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* [svn-r477] Changed the way file-space allocation for the data part of a dataset.Albert Cheng1998-07-094-63/+114
| | | | | | | | | | | | | | | | | H5D.c: Created a new function H5D_allocation to do allocation of all datasets. According to the storage layout, it calls the appropriate function. H5Fprivate.h: H5Fistore.c: H5F_istore_allocation now takes a dimension array, (old version used a space pointer) to determine how many chunks to allocate. Changed H5F_istore_get_addr to a private (static) function. No one outside of H5Fistore.c is calling it. Removed three forward declarations now that they are not needed. Tested platform: O2K
* [svn-r476] ./src/Makefile.inRobb Matzke1998-07-093-101/+101
| | | | | | | | Fixed missing H5Zpublic.h header file. ./src/H5Fistore.c Indented some printf's in the left margin so various C source tools work correctly.
* [svn-r475] HDF5 Reference Manual files.Elena Pourmal1998-07-0810-0/+5989
| | | | | Main file is RM_H5Front.html. Created from the Alpha1 Ref. Manual, Alpha1 User's Guide Documents and the Alpha2 Source Code.
* [svn-r474] HDF5 Glossary.Frank Baker1998-07-081-0/+53
| | | | Created from Alpha1 Reference Manual.
* [svn-r473] Changes since 19980708Robb Matzke1998-07-0810-40/+113
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5Fistore.c ./src/H5S.c Fixed places where `herr_t' functions returned NULL for failure: H5F_istore_get_addr() and printf(?!?) (probably because a printf() was in the first column :-/ so I don't know what function it really was that I fixed), and H5S_extent_copy(). ./src/H5Fprivate.h Added declarations for H5F_istore_get_addr() and H5F_istore_allocate(). ./src/H5S.c ./src/H5Sprivate.h Split H5Sset_extent_simple() into H5S_set_extent_simple() and replaced calls to the API function with calls to the internal function. Changed calls to H5Screate() to H5S_create() and H5Sclose() to H5S_close(). ./src/H5Shyper.c ./src/H5Spoint.c Removed unused labels and variable. ./src/H5T.c ./src/H5Tconv.c Changed calls to H5Tfind() to H5T_find(). ./src/H5TB.c Split function return type onto a separate line for five functions and added API tracing calls.
* [svn-r472] Examples have been modified to reflect the current status of the ↵Elena Pourmal1998-07-086-42/+46
| | | | | | API functions. Tested on Solaris 2.5
* [svn-r471] Changes since 19980708Robb Matzke1998-07-088-120/+148
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST Alphabetized. `d' comes before `e' :-) ./bin/release Added the `-batch' option which causes the script to not ask questions and to automatically update the minor version number and set the patch level back to `a'. This is intended to be used for the daily snapshots: #! /bin/sh set -e cd ~/hdf5 make distclean make test bin/release -batch tar compress gzip bzip2 mv ./releases/* /repository ./src/H5Z.c Removed warnings about unused variables when the zlib.h header file is present but libz.a isn't. ./INSTALL ./configure.in ./doc/html/tracing.html Made API tracing the default (you still need to define the HDF5_TRACE environment variable to get results) and change the name from `--disable-tracing' to `--disable-trace' to make it consistent with the other switches. Changed `site config file' to `host config file' to match the documentation. ./doc/html/H5.user.html Added a reference to the `tracing.html' file.
* [svn-r470] Updated manifest to reflect changes in the doc directory structure.Quincey Koziol1998-07-081-76/+76
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* [svn-r469] Changes since 19980707Robb Matzke1998-07-0812-119/+334
| | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./bin/trace ./src/H5.c Added tracing support for H5S_seloper_t and H5S_class_t. ./src/H5Sselect.c ./src/H5S.c Added tracing statements that weren't inserted previously because of formatting problems. ./src/H5T.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5Tprivate.h ./src/H5Tpublic.h ./test/cmpd_dset.c Added H5Tinsert_array() for inserting an array member into a compound data type. Added support to the struct conversion function for member arrays. The index permutation is not supported yet in the conversion (source and destination must have the same permutations).
* [svn-r468] Fixed formatting problems and moved H5S_sel_iter_release calls ↵Quincey Koziol1998-07-084-47/+60
| | | | | | above dataspace release calls in H5D_read and H5D_write.
* [svn-r467] Restructuring documentation.Quincey Koziol1998-07-0871-0/+20819
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* [svn-r466] Removed some debugging information that was out of date.Quincey Koziol1998-07-071-30/+2
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* [svn-r465] Replaced old H5Sset_hyperslab with new H5Sselect_hyperslab calls.Albert Cheng1998-07-072-43/+57
| | | | Tested on O2K.
