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* [svn-r15682] Purpose: fix bug 1298Neil Fortner2008-09-227-42/+61
| | | | | | | | | | | Description: The optimized "subset" compound conversion function would improperly copy the "blank" space at the end of compound types. Modified H5T_conv_struct_init to detect when the subset type has extra space at the end, and calculate the size of the data that should be copied into the conversion buffer for each element. Changes to the functions that implement these conversions. Tested: kagiso, linew, smirom (h5committest)
* [svn-r15681] Description:Quincey Koziol2008-09-221-1/+1
| | | | | | | | | | | | | | | | | | | | | | Correct small error in allocating data block elements and add some more tests. 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-r15676] Description:Quincey Koziol2008-09-2228-156/+142
| | | | | | | | | | | | | | | | | | | | | | | Centralize all macros for declaring "magic numbers"/signatures for objects in the file into src/H5Fprivate.h, so it's easier to know what values have already been defined, etc. 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-r15674] Description:Quincey Koziol2008-09-2216-164/+1663
| | | | | | | | | | | | | | | | | | | | | | Add base support for extensible array "data blocks" to code, tests and h5debug. 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-r15667] Snapshot version 1.9 release 18HDF Tester2008-09-212-3/+3
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* [svn-r15660] Purpose: Fix minor Windows issues in new H5EA interface.Scott Wegner2008-09-191-1/+1
| | | | | | | | | | | | | Description: We've run into a few Windows-specific problems with the new H5EA interface. In particular, this checkin makes the following changes: -- Change shutdown defined in earray.c to shutdown_ea, to avoid conflicting with another Windows-specific system call. -- Prefix H5EA_get in H5EAprivate.h with H5_DLL, so the function is properly exported in Windows DLL version. These changes shouldn't break any other platforms. Tested: VS2005 on WinXP h5committest (linew kagiso smirom)
* [svn-r15658] Purpose: Replace __func__ usage with FUNC macroScott Wegner2008-09-191-16/+16
| | | | | | | | Description: Some compilers (i.e. Visual Studio on Windows) don't support the C99 keyword __func__. It does, however, have a similar keyword, __FUNCTION__. In H5EApkg.h we define a macro, FUNC, which will pick the right version and use it accordingly. This checkin changes H5EA.c to use FUNC instead of __func__. Tested: h5committest (linew smirom kagiso)
* [svn-r15656] Purpose: fix bug 1286Neil Fortner2008-09-182-49/+157
| | | | | | Description: Added configure test to see if pointer alignment restrictions are enforced (as in dereferencing an unaligned pointer causes an error). Added code in H5Tvlen.c to avoid dereferencing unaligned pointers, conditionally compiled based on the configure test. Added test case in dtypes.c which would previously cause such machines to fail. Tested: kagiso, smirom, linew (h5committest); linew64
* [svn-r15639] Purpose: Check for __func__ keyword during configureScott Wegner2008-09-172-14/+21
| | | | | | | | | | Description: In some of the new H5EA* code, many new C99 features are being used. Most of them are portable to all compilers, but the __func__ keyword in particular isn't supported in Visual Studio on Windows. Instead, Windows defines the __FUNCTION__ keyword, which can be used as a direct substitute. We now check for the __func__ keyword during configure and define the feature flag H5_HAVE_C99_FUNC. There was previously a check for __FUNCTION__, and the feature flags H5_HAVE_FUNCTION. In H5EApkg.h, we check for the presents of each of these in order to see which to use. If neither are avaiable, fail. Tested: h5committest (kagiso, smirom, linew)
* [svn-r15637] Bug 710: partial fix.Albert Cheng2008-09-161-145/+145
| | | | | | | | | | | Temporary removed b2 from the --enable-debug=all list so that this option will pass. "configure --help" lists the --enable-debug=all and users tend to use it and end up with compile failures in the b2 debug code. Since this bug will not be fixed soon, this is a temporary fix to let the configure and build work. Tested: h5committest plus "--enable-debu=all" test in kagiso.
* [svn-r15628] Description:Quincey Koziol2008-09-1695-867/+867
| | | | | | | | | | | | | Remove trailing whitespace from C/C++ source files, with the following script: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Tested on: Mac OS X/32 10.5.5 (amazon) No need for h5committest, just whitespace changes...
* [svn-r15626] This check-in fixes a bug inside parallel HDF5 testsuite.MuQun Yang2008-09-162-2/+32
| | | | | | | | | When enable-debug is turned on, a special macro block H5_HAVE_INSTRUMENTED_LIBRARY inside HDF5 will be executed to check if some collective chunk IO test cases are being run with the correct settings(one link, multiple chunk etc.). However,when complicated derived datatype in some mpi-io packages are not supported, the library has to switch one link IO with/without the optimization to multiple chunk IO with/without the optimization. The current testsuite doesn't know this and generates a false assertion failure message. This check-in fix this problem by providing a second property to avoid the false faiure message. Tested at abe(NCSA linux cluster) and kagiso.
