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* [svn-r477] Changed the way file-space allocation for the data part of a dataset.Albert Cheng1998-07-091-8/+2
| | | | | | | | | | | | | | | | | 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-r473] Changes since 19980708Robb Matzke1998-07-081-0/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r418] ./html/Files.htmlRobb Matzke1998-06-101-2/+19
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/H5F.c ./src/HFcore.c ./src/H5Ffamily.c ./src/H5Flow.c ./src/H5Fmpio.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fsplit.c ./src/H5Fstdio.c ./src/H5MF.c ./src/H5P.c ./src/H5Ppublic.h Added H5Pset_alignment() so that it is now possible to align file allocation requests on application-specified boundaries. Any request >= the specified threshold will begin on an address which is a multiple of the specified alignment. Defaults are one for threshold and alignment. The alignment is done on relative addresses, so the size of the user block can affect the location of the data in the file. ./src/H5D.c ./src/dsets.c Added a test for, and fixed the data space caching bug in datasets. Extending a dataset through one handle will cause all other handles to the same dataset to get the new dataset size. ./src/H5S.c ./src/H5Sprivate.h Removed an unused argument from H5S_read() which duplicated information from the other argument. ./config/linux Made `--enable-parallel' the default on my system. It used to be that way before but then I accidently turned it off and forgot about it. ./src/H5Fmpio.c Qualified some function arguments with __unused__. Changed a couple places where NULL was returned on error for herr_t functions. ./src/H5P.c Removed unused autos from H5Pset_mpi().
* [svn-r411] Added data-transfer-mode to various function to specify whichAlbert Cheng1998-06-071-7/+13
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | mode to use for data transfer. Currently, INDEPENDENT transfer is the default mode. Collective is supported for files opened via the MPIO driver. Specific changes to individual files follow. H5D.c: Replaced previous kludge of passing xfer_mode via the file access_mode with xfer_mode function parameter all the way to the low level I/O drivers. H5Dprivate.h: The H5D_xfer_t.xfer_mode is now used in serial and parallel modes. Removed the "HAVE_PARALLEL" macro condition to support it. H5Dpublic.h: Added H5D_XFER_DFLT as a new value for H5D_transfer_t and removed the HAVE_PARALLEL condition macro to make the H5D_transfer_t definition available to both serial and parallel version. H5B.c: H5F.c: H5Farray.c: H5Fcore.c: H5Ffamily.c: H5Fistore.c: H5Flow.c: H5Fmpio.c: H5Fsec2.c: H5Fsplit.c: H5Fstdio.c: H5Gnode.c: H5HG.c: H5HL.c: H5O.c: H5Sprivate.h: H5Ssimp.c: debug.c: Added xfer_mode to the argument lists of the following routines to specify data transfer mode. Then updated calls to these routines with appropriate transfer mode. Whenever cases that collective mode is inappropriate (e.g. object header read-write, flush), H5D_XFER_DFLT is used. The H5D_XFER_DFLT mode is currently acting the same as the independent mode. H5F_block_read H5F_block_write H5F_arr_read H5F_arr_write H5F_core_read H5F_core_write H5F_fam_read H5F_fam_write H5F_mpio_read H5F_mpio_write H5F_low_write H5F_low_read H5F_sec2_read H5F_sec2_write H5F_split_read H5F_split_write H5F_stdio_read H5F_stdio_write H5S_simp_fgath H5S_simp_fscat H5S_simp_read H5S_simp_write H5Fprivate.h: H5P.c: Removed access_mode field from struct H5F_access_t type. The access-mode was the initial design to control independent or collective I/O mode. It is now supported by the data transfer mode.
* [svn-r400] Changes since 19980513Robb Matzke1998-05-221-0/+20
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Datasets.html Fixed a couple of typos. ./src/H5.c Added the `Z' modifier to HDfprintf() for `size_t' sizes. Use it like this: HDfprintf(stderr,"size is %Zd\n", (size_t)x); ./src/H5AC.c ./src/H5F.c ./src/H5Fprivate.h The maximum number of meta data objects that can be cached can be set from the application (but the library might not honor it every time; it's a hint). ./src/H5D.c Changed a warning message so it's not so alarming. ./src/H5Fistore.c Chunks can be cached. ./src/H5O.c ./src/H5Oprivate.h Added H5O_copy() and H5O_free() to copy and free messages. ./src/H5P.c ./src/H5Ppublic.h Added H5Pset_cache() and H5Pget_cache() and changed lots of "template" to "property list". ./src/H5Z.c ./src/H5Zpublic.h Miscellaneous little things to clean up. Mostly just removed H5Z_MAXVAL and added H5Z_USERDEF_MIN and H5Z_USERDEF_MAX. ./MANIFEST ./test/Makefile.in ./test/chunk.c [NEW] Added a performance test for chunk caching. It looks at the amount of I/O instead of timing because timing is partly dependent on the chunk size and I wanted a measurement that was a function of only the cache size. Run `chunk' with no arguments and then say `gnuplot x-gnuplot' to see the plots (press return between plots). Postscript files are created for each plot. ./test/big.c ./test/cmpd_dset.c ./test/extend.c ./test/external.c ./test/gheap.c Added H5F_ACC_DEBUG so we can see cache performance statistics.
* [svn-r398] Changes since 19980501Robb Matzke1998-05-131-6/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5Bprivate.h ./src/H5F.c ./src/H5Ffamily.c ./src/H5Fprivate.h ./src/H5Gpkg.h ./src/H5MF.c ./src/H5P.c ./src/H5Ppublic.h ./test/big.c ./html/Big.html ./html/Files.html Family members can now be any size >1kB. Got rid of some places where we were reading a property list after it was closed. ./MANIFEST ./src/Makefile.in ./src/h5repart.c A program to repartition file families. The source and/or destination may be files or file families. Examples: testhdf5 -c -o stab h5repart -m 1m tstab2.h5 x%05d.h5 h5repart -m 100k x%05d.h5 y%05d.h5 h5repart y%05d.h5 z.h5 diff tstab2.h5 z.h5 ./src/h5ls.c Added a usage message, replaced assertions with error messages. ./config/linux Made a warning message more obvious. Added better optimization flags for Pentium-Pro's.
* [svn-r353] Changes since 19980414Robb Matzke1998-04-171-0/+7
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Compression.html [NEW] ./html/Datasets.html ./html/H5.format.html ./html/H5.user.html Documented compression. A couple of the H5P functions aren't quite implemented yet but they're coming soon... ./src/H5Dprivate.h ./src/H5E.c ./src/H5Epublic.h ./src/H5Farray.c ./src/H5Fistore.c ./src/H5Fprivate.h ./src/H5MF.c ./src/H5MFprivate.h ./src/H5O.c ./src/H5Ocomp.c [NEW] ./src/H5Oprivate.h ./src/H5P.c ./src/H5Ppublic.h ./src/H5Sprivate.h ./src/H5Ssimp.c ./src/H5Z.c [NEW] ./src/H5Zprivate.h [NEW] ./src/H5Zpublic.h [NEW] ./src/Makefile.in ./src/hdf5.h ./test/dsets.c ./test/istore.c Compression is now mostly working. Don't try to open a compressed dataset though because the compression message won't be read. ./html/Datatypes.html ./html/H5.api.html ./src/H5.c ./src/H5private.h ./src/H5D.c ./src/H5T.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5Tprivate.h ./src/H5Tpublic.h Added timing support. When compiled with H5T_DEBUG defined the library will print conversion bandwidths when the library closes. The H5Tregister functions take a string as the first argument so the statistics output is meaningful. ./MANIFEST Added new files. ./configure.in ./src/H5config.h.in Check for getrusage(). Check for compress2() in libz.a and the zlib.h header file. Added `z' to the debug list. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c ./src/debug.c Cleaned up some indentation and added support to print istore B-trees. From the debugger, give the B-tree address and the dimensionality from the layout message of the object header. ./src/h5ls.c The oid is printed as w:x:y:z where w and x are the file ID and y and z are the OID within the file. You can give z or y*2^32+z as an argument to the debugger to print the object header for the object. ./src/H5AC.c Cleaned up statistics and made them match those reported by H5T and H5Z. ./src/H5MM.c ./src/H5MMprivate.h ./src/H5Fistore.c Finally got rid of a couple of long-standing const cast warnings.
