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* [svn-r339] Changes since 19980408Robb Matzke1998-04-0912-66/+485
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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 Matzke1998-04-0850-1205/+1306
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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 Matzke1998-04-0747-204/+473
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r336] Changes since 19980402Robb Matzke1998-04-0311-29/+191
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST ./test/Makefile.in ./test/shtype.c [NEW] Added some tests for shared data types. ./configure.in Removed MF and HL from the default debug list since. MF because it hasn't been implemented yet and HL because it produces lots of annoying messages about adjusting the size of local heaps. ./src/H5F.c ./src/H5T.c ./src/H5Tprivate.h Fixed a bug with opening the same file twice. The first close on the file_id incorrectly closed shared data structs. Closing a file now correctly unshares data types that might be pointing into that file. ./src/H5T.c ./src/H5Tpublic.h Added an H5Tis_shared(). The caller supplies a file and a data type and the function returns true if the data type is currently marked for sharing in that file. ./src/H5AC.c ./src/H5F.c ./src/H5HL.c ./src/H5HG.c ./src/H5MF.c ./src/H5O.c We now detect errors sooner when writing to a read-only file. In the past, the error might not show up until the cached item was flushed, and it was sometimes possible to not even get an error! ./src/H5I.c ./src/H5Iprivate.h If the search function fails then H5I_search() returns failure. Also, the first argument for the search function isn't const anymore because we might want the search to have side effects (like calling H5T_unshare() for all shared data types whose file just closed).
* [svn-r335] Changes since 19980330Robb Matzke1998-04-0329-439/+1138
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST ./src/Makefile.in ./test/Makefile.in Added new files. ./config/linux ./src/H5HL.c ./src/H5HLprivate.h ./src/H5MF.c ./src/H5MFprivate.h Added `-DH5HL_DEBUG -DH5MF_DEBUG' to the debug list. ./html/H5.format.html Updated shared object message information. ./src/H5D.c Datasets can now share data types. ./src/H5F.c Updated a comment that referred to H5ACC_WRITE. ./src/H5HG.c ./src/H5HGprivate.h Moved a few things around. Made debugging better so you can now give a collection address to ./src/debug and it shows some useful stuff. ./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/H5Osdspace.c ./src/H5Oshared.c [NEW] ./src/H5Ostab.c Supports shared messages. ./src/H5T.c ./src/H5Tpkg.h ./src/H5Tprivate.h ./src/H5Tpublic.h The H5Tshare() function allows the user to give the library hints about how a data type will be used. ./test/shtype.c Tests the H5Tshare() function. ./test/gheap.c Tests the global heap. ./configure.in ./config/BlankForm [NEW] ./config/alpha-dec ./config/freebsd2.2.1 ./config/hpux10.20 ./config/irix6.2 ./config/irix64 ./config/linux ./config/powerpc-ibm-aix4.2.1.0 ./config/rs6000-ibm-aix4.1.4.0 ./config/solaris2.5 Cleaned up lots of configuration stuff and made the site configuration files lots easier and more uniform. To make a new file grab the BlankForm and modify it. By default, debugging is turned on for most packages. Within a package one can use `#ifdef H5AC_DEBUG' to wrap debugging code. Other options are: --enable-debug --enable-debug=yes The default, most but not all packages. --disable-debug --enable-debug=no --enable-debug=none The symbol NDEBUG is defined and none of the package debug symbols. --enable-debug=all Debugging is turned on for all packages. This might produce lots of output. --enable-debug=g,d Debugging is turned on for H5G and H5D. A compile mode is also now supported --enable-production --enable-production=yes The library is compiled with optimizations turned on. The compiler flags are augmented by adding PROD_CFLAGS and PROD_CPPFLAGS which are defined in the site config file. --disable-production --enable-production=no The default. The library is compiled for development by including DEBUG_CFLAGS and DEBUG_CPPFLAGS defined in the site config file. This is usually just `-g'. --enable-production=profile --enable-production=pg Builds a library for profiling by including the flags from PROFILE_CFLAGS and PROFILE_CPPFLAGS defined in the site config file. This is usullay just `-pg' but it could include optimization flags as well depending on the type of profile one wants. In summary, configure by saying `./configure' and you'll get a development version of the library. Configure by saying `./configure --enable-production --disable-debug' and you'll get a production version with no debugging code.
