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* [svn-r15561] Description:Quincey Koziol2008-08-292-76/+755
| | | | | | | | | | | | | | | | | | | | | | | | | | Update extensible array code with function to open an existing earray, add more tests and avoid running the test when core/split/family/multi VFDs are used. Clean up fractal heap test code a bit and expand some of the tests a little bit also. Tested on: Mac OS X/32 10.5.4 (amazon) in debug mode Mac OS X/32 10.5.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15550] Description:Quincey Koziol2008-08-281-150/+189
| | | | | | | | Clean up compiler warnings and code a bit. Tested on: Mac OS X/32 10.5.4 (amazon) Too minor to require h5committest
* [svn-r15549] Description:Quincey Koziol2008-08-284-82/+472
| | | | | | | | | | | | | | | | | | | | | | | | | | | Initial checkin of extensible array data structure prototype code and regression tests. Initial definitions for revised FUNC_ENTER/LEAVE and error reporting macros, which are being vetted in the extensible array code. Minor warning and formatting cleanups in other sections of code. Tested on: Mac OS X/32 10.5.4 (amazon) in debug mode Mac OS X/32 10.5.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15515] Fix faulty error checking in call to H5I_remove().Neil Fortner2008-08-211-0/+2
| | | | | | Add prototype to the top of app_ref.c to suppress warning. Tested: kagiso
* [svn-r15505] Change the names of some macros in app_ref.c to prevent ↵Neil Fortner2008-08-211-6/+6
| | | | | | warnings on Windows. Tested: kagiso
* [svn-r15502] Description:Quincey Koziol2008-08-211-9/+9
| | | | | | | | Clean up warnings. Tested on: Mac OS X/32 10.5.4 (amazon) Too minor to require h5committest
* [svn-r15488] Description:Quincey Koziol2008-08-191-0/+14
| | | | | | | | | Fix bug where library could core dump when an invalid location ID was passed to H5Giterate() (and add test for this case). Tested on: Mac OS X/32 10.5.4 (amazon) Too minor to require h5committest
* [svn-r15485] Purpose: Allow library to shut down properly when objects have ↵Neil Fortner2008-08-193-15/+221
| | | | | | | | | | | | | | | | reference count > 1. Description: Added a new field 'app_count' to H5I_id_info_t struct, to track the reference count on an id due to the application. the old 'count' field tracks the total. Generally any id visible to the application gets placed in app_count. Added app_ref boolean parameter to H5I_inc_ref, H5I_dec_ref, H5I_register, H5I_clear_type, and a few other functions, to specify whether the operation(s) being performed on the id(s) are due to the application (TRUE) or not (FALSE). Test added for this case. Tested: kagiso, smirom, linew (h5committest)
* [svn-r15472] Description:Quincey Koziol2008-08-141-11/+11
| | | | | | | Correct H5Dopen to H5Dopen2 in error printf Tested on: None, just eyeballed, very trivial.
* [svn-r15451] Purpose: Fix various problems that were occurring when using ↵Neil Fortner2008-08-071-7/+292
| | | | | | | | | | | | | | | | mounted files. Description: Moved mount table from top file structure to shared file structure. Moved parent out of mount table and back into top file structure. Mounted files can now be accessed from any handle of the parent file. Changes to how files are closed. Stricter cycle checking on mounted files. Removed unused function H5F_has_mount(). Tested: committest in 1.8 branch. Committing now due to the urgency of the fix. No changes here are specific to the trunk, but I will keep an eye on the daily tests.
* [svn-r15395] When an attribute was opened twice and data was written with ↵Raymond Lu2008-07-225-5/+826
| | | | | | | | | | | one of the handles, the file didn't have the data. It happened because each handle had its own object structure, and the empty one overwrote the data with fill value. This is fixed by making some attribute information like the data be shared in the attribute structure. Tested on smirom, kagiso, and linew.
* [svn-r15367] Description:Quincey Koziol2008-07-151-2/+137
| | | | | | | | | | | | | | | | Add check to avoid mounting the a file on a group twice, then the mounts are done on the same HDF5 file, but opened with separate H5Fopen calls. Also add new 'mounted' flag to the H5G_info_t struct, queried with the H5Gget_info() API call, to allow applications to detect and avoid this situation. This probably fixes Bz#1070 also, I'll check with Dan Anov (who reported a different sort of behavior, but seems to have the same underlying problem). Tested on: Mac OS X/32 10.5.4 (amazon) Linux/64 2.6 (chicago)
* [svn-r15294] Description:Quincey Koziol2008-06-291-1/+1
| | | | | | | | Switch from H5Tarray_create -> H5Tarray_create2 to avoid problem when building with v16 APIs. Tested on: Eyeballed (5 min before daily tests... :-)
* [svn-r15290] H5Tpack didn't act correctly with nested compound datatype. ↵Raymond Lu2008-06-271-5/+104
| | | | | | | | The new size of the type in the inner nest wasn't passed to the outer nest. This has been fixed. Tested on kagiso, linew, smirom.