* [svn-r339] Changes since 19980408Robb Matzke1998-04-091-1/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5Osdspace.c ./html/H5.format.html In the past we were allowed to have >2GB files on a 32-bit machine as long as no dataset within the file was larger than 4GB (or whatever sizeof(size_t) is). That's been fixed now. All dataset size calculations are done with `hsize_t' which is normally defined as `unsigned long long'. ./src/H5F.c ./src/H5Ffamily.c ./src/H5Fprivate.h ./src/H5P.c ./src/H5Ppublic.h The file family member size can now be set/queried. The default is still 64MB, but it can be set to 1GB by saying: H5Pset_family (plist, 30, H5P_DEFAULT); When opening an existing file family the specified bits-per-member is ignored and the first member of the family determines the bits-per-member, which can be retrieved with H5Pget_family(). ./acconfig.h ./configure.in ./src/H5config.h ./src/H5public.h Added `--disable-hsizet' so that those with old GCC compilers (<2.8.1) can still compile the code. ./src/H5.c ./src/H5private.h Added HDfprintf() which works just like fprintf() except you can give `H' as a size modifier for the integer conversions and supply an `hsize_t' or `hssize_t' argument without casting it. For instance: hsize_t npoints = H5Sget_npoints(space); HDfprintf(stdout,"Dataset has %Hd (%#018Hx) points\n", npoints, npoints); You can now give `%a' as a format to print an address, but all formating flags are ignored and it causes the return value of HDfprintf() to not include the characters in the address (but who uses the return value anyway :-). Example: H5G_t *grp; HDfprintf(stdout, "Group object header at %a\n", &(grp->ent.header)); Added HDstrtoll() which works exactly like [HD]strtol() except the result is an int64. ./src/debug.c Large addresses can now be entered from the command-line. Use either decimal, octal (leading `0') or hexadecimal (leading `0x') when giving the address. ./src/h5ls.c The printf format for dataset dimensions was changed to `%Hu' to support large datasets. ./test/big.c [NEW] A test for big datasets on 32-bit machines. This test is not run by default. Don't try to run it on an nfs-mounted file system or other file system that doesn't support holes because it creates two 32GB datasets of all zero.
* [svn-r338] Changes since 19980407Robb Matzke1998-04-081-16/+16
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5B.c ./src/H5D.c ./src/H5Dprivate.h ./src/H5Dpublic.h ./src/H5F.c ./src/H5Farray.c ./src/H5Fcore.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fpublic.h ./src/H5Fsec2.c ./src/H5Fsplit.c ./src/H5Fstdio.c ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5HG.c ./src/H5HL.c ./src/H5MF.c ./src/H5MFprivate.h ./src/H5O.c ./src/H5Ocont.c ./src/H5Odtype.c ./src/H5Oefl.c ./src/H5Olayout.c ./src/H5Oname.c ./src/H5Oprivate.h ./src/H5Osdspace.c ./src/H5Oshared.c ./src/H5Ostab.c ./src/H5P.c ./src/H5Ppublic.h ./src/H5S.c ./src/H5Sprivate.h ./src/H5Spublic.h ./src/H5Ssimp.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5V.c ./src/H5Vprivate.h ./src/H5private.h ./src/H5public.h ./src/h5ls.c ./test/cmpd_dset.c ./test/dsets.c ./test/extend.c ./test/external.c ./test/hyperslab.c ./test/iopipe.c ./test/istore.c ./test/shtype.c ./test/tfile.c ./test/th5s.c Anything having to do with the size of a dataset now uses the types `hsize_t' and `hssize_t' which must be the same size and at least as large as `size_t'. This isn't fully tested yet, so hsize_t and hssize_t are defined as size_t and ssize_t in H5public.h. Setting them to larger values will trip up gcc versions less than 2.8.1 on x86 platforms. Documented unused function formals with `__unused__' before the formal name. This also has the effect of supressing warning messages for gcc since it's defined to be `__attribute__((unused))' in the H5private.h file. ./src/debug.c ./src/h5ls.c If the file name contains a `%' then the file is opened as a file family with H5P_DEFAULT for the file member access property list. ./src/h5ls.c The group name is optional, defaulting to `/'. ./src/hdf5.h Added some missing public header files.
* [svn-r337] Changes since 19980403Robb Matzke1998-04-071-4/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./configure.in Moved setting of compiler warning switches earlier in the file. Turned on more warning switches to gcc. ./config/linux Prints a warning if the gcc version is less than 2.8.1 since that version has problems with register allocation for `long long'. ./html/Datatypes.html Documented sharing of data types between datasets. ./src/H5G.c ./src/H5Gpublic.h Implemented H5Gmove(), H5Glink() and H5Gunlink() for hard links. Still have soft links to do. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5D.c ./src/H5E.c ./src/H5Eprivate.h ./src/H5F.c ./src/H5Farray.c ./src/H5Fcore.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fpublic.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5HG.c ./src/H5HL.c ./src/H5HLprivate.h ./src/H5I.c ./src/H5Iprivate.h ./src/H5MM.c ./src/H5MMprivate.h ./src/H5O.c ./src/H5Oefl.c ./src/H5Oprivate.h ./src/H5Osdspace.c ./src/H5Oshared.c ./src/H5Ostab.c ./src/H5P.c ./src/H5S.c ./src/H5Ssimp.c ./src/H5T.c ./src/H5Tconv.c ./src/H5Tprivate.h ./src/H5Tpublic.h ./src/H5V.c ./src/H5Vprivate.h ./src/H5detect.c ./src/h5ls.c ./test/cmpd_dset.c ./test/dsets.c ./test/external.c ./test/hyperslab.c ./test/iopipe.c ./test/istore.c ./test/shtype.c ./test/tstab.c Fixed comparisons between signed and unsigned values. Fixed warnings about unused function arguments.
* [svn-r333] Changes since 19980324Robb Matzke1998-03-301-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST ./src/H5HG.c [new] ./src/H5HGprivate.h [new] ./src/H5HGpublic.h [new] ./src/Makefile.in Added global heaps, H5HG. This compiles but is untested. ./src/H5D.c ./src/H5G.c ./src/H5Gnode.c ./src/H5Gstab.c ./src/H5HL.c [renamed from H5H.c] ./src/H5HLprivate.h [renamed from H5Hprivate.h] ./src/H5HLpublic.h [renamed from H5Hpublic.h] ./src/H5Oefl.c ./src/Makefile.in ./src/hdf5.h ./test/theap.c Renamed local heaps from H5H to H5HL. ./src/H5AC.c ./src/H5ACprivate.h ./src/debug.c Added debugging support for global heap collections. ./html/H5.format.html Ripped out the old small object heap documentation and added documentation for the new global heap. ./html/H5.api.html ./src/H5P.c ./src/H5Ppublic.h ./src/H5F.c ./src/H5Fprivate.h ./src/H5private.h The H5Pget_version() function no longer returns a small object heap version number. Instead, each collection of the global heap has its own version number instead of a single number in the file boot block. ./bin/release Omit files marked for removal by CVS even though the removal hasn't been committed yet. ./test/iopipe.c Removed warnings about casting unsigned int to double on Irix64. ./MANIFEST Removed ./test/testpar/phdf5sup.c
* [svn-r329] Changes since 19980324Robb Matzke1998-03-241-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5D.c Zero element requests for H5Dread() and H5Dwrite() succeed. ./src/H5F.c ./src/H5Fprivate.h All files will have a root group. This greatly simplifies the library at the expense of ~1k extra bytes in files that have only one object. ./src/H5D.c ./src/H5Dprivate.h ./html/Groups.html Functions that used to take a file ID and an object name can now take a group ID instead of a file ID. This doesn't change the API, only it's documentation. ./src/H5G.c ./src/H5Gprivate.h ./src/H5O.c ./src/H5Oprivate.h Removed extra file arguments from some internal functions since the file pointer can be found from the group pointer or a symbol table entry (ent->file or H5G_fileof(group)). Besides, when we eventually implement mounting one file on another, H5G_namei() might return a different file than what you gave it, and that file is part of the returned symbol table entry. ./src/H5G.c Fixed bug with `.' appearing in a name. It used to hang the library. ./src/Makefile.in ./src/h5ls.c [NEW] ./MANIFEST Added `h5ls' a simple program that takes a file name and a directory and lists the contents of that directory using H5Giterate(). ./test/istore.c Changed an argument to H5G_create(). ./test/tstab.c Removed test_1 which was testing that files with a single object don't have a root group. This no longer applies.
