayll, moohan.
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external dataset storage path behavior.
This check-in fixes a bug in the original check-in where the
external path stored in the file struct was not copied on reopen
causing subsequent dataset operations to fail.
Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
autotools serial w/ fortran and C++
autotools parallel (MPICH 3.1.4) w/ fortran
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r29069 and 72 (gheap cleanup)
r29041 and 43 (HDFFV-8740 external storage)
These cause problems in the daily tests. They will be
re-introduced when their respective problems have been
addressed.
Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
autotools serial (check-vfd) w/ Fortran and C++
autotools parallel w/ Fortran
CMake serial
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metadata optimizations.
- rename H5AC_dxpl_id to H5AC_ind_read_dxpl_id and update all usage in the library
tested on bb-8 with parallel and serial.
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(H5_DEBUG_BUILD)
tested on bb-8 with Serial and Parallel, debug and production builds.
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specified
for external dataset files set via H5Pset_external().
Resolves HDFFV-8740
Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
autotools serial
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checks from metadata dxpls
- remove H5AC_ind_dxpl_id and use only H5AC_dxpl_id everywhere instead.
- remove flush_me_collectively flag from cache entries
- add a collective sanity check (MPI_Barrier) for every HDF5 API routine that could possibly touch the file. This is trigerred when the environment variable H5_COLL_API_SANITY_CHECK is set to a non 0 digit.
tested on BB-8 with serial and parallel.
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Bring over rest of performance improvements for extending chunked datasets
and normalize against revise_chunks branch.
Tested on:
MacOSX/64 10.11.2 (amazon) w/serial & parallel)
(h5committest forthcoming)
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Also purged obsolete /*ARGSUSED*/ from the library.
Tested on:
Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
serial only
(these changes have been in revise_chunks for a long time)
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Revisions to normalize revise chunks vs. trunk, plus push dataset metadata
changes into the cache immediately (instead of holding them within the dataset
data structures).
Tested on:
MacOSX/64 10.11.2 (amazon) w/serial & parallel
(h5committest not required on this branch)
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Normalization changes against revise_chunks branch.
Tested on:
MacOSX/64 10.11.1 (amazon) w/serial & parallel
(h5committest forthcoming)
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Tested on Ubuntu 15.04 (Linux 3.19 x86_64), gcc 4.9.2, MPICH 3.1.4
and CMake 3.3.2.
- Autotools serial w/ Fortran, C++
- Autotools parallel w/ Fortran
- CMake serial w/ Fortran, C++
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Add internal library callback to H5S_select_iterate to avoid having
to pass hid_t objects internally
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Sync w/trunk.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial & parallel
(h5committest not required on this branch)
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Refactor property list code to "deep copy" properties in the correct way,
retraining the rest of the library to copy & release things correctly. This
cleans up another batch of memory leaks, etc. within the library.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial & parallel
Linux/32 2.6.x (jam) w/serial & parallel
(h5committest forthcoming)
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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
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Bring in changes from the trunk, through r27628.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial
(h5committest not required on this branch)
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Align w/vds branch: Remove extraneous sieve buffer flush in chunk
flush callback, and move error check out of the middle of retrieving properties
for dataset.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial & parallel
(h5committest forthcoming)
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Protect dataset that's closing from being flushed again, if it's the last
one holding a file open.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial & parallel
(h5committest forthcoming)
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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)
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directory except
for those in H5Doh.c and H5Shyper.c.
Tested: ummon
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Add tests for this.
Other bug fixes/cleanup
Tested: Kubuntu 64 (home computer)
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datasets always
return TRUE when their is_alloc function is called.
Tested: ummon
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Implement support for H5Ocopy on VDS.
Testing for H5Ocopy on VDS.
Fix check-vfd failure.
Other minor fixes/cleanup.
Note there is a preexisting failure in h5repack testing.
Tested: ummon
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Tested on: 64-bit Ubuntu Linux VM w/ gcc 4.8.2
(C++ and Fortran 2003 also tested)
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* H5_ATTR_FORMAT(X,Y,Z) __attribute__((format(X, Y, Z)))
- Rename UNUSED attribute characterstic to H5_ATTR_UNUSED.
- Rename NORETURN attribute characterstic to H5_ATTR_NORETURN
tested with h5committest.
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Various bug fixes, including a temporary fix for printf with FIRST_MISSING view.
Other cleanup.
Tested: ummon
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Passes use case test, no regression tests yet.
Add functions H5Pset/get_virtual_printf_gap (not tested yet).
Other minor fixes/cleanup.
Tested: ummon
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Tested: ummon
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