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* [svn-r5839] Purpose:Quincey Koziol2002-07-311-23/+5
| | | | | | | | | | | | | | | Code cleanup Description: Move operations on each type of selection into the source code file for each selection type (all->H5Sall.c, hyperslab->H5Shyper.c, etc.) Remove central H5S_select_<foo> operations, instead calling the operations through function pointers in each selection (a much more object-oriented approach). Platforms tested: FreeBSD 4.6 (sleipnir)
* [svn-r5834] Purpose:Quincey Koziol2002-07-241-62/+49
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Large code cleanup/re-write Description: This is phase 1 of the data I/O re-architecture, with the following changes: - Changed the selection drivers to not actually do any I/O, they only generate the sequences of offset/length pairs needed for the I/O (or memory access, in the case of iterating or filling a selection in a memory buffer) - Wrote more abstract I/O routines which get the sequence of offset/ length pairs for each selection and access perform the I/O or memory access. Benefits of this change include: - Removed ~3400 lines of quite redundant code, with corresponding reduction in the size of library binary. - Any selection can now directly access memory when performing I/O, if no type conversions are required, instead of just "regular" hyperslab and 'all' selections, which speeds up I/O. - Sped up I/O for hyperslab selections which have contiguous lower dimensions by "flattening" them out into lesser dimensional objects for the I/O. No file format or API changes were necessary for this change. The next phase will be to create a "selection driver" for each type of selection, allowing each type of selection to directly call certain methods that only apply to that type of selection, instead of passing through dozens of functions which have switch statements to call the appropriate method for each selection type. This will also reduce the amount of code in the library and speed things up a bit more. Phase 3 will involve generating an MPI datatype for all types of selections, instead of only "regular" hyperslab and 'all' selections. This will allow collective parallel I/O for all I/O operations which don't require type conversions. It will also open up the door for allowing collective I/O on datasets which require type conversion. Phase 4 will involve changing the access pattern to deal with chunked datasets in a more optimal way (in serial). Phase 5 will deal with accessing chunked datasets more optimally for collective parallel I/O operations. Platforms tested: FreeBSD 4.6 (sleipnir) w/ parallel & C++ and IRIX64 6.5 (modi4) w/parallel
* [svn-r5680] Purpose:Quincey Koziol2002-06-191-2/+4
| | | | | | | | | | | | | | | | | | | | New feature. Description: There is some discussion among the SAF team as to whether it is better to use MPI derived types for raw data transfers (thus needing a MPI_File_set_view() call), or whether it is better to use a sequence of low-level MPI types (i.e. MPI_BYTE) for the raw data transfer. Solution: Added an in internal flag to determine whether derived types are preferred (the default), or whether they should be avoided. An environment variable ("HDF5_MPI_PREFER_DERIVED_TYPES") can be set by users to control whether MPI types should be used or not. Set the environment variable to "0" (i.e.: 'setenv HDF5_MPI_PREFER_DERIVED_TYPES 0' to avoid using MPI derived types. Platforms tested: IRIX64 6.5 (modi4) w/parallel
* [svn-r5543] Purpose:Quincey Koziol2002-06-061-6/+0
| | | | | | | | | | Bug fix. Description: Return H5S_all_opt_possible() prototype to original position in H5Spkg.h, it is not related to parallel I/O. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5530] Purpose:Bill Wendling2002-06-041-1/+8
| | | | | | | | | | | | | | | Code Cleanup Description: Removed some compiler warnings. Solution: In a few cases, NULL was being returned when a FAIL was supposed to be returned instead. There were some header files which needed to be included in a few of the sources. A couple of if-then statements had assignments in the conditional part. The compiler warned that they should have extra "()"s around them. Made the code check the values instead. Platforms tested: Linux (parallel) Modi4 (parallel)
* [svn-r5328] Purpose:Quincey Koziol2002-05-021-2/+1
| | | | | | | | | | | Code cleanup Description: Remove an extraneous data structure for tracking the location of a hyperslab iterator when walking through regular hyperslab selections. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5261] Purpose:Quincey Koziol2002-04-251-1/+1
| | | | | | | | | | Code cleanup Description: Remove more debugging printf's that were ifdef'd out. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5259] Purpose:Quincey Koziol2002-04-251-19/+8
| | | | | | | | | | | | | | | | Code cleanup Description: Previously, the I/O pipeline (pline), external file list (efl) and fill- value (fill) structs were passed down the raw data function call chain, even into and/or through functions which didn't use them. Since all three of these pieces of information are available from the dataset creation property list, just pass the dataset creation property list down the function call chain and query for the information needed in a particular function. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5170] Raymond Lu2002-04-111-4/+4
| | | | | | | | | | | Purpose: New feature Description: Fill-value's behaviors for contiguous dataset have been redefined. Basicly, dataset won't allocate space until it's necessary. Full details are available at http://hdf.ncsa.uiuc.edu/RFC/Fill_Value, at this moment. Platforms tested: Linux 2.2.
