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* [svn-r387] Testing CVS perl log script, ignore this messageQuincey Koziol1998-05-061-1/+1
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* [svn-r386] Testing CVS perl log script, ignore this messageQuincey Koziol1998-05-061-0/+1
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* [svn-r385] Purpose:Paul Harten1998-05-041-1/+1
| | | | | | | | | | | | | | | | | | | Bug fix Problem: On the ASCI Red machine, the configure step is executed from the platform cross compiler, so that the configure test for "long long int" format support was inconclusive. Solution: It was necessary to uncomment the line #hdf5_cv_printf_ll=${hdf5_cv_printf_ll='ll'} in config/intel-osf1 to force "long long int" format support. Platform tested: TFLOPS Application server, Intel TFLOPS
* [svn-r384] Changes since 19980430Robb Matzke1998-05-011-1/+3
| | | | | | | | ---------------------- ./src/H5G.c Fixed a read/write of free memory that my home-brew purify doesn't catch (yet :-)
* [svn-r383] ./src/H5A.cRobb Matzke1998-05-0114-144/+245
| | | | | | | | | | | | | | | | | ./src/H5F.c ./src/H5G.c ./src/H5O.c ./src/H5Osdspace.c ./src/H5T.c ./src/H5Tconv.c ./src/H5Z.c ./test/big.c ./test/cmpd_dset.c ./test/dsets.c ./test/extend.c ./test/istore.c Now that I have a home-grown version of Purify I fixed all the leaks in all the test files.
* [svn-r382] Added ifdef's around getrusage.Quincey Koziol1998-04-291-1/+37
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* [svn-r381] Added "rank=0" for a scalar variable initialization.Quincey Koziol1998-04-291-0/+1
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* [svn-r380] Finished tests for scalar dataspaces with both datasets and ↵Quincey Koziol1998-04-284-21/+433
| | | | attributes.
* [svn-r379] Fleshed out code for scalar dataspace support.Quincey Koziol1998-04-282-58/+53
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* [svn-r378] Merged Robb's and my memory leak fixes into one set of common fixes.Quincey Koziol1998-04-287-70/+82
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* [svn-r377] Changes since 19980424Robb Matzke1998-04-2813-230/+683
| | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5A.c ./src/H5T.c Fixed memory leaks. More to come later but PureAtria doesn't make a Linux version of purify and the free version doesn't compile with the new SMP Linux kernels so I had to debug over the internet on a day that Sprint seemed to be having routing problems... oh well. I got rid of most of the leaks. ./src/H5Apublic.h Includes H5Ipublic.h for types in the header file. ./src/H5O.c Comments improved for H5O_read() ./test/tattr.c Removed a non-ANSI empty initializer. ./test/dsets.c Include <string.h> ./test/istore.c Fixed a non-ANSI pointer conversion.
* [svn-r376] ./acconfig.hRobb Matzke1998-04-248-76/+185
| | | | | | | | | | | | | | | | | | | | | | | ./configure.in ./config/BlankForm ./src/H5.c Configure tries to figure out how to print `long long' types and then defines PRINTF_LL_WIDTH to be `ll' or `q' or something. It does this by running little sprintf() programs with various formats until it gets one that works. If this causes problems when cross compiling (like with parallel machines) then you may add the following to the appropriate config file: hdf5_cv_printf_ll=${hdf5_cv_printf_ll='ll'} or hdf5_cv_printf_ll=${hdf5_cv_printf_ll='q'} or hdf5_cv_printf_ll=${hdf5_cv_printf_ll='l'} ./config/intel-osf1 ./config/irix5.3 Updated these config files to match the others. This allows the `--enable-production' configure flag to work properly.
* [svn-r375] *** empty log message ***Robb Matzke1998-04-241-78/+69
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* [svn-r374] ./src/H5A.cRobb Matzke1998-04-248-72/+69
| | | | | | | | | | | | | ./src/H5D.c ./src/H5Dprivate.h ./src/H5Dpkg.h [REMOVED] ./src/H5Tpkg.h ./src/H5Tprivate.h Rearranged some header stuff so H5A doesn't have to include the package-private header files that don't belong to it. ./src/H5E.c Added the H5E_ATTR message to the major error struct.
* [svn-r373] ./MANIFESTRobb Matzke1998-04-241-1/+4
| | | | | | Added INSTALL_parallel.ascired, examples/Attributes.txt, html/Attributes.html, testpar/Makefile.ascired. Removed H5Dpkg.h
* [svn-r372] Removed redundant write from H5F_mpio_write.Robert Kim Yates1998-04-241-2/+3
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* [svn-r371] Fixed compound datatype offset problems on machines with ↵Quincey Koziol1998-04-241-6/+12
| | | | | | different struct alignments.
* [svn-r370] Fixed a couple of compiler warnings.Quincey Koziol1998-04-242-4/+4
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* [svn-r369] Changed comments in H5Pset_mpi to reflect removal of access_mode ↵Robert Kim Yates1998-04-241-8/+1
| | | | argument.
