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* [svn-r6430] Purpose:Quincey Koziol2003-02-241-4/+15
| | | | | | | Code cleanup (sorta) Description: Updated to new copyright information as I browsed these files.
* [svn-r6387] Purpose:Quincey Koziol2003-02-101-25/+37
| | | | | | | | | | | | | | | | | | | | | | | | | | | Bug Fix Description: Metadata cache in parallel I/O can cause hangs in applications which perform independent I/O on chunked datasets, because the metadata cache can attempt to flush out dirty metadata from only a single process, instead of collectively from all processes. Solution: Pass a dataset transfer property list down from every API function which could possibly trigger metadata I/O. Then, split the metadata cache into two sets of entries to allow dirty metadata to be set aside when a hash table collision occurs during independent I/O. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} FreeBSD 4.7 (sleipnir) serial & parallel Misc. update: Updated release_docs/RELEASE
* [svn-r6252] Purpose:Quincey Koziol2003-01-091-0/+7
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Lots of performance improvements & a couple new internal API interfaces. Description: Performance Improvements: - Cached file offset & length sizes in shared file struct, to avoid constantly looking them up in the FCPL. - Generic property improvements: - Added "revision" number to generic property classes to speed up comparisons. - Changed method of storing properties from using a hash-table to the TBBT routines in the library. - Share the propery names between classes and the lists derived from them. - Removed redundant 'def_value' buffer from each property. - Switching code to use a "copy on write" strategy for properties in each list, where the properties in each list are shared with the properties in the class, until a property's value is changed in a list. - Fixed error in layout code which was allocating too many buffers. - Redefined public macros of the form (H5open()/H5check, <variable>) internally to only be (<variable>), avoiding innumerable useless calls to H5open() and H5check_version(). - Reuse already zeroed buffers in H5F_contig_fill instead of constantly re-zeroing them. - Don't write fill values if writing entire dataset. - Use gettimeofday() system call instead of time() system when checking the modification time of a dataset. - Added reference counted string API and use it for tracking the names of objects opening in a file (for the ID->name code). - Removed redundant H5P_get() calls in B-tree routines. - Redefine H5T datatype macros internally to the library, to avoid calling H5check redundantly. - Keep dataspace information for dataset locally instead of reading from disk each time. Added new module to track open objects in a file, to allow this (which will be useful eventually for some FPH5 metadata caching issues). - Remove H5AC_find macro which was inlining metadata cache lookups, and call function instead. - Remove redundant memset() calls from H5G_namei() routine. - Remove redundant checking of object type when locating objects in metadata cache and rely on the address only. - Create default dataset object to use when default dataset creation property list is used to create datasets, bypassing querying for all the property list values. - Use default I/O vector size when performing raw data with the default dataset transfer property list, instead of querying for I/O vector size. - Remove H5P_DEFAULT internally to the library, replacing it with more specific default property list based on the type of property list needed. - Remove redundant memset() calls in object header message (H5O*) routines. - Remove redunant memset() calls in data I/O routines. - Split free-list allocation routines into malloc() and calloc()- like routines, instead of one combined routine. - Remove lots of indirection in H5O*() routines. - Simplify metadata cache entry comparison routine (used when flushing entire cache out). - Only enable metadata cache statistics when H5AC_DEBUG is turned on, instead of always tracking them. - Simplify address comparison macro (H5F_addr_eq). - Remove redundant metadata cache entry protections during dataset creation by protecting the object header once and making all the modifications necessary for the dataset creation before unprotecting it. - Reduce # of "number of element in extent" computations performed by computing and storing the value during dataspace creation. - Simplify checking for group location's file information, when file has not been involving in file-mounting operations. - Use binary encoding for modification time, instead of ASCII. - Hoist H5HL_peek calls (to get information in a local heap) out of loops in many group routine. - Use static variable