* [svn-r5168] Pedro Vicente Nunes2002-04-111-1/+9
| | | | | | | | | | | | | | | | | | | | | | Purpose: H5Dset_extent API function Description: 1 new public function: H5Dset_extent, that allows shrinking a dataset several private functions that free the previously allocated chunks H5F_istore_prune_by_extent, H5B_prune_by_extent : removes the chunks H5F_istore_initialize_by_extent : initializes them with the fill value H5S_select_fill is used to fill the selection in the memory buffer Platforms tested: Windows 2000 SUN( arabica) LINUX (eirene) IRIX64 (modi4)
* [svn-r5152] Purpose:Quincey Koziol2002-04-091-0/+2
| | | | | | | | | | | | | | | New Feature Description: Added new H5Dfill() routine to fill the elements in a selection for a memory buffer with a fill value. This is a user API wrapper around some internal routines which were needed for the fill-value modifications from Raymond as well as Pedro's code for reducing the size of a chunked dataset. Platforms tested: FreeBSD 4.5 (sleipnir) [and IRIX64 6.5 (modi4) in parallel, in a few minutes]
* [svn-r5138] Purpose:Quincey Koziol2002-04-031-19/+17
| | | | | | | | | | | | | | | | | | | | | | Bug Fix & Code Cleanup Description: The MPI-IO optimized transfer routines (H5S_mpio_spaces_read/H5S_mpio_space_write) are not being invoked in all the cases where they could be used. Additionally, the code for determining if an optimized transfer is wrapped into the actual I/O transfer routine in a very confusing way. Solution: Re-enabled MPI-IO optimized transfer routines in all the cases where they should work. Extracted all the pre-conditions for optimized transfers into separate routines from the transfer routines. Platforms tested: FreeBSD 4.5 (sleipnir) & IRIX64 6.5 (modi4)
* [svn-r5131] Purpose:Quincey Koziol2002-04-021-1/+5
| | | | | | | | | | | | | | Code cleanup Description: The function pointer for doing parallel I/O was being set in the H5D_read and H5D_write routines instead of in H5S_conv, where it belongs. Solution: Added an extra 'flags' parameter to H5S_find to allow the function to determine when to set the MPIO functions instead of the regular optimized I/O routines and get rid of code messing with the function pointer in the H5D routines. Platforms tested: IRIX64 6.5 (modi4)
* [svn-r5130] Purpose:Quincey Koziol2002-04-021-0/+1
| | | | | | | | | | | | | | | | | | | | | | Bug Fix & Feature Description: The selection offset was being ignored for optimized hyperslab selection I/O operations. Additionally, I've found that the restrictions on optimized selection I/O operations were too strict and found a way to allow more hyperslabs to use the optimized I/O routines. Solution: Incorporate the selection offset into the selection location when performing optimized I/O operations. Allow optimized I/O on any single hyperslab selection and also allow hyperslab operations on chunked datasets. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r4965] Purpose:Quincey Koziol2002-02-141-12/+16
| | | | | | | | | | | | | Bug Fix Description: If a non-zero fill-value is used for a chunked dataset, any non-existent chunked read with an "all" selection (or a contiguous hyperslab selection) will return zero for those instead of the user's fill-value. Solution: Fixed I/O code to pass down fill-value to "optimized" I/O routines, so it will be available to fill the user's buffer with. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r4921] Pedro Vicente Nunes2002-02-071-0/+1
| | | | | | | | | | | | | Description: modified the below files to inlude a new public function H5Dset_extend, similar to H5Dextend, but it can lower the dimension this function requires 2 more new private functions: H5D_set_extend H5S_set_extend Platforms tested:
* [svn-r4914] Purpose:Quincey Koziol2002-02-071-10/+0
| | | | | | | | | | | | | | | | | | Bug fix & feature add Description: Added new API function H5Sget_select_type to determine type of selection in a dataspace. Return values are defined by the H5S_sel_type enumerated type in H5Spublic.h Also, hyperslab operations involving a "all" or "none" selection are not generating the correct resulting selections. Solution: Added more code to make hyperslab operations against an "all" or "none" selection generate the correct results. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r4586] Purpose:Quincey Koziol2001-11-021-15/+15
| | | | | | | | | | | | | | Code speedups, etc. Description: Bring in new algorithms and data structures for dealing with hyperslabs. This speeds up the hyperslab I/O for non-regular hyperslabs by a huge amount. Currently, the new API functions are ifdef'ed out, pending discussion and consensus approval. Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4355] Purpose:Quincey Koziol2001-08-141-7/+7
| | | | | | | | | | | | | | | | | | | | | | Code cleanup (sorta) Description: When the first versions of the HDF5 library were designed, I remembered vividly the difficulties of porting code from a 32-bit platform to a 16-bit platform and asked that people use intn & uintn instead of int & unsigned int, respectively. However, in hindsight, this was overkill and unnecessary since we weren't going to be porting the HDF5 library to 16-bit architectures. Currently, the extra uintn & intn typedefs are causing problems for users who'd like to include both the HDF5 and HDF4 header files in one source module (like Kent's h4toh5 library). Solution: Changed the uintn & intn's to unsigned and int's respectively. Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4181] Purpose:Quincey Koziol2001-07-101-6/+2
| | | | | | | | | Bug Fix, Code Cleanup, Code Optimization, etc. Description: Fold in the hyperslab speedups, clean up compile warnings and change a few things from using 'unsigned' or 'hsize_t' to use 'size_t' instead. Platforms tested: FreeBSD 4.3 (hawkwind), Solaris 2.7 (arabica), Irix64 6.5 (modi4)
* [svn-r4002] Purpose:Quincey Koziol2001-06-141-2/+2
| | | | | | | | | | | | | Bug fix/code improvement. Description: 'all' selections were (ab)using the array reading code and required that the internal data transfer buffer size be big enough to hold the an entire slab of the data, which was confusing and limiting for users. Solution: Changed 'all' selections to use sequence reading code instead of array reading code. Platforms tested: FreeBSD 4.3 (hawkwind)
* [svn-r3781] Purpose:Bill Wendling2001-04-051-5/+5
| | | | | | | | | | | | | | | | | | Update Description: Changed #include <hdf_file.h> construct to #include "hdf_file.h" so that the GNU compiler can more easily pick up the dependencies which it places in the .depend and Dependencies files. Also regenerated the Dependencies to go along with this. Platforms tested: Linux
* [svn-r3252] Purpose:Quincey Koziol2001-01-091-8/+8
| | | | | | | | | | | | | Code cleanup. Description: Fixed _lots_ (I mean _tons_) of warnings spit out by the gcc with the extra warnings. Including a few show-stoppers for compression on IRIX machines. Solution: Changed lots of variables' types to more sensible and consistent types, more range-checking, more variable typecasts, etc. Platforms tested: FreeBSD 4.2 (hawkwind), IRIX64-64 (modi4)
* [svn-r3203] Purpose:Bill Wendling2000-12-261-2/+1
| | | | | | | | | | Removal of spurious warnings Description: On HP-UX systems, the compiler would warn of a redeclaration of H5G_entry_t in the H5Sprivate.h header. Solution: Removed the prototype declaration since H5Oprivate.h includes the H5Gprivate.h header file already.