* [svn-r464] Plugged several memory leaks in the hyperslab selection iterators.Quincey Koziol1998-07-074-7/+94
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* [svn-r463] H5S.c:Albert Cheng1998-07-075-51/+55
| | | | | | | | | | | Moved the source of H5S_extent_npoints before H5Sextent_npoints to reduce a compiler complaint. H5Shyper.c: H5Sprivate.h: H5Spublic.h: H5Sselect.c: Changed the parameter declarations of H5S_hyper_add and H5Sselect_hyperslab as originally intended as const hsize *.
* [svn-r462] Plugged several memory leaks in the hyperslab selection iterators.Quincey Koziol1998-07-071-13/+21
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* [svn-r461] Purpose:Paul Harten1998-07-073-11/+17
| | | | | | | | | | | | | | | | | | | | | | The purpose of the change is to correct the H5 filenames declared in testphdf5.c when used on the Intel TFLOP PFS system. Problem: The ROMIO library complains of the H5 filenames having no "piofs:", "pfs:", "ufs:", or "nfs:" prefixes on the filenames. The only type currently recognized are the "pfs:" prefixes, and the files must reside in the Intel TFLOP PFS system: /pfs. Solution: (REQUIRED) The compile flag -DPOOMA_ARCH=TFLOP is added to the list of CFLAGS in Makefile.ascired located in the parallel test directory. This compile flag will allow a special set of filenames to be used when compiling testphdf5.c on the Intel TFLOP. In addition, instructions to editing the filenames in testphdf5.c to reside in the user's own /pfs directory are included in INSTALL.ascired. Platform tested: Intel TFLOP
* [svn-r460] Changes since 19980707Robb Matzke1998-07-0716-158/+456
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./bin/trace ./src/H5.c ./src/H5private.h ./src/H5A.c ./src/H5D.c ./src/H5F.c ./src/H5G.c ./src/H5P.c ./src/H5Pprivate.h ./src/H5S.c ./src/H5T.c Output-only arguments have their addresses printed during tracing and added symbolic output for the H5F_driver_t arguments. That's another reason that we should be careful to add `/*out*/' after arguments that are output-only and `/*in,out*/' after arguments that are used for both input and output values. No internal function calls H5Pget_class() anymore. ./src/H5T.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5Tpublic.h Added H5Tget_overflow() and H5Tset_overflow() so the application can query or set a function that will be called whenever an overflow occurs. Implemented as documented in previous e-mail except the overflow handler gets two buffers: one that contains the source value and one to receive the optional destination value. ./test/dtypes.c Tests overflow handler. ./src/H5.c We have to declare fdopen() because I'm getting errors when compiling on Irix64 even though we include <stdio.h> as documented in the fdopen() man page.
* [svn-r459] Changed H5Sget_npoints call to H5Sextent_npoints and ↵Quincey Koziol1998-07-071-18/+18
| | | | H5Sselect_npoints calls.
* [svn-r458] Changed H5Sget_npoints call to H5Sextent_npoints and ↵Quincey Koziol1998-07-076-20/+21
| | | | H5Sselect_npoints calls.
* [svn-r457] Fixed another couple of typos in dynamically allocated variables.Quincey Koziol1998-07-071-2/+2
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* [svn-r456] Changes since 19980706Robb Matzke1998-07-071-1/+1
| | | | | | | | | ---------------------- ./src/H5public.h If sizeof(size_t)==sizeof(long long) then we define `hsize_t' in terms of size_t to get rid of warnings on systems that treat `long long' the same as `long'.
* [svn-r455] Fixed various const and signed/unsigned problems and corrected ↵Quincey Koziol1998-07-076-36/+38
| | | | | | one incorrect type. Should compile much cleaner now.
* [svn-r454] Changes since 19980702Robb Matzke1998-07-067-70/+202
| | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5T.c Prints statistics for no-op conversions also. For now, hardware floating point conversions may or may not raise SIGFPE depending on the hardware, operating system, etc. Software conversions never raise SIGFPE and use +Inf or -Inf for overflow. ./test/dtypes.c Catches SIGFPE and causes the test to be skipped. Better test for NaN. ./config/irix5.3 Removed the -U_POSIX_SOURCE because it was removed from the main makefiles. ./bin/trace ./src/H5S.c Fixed a typo that prevented tracing info from being added to new API functions.