for iterators of selections, instead of dynamically allocation them each time. - Lookup & insert new entries in one step, avoiding traversing group's B-tree twice. - Fixed memory leak in H5Gget_objname_idx() routine (tangential to performance improvements, but fixed along the way). - Use free-list for reference counted strings. - Don't bother copying object names into cached group entries, since they are re-created when an object is opened. The benchmark I used to measure these results created several thousand small (2K) datasets in a file and wrote out the data for them. This is Elena's "regular.c" benchmark. These changes resulted in approximately ~4.3x speedup of the development branch when compared to the previous code in the development branch and ~1.4x speedup compared to the release branch. Additionally, these changes reduce the total memory used (code and data) by the development branch by ~800KB, bringing the development branch back into the same ballpark as the release branch. I'll send out a more detailed description of the benchmark results as a followup note. New internal API routines: Added "reference counted strings" API for tracking strings that get used by multiple owners without duplicating the strings. Added "ternary search tree" API for text->object mappings. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} Other platforms/configurations tested? FreeBSD 4.7 (sleipnir) serial & parallel Solaris 2.6 (baldric) serial
* [svn-r5931] MuQun Yang2002-09-201-9/+9
| | | | | | | | | | | | Purpose: __DLL__ is a keyword in some platforms and __DLL__ is also defined as a macro for windows DLL applications. That causes problems. Description: Solution: Use H5_DLL*** to replace __DLL***__ at all header files. Change the macro defination at H5api_adpt.h. Platforms tested: linux2.2.18smp, irix64, solaris 2.7 and windows 2000
* [svn-r5814] Purpose:Quincey Koziol2002-07-191-2/+9
| | | | | | | | | | | | | | | | | | Bug Fix Description: It was possible to create corrupted metadata information (either in memory or in the file or both) with a parallel I/O program because of the way metadata writes were being handled for writes out of the metadata cache. Solution: Added a dataset transfer property called "block before metadata write" which is used by the MPI-I/O and MPI-posix drivers to sync up all the processes before attempting a metadata write. This property is currently only for metadata writes from the metadata cache. Platforms tested: IRIX64 6.5 (modi4) w/parallel
* [svn-r4355] Purpose:Quincey Koziol2001-08-141-9/+9
| | | | | | | | | | | | | | | | | | | | | | 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-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-r2476] Added free lists to track various data structures in memory, to ↵Quincey Koziol2000-08-161-0/+1
| | | | | | reduce malloc abuse.
* [svn-r2318] Rearranged metadata caching to put caching information in the ↵Quincey Koziol2000-06-011-19/+21
| | | | | | | | objects being cached instead of in separate structures. This reduces the amount of memory the hash table uses by about half. This is the initial step along the path of speeding up the metadata caching.
* [svn-r2157] Changed hashing scheme slightly to better spread out the hash ↵Quincey Koziol2000-04-191-2/+5
| | | | values returned.
* [svn-r1548] Changes since 19990727Robb Matzke1999-07-281-24/+21
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5.c [1.3] ./src/H5AC.c [1.3] ./src/H5ACprivate.h [1.3] ./src/H5B.c [1.3] ./src/H5Bprivate.h [1.3] ./src/H5D.c [1.3] ./src/H5F.c [1.3] ./src/H5Farray.c [1.3] ./src/H5Fcore.c [1.3] ./src/H5Ffamily.c [1.3] ./src/H5Fistore.c [1.3] ./src/H5Flow.c [1.3] ./src/H5Fmpio.c [1.3] ./src/H5Fprivate.h [1.3] ./src/H5Fsec2.c [1.3] ./src/H5Fsplit.c [1.3] ./src/H5Fstdio.c [1.3] ./src/H5G.c [1.3] ./src/H5Gent.c [1.3] ./src/H5Gnode.c [1.3] ./src/H5Gprivate.h [1.3] ./src/H5Gstab.c [1.3] ./src/H5HG.c [1.3] ./src/H5HGprivate.h [1.3] ./src/H5HL.c [1.3] ./src/H5HLprivate.h [1.3] ./src/H5MF.c [1.3] ./src/H5MFprivate.h [1.3] ./src/H5O.c [1.3] ./src/H5Oattr.c [1.3] ./src/H5Ocont.c [1.3] ./src/H5Odtype.c [1.3] ./src/H5Oefl.c [1.3] ./src/H5Olayout.c [1.3] ./src/H5Oprivate.h [1.3] ./src/H5Oshared.c [1.3] ./src/H5Ostab.c [1.3] ./src/H5P.c [1.3] ./src/H5R.c [1.3] ./src/H5Smpio.c [1.3] ./src/H5T.c [1.3] ./src/H5Tvlen.c [1.3] ./src/H5private.h [1.3] ./test/dtypes.c [1.3] ./test/gheap.c [1.3] ./test/istore.c [1.3] ./test/lheap.c [1.3] ./test/ohdr.c [1.3] ./tools/h5debug.c [1.3] File addresses (the `haddr_t' type) are passed by value instead of by reference. The type is no longer a struct. This is one of the preliminary changes needed for the Virtual File Layer stuff. ./src/H5Fprivate.h [1.3] ./src/H5Flow.c [1.3] Some address functions were rewritten as macros.