* [svn-r2694] Purpose:Quincey Koziol2000-10-181-1/+1
| | | | | | | | | | | | | Bug fix Description: H5Sget_simple_extent_npoints return type is hsize_t and the error value is 0, but it is possible to have 0 points in a dataset with an unlimited dimension, but no data written yet. Solution: Changed H5Sget_simple_extent_npoints return type to hssize_t and the error value to -1 Platforms tested: FreeBSD 4.1.1 (hawkwind)
* [svn-r2657] Quincey Koziol2000-10-101-0/+27
| | | | | | | | | | | | Purpose: Parallel Bug Fixes Description: Was out of sync with header file re-arrangements I checked in last night. Solution: Fixed to use new header files, etc. Platforms tested: O2K (modi4)
* [svn-r2652] Purpose:Quincey Koziol2000-10-101-217/+12
| | | | | | | | | | | | | | | Maintainance & performance enhancements Description: Re-arranged header files to protect private symbols better. Changed optimized regular hyperslab I/O to compute the offsets more efficiently from previous method of using matrix operations. Added sequential I/O operations at a more abstract level (at the same level as H5F_arr_read/write), to support the optimized hyperslab I/O. Platforms tested: Solaris 2.6 (baldric) & FreeBSD 4.1.1 (hawkwind)
* [svn-r2587] Purpose:Quincey Koziol2000-09-221-0/+7
| | | | | | | | | | | | | | | | | | | Bug fix (sorta) Description: When the stride and block size of a hyperslab selection are equal, the blocks that are selected are contiguous in the dataset. Prior to my hyperslab optimizations, this situation used to be detected and somewhat optimized to improve performance. I've added more code to optimize for this situation and integrated it with the new hyperslab optimization that weren't very efficient for that case as they should have been. Solution: Detect contiguous hyperslab selections (i.e. block size in a dimension is the same as the stride in that dimension) and store the optimized, contiguous version of that hyperslab. We also store the original, un- optimized version of the hyperslab to give back to the user if they query the hyperslab selection they just made. Platforms tested: FreeBSD 4.1
* [svn-r2579] Purpose:Quincey Koziol2000-09-191-0/+1
| | | | | | Clean up small compiler warnings and add missing function prototypes. Platforms tested: FreeBSD 4.1
* [svn-r2448] Re-did section of hyperslab initialization code to avoid tons of ↵Quincey Koziol2000-07-281-2/+0
| | | | | | realloc() calls. Speeds user's test code up by ~25 times... :-)
* [svn-r2110] Re-wrote a good chunk of the hyperslab code to work correctly in ↵Quincey Koziol2000-04-111-1/+0
| | | | | | | several situations which weren't tested before. Things should be both faster and easier to understand in this code now.
* [svn-r2073] Added free-list code to the library and took out the older ↵Quincey Koziol2000-04-041-6/+4
| | | | | | | "temporary buffer" code, since the functionality was superceded. See the followup document for details on the free-list code.
* [svn-r1944] Added "H5S_SELECT_PREPEND" and "H5S_SELECT_APPEND" operations to ↵Quincey Koziol2000-01-211-1/+1
| | | | | | | | | | point selections. Also fixed bug which was not allowing the "start_point" parameter to H5Sget_select_elem_pointlist to actually get used. It was always returning a list of points selected which started with the beginning of the list of points.
* [svn-r1881] Changed all the HAVE_PARALLEL and HAVE_GASS macros to the newAlbert Cheng1999-12-171-2/+2
| | | | form of H5_HAVE_PARALLEL and H5_HAVE_GASS.
* [svn-r1569] Changes since 19990810Robb Matzke1999-08-101-17/+3
| | | | | | | ---------------------- ./src/H5Sprivate.h Fixed merge conflicts that I missed earlier.