* [svn-r306] Changes since 19980305Robb Matzke1998-03-051-0/+11
| | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5D.c ./test/external.c A contiguous dataset can now be stored in external files in such a way that the slowest varying dimension can be increased after the dataset is created and even written. The user must have reserved enough space in the external file and the data space must allow an increase the the slowest varying dimension. See test_3() of ./test/external.c ./src/H5Oefl.c ./configure.in ./src/H5Fprivate.h Fixed an overflow bug with unlimited external storage. ./src/H5V.c Fixed a cast warning. ./test/dsets.c Make better use of automatic error reporting.
* [svn-r305] Changes since 19980304Robb Matzke1998-03-051-6/+7
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST New files ./html/extern1.gif [NEW] ./html/extern1.obj [NEW] ./html/extern2.gif [NEW] ./html/extern2.obj [NEW] ./html/Datasets.html Documented external raw data storage. ./html/Datasets.html ./html/chunk1.gif [NEW] ./html/chunk1.obj [NEW] Added a picture and better description for chunking since it seems that people are thinking chunks are fixed-size at the file level instead of at the array level. ./src/H5D.c ./src/H5Dpublic.h ./test/external.c Changed H5Dget_create_parms() to H5Dget_create_plist(). ./src/H5D.c ./src/H5Farray.c ./src/H5Fprivate.h ./src/H5Oefl.c ./src/H5Oprivate.h ./src/H5Sprivate.h ./src/H5Ssimp.c ./test/external.c ./test/istore.c External raw data file I/O for contiguous storage is now working. The library supports segments of various sizes which can be scattered throughout multiple files in any order. ./test/Makefile.in Remove more temporary files.
* [svn-r303] Changes since 19980228Robb Matzke1998-03-041-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Dataspaces.html ./html/Errors.html ./html/Files.html ./html/H5.api.html ./html/review1.html ./src/H5private.h ./src/H5public.h ./test/dsets.c ./test/dtypes.c Removed all the types like `int32' and `intn' into private headers since they violate the naming scheme and pollute application name space. Besides, our test files only use them in a handful of places and it's probably useless to export them to the app. The app is always written in terms of standard numeric types or its own numeric types and probably never in terms of HDF5 numeric types. If it were, then the user would have to copy from their type to hdf5 type for almost every hdf5 API function call! Same goes for return values. I also removed SUCCEED/FAIL from the API since apps should be checking against zero anyway. if (FAIL==(space=H5Screate_simple(...))) /*wrong*/ if ((space=H5Fcreate_simple(...)<0)) /*right*/ ./src/H5.c Changed arguments of H5version() from `uintn' to `unsigned'. ./src/H5Tpublic.h ./src/H5T.c Changed return type of H5Tget_nmembers() from `intn' to `int' ./src/H5A.c ./src/H5Aprivate.h ./src/H5Apublic.h Changed `H5Asearch_func_t' to `H5A_search_func_t' and moved its definition from the public to the private header file. ./html/H5.format.html Documented changes made to the external file list (H5O_EFL) message. ./src/H5D.c ./src/H5Dprivate.h ./src/H5E.c ./src/H5Epublic.h ./src/H5O.c ./src/H5Oefl.c ./src/H5Oprivate.h ./src/H5P.c ./src/H5Ppublic.h Added partial support for external raw data files. HDF5 can now describe external raw data files by listing the file names, offsets, and size for a dataset. However, we will restrict a dataset to be stored "contiguously" when the external file list is viewed as a single address space. The current implementation is unable to read/write to external files--that will come later this week as will documentation. For now, take a look at ./test/external.c, particularly the calls to H5Pset_external(). ./test/Makefile.in ./test/external.c [NEW] ./MANIFEST Added tests for external storage. Note: the read test is supposed to fail at this point since reading external datasets is not implemented yet. There is no write test. ./src/H5S.c ./src/H5Sprivate.h ./src/H5Ssimp.c Added H5S_get_npoints_max() to return the maximum possible number of data points in a data space. Added an extra argument to H5S_get_dims() which returns the maximum dims. ./src/H5F.c ./src/H5Fprivate.h ./src/H5Fpublic.h ./src/H5M.c [DEPRICATED] ./src/H5Mpublic.h [DEPRICATED] Changed `template' to `property list' in lots of places. ./src/H5Osdspace.c Removed an extra `\n' from a print statement. ./src/H5S_public.h Changed H5S_UNLIMITED to the maximum size_t value. ./test/extend.c "Extendable" is spelled "extendible". ./src/H5Farray.c ./src/H5V.c ./src/H5Vprivate.h ./test/hyperslab.c Strides are now type ssize_t instead of int. These have nothing to do with the sample granularity arguments for hyperslabs, which are also called "strides" in the code. ./test/tstab.c Changed assumptions about default address and length sizes.
* [svn-r301] Changes since 19980226Robb Matzke1998-02-271-7/+7
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./bin/release Changed default to not tag CVS sources. ./src/H5F.c Replaced a constant switch with preprocessor directives. Removed a local variable which was set but not used. ./src/H5Fprivate.h Changed `long long' to `int64' to get rid of ansi warnings in a few places. Fixed bugs in INT64DECODE() and UINT64DECODE() for big-endian architectures. This fixes all the bugs with the Irix -64 compile. ./src/H5F.c The default address and length sizes are set according to the sizeof(size_t) now that the bugs have been fixed. ./src/H5Fpublic.h Removed a trailing comma in an enumerated type. ./src/H5Fstdio.c ./src/H5Fsec2.c Added two more calls to fseek64() and lseek64(). Removed `long long' in place of `int64' to suppress -ansi warnings. ./src/H5P.c Replaced a FAIL with H5F_LOW_ERROR. ./src/H5private.h ./configure.in Increased version number to hdf5-1.0.1a since we've already released hdf5-1.0.0a. Include <sys/types.h>. Fixed indentation. Fixed detection of off64_t for old Irix systems where it might be a struct. ./src/Makefile.in Moved a comment from the shell to the makefile since some versions of sh barf on interactive comments. ./config/linux Allow overriding of the CC variable from the command-line. It still defaults to gcc but this allows us to specify a complete path from test scripts by saying: CC=/usr/local/tools/gnu/gcc sh configure
* [svn-r298] Changes since 19980219Robb Matzke1998-02-251-0/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Files.html ./src/H5C.c ./src/H5Cpublic.h ./src/H5Ffamily.c ./src/H5Fprivate.h ./src/H5Fsplit.c ./test/tstab.c Added file-access property functions. The split driver takes file extensions as properties. ./src/H5A.c ./src/H5Aprivate.h Added some comments. Changed H5A_destroy() to call the free function on all the atoms that are destroyed. This fixes a bug where the file boot block isn't updated if the file isn't closed before calling exit(). Removed extra `*' and `&' from some places. ./src/H5AC.c Replaced an occurrence of NO_ADDR with NULL. ./src/H5Odtype.c ./src/H5T.c ./src/H5Tconv.c ./src/H5Tpkg.h Data types of compound members are pointers. ./H5private.h Some changes to make lseek64() work on Irix 5.3 where header files don't realize that `long long' works. ./acconfig.h ./configure.in Removed definition for PHDF5 since it looks like everyone is useing HAVE_PARALLEL now. ./configure.in ./src/H5detec.c Added checks for gethostname() and getpwuid().