* [svn-r1087] Changes since 19990218Robb Matzke1999-02-201-15/+15
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5F.c ./src/H5private.h ./src/H5Ipublic.h ./src/H5O.c Fixed a rather nasty bug with file closing that caused the file boot block to be updated incorrectly, effectively truncating the file. The bug I fixed was triggered by: 1. Create a file, F 2. Open an object, X 3. Close file F 4. Reopen file F for read/write. 5. Create and close some objects 6. Close file F 7. Close library (exit). Step 3 pended the close because object X is still open, but the file ID was removed from the H5I_FILE ID group. Step 4 created a new file because it didn't see any matching file on the H5I_FILE ID group. Step 5 extends the file. Step 6 writes the new file boot block to disk. Step 7 closes object X and completes the close from step 3, writing the old boot block information to disk. The new behavior is that step 3 moves the file from the H5I_FILE group to the H5I_FILE_CLOSING group. Step 4 searches both groups and finds the file. Step 5 extends the file using the same H5F_file_t struct as step 3. Step 6 closes the H5F_t struct opened in step 3 but not the H5F_file_t struct shared by steps 1 and 3. Step 7 closes object X which closes the H5F_file_t from step 1, flushing the boot block which was shared by all steps. ./src/H5F.c Added some bulletproofing to file reference counting and removed comments which no longer apply. Added H5F_flush_all() and H5F_close_all() which apply to all files. ./src/H5A.c ./src/H5D.c ./src/H5F.c ./src/H5G.c ./src/H5I.c ./src/H5Iprivate.h ./src/H5R.c ./src/H5RA.c ./src/H5S.c ./src/H5T.c Added the new H5I_free_t data type to describe the function type to be passed as the `free_func' argument to H5I_init_group(). ./src/H5I.c Bulletproofed the object removal functions. Removed comments which no longer apply. Changed global variable names so they don't violate the naming scheme. Added H5I_debug() that prints the contents of an ID group. Removed H5I_inc_ref() because it isn't used. Reindented a couple of functions. ./src/H5.c ./src/H5G.c ./src/H5Ipublic.h Changed H5I_MAXID to H5I_NGROUPS to better relect the fact that it's the total number of valid ID groups. ./src/H5Shyper.c Changed hyperslab offset arrays to signed quantities to get rid of warnings on DEC cluster. ./src/H5Flow.c ./src/H5Fprivate.h Changed the objno argument of H5F_addr_pack() to be unsigned to get rid of warnings on DEC cluster.