* [svn-r333] Changes since 19980324Robb Matzke1998-03-3022-366/+1300
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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 Matzke1998-03-2411-421/+567
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r328] Changes since 19980318Robb Matzke1998-03-248-1101/+1131
| | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5B.c ./src/H5Bprivate.h ./src/H5G.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gpublic.h ./src/H5Gstab.c Implemented H5Giterate(). However, since most functions can't take a group ID in place of a file ID yet, there's not a whole lot that the operator can do besides print the name or something. ./test/H5O.c Fixed writing of four uninitialized bytes to the file as part of an object header. ./test/istore.c For some reason, `mpirun -np 1 istore' results in extra arguments on the command line that istore doesn't understand. I'm probably forgetting to call some MPI function in main(). Albert, Kim? So I commented out the `exit(1)' for the time being.
* [svn-r325] Changes since 19980317Robb Matzke1998-03-182-14/+17
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST ./configure.in ./configure ./Makefile.in ./bin/distdep [NEW] ./config/conclude.in ./config/depend.in ./src/.distdep [NEW] ./test/.distdep [NEW] Added some code so non-GNU systems have a list of dependencies between the .c files and the .h files. Hopefully this works and y'all don't have to keep saying `make clean' each time you change a header. On systems with GNU make, GCC, and Perl, the dependency information is generated automatically from rules in config/depend.in as has always been done. But now extra files called `.distdep' (for `distributable dependencies) are left in each directory and these are part of CVS and thus releases. (A `make dep' will create dependencies on demand without doing anything else.) On systems lacking one or more of the tools above, the various `.distdep' files are inserted into the end of the Makefiles. If you do developement on one of these systems you'll have to update the `.distdep' and/or Makefile by hand, or wait until you have access to a GNU system and do a `make dep'.
* [svn-r324] Change H5A (atoms) to H5I (IDs)Quincey Koziol1998-03-1724-714/+705
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* [svn-r323] Changes since 19980316Robb Matzke1998-03-1716-914/+1116
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5D.c ./src/H5T.c ./src/H5Tprivate.h Fixed a bug found by Kevin Powell regarding preservation of existing data during a read or write when the source and destination data types are the same. Thanks Kevin! Fixed a couple warnings on Irix64. ./src/H5D.c ./src/H5Dprivate.h ./src/H5P.c ./src/H5Ppublic.c ./src/H5Tconv.c ./src/H5Tpublic.h ./test/cmpd_dset.c The application can now turn on/off the part of the I/O pipeline that deals with preservation of initialized data. The default is off since this will be the usual case and turning it on slows down the pipe. Use H5Pset_preserve() and H5Pget_preserve(). ./src/H5Fistore.c Added an optimization for reading/writing a single chunk of chunked storage. ./src/H5Odtype.c ./src/H5Oefl.c ./src/H5Olayout.c ./src/H5Oname.c ./src/H5Osdspace.c ./src/H5Ostab.c Fixed warnings reported by marek@iiasa.ac.at. Thanks Marek. ./src/H5Odtype.c Fixed a failing assert() wrt reading compound types (not present in hdf5-1.0.0a).
* [svn-r322] Changes since 19980313Robb Matzke1998-03-176-190/+454
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./configure.in ./configure ./test/iopipe.c Added check for system(3) ./config/freebsd2.2.1 ./config/linux Added -DH5D_DEBUG to the debug flags. ./src/H5D.c ./src/H5Dprivate.h ./src/H5P.c ./src/H5Ppublic.h ./src/H5Sprivate.h ./src/H5Ssimp.c ./html/Datasets.html Finally implemented strip mining in the I/O pipeline, placing a user-defined upper bound on the amount of temporary memory used by the pipeline. The default is 1MB type conversion and background buffers allocated/freed on demand. However, the size can be changed and/or application-allocated buffers supplied with H5Pset_buffers() called on the data transfer property list passed to H5Dread() and H5Dwrite(). Minor optimizations to H5Dread() and H5Dwrite(). More coming later... ./test/dsets.c Added calls to H5Pset_buffer() to test application-defined temporary buffers in the I/O pipeline. ./test/Makefile.in Removed `iopipe' from the list of confidence tests. Saying `make timings' in the test directory runs timing tests. I did this because (1) they don't really test anything new, and (2) they can take a long time to run.