* [svn-r15619] Snapshot version 1.9 release 17HDF Tester2008-09-142-39/+41
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* [svn-r15617] Description:Quincey Koziol2008-09-119-12/+277
| | | | | | | | | | | | | | | | | | | | | | | | Clean up how v2 B-tree (and extensible array) classes are determined in h5debug. Add support for extensible array headers and index blocks to h5debug 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-r15614] Description:Quincey Koziol2008-09-1114-142/+1173
| | | | | | | | | | | | | | | | | | | | | | More extensible array features: add support for setting/getting elements in the array's index block. 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-r15612] Description:Quincey Koziol2008-09-114-12/+11
| | | | | | | | | | | | | | | | | | | | | Minor formatting cleanups 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-r15609] Description:Quincey Koziol2008-09-1056-2304/+2559
| | | | | | | | Omnibus compiler warning cleanup & some reformatting also. Tested on: Mac OS X/32 10.5.4 (amazon) Too minor to require h5committest
* [svn-r15595] Snapshot version 1.9 release 16HDF Tester2008-09-072-3/+3
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* [svn-r15590] Description:Scot Breitenfeld2008-09-031-1/+1
| | | | Changed blank spacing in Fortran output so the output aligns correctly
* [svn-r15565] Snapshot version 1.9 release 15HDF Tester2008-08-315-13/+22
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* [svn-r15561] Description:Quincey Koziol2008-08-296-11/+238
| | | | | | | | | | | | | | | | | | | | | | | | | | 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-r15552] Fix potential memory leak in H5E_close_msg_cb.Neil Fortner2008-08-281-1/+4
| | | | Tested: kagiso
* [svn-r15549] Description:Quincey Koziol2008-08-2823-26/+2140
| | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r15539] Description:Scot Breitenfeld2008-08-261-1/+1
| | | | Fixed spacing issue for fortran summary line.
* [svn-r15515] Fix faulty error checking in call to H5I_remove().Neil Fortner2008-08-211-1/+1
| | | | | | Add prototype to the top of app_ref.c to suppress warning. Tested: kagiso
* [svn-r15512] Description:Quincey Koziol2008-08-214-5/+5
| | | | | | | | Fix a few typos introduced in r15510. Tested on: Mac OS X/32 10.5.4 (amazon) More testing upcoming
* [svn-r15510] Description:Quincey Koziol2008-08-2197-1535/+1544
| | | | | | | | Clean up warnings & formatting Tested on: Mac OS X/32 10.5.4 (amazon) More tests forthcoming
* [svn-r15488] Description:Quincey Koziol2008-08-191-1/+1
| | | | | | | | | 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 Fortner2008-08-1961-518/+558
| | | | | | | | | | | | | | | | 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-r15477] Removed vestigal code from H5SM_delete_from_index() which would ↵Neil Fortner2008-08-171-11/+0
| | | | | | | | | have dereferenced an uninitialized pointer if it had been reachable. Closes bz #1280. Tested: kagiso, smirom, linew (h5committest)
* [svn-r15476] Snapshot version 1.9 release 14HDF Tester2008-08-172-3/+3
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* [svn-r15468] Removed prototype for deleted function H5F_has_mountNeil Fortner2008-08-121-1/+0
| | | | Tested: kagiso
* [svn-r15462] Description:Quincey Koziol2008-08-122-2/+4
| | | | | | | | Correct compiler warnings from Visual Studio. Tested on: Mac OS X/32 10.5.4 (amazon) w/FORTRAN & C++ (Too minor to require full h5committest)
* [svn-r15458] Purpose: Modify the library to take the proper action when ↵inactive/jpeg_converterNeil Fortner2008-08-1131-100/+218
| | | | | | | | | | | | | | files with incorrect datatype versions are encountered. Description: The library now recognizes some problems with datatype versions in H5O_decode_helper(), and, if not performing strict format checks, automatically corrects them. Framework added for other message decode routines to automatically correct file errors. Datatype version information added to h5debug. Tested: kagiso, smirom, linew (h5committest)
* [svn-r15455] Snapshot version 1.9 release 13HDF Tester2008-08-102-3/+3
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* [svn-r15451] Purpose: Fix various problems that were occurring when using ↵Neil Fortner2008-08-077-131/+128
| | | | | | | | | | | | | | | | 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-r15425] Snapshot version 1.9 release 12HDF Tester2008-08-032-3/+3
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* [svn-r15410] Snapshot version 1.9 release 11HDF Tester2008-07-272-3/+3
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* [svn-r15395] When an attribute was opened twice and data was written with ↵Raymond Lu2008-07-229-413/+648
| | | | | | | | | | | 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-r15389] Snapshot version 1.9 release 10HDF Tester2008-07-202-3/+3
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* [svn-r15375] Description:Quincey Koziol2008-07-161-2/+2
| | | | Bump shared library version # for change to H5G_info_t struct
* [svn-r15374] Description:Quincey Koziol2008-07-161-3/+3
| | | | | | | Correct wrong error return value to avoid compiler warning Tested on: Just eyeballed, extremely minor
* [svn-r15367] Description:Quincey Koziol2008-07-155-1/+61
| | | | | | | | | | | | | | | | 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-r15347] Snapshot version 1.9 release 9HDF Tester2008-07-132-3/+3
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* [svn-r15335] Fixed incorrect error message in H5Pset_fletcher32:Neil Fortner2008-07-081-1/+1
| | | | | | | | "unable to add deflate filter to pipeline" -> "unable to add fletcher32 filter to pipeline" Tested: kagiso
* [svn-r15322] Snapshot version 1.9 release 8HDF Tester2008-07-062-3/+3
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* [svn-r15299] A modification of the changes made in last commit. The problem ↵Raymond Lu2008-06-301-10/+10
| | | | | | | | was that H5Tpack didn't act correctly with nested compound datatype. This code is better. Tested on smirom - simple change.
* [svn-r15290] H5Tpack didn't act correctly with nested compound datatype. ↵Raymond Lu2008-06-272-6/+9
| | | | | | | | 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-r15227] Description:Quincey Koziol2008-06-177-11/+13
| | | | | | | | | | | | | | | | | | Small clean up of datatype copying. 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 10.5.3 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r15224] Description:Quincey Koziol2008-06-171-14/+24
| | | | | | | Clean up a few more compiler warnings. Tested on: FreeBSD/64 6.2 (liberty)
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