* [svn-r1078] Changes since 19990215Robb Matzke1999-02-181-8/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r1050] made all non static functions and globals accessible to the dll.Patrick Lu1999-02-021-9/+9
| | | | changed the HDF5DLL and HDF5GLOBAL to __DLL__ and __DLLVAR__
* [svn-r1032] Changes since 19990118Robb Matzke1999-01-211-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./tools/h5tools.c Strings are not converted to null-padding before being printed; they are printed with whatever byte values appear in the file. ./tools/h5ls.c Now able to display attribute data type and data. Added a `-f' or `--full' switch which causes the full name of each object to be displayed instead of just the base name. Added a `-r' or `--recursive' switch that recursively prints the contents of groups, avoiding cycles. More bulletproofing for non-printable characters in things like object names, attribute names, and comment strings. We don't want listing a file to send termal escape sequences because it's sometimes possible to execute commands that way. Since h5ls doesn't usually use quotes around object names we must sometimes escape space characters. External files are listed in a table to make the output less confusing. ./tools/h5tools.c ./tools/h5tools.h Changed h5dump() to h5dump_dset() and added h5dump_mem(). Also make h5dump_fixtype() public. ./test/dtypes.c Wrote some data to an attribute to test h5ls attribute printing. ./src/H5ACprivate.h ./src/H5Apublic.h ./src/H5Dprivate.h ./src/H5Dpublic.h ./src/H5Epublic.h ./src/H5Fprivate.h ./src/H5Fpublic.h ./src/H5Gprivate.h ./src/H5HLprivate.h ./src/H5Oprivate.h ./src/H5Ppublic.h ./src/H5RApublic.h ./src/H5Rpublic.h ./src/H5Spublic.h ./src/H5Tpkg.h ./src/H5Tpublic.h ./src/H5Vprivate.h ./src/H5Zpublic.h ./src/H5private.h ./src/H5public.h Reindented function prototypes after `HDF5API' was added. Also rewrapped long lines. ./src/H5Flow.c Added an `#ifdef WIN32' around an unused variable. ./src/H5api_adpt.h Removed extra carriage returns inserted by "broken" operating system. ./src/H5Dprivate.h ./src/H5Oprivate.h ./src/H5Vprivate.h ./src/H5private.h Removed extraneous inclusion of H5api_adpt.h since it's included in H5public.h which is included by everything. ./src/Makefile.in Added H5api_adpt.h to the list of public header files to fix broken `make install'.
* [svn-r1030] added necessary info to export functions to dllPatrick Lu1999-01-211-1/+1
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* [svn-r337] Changes since 19980403Robb Matzke1998-04-071-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./configure.in Moved setting of compiler warning switches earlier in the file. Turned on more warning switches to gcc. ./config/linux Prints a warning if the gcc version is less than 2.8.1 since that version has problems with register allocation for `long long'. ./html/Datatypes.html Documented sharing of data types between datasets. ./src/H5G.c ./src/H5Gpublic.h Implemented H5Gmove(), H5Glink() and H5Gunlink() for hard links. Still have soft links to do. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5D.c ./src/H5E.c ./src/H5Eprivate.h ./src/H5F.c ./src/H5Farray.c ./src/H5Fcore.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fpublic.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5HG.c ./src/H5HL.c ./src/H5HLprivate.h ./src/H5I.c ./src/H5Iprivate.h ./src/H5MM.c ./src/H5MMprivate.h ./src/H5O.c ./src/H5Oefl.c ./src/H5Oprivate.h ./src/H5Osdspace.c ./src/H5Oshared.c ./src/H5Ostab.c ./src/H5P.c ./src/H5S.c ./src/H5Ssimp.c ./src/H5T.c ./src/H5Tconv.c ./src/H5Tprivate.h ./src/H5Tpublic.h ./src/H5V.c ./src/H5Vprivate.h ./src/H5detect.c ./src/h5ls.c ./test/cmpd_dset.c ./test/dsets.c ./test/external.c ./test/hyperslab.c ./test/iopipe.c ./test/istore.c ./test/shtype.c ./test/tstab.c Fixed comparisons between signed and unsigned values. Fixed warnings about unused function arguments.
* [svn-r333] Changes since 19980324Robb Matzke1998-03-301-5/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./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-r164] Changes since 19980122Robb Matzke1998-01-221-48/+47
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/*.h Fixed indentation where indent(1) screwed up. This isn't by any means the final say, but it's better than it was. ./src/H5A.c ./src/H5Aprivate.h ./src/H5Apublic.h ./src/H5C.c ./src/H5D.c ./src/H5E.c ./src/H5F.c ./src/H5G.c ./src/H5M.c ./src/H5P.c ./src/H5T.c ./src/H5Tconv.c ./src/debug.c ./test/dtypes.c ./test/istore.c ./test/theap.c ./test/tohdr.c ./test/tstab.c Removed some atom functions from the API and made them library-scope. Also changed some names by removing the redundant `atom' from the name and by adding a `_' after the `H5A'.