* [svn-r290] Changes since 19980206Robb Matzke1998-02-191-43/+88
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./configure.in ./src/H5Fprivate.h ./src/H5Fsec2.c We now detect and use lseek64() on systems that have it (e.g., Irix64) and are able to generate >2GB files on Irix XFS file systems (and anything else that supports large files). This change also removed some warning messages from the Irix `-64' compiler. > $ ls -l istore.h5 > -rw-r--r-- 1 matzke meshtv 8605436856 Feb 17 14:03 istore.h5 ./configure.in ./src/H5Fprivate.h ./src/H5Fstdio.h We now detect and use fseek64() on systems that have it (e.g., Irix64) and are able to generate >2GB files on Irix XFS file systems (and anything else that supports large files). This change also removed some warning messages from the Iris `-64' compiler. ./src/H5E.c ./src/H5Epublic.h Added the H5E_OVERFLOW error to signal file address overflow. ./src/H5Fpublic.h ./examples/h5_chunk_read.c ./examples/h5_compound.c ./examples/h5_extend_write.c ./examples/h5_group.c ./examples/h5_read.c ./examples/h5_write.c ./html/Datasets.html ./html/Files.html ./html/H5.api.html ./html/H5.intro.html ./html/H5.sample_code.html ./html/ph5example.c ./html/review1.html ./test/cmpd_dset.c ./test/dsets.c ./test/extend.c ./test/tfile.c ./test/th5p.c ./test/theap.c ./test/tohdr.c ./test/tstab.c ./testpar/phdf5.c Renamed file access constants to follow the naming scheme. Also changed the base names a little to be more accurate as to what they do. The old names H5ACC_WRITE and H5ACC_OVERWRITE will temporarily work. H5ACC_DEFAULT --> H5F_ACC_RDONLY for H5Fopen() H5ACC_DEFAULT --> H5F_ACC_EXCL for H5Fcreate() H5ACC_WRITE --> H5F_ACC_RDWR H5ACC_OVERWRITE --> H5F_ACC_TRUNC Albert or Kim: The H5ACC_INDEPENDENT and H5ACC_COLLECTIVE macros in H5Fpublic.h should be an enum typedef and have names more like H5F_MPIO_INDEPENDENT and H5F_MPIO_COLLECTIVE. Also change the access_mode argument of H5Cset_mpio(). H5Fcreate() and H5Fopen() are more strict now about which flags are acceptable for the operation. ./src/H5Fprivate.h ./src/H5F.c ./src/H5C.c Changed the file access template to make it more general. A union contains a struct for each type of low-level driver and the default template is initialized at run-time. ./src/H5Fpublic.h ./src/H5F.c Added H5Fget_access_template() and cleaned up H5Fget_create_template(). ./src/H5C.c The H5Cset_mpi() no longer trashes the file access template when an error is detected. We check for errors and *then* update the file access template. Added H5C_close() so Albert and Kim have a place to release the MPI communicator and info from the file access property list. Kim or Albert: I notice in H5Cset_mpi() you copy the MPI communicator. Do you need to do something similar in H5C_copy()? ./src/H5F.c Added more error checking for the file creation and access property lists because it used to be possible to make the library dump core by swapping the creation and access property list ID numbers of H5Fcreate(). ./test/istore.c ./test/tfile.c ./test/th5p.c ./test/theap.c ./test/tohdr.c ./test/tstab.c ./testpar/testphdf5.c One must pass H5C_DEFAULT as the file creation or access property list in order to get the default property list. It is no longer possible to pass zero or any other arbitrary bad object ID. ./src/H5Fcore.c ./src/H5Ffamly.c ./src/H5Flow.c ./src/H5Fmpio.c ./src/H5Fsec2.c ./src/H5Fsplit.c ./src/H5Fstdio.c ./src/H5MF.c The file access property list is passed to all H5F_low_...() functions and to the drivers. ./src/H5Fcore.c The block size can be set at run time on a per-file basis instead of at compile time across all files. The "5000 items in a group test" now takes 1.6 seconds. ./src/H5private.h Removed inclusion of mpi.h and mpio.h since they're included from H5public.h. ./src/H5Cpublic.h ./src/H5C.c Added H5Cset_stdio(), H5Cset_sec2(), H5Cset_core(), H5Cset_split(), and H5Cset_family() in addition to the H5Cset_mpio() that Kim and Albert already wrote. We still need the H5Cget_driver() and an H5Cget...() counterpart for each of those functions. The split and family drivers still need a little work but I'm checking this in anyway.
* [svn-r257] H5F.c:Albert Cheng1998-02-121-10/+0
| | | | | | | | | | | | | Added modification entry to H5F_open header. Should have been done when i added the access template argument. H5Fprivate.h: The hardcode setting to "define MPIO as the default IO when HAVE_PARALLEL is set" cause all test programs to fail since none of them is coded with the needed MPI_Initialize. Change it back to the previous setting of using sequential I/O allows user to use sequential I/O by default and use MPIO only if he/she explicitely asks for it via access template setting.
* [svn-r240] Removed warnings on Irix64Robb Matzke1998-02-101-12/+6
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* [svn-r234] Cleaned up conversion between MPIOffset and haddr_t in H5Fmpio.c.Robert Kim Yates1998-02-101-6/+16
| | | | In H5Fprivate.h made MPI-IO the default low-level I/O module when HAVE_PARALLEL.
* [svn-r230] Changes were actually made by Robb. I am commiting them for himAlbert Cheng1998-02-091-12/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | while he is visiting LLNL. I changed the default creation template offset and length to 4. Will fix the problem later. Changes since 19980205 ---------------------- ./src/H5H.c ./src/H5Hprivate.h ./src/H5O.c ./src/H5Ocont.c ./src/H5Odtype.c ./src/H5Oefl.c ./src/H5Olayout.c ./src/H5Oname.c ./src/H5Onull.c ./src/H5Oprivate.h ./src/H5Odspace.c ./src/H5Ostab.c ./src/debug.c ./html/H5.format.html Added an extra 4-byte field after the heap magic number for alignment on the DEC alpha. Changed object header message alignment to 8-bytes. ./src/H5F.c ./src/H5Farray.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/H5Gnode.c ./src/H5O.c ./src/H5Odtype.c ./src/H5P.c ./src/H5Pprivate.h ./src/H5T.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5Tpublic.h ./src/H5V.c ./src/H5detect.c ./test/cmpd_dset.c ./test/dsets.c ./test/dtypes.c ./test/extend.c ./test/hyperslab.c ./test/istore.c ./test/th5p.c ./test/theap.c Fixed a few irix64 warnings regarding size_t vs. int, variables set but not used, printf formats ./config/irix64 Added `-woff 1196' to get rid of errors about __vfork() being implicitly defined in a system header file. ./src/H5B.c Fixed a stack alignment problem.
* [svn-r224] Initial implementation of the upper levels of PHDF5. TheAlbert Cheng1998-02-061-8/+18
| | | | | MPIO lower interface layer (H5Fmpio.c) has been commited by Kim already. All PHDF5 codes are "bracket'ed" by #ifdef HAVE_PARALLEL macro.