* [svn-r1568] Changes since 19990730Robb Matzke1999-08-101-13/+25
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- This extensive change is the virtual file layer implementation. I've ported and tested the sec2, family, and core drivers and only ported the mpio driver (Albert will test it). So if you need MPIO I would recommend sticking with the previous version for a while. You will get a few compile warnings about split and stdio drivers not being implemented and possibly tracing information not inserted in some of the drivers. You can safely ignore them but I plan to fix them. I'm still working on the split driver because I just realized that it needs a part of the VFL that isn't written yet. Documentation is being updated also because there were some minor changes (mostly just name changes). It should be available on my web site later this week. ./MANIFEST ./src/Makefile.in ./src/hdf5.h ./src/H5Flow.c [REMOVED] ./src/H5Fstdio.c [REMOVED] ./src/H5Fsec2.c [REMOVED] ./src/H5Fsplit.c [REMOVED] ./src/H5Fmpio.c [REMOVED] ./src/H5Ffamily.c [REMOVED] ./src/H5Fcore.c [REMOVED] ./src/H5MFpublic.h [REMOVED] ./src/H5FD.c [NEW] ./src/H5FDcore.c [NEW] ./src/H5FDcore.h [NEW] ./src/H5FDfamily.c [NEW] ./src/H5FDfamily.h [NEW] ./src/H5FDmpio.c [NEW] ./src/H5FDmpio.h [NEW] ./src/H5FDprivate.h [NEW] ./src/H5FDpublic.h [NEW] ./src/H5FDsec2.c [NEW] ./src/H5FDsec2.h [NEW] Removed/added files for virtual file layer. ./bin/trace ./src/H5.c Removed unused public datatypes and added new VFL public datatypes. Changed an error message. ./config/BlankForm ./config/dec-flags ./config/gnu-flags ./config/hpux10.20 ./config/hpux9.03 ./config/irix5.x ./config/irix6.x ./config/solaris2.x ./config/unicosmk Removed the H5F_OPT_SEEK and H5F_LOW_DFLT constants from the configuration since they're no longer applicable. The default file driver is always the sec2 driver and it always optimizes calls to lseek() or lseek64(). ./config/depend.in C preprocessor errors generated during automatic dependency building are sent to /dev/null to prevent them from appearing twice in the make output. ./src/H5AC.c ./src/H5B.c ./src/H5D.c ./src/H5F.c ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5HG.c ./src/H5HL.c ./src/H5O.c ./src/H5Oattr.c ./src/H5Odtype.c ./src/H5Oefl.c ./src/H5Oshared.c ./src/H5T.c ./src/H5detect.c ./test/ohdr.c Changed H5F_ADDR_UNDEF to HADDR_UNDEF to be more consistent with the `haddr_t' datatype which is now a public type. ./src/H5D.c ./src/H5P.c ./src/H5Ppublic.h ./src/H5Tconv.c ./test/cmpd_dset.c ./test/dsets.c ./test/overhead.c ./test/tselect.c ./test/tvltypes.c The H5P_DATASET_XFER constant was changed to H5P_DATA_XFER because the properties apply to all types of I/O operations, not just datasets. ./src/H5B.c ./src/H5Bprivate.h ./src/H5D.c ./src/H5Dpublic.h ./src/H5F.c ./src/H5Farray.c ./src/H5Fistore.c ./src/H5Fprivate.h ./src/H5Fpublic.h ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5HG.c ./src/H5HL.c ./src/H5O.c ./src/H5R.c ./src/H5Sall.c ./src/H5Shyper.c ./src/H5Smpio.c ./src/H5Spoint.c ./src/H5Sprivate.h ./test/big.c ./test/h5test.c ./test/istore.c ./testpar/t_dset.c ./testpar/t_file.c ./tools/h5debug.c ./tools/h5ls.c Modified to work with the virtual file layer by calling H5FD_* functions instead of H5F_low_* functions and by passing file access and data transfer properties by object ID instead of pointer. Changed H5D_transfer_t to H5FD_mpio_xfer_t since the COLLECTIVE vs. INDEPENDENT transfer mode is specific to the MPIO file driver. Moved MPIO-specific stuff into the MPIO driver. ./src/H5B.c ./src/H5D.c ./src/H5Fprivate.h The H5F_mpio_* private functions were renamed and placed in the H5FDmpio driver except those which appeared in H5Smpio.c. ./src/H5E.c ./src/H5Epublic.h Added major error number H5E_VFL for virtual file layer related errors. ./src/H5F.c ./src/H5Fprivate.h Changed the logic that controls whether the boot block is written. Instead of assuming that the first call to write the boot block is only to allocate space, I've added a function argument which makes this explicit. Changed the way files are compared so that a driver-defined comparison function can be called. Files which belong to different drivers are always considered different. Removed H5F_driver_t since file drivers are now identified by object ID instead of a special non-user-extendible datatype. Removed all the hard-coded low-level file properties which have been replaced by the various file drivers. ./src/H5I.c ./src/H5Iprivate.h Added the H5I_inc_ref() which was removed a few months ago since we finally have a use for it. ./src/H5Ipublic.h Added the H5I_VFL object ID type to identify file drivers in the virtual file layer. ./src/H5MF.c ./src/H5MFprivate.h Moved all the allocation/deallocation code into the virtual file layer which allows file drivers to override much of it. ./src/H5P.c ./src/H5Ppublic.h Moved file driver-specific code into the various file driver files. The H5Pcopy() and H5Pclose() functions make calls into the virtual file driver to manage the memory for driver-specific file access and data transfer properties. ./src/H5private.h ./src/H5public.h The `haddr_t' type is now public. ./test/tfile.c Added a few more comments.