* [svn-r453] Minor tweaking of picturesQuincey Koziol1998-07-061-12/+12
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* [svn-r452] Changed tests to use the new dataspace API calls. Still need to ↵Quincey Koziol1998-07-068-19/+26
| | | | | | add tests for point selections and strides.
* [svn-r451] Completely tore out existing dataspace API and replaced with code ↵Quincey Koziol1998-07-0623-1050/+4666
| | | | | | | | to match API defined in the html/Dataspaces.html document. This code does not include support for strides, merging selections, or permutations of coordinates yet, but it's a drop-in replacement for the existing API with the same features.
* [svn-r450] Added files for dataspace revision.Quincey Koziol1998-07-061-0/+6
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* [svn-r449] Corrected some grammar errors in the debug messages.Albert Cheng1998-07-052-70/+70
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* [svn-r448] Updated with more tests for extendable datasets such as testingAlbert Cheng1998-07-053-38/+123
| | | | | the expected failures in writing data beyond the current dimension sizes and also in attempting to extend a dataset opened RDONLY.
* [svn-r447] Oops, turned data type tests off again until I get the SIGFPE thingRobb Matzke1998-07-031-1/+1
| | | | sored out.
* [svn-r446] Changes since 19980702Robb Matzke1998-07-034-8/+45
| | | | | | | | | | | ---------------------- ./MANIFEST Added new files from testpar directory. ./config/commence.in Removed -D_POSIX_SOURCE because hdf5 uses a couple of non-Posix things when certain debugging flags are switched on.
* [svn-r445] Added individually named cleanup_xxx routine to each test module fileAlbert Cheng1998-07-039-13/+207
| | | | | | | | to cleanup temporary files used by that particular module. Added a cleanup() routine to testhdf5 that calls all the other cleanup_xxx() routines to do cleanup. Cleanup action can be disabled either by -c (no cleanup) option or HDF5_NOCLEANUP environment variable.
* [svn-r444] *** empty log message ***Robb Matzke1998-07-021-0/+73
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* [svn-r443] Changes since 19980630Robb Matzke1998-07-023-3/+4
| | | | | | | | | | ---------------------- ./MANIFEST ./configure.in ./examples/Makefile.in [NEW] Added a Makefile.in for the examples directory. To generate the Makefile run configure again.
* [svn-r442] MPIO library maintained by William M. Davidson (wmdavid) has beenAlbert Cheng1998-07-021-14/+9
| | | | | | | | | changed to use system supported MPI library. The path to it is changed slightly too. Updated all the paths variables. Also updated to reflect the new program source files structure. Platform tested: Intel Red
* [svn-r441] MPIO library maintained by William M. Davidson (wmdavid) has beenAlbert Cheng1998-07-021-4/+4
| | | | | changed to use system supported MPI library. The path to it is changed slightly too. Updated all the paths variables.
* [svn-r440] Header file for the PHDF5 tests. (forgot to add it last time.)Albert Cheng1998-07-011-0/+67
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* [svn-r439] Changed the PHDF test programs substantially. Used to be just oneAlbert Cheng1998-07-014-900/+1144
| | | | | | | | big testphdf5.c file. Broke it into modules of related routines. testphdf5.c -- main routine and global variables initialization plus some ulitility routines. t_file.c -- tests of file operations using parallel I/O. t_dset.c -- tests of datasets operations.
* [svn-r438] Changes for PHDF5 to support extendable datasets.Albert Cheng1998-07-014-2/+666
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | H5D.c: If a dataset, using chunk storage, is created/opened and if its data file is accessed via MPIO, allocate file space for the chunks immediately. Also do the allocation when a dataset is extended. Must do it at these points because H5Dcreate, H5Dopen and H5Dextend are collective calls in MPIO access mode and are the only chance to get all MPI processes to synchonize their meta-data. Also disallow opening/creating datasets with compression option if MPIO is used. Not easy to support concurrent compression writes in an efficient way. But read-only access should be fine. Will implement that later. H5F.c: Disable file cache if MPIO is used by forcing cache size and number of elements to zero. H5Fistore.c: Added two new routines, H5F_istore_get_addr and H5F_istore_allocate. H5F_istore_allocate supports allocating file space for the chunks of a dataset. H5F_istore_get_addr returns the file space address of a chunk that has been allocated. Changed H5F_istore_read and H5F_istore_write to bypass the chunk cache read/write mechanism. Instead, they do read/write directly with the file for only the elements requested. (Some debug statements, enclosed by #ifdef AKC, are still in the file. I am still working on some code. They would be cleaned out soon.)