* [svn-r368] Purpose:Paul Harten1998-04-245-19/+174
| | | | | | | | | | | | | Documentation (mostly) Solution: Parallel HDF5 support on Intel TFLOPS machine using PFS file system and MPIO. Platform tested: Intel TFLOPS (ASCI Red)
* [svn-r367] Purpose:Paul Harten1998-04-231-1/+1
| | | | | | | | | | | | | | Documentation (mostly!) Solution: This change in the hdf5/config/intel-osf1 file makes the $(RUNTEST) variable used in the Makefiles explicitly list the number of processors used during execution (the change is: yod -> yod -sz 1). Platform tested: Intel TFLOPS (ASCI Red)
* [svn-r366] Purpose:Paul Harten1998-04-232-1/+117
| | | | | | | | | | New feature Solution: Parallel HDF5 support on Intel TFLOPS machine using PFS file system. Platform tested: Intel TFLOPS (ASCI Red)
* [svn-r365] Problems:Albert Cheng1998-04-232-10/+0
| | | | | | | | | | | | When data is read or written out, some layers did an immediate return(SUCCEED) if number of elements to be accessed is zero. This caused problems when collective access is used. In a collective call, all processes in a communicator must call the lowest layer of MPIO routines even if some of them happen to access no date. Solutions: Eliminated all those pre-mature return if #element==0;
* [svn-r364] Purpose:Paul Harten1998-04-231-4/+17
| | | | | | | | | | | | | | | | | | Bug fix Problem: Compiler complained about: "Wrong number of parameters to function (H5D.c: 1225)" and "Wrong number of parameters to function (H5D.c: 1520)" Solution: In these two places, the read and write functions were missing the "compress" parameter, &(dataset->create_parms->compress). I added it back in the same way it was used in other places. Platform tested: ASCI Red machine
* [svn-r363] Added attribute example code.Quincey Koziol1998-04-231-0/+140
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* [svn-r362] Added Attribute (H5A) testQuincey Koziol1998-04-236-25/+1162
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* [svn-r361] Added Attribute (H5A) code.Quincey Koziol1998-04-2320-37/+2124
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* [svn-r360] Added new files for H5A interfaceQuincey Koziol1998-04-231-0/+7
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* [svn-r359] Added tests for H5Fcreate with the H5F_ACC_EXCL flag.Albert Cheng1998-04-231-0/+26
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* [svn-r358] H5Fcreate did not accept EXCL creation flag correctly.Albert Cheng1998-04-231-3/+1
| | | | | Fixed the typo where it should have checked exclusive use of EXCL or TRUNC flags.
* [svn-r357] ./MANIFESTRobb Matzke1998-04-232-0/+29
| | | | | ./bin/versinc Forgot to add this to cvs last time.
* [svn-r356] Changes since 19980421Robb Matzke1998-04-2212-51/+163
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./bin/release ./src/H5.c ./src/H5private.h ./src/H5public.h ./src/H5Fpublic.h Changed the version number constants to names that begin with H5_VERS_ and added macros that check that the version numbers in the include files match the version number of the library. ./MANIFEST ./html/H5.user.html ./html/Version.html [NEW] ./html/version.obj [NEW] ./html/version.gif [NEW] Documented version numbers and the macros, constants, and functions associated with them. ./bin/versinc A perl script that increments the minor version number and sets the patch level back to zero. This is intended to be invoked from the top of the source tree by a cvs commit anywhere in the source tree. Quincey? ./src/H5O.c ./src/H5Oprivate.h Added H5O_count() to count the number of object header messages of a particular type. Quincey needs this for the attribute package. ./test/dsets.c Fixed warnings. Enabled the small strip-mine buffer test. ./config/linux Added optimizations for the Pentium-Pro for production mode.
* [svn-r355] Changes since 19980417Robb Matzke1998-04-219-40/+267
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- This checkin completes the compression stuff almost two weeks ahead of schedule. It should now all be working and documented. ./Makefile.in ./config/commence.in A distclean causes the distribution makefile to be copied to Makefile again. ./src/H5D.c Opening a compressed dataset now works properly. ./src/H5P.c ./src/H5Ppublic.h The H5Pset_compression() and H5Pget_compression() now work as documented. ./src/H5T.c Fixed a bug that causes the library to crash sometimes if debugging is turned on for the `t' package. ./src/H5Z.c Fixed a bug where the number of bytes attributed to compression overruns was too low in the debugging output. ./test/dsets.c More compression tests: reading of uninitialized data, opening an existing dataset and reading it, partial I/O which isn't aligned on chunk boundaries, and use of application-defined compression methods. ./MANIFEST Removed ./test/dspace.c.
* [svn-r354] Removed because it is not being used.Albert Cheng1998-04-201-13/+0
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* [svn-r353] Changes since 19980414Robb Matzke1998-04-1746-781/+2780
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r352] *** empty log message ***Albert Cheng1998-04-172-19/+20
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* [svn-r351] Removed the access_mode argument from H5Pset_mpi which was laterAlbert Cheng1998-04-177-67/+38
| | | | | | | | | | | | | | | | | used to open an HDF5 file with MPIO access. The design has changed to provide access-mode controll (independent or collective access) as an argument in the H5D read/write calls. Also removed the macros H5FACC_INDEPENDENT and H5FACC_COLLECTIVE. The original thinking was to define how a file is independent or collective access. They are replaced by the enum H5D_transfer_t with values of H5D_XFER_INDEPENDENT and H5D_XFER_COLLECTIVE. These values are used in the H5Pset_xfer to setup a data transfer property list to be used during the H5D read/write calls. The original access_mode field in the File access structure is still there. It would be removed soon once the transfer control can be passed down to the low level I/O routines.