* [svn-r321] Changes since 19980306Robb Matzke1998-03-1310-23/+338
| | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST ./src/H5D.c ./src/H5S.c ./src/H5Sprivate.h ./src/H5Ssimp.c ./src/H5Tpkg.h ./src/H5Tprivate.h ./src/H5V.c ./test/Makefile.in ./test/iopipe.c [NEW] Optimizations to the I/O pipeline. ./src/H5Fistore.c ./src/H5Oefl.c Fixed a few compiler warnings. ./MANIFEST Added entries for ./config/{intel-osf1,irix5.3}
* [svn-r319] Removed H5M API from codeQuincey Koziol1998-03-128-893/+7
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* [svn-r312] MPI_File_open now uses the comm and info as specificied inAlbert Cheng1998-03-081-3/+1
| | | | | the access_template, instead of COMM_WORLD and INFO_NULL as before.
* [svn-r311] Changes since 19980305Robb Matzke1998-03-061-0/+3
| | | | | | | | | | | | ---------------------- ./configure.in ./configure ./config/commence.in Added checking for `ar' then `xar' and set the $(AR) variable in the Makefiles. The check is not performed if $AR is already defined in the environment (including being set in a config file). We check for `-lcoug' for ASCI/Red.
* [svn-r310] Fixed a type of H5F_LOW_MPIO. Chose _MPIO over _MPI since thatAlbert Cheng1998-03-063-9/+9
| | | | is more consistent with other names like STDIO.
* [svn-r309] Revised datatype as uint32 is no longer valid.Albert Cheng1998-03-061-2/+2
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* [svn-r306] Changes since 19980305Robb Matzke1998-03-055-35/+95
| | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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 Matzke1998-03-059-60/+260
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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 Matzke1998-03-0430-1153/+1674
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r302] Changes since 19980227Robb Matzke1998-02-2812-614/+595
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Errors.html [NEW] ./html/H5.user.html ./MANIFEST Documents the new error handling interface and gives examples. ./src/H5.c ./src/H5private.h ./src/H5Apublic.h ./src/H5E.c ./src/H5Eprivate.h ./src/H5Epublic.h Rewrote error handling. Got rid of `push' overloading and added a few API functions. The error stack is statically allocated and not entered into H5A, simplifying error handling within the error handler. Rudimentary support for threads. Changed the names of some errors. ./src/H5G.c ./src/H5Gnode.c ./src/H5H.c ./src/H5O.c ./src/H5T.c Changed H5ECLEAR to H5E_clear(). ./src/Makefile.in Alphabetized source list. ./test/dsets.c Turned off error reporting around functions that are expected to fail. Error messages are sent to stdout. ./test/testhdf5.c ./test/testhdf5.h Turned off automatic error reporting since this file mostly calls internal functions and does its own error reporting.
* [svn-r301] Changes since 19980226Robb Matzke1998-02-278-79/+79
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r300] ./MANIFESTRobb Matzke1998-02-262-1470/+0
| | | | | | | Changed names for P->S and C->P changes. ./INSTALL Added a note.
* [svn-r299] Changes since 19980224Robb Matzke1998-02-266-22/+428
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/Files.html Added a few details for some of the new H5Pset/get functions. ./src/H5F.c ./src/H5Fpublic.h Fixed automatic closing of files on exit(). Added public H5F_ACC_DEBUG. Using it to create or open a file turns on debugging for that file, which currently just prints cache statistics when the file is closed. ./src/H5G.c An error is returned if one tries to set the current working group to something other than a group. ./src/H5Gnode.c Fixed a symbol table bug. Under certain circumstances it was possible to enter a symbol in such a way that lookup of that symbol failed. A bug report was sent to hdf5dev. ./src/H5P.c ./src/H5Ppublic.h Added the H5Pget_...() functions for file drivers. The H5Pget_mpi() is a no-op that always fails.
* [svn-r298] Changes since 19980219Robb Matzke1998-02-2515-407/+1954
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r297] Switched templates to "property lists" and changed API prefix ↵Quincey Koziol1998-02-2512-298/+298
| | | | from H5C to H5P
* [svn-r296] Switched prefix for dataspaces from H5P to H5SQuincey Koziol1998-02-2512-346/+346
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* [svn-r294] Changes since 19980219Robb Matzke1998-02-193-30/+45
| | | | | | | | | | | | | | ---------------------- ./src/H5A.c ./src/H5C.c Objects are removed from the group when there reference count hits zero regardless of whether H5A knows how to free the object. ./src/debug.c ./test/tstab.c Changed a zero to H5C_DEFAULT.