* [svn-r222] Problem: UINT64DECODE and INT64DECODE were not working because it didAlbert Cheng1998-02-051-6/+6
| | | | | | | | | not assign the decoded value back to n. Solution: Removed temporary variable _n (don't see why it is needed.) Use the variable n directly. Platform tested: IRIX64 -64
* [svn-r211] Added hooks for MPI-IO low-level I/O module.Robert Kim Yates1998-02-021-0/+18
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* [svn-r163] Changes since 19980121Robb Matzke1998-01-221-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./Makefile.in Added more dependencies to .PHONY. ./src/H5D.c The write side of the I/O pipeline is implemented now too. Things are looking good for the prototype and it's just a matter of populating the library with the data type and data space conversion functions. ./src/H5Farray.c ./src/H5Fprivate.h ./test/istore.c Changed the order of the arguments for H5F_arr_read() and H5F_arr_write(). ./src/H5P.c ./src/H5Pprivate.h Changed the names of the arguments of H5P_find(). Fleshed out the mgath and fscat callback types. ./src/H5Psimp.c Added stubs for H5P_simp_mgath() and H5P_simp_fscat() that operate on the entire data space. Quincey, once you have the data space hyperslab stuff in place let me know and I'll finish the H5P_simp_*() functions to do partial I/O. Or you can take a look at it too if you like; there's some comments in there for you. ./src/H5V.c ./src/H5Vprivate.h Changed dimensionality arguments from `size_t' to `intn' to be consistent with the rest of the library and to get rid of warnings on 64-bit Irix.
* [svn-r158] Changes since 19980116Robb Matzke1998-01-201-273/+277
| | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5D.c ./src/H5Farray.c ./src/H5Fprivate.h ./src/H5V.c ./src/H5Vprivate.h Fixed indent oopses. ./src/H5D.c ./src/H5Fprivate.h ./src/H5Farray.c ./test/istore.c We can now perform partial I/O on contiguous storage transferring between a hyperslab of file storage and a hyperslab of memory. However, partial I/O hasn't been added to the I/O pipeline yet in H5D.c
* [svn-r157] Reformatted code with indent...Quincey Koziol1998-01-161-269/+264
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* [svn-r155] Changes since 19980114Robb Matzke1998-01-161-6/+14
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Datasets.html Removed some archaic comments about data spaces. Fixed example code. ./MANIFEST ./html/H5.format.html ./src/H5O.c ./src/H5Oprivate.h ./src/H5Ocstore.c [DELETED] ./src/H5Oistore.c [DELETED] ./src/H5Olayout.c [NEW] ./src/Makefile.in ./test/istore.c Replaced H5O_CSTORE and H5O_ISTORE messages with a more general H5O_LAYOUT message. ./src/H5D.c ./src/H5Dprivate.h ./src/H5Dpublic.h A little more work on the pipeline. Access to the file data is through the new H5F_arr_read() and H5F_arr_write() which do I/O on hyperslabs of byte arrays and don't depend on data layout. This should simplify the I/O pipeline quite a bit. I also added another argument to H5Dread() and H5Dwrite() to describe the hyerslab of the file array on which I/O is occuring. We discussed this at last week's meeting. ./src/H5Farray.c [NEW] Added functions that sit on top of H5F_block_read() and H5F_istore_read() and implement a common set of functions between all layouts. This means I/O of hyperslabs of byte-arrays in the file to arrays of bytes in memory. When operating on arrays of elements (>1byte) then we just add another dimension. That is, a 10x20 array of int32 becomes a 10x20x4 array of bytes. [This is the area I'll be working on most of next week to implement partial I/O for contiguous data and to improve performance for chunked data.] ./src/H5Fistore.c ./src/H5Fprivate.h Replaced the H5F_istore_t data type with the layout message H5O_layout_t which looks almost the same. Eventually I'd like to rename `istore' to `chunked' everywhere and use `istore' for 1-d storage where the chunks are all different sizes like in the small object heap where each object is a chunk. ./src/H5V.c Changed ISTORE to LAYOUT in one place. ./test/dsets.c Fixed for extra argument to H5Dread() and H5Dwrite().
* [svn-r151] Changes since 19980105Robb Matzke1998-01-071-1/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./config/freebsd2.2.1 ./config/linux Added -UH5O_DEBUG to the debug flags. Turn this on to get lots of lines on stderr to show what objects are opened and closed. ./src/H5C.o ./src/H5Cpublic.h ./test/dsets.c ./test/tfile.c Split H5Cget_prop() and H5Cset_prop() into functions for each property. ./src/H5D.c ./src/H5Dpublic.h ./src/H5Gstab.c ./src/H5O.c ./src/H5Ocont.c ./src/H5Ocstore.c ./src/H5Odtype.c ./src/H5Oefl.c ./src/H5Oistore.c ./src/H5Oname.c ./src/H5Onull.c ./src/H5Oprivate.h ./src/H5Osdspace.c ./src/H5Ostab.c ./src/H5P.c ./src/istore.c ./test/tohdr.c Object header functions now understand constant vs. non-constant messages. ./src/H5F.c ./src/H5Fprivate.h The file OID can be closed before other OID's. ./src/H5Flow.c H5F_addr_defined() is a macro in this file. ./src/H5G.c ./src/H5Gpublic.h ./test/tstab.c A current working group cannot be deleted. ./src/H5Gent.c ./src/H5Gpkg.h Removed unused functionality. ./src/H5public.h Includes <sys/types.h> for size_t.
* [svn-r150] Changes since 19971219Robb Matzke1998-01-061-3/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5private.h Changed HDF5_MAJOR_VERSION to 5 ./src/H5Aprivate.h ./src/H5Apublic.h Added group atoms. ./src/H5D.c ./src/H5P.c ./test/istore.c ./test/tohdr.c ./test/tstab.c Updated for symbol table interface changes. ./src/H5F.c ./src/H5Fprivate.h Simpler handling of special case files: empty files and files with a single object. ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gpublic.h ./src/H5Gshad.c (DELETED) ./src/H5Gstab.c ./src/Makefile.in Removed shadows, simplifying code. Symbol table entries are allowed to cache only constant meta data. Fixed naming. ./src/H5O.c ./src/H5Oprivate.h Access to object headers is always done through a symbol table entry instead of a file address. Added stubs for opening and closing object headers to be used when deletion is implemented.
* [svn-r142] ./src/H5C.cRobb Matzke1997-12-111-11/+11
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/H5Cprivate.h Changed H5Csetparm() to H5Cset_prop() and changed it to pass property values by value instead of reference. Changed H5Cgetparm() to H5Cget_prop(). Changed data types of file creation properties so the application can use `int' or `size_t' for most properties. Properties and their types are documented in H5Cget_prop(). Changed H5C_class() to H5Cget_class() to make the naming more uniform across packages. ./src/H5Cpublic.h Changed names of properties to make them more uniform across packages: H5F_USERBLOCK_SIZE became H5F_SIZEOF_USERBLOCK, H5F_OFFSET_SIZE became H5F_SIZEOF_ADDR, H5F_LENGTH_SIZE became H5F_SIZEOF_SIZE. ./src/H5D.c ./src/H5Dprivate.h Added support for chunked data storage. There still isn't any support for data type conversion or data space conversion, so chunked storage doesn't do much at this time. ./src/H5E.c ./src/H5Epublic.h Added the H5E_TEMPLATE major error number. I'm about the change the HGOTO_ERROR() and HRETURN_ERROR() macros to take an error string as an additional argument instead of specifying it as a comment. ./src/H5Fistore.c Added `const' to the `buf' argument of H5F_istore_write() although this temporarily causes a compiler warning. ./src/H5Fprivate.h Changed data types of certain file-related variables from types like `uint8' to `uintn' since the library data types should not depend on the file data types. ./src/H5P.c ./src/H5Pprivate.h ./src/H5Ppublic.h Moved H5Pget_lrank() to H5Pget_ndims(), and H5Pget_ldims() to H5Pget_dims() to make naming more uniform. Dimensions should always be of type `size_t'. Similarly for H5P_get_lrank() and H5P_get_ldims().