* [svn-r158] Changes since 19980116Robb Matzke1998-01-201-69/+71
| | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5D.c ./src/H5Farray.c ./src/H5Fprivate.h ./src/H5V.c ./src/H5Vprivate.h Fixed indent oopses. ./src/H5D.c ./src/H5Fprivate.h ./src/H5Farray.c ./test/istore.c We can now perform partial I/O on contiguous storage transferring between a hyperslab of file storage and a hyperslab of memory. However, partial I/O hasn't been added to the I/O pipeline yet in H5D.c
* [svn-r157] Reformatted code with indent...Quincey Koziol1998-01-161-68/+67
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* [svn-r148] ./src/H5ACprivate.hRobb Matzke1997-12-191-0/+2
| | | | | | | | Removed some debugging fields from a struct when debugging is turned off. ./src/H5H.c Reformatted a couple long lines.
* [svn-r139] ./src/*.[ch]Robb Matzke1997-12-101-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Removed the interface initialization argument from FUNC_ENTER() and made it a locally-defined preprocessor symbol, INTERFACE_INIT. Changed `offset' to `address' and `length' to `size' in documentation so it's more consistent. `Offset' still appears occassionally when it refers to a byte offset within some other data structure. Moved interface termination function prototypes from public header files to .c files and made them static. ./src/H5.c ./src/H5public.h Added H5init() because it's possible that the predefined data types are not initialized. This happens only if the first call to the hdf5 library passes a predefined data type symbol as an argument. There should be some way to fix this... ./src/H5A.c ./src/H5Aprivate.h ./src/H5Apublic.h The free_func returns SUCCEED or FAIL, although the return value is ignored by H5A. This is so we can use the various H5*_close() functions to free things. H5Ainc_ref() and H5Adec_ref() are no longer public. Many of the other atom functions should also be made private, but I'll save that for later... Added additional template groups called H5_TEMPLATE_0 through H5_TEMPLATE_7 that are used by the various template subclasses. Increased the number of bits used for atom groups to prevent negative atoms. ./src/H5AC.c ./src/H5ACprivate.h Changed H5AC_new() to H5AC_create() to make names more consistent. ./src/H5B.c ./src/H5Bprivate.h Changed H5B_new() to H5B_create() to make names more consistent. ./src/H5C.c ./src/H5Cprivate.h ./src/H5Cpublic.h Now supports multiple subclasses of templates, although it's done with big switch statements. The default values for templates are defined in the source file to which that template belongs. This got rid of lots of needless preprocessor constants. Added H5Ccreate() to create a new template. Changed H5C_release() to H5Cclose() to make the naming more consistent. ./src/H5D.c ./src/H5Dprivate.h ./src/H5Dpublic.h Enhanced to use the new dataset interface, and uses the enhanced data type and data space interfaces, which haven't been completely implemented. The dataset interface doesn't handle non-contiguous storage, compression, or data type and space conversions yet. ./src/H5F.c ./src/H5Fprivate.h ./src/H5Fpublic.h Removed H5Fflush() since just calls H5F_flush(), which doesn't do what the user would probably think it does, namely, flush everything. It only flushes those things sitting in the H5AC cache and the boot block. Changed the `file_create_parms' field of H5F_low_t to just `create_parms' since the `file' part is obvious. ./src/H5Fistore.c Added some support for external files. Mostly just in the file format and not supported much by the library yet. I need to finish some dataset functions first. Changed H5F_istore_new() to H5F_istore_create() to make names more uniform across packages. ./src/H5Flow.c Flushing a file causes the file to be physically extended to the logical eof. This prevents H5F_open() from thinking a file has been truncated. Most of the time the file will already be that large, and when it isn't Unix will often just allocate the final block anyway. ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gstab.c Removed H5G_basename() Removed (temporarily) data type information from symbol table entries and renamed H5G_CACHED_SDATA to H5G_CACHED_SDSPACE to reflect that it's a simple data space and has nothing to do with raw data. Changed H5G_node_new() to H5G_node_create() and H5G_stab_new() to H5G_stab_create() to make names more uniform across packages. Fixed an undefined address bug that happens when H5G_node_debug() program doesn't pass enough info to H5G_node_load(). ./src/H5H.c ./src/H5Hprivate.h Changed H5H_new() to H5H_create() to make the names more uniform across packages. ./src/H5M.c ./src/H5Mprivate.h ./src/H5Mpublic.h Nulled all the create functions. Most of the other callbacks are to public functions. Removed H5Mcreate(). Changed hobjtype_t to group_t since it has to be the same thing anyway. ./src/H5O.c ./src/H5Oprivate.h ./src/H5Osdim.c ./src/H5Osdtyp.c Changed H5O_SIM_DIM to H5O_SDSPACE (simple data space) since `simple data space' is its official name, not `simple dimensions'. Will eventually add H5O_CDSPACE for comples data spaces. Changed _sim_dim_ to _dspace_. Replaced H5O_SIM_DTYPE and the compound data type messages with a single H5O_DTYPE message. Changed _sim_dtype_ to _dtype_. Changed H5O_STD_STORE to H5O_CSTORE (contiguous storage) since contiguous storage is not necessarily standard. Changed _std_store_ to _cstore_ in H5Ocstore.c Added the H5O_EFL (external file list) message. Changed H5O_new() to H5O_create() to make names more uniform across packages. ./src/H5Oefl.c NEW External file list message for specifying which non-hdf5 files contain raw data for a dataset. ./src/H5P.c ./src/H5Pprivate.h ./src/H5Ppublic.h Renamed and moved data structures to make the names conform to our naming scheme. ./src/H5T.c ./src/H5Tprivate.h ./src/H5Tpublic.h ./src/H5Tpkg.h NEW Data structures redesigned to be more flexible. The interface was redesigned to make it more regular and to make some names more uniform across packages. ./src/H5detect.c Output was changed to produce a file that conforms to the hdf5 coding standard. ./src/Makefile.in Generates H5Tinit.c by running H5detect. ./src/debug.c Moved command argument processing.
* [svn-r136] ./MANIFESTRobb Matzke1997-11-141-15/+27
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/Makefile.in Added H5Ffamily.c and H5Fsplit.c ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c Added `const' to sublass arguments. ./src/H5F.c ./src/H5Flow.c ./src/H5Fsec2.c Make sure file buffers get flushed during a call to H5Fflush(). Check for overflow in address encoding and decoding. ./src/H5Ffam.c ./src/H5Fprivate.c ./test/istore.c Implementation of file families so 32-bit machines can access 64-bit files. ./src/H5Oprivate.h Removed H5O_NO_ADDR constant. ./config/freebsd2.2.1 ./config/linux Added -DH5G_DEBUG and -DH5F_DEBUG to the list of debugging flags. ./html/H5.format.html Changed some <offset>-sized things to <length>-sized things. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5Bprivate.h ./src/H5C.c ./src/H5D.c ./src/H5F.c ./src/H5Fcore.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/H5G.c ./src/H5Gent.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gshad.c ./src/H5Gstab.c ./src/H5H.c ./src/H5Hprivate.h ./src/H5MF.c ./src/H5MFprivate.h ./src/H5O.c ./src/H5Ocont.c ./src/H5Oistore.c ./src/H5Oprivate.h ./src/H5Ostab.c ./src/H5Ostdst.c ./src/H5pivate.h ./src/debug.c ./test/istore.c ./test/theap.c ./test/tohdr.c ./test/tstab.c Lots of changes caused by generalizing addresses. The haddr_t is now a struct, so you can no longer perform arithmetic on it. But since it's small, simple, and often used, storage is allocated like with an integer. But we always pass them around by reference. That is, when using an address in another struct, allocate space: struct my_struct { char *name; haddr_t address; } x; But when passing it to a function, pass by reference: H5F_addr_print (stderr, &(x.address)); Addresses should be initialized with H5F_addr_undef (&(x.address)); Functions for operating on addresses are in H5Flow.c and begin with H5F_addr_... Functions never return haddr_t or haddr_t*; they always pass them through arguments instead. A function that returns an address through an argument does so with its last argument and it is marked with `/*out*/'. Calls to such functions also mark output-only arguments with `/*out*/' ./src/H5Fsplit.c (new) A two-member family where all meta data goes in the first member and all raw data goes in the second member. ./src/H5B.c ./src/H5D.c ./src/H5F.c ./src/H5Ffamily.c ./src/H5Fistore.c ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fsec2.c ./src/H5Fstdio.c ./src/H5Gnode.c ./src/H5H.c ./src/H5MF.c ./src/H5MFprivate.h ./src/H5O.c Differentiate between meta data storage and raw data storage. Provide a mechanism so that the file driver can extend the file to allocate more memory. ./src/H5E.c ./src/H5Epublic.c Added the error H5E_TRUNCATED to be reported when the file is shorter than the length recorded in the boot block. ./src/H5F.c Added H5F_locate_signature() so we only do it in one place now. ./INSTALL ./INSTALL_MAINT Just a couple clarifications. ./html/ExternalFiles.html ./html/storage.html Documents how external files work. ./test/hyperslab.c ./test/istore.c Fixed printf's on 64-bit machines. ./test/istore.c Added ifdef's to test the split file driver.