* [svn-r290] Changes since 19980206Robb Matzke1998-02-1918-1648/+2359
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r286] Changed release name from "hdf-5.0.0a" to "hdf5-1.0.0a" to ↵Quincey Koziol1998-02-171-1/+1
| | | | | | | explicitly make it clear that this release is not [currently] compatible with the older HDF releases.
* [svn-r279] Changed return type of H5Fclose from 'int32' to 'herr_t'Quincey Koziol1998-02-161-1/+1
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* [svn-r268] Revised the comment block of H5Cset_mpi. Also fixed a small bug inAlbert Cheng1998-02-131-4/+33
| | | | the same function in the call of MPI_Comm_dup.
* [svn-r258] Problem:Albert Cheng1998-02-121-2/+2
| | | | | | | | | | | | | | When configure with enable-paralle, H5detect and debug were not compiled with $(LIBS) but were executed via RUNTEST (mpirun ...). The O2K mpirun can't handle such an object code. Solutions: Compile them also with $(LIBS) which contains the mpi library names. Could have just removed $(RUNTEST) but in some parallel system, all object file may have to be launched by some mpirun-equivalent command anyway. Platforms tested: O2K
* [svn-r257] H5F.c:Albert Cheng1998-02-122-10/+6
| | | | | | | | | | | | | 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-r255] Added a teeny tiny little miniscule amount of support for strings ↵Robb Matzke1998-02-121-0/+26
| | | | | | because the VB-API work stores comments in some of the VB tables.
* [svn-r249] configure.in configure:Albert Cheng1998-02-111-1/+1
| | | | | | | Changed default RUNTEST to 'mpi -np 1'. src/Makefile.in: Use $(RUNTEST) to run programs if enable-parallel is on.
* [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 Yates1998-02-102-40/+70
| | | | In H5Fprivate.h made MPI-IO the default low-level I/O module when HAVE_PARALLEL.
* [svn-r232] Problem: Parallel H5Fcreate failed if file doesnot exist. When theAlbert Cheng1998-02-101-1/+13
| | | | | | | | | | | | | | file does not exist, the code tried to open the file with EXCL CREATE. ROMIO cannot handle file-open with EXCL Create due to racing problem. The first process creates the file which then fails all other processes. Solution: In the parallel code, turn on TRUNC mode to allow "late" open calls to succeed too. It is safe to force TRUNC mode since the file is known non-existing at that point. The MPIO implementation has to provide the real solution. Platform tested: O2K with ROMIO.
* [svn-r230] Changes were actually made by Robb. I am commiting them for himAlbert Cheng1998-02-0936-1811/+1865
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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 Cheng1998-02-069-34/+207
| | | | | 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-r221] In H5F_mpio_open, if truncation was requested, all processes must ↵Robert Kim Yates1998-02-051-21/+24
| | | | | | | call MPI_File_set_size (a collective operation). Also changed/added some error messages.
* [svn-r220] Changes since 19980204Robb Matzke1998-02-051-1/+1
| | | | | | | | | | | ---------------------- ./src/H5H.c Changed a temporary buffer from 20 bytes to 52 bytes. ./test/tfile.c Default sizes for file addresses and sizes are the same as sizeof(size_t) on the machine that creates the file.
* [svn-r219] Changes since 19980204Robb Matzke1998-02-041-6/+3
| | | | | | | | ---------------------- ./src/H5Odtype.c Compound data type names weren't aligned correctly. Thanks to Elena for finding this bug.
* [svn-r218] ./src/H5F.cRobb Matzke1998-02-043-18/+17
| | | | | | | | | | The default file addr and size sizes for new files are the same as sizeof(size_t) on the machine that creates the file. They used to always be 4. ./src/H5Pprivate.h ./src/H5Psimp.c Fixed `start' and `nelmts' arguments to be `size_t'.
* [svn-r217] Fixed fence-post & memory copy errors in H5F_encode_length_unusual()Quincey Koziol1998-02-041-3/+3
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* [svn-r216] Added (ifdef'ed out currently) support for creating scalar simple ↵Quincey Koziol1998-02-041-10/+21
| | | | variables.
* [svn-r215] offset was declared intn when it actually dealed with pointer ↵Albert Cheng1998-02-041-1/+2
| | | | | | addresses. Changed it to size_t type.
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