* [svn-r437] Changes since 19980612Robb Matzke1998-06-3024-182/+1270
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5Tbit.c ./src/H5Tpkg.h Fixed a bug in H5T_bit_copy(). Added H5T_bit_get_d() and H5T_bit_set_d() which treat portions of a bit vector as an unsigned integer. Added H5T_bit_inc() that increments part of a bit vector and returns an indication of overflow. ./src/H5Tconv.c ./src/H5Tpkg.h ./test/dtypes.c Added a slow general floating point conversion which works so far on Intel, MIPS, and DEC but the test is turned off because a cast from double to float will cause a SIGFPE on some systems if an overflow occurs. Added fast hardware conversions between native floating point types. This function is also subject to the SIGFPE problem. ./src/H5detect.c Removed the exponent bias adjustment when the significand isn't normalized. This is now handled in the conversion functions instead. ./src/H5T.c Register new conversion functions. Plugged a memory leak in the library termination code. ./RELEASE Added a list of major changes since the first alpha. ./src/H5.c ./src/H5private.h ./src/H5A.c ./src/H5AC.c ./src/H5D.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5G.c ./src/H5Gprivate.h ./src/H5HG.c ./src/H5O.c ./src/H5T.c ./src/H5Tbit.c ./src/H5Tconv.c Fixed various compiler warnings on Irix64. ./src/H5MM.c Added PABLO_MASK to this file. ./test/chunk.c Removed a warning about memcpy().
* [svn-r436] H5Pset_cache() did not save the value of rdcc_w0. Fixed it.Albert Cheng1998-06-261-5/+6
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* [svn-r435] ./INSTALLRobb Matzke1998-06-2348-582/+1243
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./INSTALL_MAINT ./README ./RELEASE Partially updated for second alpha, but haven't updated version numbers yet. ./src/H5.c ./src/H5A.c ./src/H5AC.c ./src/H5B.c ./src/H5D.c ./src/H5F.c ./src/H5Fcore.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Fmpio.c ./src/H5Fsec2.c ./src/H5Fsplit.c ./src/H5Fstdio.c ./src/H5G.c ./src/H5Gnode.c ./src/H5HG.c ./src/H5HL.c ./src/H5I.c ./src/H5MM.c ./src/H5MMprivate.h ./src/H5O.c ./src/H5Oattr.c ./src/H5Ocomp.c ./src/H5Ocont.c ./src/H5Odtype.c ./src/H5Oefl.c ./src/H5Olayout.c ./src/H5Oname.c ./src/H5Osdspace.c ./src/H5Oshared.c ./src/H5Ostab.c ./src/H5P.c ./src/H5S.c ./src/H5T.c ./src/H5Tconv.c ./src/H5detect.c ./test/hyperslab.c ./test/istore.c Changed memory allocation functions so they fail instead of dumping core. The `x' was removed from the name to remind us of that: H5MM_xmalloc() -> H5MM_malloc(), etc. H5MM_calloc() takes one argument like H5MM_malloc() instead of two like calloc() because we almost always called it with `1' for one of the arguments anyway. The only difference between the two functions is that H5MM_calloc() returns memory which is initialized to zero. ./src/H5Gent.c ./src/H5Gprivate.h Removed H5G_ent_calloc() since it wasn't used. ./src/H5Fistore.c Fixed a bug found by Albert. Thanks, Albert! This fix combined with the changes to memory allocation prevent the library from failing an assertion if the application uses an unreasonable size for chunks (like Alberts 10000x10000x4). ./src/H5MF.c ./src/H5MFprivate.h Changed H5MF_free() to H5MF_xfree() since calling it with an undefined address is allowed.
* [svn-r434] Initial version. Added changes related to parallel HDF5 API's.Albert Cheng1998-06-221-0/+17
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* [svn-r433] Added feature to print the maximum dimension sizes of datasets.Albert Cheng1998-06-191-2/+7
| | | | Platform tested: O2K.
* [svn-r432] Changes since 19980617Robb Matzke1998-06-1814-718/+870
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Datatypes.html ./src/H5T.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5Tpublic.h ./src/H5detect.c ./test/cmpd_dset.c ./test/dsets.c ./test/dtypes.c ./test/external.c ./test/tattr.c ./test/th5s.c Organized the predefined data types. ./html/H5.intro.html NO MODIFICATIONS! This file is a mess (obviously generated from something else) so I skipped updating it! ./src/h5ls.c ./test/dsets.c ./test/tattr.c ./test/th5s.c Added extra argument to H5Sget_dims() calls per Albert's last update.