* [svn-r15283] Fixed bug 1155, added fillval.c back to windows test file, ↵Neil Fortner2008-06-261-2/+5
| | | | | | other minor cleanup in fillval.c. Tested: kagiso (parallel), smirom, linew
* [svn-r15240] Purpose: Fix ohdr Windows timezone bugScott Wegner2008-06-191-1/+1
| | | | | | | | | | | | | | | | | Description: On Windows, certain users were having trouble with the "ohdr" test, which does some processing on object header messages. The errors were hard to reproduce on our machines, and we eventually determined that the errors were timezone-specific. The bug is triggered on Windows when processing timestamps very near the "Epoch" (midnight on 1/1/1970)-- the mktime() function does some automatic adjustment on the time to correct for timezones. In the USA, the correction adds a few hours; in Europe, it subtracts, thus giving us times pre-Epoch. This only affects Windows because the Windows mktime() function cannot handle times before 1970-- other systems seemingly can. The fix is to simply create timestamps only as early as 01/02/1970. This way, any timezone adjustment will still be post-Epoch. This bug only affects the ohdr test, and shouldn't be a problem in the library. The earliest timestamps that will actually be read will be around the time HDF5 was created (~1996-7, per Quincey). Tested: VS2005 on WinXP h5committest (kagiso, linew, smirom)
* [svn-r15183] Purpose: _WIN32 macro cleanupScott Wegner2008-06-091-4/+0
| | | | | | | | | | Description: As part of our Windows cleanup, we try to remove windows-specific tweaks in the source code. There are many instances where Windows code is introduces via ifdef's. We re-evaluate whether they are still required, and found that many of them are not. Others we change to "feature"-specific code, rather than Windows-specific. Tested: VS2005 on WinXP VS.NET on WinXP h5committest (kagisopp, smirom, linew)
* [svn-r15165] Purpose: Create new HDpthread_self and HDpthread_self_ulong macrosScott Wegner2008-06-061-8/+1
| | | | | | | | | Description: On Windows, the pthread_self function cannot be used to print the returned thread ID for debugging. Instead, we need a separate function, GetCurrentThreadId. To eliminate some Windows ifdef's in the code, we create two new function macros which can be used by all platforms. It is conditionally defined in H5win32defs.h, and globally in H5private.h. Tested: VS2005 w/ pthreads on WinXP kagiso w/ pthreads
* [svn-r15150] Purpose: Separate Windows function macro definitions to win32defs.hScott Wegner2008-06-054-28/+28
| | | | | | | | | | | | | | Description: In library code, we try not to use system calls directly, but instead use the HD{function} macro instead. This way, we can map special versions of the call on particular systems. Previously, it was all done in H5private.h. However, in an effort to clean up platform-specific definitions, we move all of the Windows macros into a separate file, win32defs.h. This way, we can use the non-Posix versions that Visual Studio sends warnings about. Some macros are set specifically in the platform-specific header files. Then, any macros left unset will be set by the "default" implementation in H5private.h. This checkin also cleans up various source files to use the HD* macros when possible. Tested: VS2005 on WinXP VS.NET on WinXP h5committest (kagiso, linew, smirom)
* [svn-r15131] Description:Quincey Koziol2008-06-031-293/+324
| | | | | | | | | | | | | | | | | | | | | | Finish omnibus chunked dataset I/O refactoring, to separate general actions on chunked datasets from actions that are specific to using the v1 B-tree index. Cleaned up a few bugs and added some additional tests also. Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.5.2 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r15128] Purpose: Make Windows threadsafe debug message more usefulScott Wegner2008-06-021-1/+3
| | | | | | | | | | Description: On Linux-like systems, we can get the ID of the current thread through a pthread_self. However on Windows, the return cannot be cast as a threadID, so we simply couldn't get the ID. Previously we simply gave up and printed a message that we couldn't get an ID. Instead, though, we can use the Windows-specific call to GetCurrentThreadId(), which achieves the same goal. This way we can provide better debug output with threadsafe features. Tested: VS2005 on WinXP VS.NET on WinXP (other platforms not tested because change is within _WIN32 ifdef)
* [svn-r15037] Description:Quincey Koziol2008-05-191-0/+0
| | | | | | | Better cleanup of internal structures when no szip encoder. Tested on: Linux/32 2.6 (kagiso) w/szip-no encoder
* [svn-r15036] Bug fix.Albert Cheng2008-05-191-4/+4
| | | | | | | | | | | | | | | | | | | Description: The fortran Makefile.am used HDF_FORTRAN to indicate it is part of the Fortran API source so that conclude.am will give fortran api prefix in the test output. The symbox HDF_FORTRAN is also used in configure for a different purpose (indicated --enable-fortran). They conflicted. Similar problem for the symbol HDF_CXX. Solution: Changed all the involved Makefile.am to use "FORTRAN_API" instead. It is a more appropriate name. Same for CXX_API. Along the way, discovered that the Makefile.am of hl/fortran/test and hl/cxx/test did not have those symbols at all. Added them in. Platform tested: Kagiso only. It is a trivia change.