* [svn-r350] RUNTEST was hardcoded to "mpirun -np 1" due to some historical SGIAlbert Cheng1998-04-162-9/+9
| | | | | implementation. Changed it to take a user supplied value during configuration call.
* [svn-r349] Set "cc" as the C compiler. The CFLAGS setting works with SGIAlbert Cheng1998-04-161-0/+3
| | | | compilers only.
* [svn-r348] Removed shdf entries. With more parallel access features used,Albert Cheng1998-04-161-9/+3
| | | | | | it is hard to keep an equivalent sequential version. Its useness has diminshed too now that the basic parallel access features are working.
* [svn-r347] Added '*.core' to distclean target and set new location for cpp ↵Quincey Koziol1998-04-142-1/+2
| | | | | | on FreeBSD machines.
* [svn-r346] Changes since 19980410Robb Matzke1998-04-1416-104/+807
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./html/H5.format.html ./src/H5E.c ./src/H5Epublic.h ./src/H5F.c ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gprivate.h ./src/h5ls.c ./test/Makefile.in Symbolic links are now supported. The ./test/links program will create a `links.h5' file that demonstrates hard links, soft links, dangling links, and recursive links. A symbolic link is a symbol table entity and doesn't have an object header. It's format is described in H5.format.hml. ./src/H5G.c ./src/H5Gpublic.h ./src/h5ls.c Implemented H5Gstat() and H5Gget_linkval() as documented by Quincey. The `H5G_type_t type' field of `H5G_stat_t' was changed to `int type' because H5G_type_t was already used and the `type' data type should be open-ended. ./src/H5Ffamily.c Removed an incorrect diagnostic message. ./test/big.c Added read/write calls to test partial I/O to big contiguous datasets. With no arguments it writes to a dataset and prints the list of points written which should be redirected to a file. With an argument (the name of a file containing the stdout of a run with no arguments) values are read from the dataset. One would typically say `big >x && big x'.
* [svn-r345] Updated the comment block of H5Pset_xfer.Albert Cheng1998-04-131-3/+3
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* [svn-r344] Added collective access tests to testphdf5.c.Albert Cheng1998-04-132-132/+598
| | | | | Changed the data file names to *.h5f to avoid potential mixup with the split file convention.
* [svn-r343] First implementation of collective access support.Albert Cheng1998-04-136-2/+313
| | | | | | | | | | | | | | | | | | | | | | | | | H5D.c Changed H5D_write and H5D_read to recognize collective transfer requests. Current algorithm puts the xfer-mode in the file->mpio structure. Not thread safe. Need to revise it to pass transfer parameter as a function parameters to the lower levels. H5Dprivate.h H5Dpublic.h Added xfer_mode to the transfer property list structure. Added defination of transfer modes, H5D_XFER_INDEPENDENT and H5D_XFER_COLLECTIVE. H5Farray.c Added code to handle collective access requests. Currently works for one contiguous block at a time. Need to revise it with the MPIO low level calls to combine all blocks as one truely collective call. H5P.c H5Ppublic.h Added H5Pset_xfer and H5Pget_xfer routines that can set and get the transfer mode of a data transfer property list.
* [svn-r342] H5F_mpio_write and H5F_mpio_read now do collective versions of MPI-IORobert Kim Yates1998-04-101-7/+40
| | | | write and read based on the value of the access_parms.
* [svn-r341] Changes since 19980409Robb Matzke1998-04-104-51/+44
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./INSTALL ./INSTALL_MAINT Updated installation instructions. ./html/Big.html [NEW] A guide to using big datasets on small machines. ./MANIFEST Added Big.html and INSTALL.ascired. ./html/Datasets.html ./html/Dataspaces.html ./html/Datatypes.html ./html/Files.html ./html/H5.api.html ./html/H5.intro.html ./html/H5.sample_code.html ./html/H5.user.html Updated documentation by changing lots of `size_t' arguments to `hsize_t'. Added line numbers to some examples. ./html/H5.intro.html Perhaps someone want's to volunteer to make this file human-readable?
* [svn-r340] Purpose:Paul Harten1998-04-091-0/+50
| | | | | | | | | | | | | | | | Documentation Problem: The installation steps of the HDF5 library for the ASCI Red machine must be split up between the ASCI Red machine itself and its support machine. Solution: An installation list has been drawn-up which explicitly states which machine is responsible for which step of the installation. Platform tested: ASCI Red Machine, TFLOPS Application server
* [svn-r339] Changes since 19980408Robb Matzke1998-04-0919-341/+888
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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 Matzke1998-04-0863-1874/+2041
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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.
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