* [svn-r1566] Changed C++ "operator" keyword to "op"Quincey Koziol1999-08-101-5/+5
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* [svn-r1374] Added in code to support the H5Diterate function, which I've got ↵Quincey Koziol1999-06-241-0/+10
| | | | | | | to add tests for now. Also, I revised some of the code for hyperslab I/O, which should provide a modest speedup in situations with lots of hyperslabs.
* [svn-r1277] Added additional checks into the dataspace code to determine if ↵Albert Cheng1999-05-251-0/+3
| | | | | | | | | the hyperslabs being written out are contiguous in memory and on disk and write/read them as one I/O operation (if the datatypes don't require conversion). This should be a good performance boost for those situations. It's especially needed on the ASCI Red (TFlops) machine. - QAK (from Albert's account on modi4 :-)
* [svn-r1240] Changes since 19990427Robb Matzke1999-04-301-0/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./tools/h5ls.c Added a `--address' (`-a') switch which causes h5ls to display file addresses for raw data. For contiguous datasets it's just a nice simple number, but for chunked datasets it's a list of logical dataset coordinates, file addresses, filter masks, and storage sizes. Changed `--dump' switch to `--data'. ./src/H5D.c ./src/H5F.c ./src/H5Fprivate.h Enhanced the indexed-storage B-tree iterator so it can dump raw data addresses (and other info) to the standard error stream. Added H5Ddebug() so h5ls has a way to dump addresses for datasets. I'm not sure what else this API function should do, so I think we should discuss it before we document it. So far, h5ls is the only thing that uses it, and we can easily change that. ./src/H5Tconv.c ./test/dtypes.c Finally had a chance to verify Paul's H5T_conv_s_s (general string to string conversions) bug fixes and incorporate them into H5T_conv_f_f (general floating-point to floating-point conversions) and H5T_conv_i_i (general integer to integer conversons). Thanks Paul. ./src/H5D.c ./src/H5S.c ./src/H5Sprivate.h Added performance timers around data space read and write callbacks. They were already there for the gather/scatter callbacks. The timings for read/write callbacks are displayed along with gather/scatter when data space debugging is turned on. ./bin/iostats Updated to print totals. Added a `--fast' option that doesn't do any output except the totals and is much faster. ./bin/trace Changed __unused__ to UNUSED to match source code. ./config/gnu-flags Updated error message for pgcc. I've sent bug reports to the pgcc people but the new version still has the same bug. ./configure.in ./config/conclude.in ./config/depend.in Fixed dependencies for non-GNU makes when run in a directory other than the hdf5 source tree. Updated GNU `make dep' rules to copy the distributed dependencies for non-GNU makes into the source tree when run in some other directory.
* [svn-r1210] Changed parameters for function calls which figure out the ↵Quincey Koziol1999-04-231-5/+7
| | | | | | | | | | | | | | | buffer size for H5Dread/H5Dwrite to use to allow the I/O calls to break up a user's buffer into pieces that are at least as large as the sequence of bytes being written in the fastest changing dimension. Also fixed a hard-to-find bug in the hyperslab I/O routines which could cause data to be corrupted when writing out fields to compound datatype data with background preservation turned on and hyperslabs which were large enough to require two I/O passes on a hyperslab block. A pretty obscure situation, but it would be worthwhile for users to upgrade to this code in order to be certain that correct data is being written.