* [svn-r431] H5Sget_dims:Albert Cheng1998-06-182-8/+9
| | | | | | Added maxdims agrument to H5Sget_dims. Also removed the check of dims since H5Sget_dims can still return ndims even if both *dims and *maxdims are NULLs.
* [svn-r430] Changes since 19980617Robb Matzke1998-06-173-5/+10
| | | | | | | | | | | ---------------------- ./src/H5T.c Fixed a potential division by zero error. ./src/H5Fistore.c Fixed an assertion failure that I accidently introduced with the previous changes.
* [svn-r429] Changes since 19980616Robb Matzke1998-06-1729-265/+1406
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/tracing.html NEW This entire update is to make it possible for the library to print the name, arguments, and return value of every API call without requiring any extra work from developers or app programmers. This file describes how this all works. ./configure.in Added the `--enable-tracing' switch. If you use it then the library will include code to print API function names, argument names and values, and function return values. However, you must then turn on the tracing by setting the HDF5_TRACE environment variable to a file descriptor number. The default is `--disable-tracing' since enabling it causes a slight increase in library size and a slowdown resulting from an extra function call for each API function call (I couldn't even measure the slowdown :-) ./bin/trace NEW A perl script that synchronizes the H5TRACE() macro calls in the *.c files with the function return type and formal argument names and types. If you use GNU make and gcc then this will be done automatically, otherwise just invoke this script with the names of one or more .c files. You could do it by hand to, but encoding argument types is a little tricky at first. ./config/commence.in Added the $(TRACE) macro, which defaults to the no-op. Added -D_POSIX_SOURCE to the compiler command line. ./src/Makefile.in Override the default for $(TRACE). ./config/depend.in Automatically calls $(TRACE) to synchronize the H5TRACE() macros in any source file that changed. As with makefile dependencies, one way to force synchronization of all files is to remove the `.depend' file. ./MANIFEST Added new files. ./src/H5Eprivate.h Modified HRETURN_ERROR() and HRETURN() for tracing. ./src/H5.c ./src/H5private.h This is where the real tracing work really happens, in H5_trace(). ./src/H5A.c ./src/H5D.c ./src/H5G.c ./src/H5P.c ./src/H5S.c ./src/H5Z.c Added H5TRACE() calls to all API functions. You don't really need these changes if you don't want to merge your stuff because they can be generated automatically by going to the hdf5/src directory and saying ../bin/trace *.c ./src/H5T.c Added H5TRACE() calls. Other stuff below. ./src/H5E.c ./src/H5Epublic.h Added H5TRACE() calls. Created a type H5E_auto_t for the `func' argument of H5Eset_auto() and H5Eget_auto() to make those arguments easier to parse for tracing. It should also make it clearer for users that don't know how to read complicated ANSI data types. ./src/H5F.c Added H5TRACE() calls. Changed a couple `uintn' argument types in API functions to `unsigned int' since `uintn' part of the API. Changed a few "can't" and "cant" error messages to "unable to". ./src/H5Ipublic.h Removed H5_DIRECTORY from the H5I_group_t enum. It wasn't used anywhere. ./src/H5Tconv.c Removed an unused label. ./src/H5Fistore.c ./src/H5Oattr.c ./src/H5Odtype.c ./src/H5T.c ./test/dsets.c ./test/dtypes.c Fixed a warning about a variable possibly used before it's initialized. Added __unused__ to turn off some unused argument warnings that pop up when debugging is turned off and optimizations are turned on.
* [svn-r428] Changes since 19980612Robb Matzke1998-06-1613-97/+937
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5Tbit.c ./MANIFEST ./test/Makefile.in ./test/bittests.c NEW Finished the bit vector operations and added test cases. ./src/H5Tconv.c ./test/dtypes.c Finished integer->integer general conversion and added test cases. Overflows and underflows are handled by substituting the closest possible value. Examples: (unsigned)0xffff -> (unsigned) 0xff ( signed)0xffff -> (unsigned)0x0000 (unsigned)0xffff -> ( signed)0x7fff ( signed)0x7fff -> ( signed) 0x7f ( signed)0xbfff -> ( signed) 0xbf ( signed)0x8000 -> ( signed) 0x80 ./src/H5private.h Added definitions for MIN and MAX that take 3 or 4 arguments: MIN3(), MIN4(), MAX3(), MAX4(). Also added MIN2() and MAX2() as aliases for MIN() and MAX(). ./test/tattr.c Removed some redundant `&' operators. ./configure.in ./src/H5config.h.in [regenerated] ./src/H5.c Fixed warnings on DEC where long double is the same as double.
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