* [svn-r15034] Description:Quincey Koziol2008-05-191-2/+2
| | | | | | | | Correct another case of using 'size_t' for chunk sizes where 'uint32_t' was necessary. Tested on: FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN
* [svn-r15020] Purpose: Configure FixMike McGreevy2008-05-161-13/+13
| | | | | | | | | Description: The test program h52gifgentst was getting installed in the bin directory during 'make install', and it shouldn't. Make now builds the program for use in testing but doesn't install it during 'make install'. Tested: kagiso
* [svn-r15015] Description:Quincey Koziol2008-05-164-21/+150
| | | | | | | | | | | | | | | | | Detect chunks that are >4GB before dataset gets created and return error to application. Tweak lots of internal variables that hold the chunk size/dimensions to use an 'uint32_t', instead of a 'size_t', so that the integer size is constant. Correct a number of our tests which were creating datasets with chunks that were >4GB and add some specific tests for >4GB chunk size detection. Minor whitespace & other code cleanups. Tested on: Mac OS X/32 10.5.2 (amazon) Forthcoming testing on other platforms...
* [svn-r15007] Purpose: configure cleanupMike McGreevy2008-05-152-7/+0
| | | | | | | Description: cleaning up configure related to removal of --disable-hsizet flag, which we no longer support. Tested: kagiso
* [svn-r15003] Purpose:Albert Cheng2008-05-151-0/+15
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Improvement. Description: src/libhdf5.settings was the initial configure summary and is installed. Then configure is changed to dump a summary of the configure settings to the output and also append it to src/libhdf5.settings. That created two different output formats and duplicated information. This is the initial attempt to clean up this confusion and unify the output format. It is decided to use the src/libhdf5.settings template as the unified means. This requires more macros symbols be defined. The following symbols are all related to generating the src/libhdf5.settings file. AC_SUBST(EXTERNAL_FILTERS) AC_SUBST(MPE) MPE=no AC_SUBST(STATIC_EXEC) STATIC_EXEC=no AC_SUBST(HDF_FORTRAN) HDF_FORTRAN=no AC_SUBST(FC) HDF_FORTRAN=no AC_SUBST(HDF_CXX) HDF_CXX=no AC_SUBST(CXX) HDF_CXX=no AC_SUBST(HDF5_HL) HDF5_HL=yes AC_SUBST(GPFS) GPFS=no AC_SUBST(LINUX_LFS) LINUX_LFS=no AC_SUBST(INSTRUMENT) INSTRUMENT=no AC_SUBST(CODESTACK) CODESTACK=no AC_SUBST(HAVE_DMALLOC) HAVE_DMALLOC=no AC_SUBST(DIRECT_VFD) DIRECT_VFD=no AC_SUBST(THREADSAFE) THREADSAFE=no AC_SUBST(STATIC_SHARED) AC_SUBST(enable_shared) AC_SUBST(enable_static) AC_SUBST(UNAME_INFO) UNAME_INFO=`uname -a` The src/libhdf5.settings.in has CONDITIONAL's added to it too. The untrue conditions turned into a "#" and these lines are cleaned by the post processing script. Platform tested: h5committest on kagiso, smirom and linew.