* [svn-r1204] Changes since 19990415Robb Matzke1999-04-231-8/+20
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./config/depend.in Fixed automatic dependencies. We were storing dependencies for *.o files instead of *.lo files after shared libraries were added. ./config/gnu-flags ./config/linux-gnulibc1 Moved `-march=pentiumpro -mcpu=pentiumpro -malign-double' from the linux file to this file and caused it to depend on the CPU name. This fixes one of Elena's bugs. ./src/H5B.c ./src/H5Bprivate.h ./src/H5D.c ./src/H5Dprivate.h ./src/H5Dpublic.h ./src/H5F.c ./src/H5Farray.c ./src/H5Fistore.c ./src/H5Fmpio.c ./src/H5Fprivate.h ./src/H5Fpublic.h ./src/H5Gnode.c ./src/H5P.c ./src/H5RA.c ./src/H5Sall.c ./src/H5Shyper.c ./src/H5Smpio.c ./src/H5Spoint.c ./src/H5Sprivate.h ./src/H5Tpublic.h ./test/istore.c Added an H5Dget_storage_size() function that reports the amount of storage allocated for raw data in a dataset. Changed H5D_xfer_* to H5F_xfer_* because these properties are more general than datasets. This also allows some of the lower-level I/O functions to get this information easier. ./src/H5S.c ./src/H5Sall.c Added two new functions H5S_all_read() and H5S_all_write() which are optimizations that copy data directly between file and memory without having to go through the scatter gather step. This knocks quite a bit of time off the I/O and reading/writing entire datasets is a fairly common operation. ./tools/h5ls.c Reports the logical size of data, the allocated size of data, and the percent utilization. ./MANIFEST Removed old pablo files, added new files. Snapshots should now start to work again. ./src/H5D.c ./src/H5Fmpio.c Removed two warnings signed vs. unsigned comparisons and check for overflow.
* [svn-r1135] Expanded API for reading lists blocks/points to allow for just a ↵Quincey Koziol1999-03-111-1/+0
| | | | | | portion of the block/point-list to be read at a time.
* [svn-r1132] Dataset region references are now finished and working ↵Quincey Koziol1999-03-101-0/+6
| | | | | | | | | | | | | | | | | | | | correctly. Also, there are five new API functions for querying selections: H5Sget_select_hyper_nblocks - retrieves the number of hyperslab blocks in current hyperslab selection for a dataspace H5Sget_select_elem_npoints - retrieves the number of element points in current element selection for a dataspace H5Sget_select_hyper_blocklist - retrieves a list of the hyperslab blocks in current hyperslab selection for a dataspace H5Sget_select_elem_pointlist - retrieves a list of the element points in current element selection for a dataspace H5Sget_select_bounds - retrieves a n-dimensional bounding box containing current selection.
* [svn-r1106] Cleaned up a few compiler warnings, etc.Quincey Koziol1999-02-251-1/+1
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* [svn-r1078] Changes since 19990215Robb Matzke1999-02-181-75/+86
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5.c Fixed more dependency problems in H5_term_library(). There was a bug in the previous version that could cause the wrong EOF marker to be written to the boot block under certain circumstances. Hopefully this fixes it although I don't ready access to a test case (Mark Miller will test it). ./src/H5F.c ./src/H5Fprivate.h Added an H5F_close_all() that is similar to H5F_term_interface() but which doesn't close the interface. Files that don't have open object headers are closed, others are delayed until all object headers close. All files are flushed. ./src/H5ACprivate.h ./src/H5Bprivate.h ./src/H5Dprivate.h ./src/H5Eprivate.h ./src/H5Fprivate.h ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gpublic.h ./src/H5HGprivate.h ./src/H5HLprivate.h ./src/H5Iprivate.h ./src/H5MFprivate.h ./src/H5MMprivate.h ./src/H5Oprivate.h ./src/H5Pprivate.h ./src/H5Ppublic.h ./src/H5RAprivate.h ./src/H5Sprivate.h ./src/H5Spublic.h ./src/H5Tpkg.h ./src/H5Tprivate.h ./src/H5Tpublic.h ./src/H5Vprivate.h ./src/H5Zprivate.h ./src/H5private.h ./src/H5public.h Reindented after __DLL__ was added.
* [svn-r1051] changed the HDF5DLL and HDF5GLOBAL to __DLL__ and __DLLVAR__Patrick Lu1999-02-021-71/+71
| | | | also exported all globals and non static functions to the dll
* [svn-r947] Lots of patches to enable dataset region references. The testing ↵Quincey Koziol1998-11-251-0/+8
| | | | | | for these need to be finished and checked in still.