* [svn-r139] ./src/*.[ch]Robb Matzke1997-12-101-17/+21
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Removed the interface initialization argument from FUNC_ENTER() and made it a locally-defined preprocessor symbol, INTERFACE_INIT. Changed `offset' to `address' and `length' to `size' in documentation so it's more consistent. `Offset' still appears occassionally when it refers to a byte offset within some other data structure. Moved interface termination function prototypes from public header files to .c files and made them static. ./src/H5.c ./src/H5public.h Added H5init() because it's possible that the predefined data types are not initialized. This happens only if the first call to the hdf5 library passes a predefined data type symbol as an argument. There should be some way to fix this... ./src/H5A.c ./src/H5Aprivate.h ./src/H5Apublic.h The free_func returns SUCCEED or FAIL, although the return value is ignored by H5A. This is so we can use the various H5*_close() functions to free things. H5Ainc_ref() and H5Adec_ref() are no longer public. Many of the other atom functions should also be made private, but I'll save that for later... Added additional template groups called H5_TEMPLATE_0 through H5_TEMPLATE_7 that are used by the various template subclasses. Increased the number of bits used for atom groups to prevent negative atoms. ./src/H5AC.c ./src/H5ACprivate.h Changed H5AC_new() to H5AC_create() to make names more consistent. ./src/H5B.c ./src/H5Bprivate.h Changed H5B_new() to H5B_create() to make names more consistent. ./src/H5C.c ./src/H5Cprivate.h ./src/H5Cpublic.h Now supports multiple subclasses of templates, although it's done with big switch statements. The default values for templates are defined in the source file to which that template belongs. This got rid of lots of needless preprocessor constants. Added H5Ccreate() to create a new template. Changed H5C_release() to H5Cclose() to make the naming more consistent. ./src/H5D.c ./src/H5Dprivate.h ./src/H5Dpublic.h Enhanced to use the new dataset interface, and uses the enhanced data type and data space interfaces, which haven't been completely implemented. The dataset interface doesn't handle non-contiguous storage, compression, or data type and space conversions yet. ./src/H5F.c ./src/H5Fprivate.h ./src/H5Fpublic.h Removed H5Fflush() since just calls H5F_flush(), which doesn't do what the user would probably think it does, namely, flush everything. It only flushes those things sitting in the H5AC cache and the boot block. Changed the `file_create_parms' field of H5F_low_t to just `create_parms' since the `file' part is obvious. ./src/H5Fistore.c Added some support for external files. Mostly just in the file format and not supported much by the library yet. I need to finish some dataset functions first. Changed H5F_istore_new() to H5F_istore_create() to make names more uniform across packages. ./src/H5Flow.c Flushing a file causes the file to be physically extended to the logical eof. This prevents H5F_open() from thinking a file has been truncated. Most of the time the file will already be that large, and when it isn't Unix will often just allocate the final block anyway. ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gstab.c Removed H5G_basename() Removed (temporarily) data type information from symbol table entries and renamed H5G_CACHED_SDATA to H5G_CACHED_SDSPACE to reflect that it's a simple data space and has nothing to do with raw data. Changed H5G_node_new() to H5G_node_create() and H5G_stab_new() to H5G_stab_create() to make names more uniform across packages. Fixed an undefined address bug that happens when H5G_node_debug() program doesn't pass enough info to H5G_node_load(). ./src/H5H.c ./src/H5Hprivate.h Changed H5H_new() to H5H_create() to make the names more uniform across packages. ./src/H5M.c ./src/H5Mprivate.h ./src/H5Mpublic.h Nulled all the create functions. Most of the other callbacks are to public functions. Removed H5Mcreate(). Changed hobjtype_t to group_t since it has to be the same thing anyway. ./src/H5O.c ./src/H5Oprivate.h ./src/H5Osdim.c ./src/H5Osdtyp.c Changed H5O_SIM_DIM to H5O_SDSPACE (simple data space) since `simple data space' is its official name, not `simple dimensions'. Will eventually add H5O_CDSPACE for comples data spaces. Changed _sim_dim_ to _dspace_. Replaced H5O_SIM_DTYPE and the compound data type messages with a single H5O_DTYPE message. Changed _sim_dtype_ to _dtype_. Changed H5O_STD_STORE to H5O_CSTORE (contiguous storage) since contiguous storage is not necessarily standard. Changed _std_store_ to _cstore_ in H5Ocstore.c Added the H5O_EFL (external file list) message. Changed H5O_new() to H5O_create() to make names more uniform across packages. ./src/H5Oefl.c NEW External file list message for specifying which non-hdf5 files contain raw data for a dataset. ./src/H5P.c ./src/H5Pprivate.h ./src/H5Ppublic.h Renamed and moved data structures to make the names conform to our naming scheme. ./src/H5T.c ./src/H5Tprivate.h ./src/H5Tpublic.h ./src/H5Tpkg.h NEW Data structures redesigned to be more flexible. The interface was redesigned to make it more regular and to make some names more uniform across packages. ./src/H5detect.c Output was changed to produce a file that conforms to the hdf5 coding standard. ./src/Makefile.in Generates H5Tinit.c by running H5detect. ./src/debug.c Moved command argument processing.
* [svn-r136] ./MANIFESTRobb Matzke1997-11-141-24/+78
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/Makefile.in Added H5Ffamily.c and H5Fsplit.c ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c Added `const' to sublass arguments. ./src/H5F.c ./src/H5Flow.c ./src/H5Fsec2.c Make sure file buffers get flushed during a call to H5Fflush(). Check for overflow in address encoding and decoding. ./src/H5Ffam.c ./src/H5Fprivate.c ./test/istore.c Implementation of file families so 32-bit machines can access 64-bit files. ./src/H5Oprivate.h Removed H5O_NO_ADDR constant. ./config/freebsd2.2.1 ./config/linux Added -DH5G_DEBUG and -DH5F_DEBUG to the list of debugging flags. ./html/H5.format.html Changed some <offset>-sized things to <length>-sized things. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5Bprivate.h ./src/H5C.c ./src/H5D.c ./src/H5F.c ./src/H5Fcore.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gshad.c ./src/H5Gstab.c ./src/H5H.c ./src/H5Hprivate.h ./src/H5MF.c ./src/H5MFprivate.h ./src/H5O.c ./src/H5Ocont.c ./src/H5Oistore.c ./src/H5Oprivate.h ./src/H5Ostab.c ./src/H5Ostdst.c ./src/H5pivate.h ./src/debug.c ./test/istore.c ./test/theap.c ./test/tohdr.c ./test/tstab.c Lots of changes caused by generalizing addresses. The haddr_t is now a struct, so you can no longer perform arithmetic on it. But since it's small, simple, and often used, storage is allocated like with an integer. But we always pass them around by reference. That is, when using an address in another struct, allocate space: struct my_struct { char *name; haddr_t address; } x; But when passing it to a function, pass by reference: H5F_addr_print (stderr, &(x.address)); Addresses should be initialized with H5F_addr_undef (&(x.address)); Functions for operating on addresses are in H5Flow.c and begin with H5F_addr_... Functions never return haddr_t or haddr_t*; they always pass them through arguments instead. A function that returns an address through an argument does so with its last argument and it is marked with `/*out*/'. Calls to such functions also mark output-only arguments with `/*out*/' ./src/H5Fsplit.c (new) A two-member family where all meta data goes in the first member and all raw data goes in the second member. ./src/H5B.c ./src/H5D.c ./src/H5F.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/H5Gnode.c ./src/H5H.c ./src/H5MF.c ./src/H5MFprivate.h ./src/H5O.c Differentiate between meta data storage and raw data storage. Provide a mechanism so that the file driver can extend the file to allocate more memory. ./src/H5E.c ./src/H5Epublic.c Added the error H5E_TRUNCATED to be reported when the file is shorter than the length recorded in the boot block. ./src/H5F.c Added H5F_locate_signature() so we only do it in one place now. ./INSTALL ./INSTALL_MAINT Just a couple clarifications. ./html/ExternalFiles.html ./html/storage.html Documents how external files work. ./test/hyperslab.c ./test/istore.c Fixed printf's on 64-bit machines. ./test/istore.c Added ifdef's to test the split file driver.