* [svn-r14933] Purpose: Updating HDF5 to use automake 1.10.1 and libtool 2.2.2Mike McGreevy2008-05-051-27/+33
| | | | | | | | | | | | | | | | | | Description: Applying update to autotools that was applied to 1.8 a couple of weeks ago to the trunk. Updated bin/reconfigure script to reflect the new versions of libtool and automake in the /home1/packages/ directory. Rearranged configure.in script. When using libtool 2.2.2, the libtool script doesn't generate until later in the configuration process, so I had to move a test that parsed through the libtool script to a point after where it was actually being generated. Ran libtoolize on the project, and ran bin/reconfigure to regenerate configure and Makefile.in's throughout. Tested: kagiso, smirom, linew (h5committest)
* [svn-r14918] Fixed bugs in two tests specific for windows.Vailin Choi2008-05-021-35/+34
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* [svn-r14916] Description:Quincey Koziol2008-05-012-21/+21
| | | | | | | | Clean up files created & cleaned up for dataset tests. Tested on: Max OS X/32 10.5.2 (amazon) Too minor to require h5committest
* [svn-r14903] Undoing change committed in r14902.Scot Breitenfeld2008-04-3010-93/+2033
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* [svn-r14902] Merged fortran_1_8 branch changes r14505:14901 into the trunk. ↵Scot Breitenfeld2008-04-3010-2033/+93
| | | | New fortran wrappers added.
* [svn-r14860] Description:Quincey Koziol2008-04-243-40/+40
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Omnibus raw data I/O revisions, with wide-ranging changes and refactoring, in order to prepare for implementing "fast append" feature. These changes remove the majority of the code duplication for raw data I/O which has crept in over the last ten years and introduces a more object- oriented design for operating on different types of dataset storage. Chunked storage no longer has it's own I/O routines, it is now handled as either contiguous (if chunk is not pulled into the cache) or compact (if the chunk is cached in memory). No bug or feature changes, at least intentionally... :-) Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.5.2 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r14853] Purpose: Comment-out 2 windows-specific testsScott Wegner2008-04-211-2/+2
| | | | | | | | Description: Vailin has been working on some new tests for converting Windows paths. She found a bug that is making these two tests fail, but didn't have time to fix it. We've commented out the two tests until she has time to fix the bug. This won't affect other platforms because it's Windows-specific code. Tested: VS2005 on WinXP
* [svn-r14849] Snapshot version 1.9 release 3HDF Tester2008-04-201-1/+1
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* [svn-r14848] Fixed a bug in the external link test for windows.Vailin Choi2008-04-181-1/+1
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* [svn-r14847] 1. test/links.c: add tests specific for windowsVailin Choi2008-04-162-58/+649
| | | | | | | | | remove HDputenv() from external_link_env() test (will add script later to set HDF5_EXT_PREFIX for running the test) modify and add more comments 2. src/H5private.h: remove #define for HDputenv() Tested on kagiso, linew and smirom.
* [svn-r14822] 1. src/H5private.h: fixed a bug in CHECK_ABSOLUTE() for windows.Vailin Choi2008-04-091-12/+5
| | | | 2. test/links.c: fixed one external link test to be the same as in 1.8.
* [svn-r14818] updated commentsPedro Vicente Nunes2008-04-081-4/+4
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* [svn-r14816] updated commentsPedro Vicente Nunes2008-04-081-1/+1
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* [svn-r14815] added commentsPedro Vicente Nunes2008-04-081-1/+1
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* [svn-r14814] added commnentsPedro Vicente Nunes2008-04-081-1/+1
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* [svn-r14813] modified the test suite for H5Dget_chunk_info so that it writes ↵Pedro Vicente Nunes2008-04-081-12/+75
| | | | | | a 4X4 dataset by iterating by 2X2 chunks tested: windows
* [svn-r14806] add a test for the H5Dget_chunk_info functionPedro Vicente Nunes2008-04-071-0/+90
| | | | | | at the moment, the test is just a skeleton for future add ins tested: windows
* [svn-r14794] Use putenv() instead of setenv() in test/links.c Vailin Choi2008-04-041-6/+13
| | | | (solaris did not support setenv() and unsetenv())
* [svn-r14789] Add handling for external link:Vailin Choi2008-04-023-12/+890
| | | | | | | 1. src/H5F.c, src/H5system.c: formulate path for mainfile 2. src/H5Lexternal.c: add search for target file 3. configure.in: add H5_HAVE_WINDOW_PATH 4. test/links.c: add tests for external link
* [svn-r14782] Make correction from "H5Pclose(aid)" to "H5Aclose(aid)"Peter Cao2008-03-271-1/+1
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* [svn-r14738] Description:Quincey Koziol2008-03-131-1/+107
| | | | | | | | | | Bring r14737 back from the 1.8 branch: Fix bug which would incorrectly encode the member offsets for compound datatypes whose size was between 256 & 511 bytes, when the "use the latest format" feature was enabled. Tested on: Mac OS X/32 10.5.2 (amazon) w/debug FreeBSD/32 6.2 (duty) w/production
* [svn-r14720] Description:Quincey Koziol2008-03-111-0/+4
| | | | | | | | | Minor bug fix to H5Aget_num_attrs() to return error when an invalid location ID is passed in. Tested on: Mac OS X/32 (amazon) Too minor to require h5committest
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