* [svn-r925] Changes since 19981116Robb Matzke1998-11-181-7/+7
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./INSTALL.parallel [NEW] We're beginning to unify some of the parallel installation steps. This file will contain general information for installing the parallel library. It's not complete yet. ./configure.in ./configure [REGENERATED] ./src/H5config.h.in [REGENERATED] Check for xdr_int() in libnsl required on Solaris when linking with hdf4. It's found on the Irix system I tested which complains that `-lnsl' didn't resolve any symbols. Oh well. Fixed the order of searching for libdf and libmfhdf for hdf4 linking. ./configure.in ./configure [REGENERATED] ./src/H5config.h.in [REGENERATED] ./src/H5Z.c Check for compress() in libz in order to find older versions of the library that will still work for hdf4. Added a separate check for compress2() that hdf5 will use. ./configure.in ./configure [REGENERATED] ./src/H5config.h.in [REGENERATED] ./src/H5.c ./src/H5private.h ./src/H5A.c ./src/H5B.c ./src/H5Bprivate.h ./src/H5D.c ./src/H5F.c ./src/H5Farray.c ./src/H5Fcore.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fmpio.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fsplit.c ./src/H5Fstdio.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5HG.c ./src/H5HL.c ./src/H5O.c ./src/H5Oattr.c ./src/H5Ocomp.c ./src/H5Ocont.c ./src/H5Odtype.c ./src/H5Oefl.c ./src/H5Ofill.c ./src/H5Olayout.c ./src/H5Omtime.c ./src/H5Oname.c ./src/H5Oprivate.h ./src/H5Osdspace.c ./src/H5Oshared.c ./src/H5Ostab.c ./src/H5R.c ./src/H5RA.c ./src/H5Sall.c ./src/H5Shyper.c ./src/H5Snone.c ./src/H5Spoint.c ./src/H5Sprivate.h ./src/H5Sselect.c ./src/H5T.c ./src/H5Tbit.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5V.c ./test/bittests.c ./test/gheap.c ./test/hyperslab.c ./test/istore.c ./test/tmeta.c ./test/trefer.c ./test/tselect.c ./tools/h5debug.c ./tools/h5tols.c Added checks for Posix.1g types like `int8_t'. If not defined then H5private.h defines them. Changed all `int8' etc. to `int8_t'. ./src/H5A.c ./src/H5D.c ./src/H5F.c ./src/H5G.c ./src/H5I.c ./src/H5P.c ./src/H5R.c ./src/H5RA.c ./src/H5S.c ./src/H5T.c ./src/H5TB.c ./src/H5Z.c Calling H5*_term_interface() resets interface_initialize_g to FALSE so a subsequent call to H5open() (implied or explicit) reinitializes global variables properly. ./src/H5private.h ./src/H5Oefl.c ./src/H5S.c Changed MAX_SIZET, MAX_SSIZET, MAX_HSIZET, and MAX_HSSIZET to SIZET_MAX, SSIZET_MAX, HSIZET_MAX, and HSSIZE_MAX to they match the Posix.1 constants in <limits.h>. ./src/H5T.c ./src/H5Tconv.c ./src/H5Tpkg.h ./src/H5Tprivate.h ./src/H5detect.c Added 36 more integer hardware conversion functions to the type conversion table for conversions to/from `long long' and `unsigned long long'. The `long long' names will be changed shortly to make them portable to Win32. Changed H5T_init() to H5T_native_open() and added an H5T_native_close() to open and close the predefined native data types. Increased the initial size of the type conversion table from 64 to 128 entries. Reordered the 90 new integer conversion functions so the names that are printed favor `int' over `short' or `long' when two of them are the same. ./test/dtypes.c Added hardware and software integer conversion tests for the 56 functions I added recently but not the additional 36 checked in this time. That will come next. Call H5close() after each test so type conversion statistics are easier to follow. Try this: $ HDF5_DEBUG=t ./dtypes Added more debugging output for when things go wrong. ./src/H5private.h Removed trailing carriage-returns inserted by broken operating system ;-)
* [svn-r904] Fixed bug in H5dont_atexit.Quincey Koziol1998-11-131-0/+10
| | | | | | | Plugged a memory leak in the union of hyperslabs code. Checkpointing dataset region references, which are working, but not stored in file yet.
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