* [svn-r135] ./config/linuxRobb Matzke1997-11-071-6/+7
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./config/freebsd2.2.1 Rewritten to be more flexible. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5F.c ./src/H5H.c ./src/H5Gpkg.h ./src/H5Gshad.c ./src/H5O.c ./test/istore.c ./test/tstab.c Accumulates cache statistics and displays the results on stderr when the file is closed if it was opened with H5F_ACC_DEBUG passed into H5F_open() ./src/H5B.c ./src/H5Bprivate.h ./src/H5Fistore.c ./src/H5Gnode.c Added more debugging which is turned on if H5B_DEBUG is defined on the compile command (see config/linux). Fixed a couple of bugs with left insertions which are used by the indexed storage stuff. ./src/H5Flow.c Fixed a memory leak. ./src/H5Fprivate.h Fixed warnings about shifting more than size of object. ./src/H5Fstdio.c Fixed seek optimizations back to the way Quincey originally had them. ./src/H5V.c Removed unused variables.
* [svn-r134] Changes since 19971023Robb Matzke1997-10-241-2/+13
| | | | | | | | | | | | | | | | | | | | | | ---------------------- ./config/conclude.in Test work when `.' isn't in $PATH. ./src/H5F.c ./src/H5Fcore.c NEW ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/Makefile.in ./MANIFEST Added the in-core temporary file driver as an exercise to clean up some of the H5F package. It speeds up `testhdf5 -o stab' by 25 percent! If you want to try it you'll need to recompile everything with `-DH5F_LOW_DFLT=H5F_LOW_CORE'. Don't expect testhdf5 to ever work since creating a file, closing it, and then opening it for read-only will fail.
* [svn-r133] ./MANIFESTRobb Matzke1997-10-221-193/+118
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/Makefile.in Added new files. ./html/H5.apiv2.html Added documentation for group stuff. ./src/H5private.h ./src/H5E.c ./src/H5Epublic.h ./src/H5F.c ./src/H5Flow.c NEW ./src/H5Fprivate.h ./src/H5Fsec2.c NEW ./src/H5Fstdio.c NEW Low-level file driver is selected at runtime. ./src/H5Fprivate.h Got rid of `shift >= sizeof operand' warnings on big endian machines. ./src/H5Fistore.c ./test/istore.c Still working on indexed storage... ./src/H5H.c ./src/H5Hprivate.h Removed alignment constraints.
* [svn-r129] Changes since 19970916Robb Matzke1997-10-201-1/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./config/depend.in Fixed backslashes in sed script because the H5Gnode.c dependency info was disappearing. You'll have to rerun config.status to rebuild the Makefiles unless you use gnu make. ./config/conclude.in Also removes emacs backup files, TAGS, and svf backup files. ./config/linux Grouped gcc flags and added provisions for debugging vs. production. ./html/H5.format.html Updated messages 0x0008, 0x0009, and 0x000A. ./html/storage.html Documentation describing storage schemes. ./src/Makefile.in ./test/Makefile.in New source files. ./src/H5A.c ./src/H5Apublic.h ./src/H5C.c Changed VOIDP to void* in a couple places. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5Bprivate.h ./src/H5G.c ./src/H5Gnode.c ./src/H5Gprivate.h ./src/H5H.c ./src/H5O.c Removed `const' from some variables because H5G_node_found() wanted to modify it's udata argument. Removing const there caused it to cascade to these other locations. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5Gnode.c ./src/H5Gstab.c ./src/H5H.c ./src/H5O.c Added an extra argument to H5AC_find_f() and H5AC_protect(). This arg gets passed to the load() method. Also added an extra argument to the H5AC_find() macro. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c Extra argument passed to the sizeof_rkey() method. ./src/H5Fprivate.c ./src/H5Fistore.c (new) Added indexed I/O operations. ./src/H5G.c ./src/H5Gnode.c ./src/H5Gprivate.h Beginning to add H5G_open/close and related bug fixes. ./src/H5Oprivate.h ./src/H5Oistore.c (new) Added the H5O_ISTORE messsage (0x0008) for indexed storage of objects. ./src/H5private.h Added extra braces around both sides of the FUNC_ENTER() and FUNC_LEAVE() macros so FUNC_ENTER() can appear before declarations or after executable statements the second case is used by H5G_namei() to initialize output arguments to sane values before FUNC_ENTER() might return failure. int f () { int decl1; printf ("This happens before FUNC_ENTER()\n"); FUNC_ENTER (...); int another_declaration; ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c Extra arguments for key encoding and decoding. ./src/H5E.c ./src/H5Epublic.h ./src/H5Fistore.c ./src/H5Oistore.c ./src/H5Oprivate.h Indexed, chunked, sparse storage (not ready for general consumption yet). ./src/H5V.c (new) ./src/H5Vprivate.h (new) ./test/hyperslab.c (new) Vector, array, and hyperslab functions. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Fistore.c ./src/H5Gnode.c ./src/H5V.c ./src/H5Vprivate.h ./test/hyperslab.c Added functionality for indexed storage. ./src/H5F.c Fixed problems with seek optimizing. Recommend we disable it until we can implement it in the file/address class since all of HDF5 must be aware of it. ./src/H5O.c Fixed comeent speling erorr :-) ./MANIFEST Added new files. ./config/conclude.in Added the word `Testing' to the test cases. So if a test program is called hyperslab then the make output will contain the line `Testing hyperslab'. ./config/linux The default file I/O library is Posix section 2 on my linux machine so I can do some I/O performance testing. ./src/H5C.c ./src/H5Cprivate.h ./src/H5Cpublic.h Added ability to set size of indexed-storage B-tree. ./src/H5D.c ./src/H5E.c ./src/H5Epublic.h ./src/H5F.c ./src/H5Fprivate.h ./src/H5G.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gpublic.h ./src/H5Gshad.c ./src/H5Gstab.c ./test/stab.c Changed `directory' to `group' in numerous places. ./src/H5private.h The FILELIB constant can be set on the compile command-line. ./src/istore.c NEW Tests for indexed storage.
* [svn-r117] Added "seek position caching" code to shared file-records, which ↵Quincey Koziol1997-10-081-0/+14
| | | | | | trimmed 20% off the run-time for the current tests. (4.77s down to 3.89s)
* [svn-r111] Changed hdf5_file_t to H5F_t, split data struct ito two halves, fixedRobb Matzke1997-09-241-26/+56
| | | | problems when opening the same file more than once.
* [svn-r106] Fixed some symbol table bugs. Fixed a free memory read in H5Osdim.c.Robb Matzke1997-09-221-0/+2
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* [svn-r100] Interim checkin for purify. Also contains H5G shadow stuff, changesRobb Matzke1997-09-191-18/+66
| | | | | | to int64 encode/decode to fix purify on 32-bit systems, changes to H5O_modify, changes to H5D.c to use H5F_open/close(), etc. Documentation will be mailed shortly...
* [svn-r71] Lost my changelog, but basically some new caching functions.Robb Matzke1997-09-101-1/+1
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* [svn-r44] ./src/H5D.cRobb Matzke1997-08-281-2/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | I commented out a bunch of code in H5D_flush() so I could compile and link the test cases. If you commit your changes to that file, whatever they may be, I'll change H5D_flush() to use the new directory functions described below... ./src/H5G.c H5G_namei() ----------- Understands files without directories. The root object (directory or not) can be found by asking for `/' (or any equivalent absolute or relative name like `/.//.///' or `.//.///' (if the cwd is the root)) or by name like `/foo' (or any other equivalent absolute or relative name) if the object has a name message with the value `foo'. This function is used by most of the other H5G functions so they now understand directory-less files too. H5G_new() --------- Creates the root directory implicitly if it doesn't already exist, moving any previous non-directory root object into the new root directory before creating the requested directory within the root. The creation of the root directory happens first, regardless of whether the requested directory creation succeeds. Once the root directory is created it never disappears even if the file later has only one object. This "feature" can be used to force a file to have a root directory by saying something like: H5G_new (..., "/", ...); H5ECLEAR; /*we don't care about the H5E_EXISTS failure*/ The H5G_new() in the previous example fails because the root directory is created implicitly before we attempt to create the requested "/" directory. H5G_find() ---------- Understands files without directories. If there is no root object then this function is guaranteed to fail even if the request is for `/'. As mentioned for H5G_namei(), the root object can be retrieved with `/' or `/foo' (or equivalent absolute or relative names). H5G_insert() ------------ Understands files without directories and attempts to create such files when there is only one object. The root symbol table is created implicitly when necessary. A root object can be given a name message by the caller and then inserted with the name `/' or it can be inserted with the name `/foo' in which case H5G_insert() will set the name message to `foo'. H5G_modify() ------------ Understands files without directories. ./src/H5Fprivate.h Removed the root_type field from hdf5_file_t. ./src/H5Fprivate.h ./src/H5F.c Removed H5F_root_type() ./src/H5Fpublic.h Removed H5F_root_symtype_t. ./src/H5Oprivate.h ./src/H5O.c Added H5O_remove() which is currently a no-op.
* [svn-r35] ./src/H5ACproto.hRobb Matzke1997-08-151-34/+293
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/H5Aproto.h ./src/H5Bproto.h ./src/H5Cproto.h ./src/H5Dproto.h ./src/H5Eproto.h ./src/H5Fproto.h ./src/H5Gproto.h ./src/H5Hproto.h ./src/H5MFproto.h ./src/H5MMproto.h ./src/H5Mproto.h ./src/H5Oproto.h ./src/H5Pproto.h ./src/H5Tproto.h ./src/H5proto.h These files were removed from the library and renamed by changing `proto' to `public'. ./src/H5ACpublic.h NEW ./src/H5Apublic.h NEW ./src/H5Bpublic.h NEW ./src/H5Cpublic.h NEW ./src/H5Dpublic.h NEW ./src/H5Epublic.h NEW ./src/H5Fpublic.h NEW ./src/H5Gpublic.h NEW ./src/H5Hpublic.h NEW ./src/H5MFpublic.h NEW ./src/H5MMpublic.h NEW ./src/H5Mpublic.h NEW ./src/H5Opublic.h NEW ./src/H5Ppublic.h NEW ./src/H5Tpublic.h NEW ./src/H5public.h NEW These files came from the old H5*proto.h files. ./src/Makefile ./src/Makefile.in NEW Removed. Now generated automatically from Makefile.in by running configure. ./src/h5oplat.h ./src/hdf5fort.h ./src/hdf5gen.h ./src/hdf5glob.h ./src/hdf5lims.h ./src/hdf5meta.h ./src/hdf5pabl.h ./src/hdf5plat.h ./src/hdf5port.h ./src/hdf5type.h Removed. The contents of these files has moved to other header files or source files depending on it's nature. ./src/H5.c ./src/H5A.c ./src/H5B.c ./src/H5C.c ./src/H5D.c ./src/H5E.c ./src/H5F.c ./src/H5G.c ./src/H5H.c ./src/H5M.c ./src/H5MF.c ./src/H5MM.c ./src/H5O.c ./src/H5Ocont.c ./src/H5Oname.c ./src/H5Onull.c ./src/H5Ostab.c ./src/H5P.c ./src/H5T.c Fixed include files. Moved some things from old headers into these files. ./src/H5ACprivate.h ./src/H5Aprivate.h ./src/H5Bprivate.h ./src/H5Cprivate.h ./src/H5Dprivate.h ./src/H5Eprivate.h ./src/H5Fprivate.h ./src/H5Gprivate.h ./src/H5Hprivate.h ./src/H5MFprivate.h ./src/H5MMprivate.h ./src/H5Mprivate.h ./src/H5Oprivate.h ./src/H5Pprivate.h ./src/H5Tprivate.h ./src/H5private.h ./src/debug.c Fixed include files. ./src/hdf5.h This is now the top-level *PUBLIC* include file. It should never appear in the library *.c files.
* [svn-r30] Intermediate checkin of (non-working) dataset code to allow for ↵Quincey Koziol1997-08-151-1/+3
| | | | | | source code rearrangement.
* [svn-r20] Upgraded function comment header for H5Fcreate to be the the ↵Quincey Koziol1997-08-111-0/+2
| | | | | | template for future functions...
* [svn-r15] ./src/H5AC.cRobb Matzke1997-08-071-9/+13
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/H5ACprivate.h ./src/H5ACproto.h ./src/H5Bproto.h ./src/H5Gproto.h ./src/H5Hproto.h ./src/H5MFprivate.h ./src/H5MFproto.h ./src/H5MM.c ./src/H5MMprivate.h ./src/H5MMproto.h Changed my e-mail address. ./src/H5O.c NEW ./src/H5Onull.c NEW ./src/H5Ocont. NEW ./src/H5Ostab.c NEW New functions for dealing with object headers. The H5O.c is the generic stuff, and each particular message has a source file for the specific stuff. Use ./src/H5Ostab.c as a model for implementing other messages. ./src/Makefile ./src/test/Makefile Added new files ./src/debug.c Added debugging calls for object headers. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c ./src/H5MF.c Changed my e-mail address. Improved error handling. ./src/H5Eprivate.h ./src/H5Eproto.h Added more error symbols ./src/H5F.c Changed my e-mail address. Used macros for sizeof offsets and lengths. Added the interface initialization function to H5F_block_read() and H5F_block_write(). Updated H5F_debug() ./src/H5Fprivate.h Got rid of H5F_symbol_table_size(). Use H5G_SIZEOF_ENTRY() instead. Reformatted H5F_decode_offset() for readability. ./src/H5G.c Changed my e-mail address. Improved error handling. Replaced not_implemented_yet__*() with real functions from H5O. ./src/H5Gprivate.h Changed `symtab' to `stab' to be consistent with other stuff. ./src/H5H.c ./src/H5Hprivate.h Changed my e-mail address. Improved error handling. Added an extra argument to H5H_new() to indicate whether you want a global heap or a local heap. ./src/hdf5gen.h Added NELMTS() Fixed FUNC_ENTER() Rewrote FUNC_LEAVE() in terms of HRETURN(). ./src/hdf5meta.h Added `const' to the decode macros. ./src/hdf5pabl.h Added PABLO_SAVE() ./test/testhdf5.c ./test/testhdf5.h Added calls for object header testing. ./test/theap.c Turned off some output.
* [svn-r12] ./src/H5AC.cRobb Matzke1997-08-041-0/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Fails sooner if the type of object requested doesn't match the type of object cached. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Fprivate.h ./src/H5G.c ./src/H5Gnode.c ./src/H5Gprivate.h ./src/H5H.c ./src/H5Hprivate.h Changed lots of `H5*_HDR_SIZE' macros to `H5*_SIZEOF_HDR' to make things more consistent. Added H5*_SIZEOF_MAGIC macros. Added debugging functions to some of the packages. ./src/H5F.c Fixed a bug with reading past the end of a buffer. ./src/H5Tproto.h Added prototypes for H5Tadd_field() and H5Tget_fields(). ./src/debug.c Low-level file debugging program. ./src/Makefile Builds `debug' as one of the main targets. The target is called `debug_hdf5' so it doesn't conflict with the `debug' target that was already there. But the executable is called `debug'.
* [svn-r11] Moved haddr_t from H5Fprivate.h to H5Fproto.h (so I can store the ↵Quincey Koziol1997-08-011-14/+0
| | | | | | | | address of the object header in the dataset structure). Also deleted the support for a "per file" error stack, since we've decided to go with a "per thread" model (currently).
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