* [svn-r135] ./config/linuxRobb Matzke1997-11-071-5/+22
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./config/freebsd2.2.1 Rewritten to be more flexible. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5F.c ./src/H5H.c ./src/H5Gpkg.h ./src/H5Gshad.c ./src/H5O.c ./test/istore.c ./test/tstab.c Accumulates cache statistics and displays the results on stderr when the file is closed if it was opened with H5F_ACC_DEBUG passed into H5F_open() ./src/H5B.c ./src/H5Bprivate.h ./src/H5Fistore.c ./src/H5Gnode.c Added more debugging which is turned on if H5B_DEBUG is defined on the compile command (see config/linux). Fixed a couple of bugs with left insertions which are used by the indexed storage stuff. ./src/H5Flow.c Fixed a memory leak. ./src/H5Fprivate.h Fixed warnings about shifting more than size of object. ./src/H5Fstdio.c Fixed seek optimizations back to the way Quincey originally had them. ./src/H5V.c Removed unused variables.
* [svn-r129] Changes since 19970916Robb Matzke1997-10-201-5/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./config/depend.in Fixed backslashes in sed script because the H5Gnode.c dependency info was disappearing. You'll have to rerun config.status to rebuild the Makefiles unless you use gnu make. ./config/conclude.in Also removes emacs backup files, TAGS, and svf backup files. ./config/linux Grouped gcc flags and added provisions for debugging vs. production. ./html/H5.format.html Updated messages 0x0008, 0x0009, and 0x000A. ./html/storage.html Documentation describing storage schemes. ./src/Makefile.in ./test/Makefile.in New source files. ./src/H5A.c ./src/H5Apublic.h ./src/H5C.c Changed VOIDP to void* in a couple places. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5Bprivate.h ./src/H5G.c ./src/H5Gnode.c ./src/H5Gprivate.h ./src/H5H.c ./src/H5O.c Removed `const' from some variables because H5G_node_found() wanted to modify it's udata argument. Removing const there caused it to cascade to these other locations. ./src/H5AC.c ./src/H5ACprivate.h ./src/H5B.c ./src/H5Gnode.c ./src/H5Gstab.c ./src/H5H.c ./src/H5O.c Added an extra argument to H5AC_find_f() and H5AC_protect(). This arg gets passed to the load() method. Also added an extra argument to the H5AC_find() macro. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c Extra argument passed to the sizeof_rkey() method. ./src/H5Fprivate.c ./src/H5Fistore.c (new) Added indexed I/O operations. ./src/H5G.c ./src/H5Gnode.c ./src/H5Gprivate.h Beginning to add H5G_open/close and related bug fixes. ./src/H5Oprivate.h ./src/H5Oistore.c (new) Added the H5O_ISTORE messsage (0x0008) for indexed storage of objects. ./src/H5private.h Added extra braces around both sides of the FUNC_ENTER() and FUNC_LEAVE() macros so FUNC_ENTER() can appear before declarations or after executable statements the second case is used by H5G_namei() to initialize output arguments to sane values before FUNC_ENTER() might return failure. int f () { int decl1; printf ("This happens before FUNC_ENTER()\n"); FUNC_ENTER (...); int another_declaration; ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c Extra arguments for key encoding and decoding. ./src/H5E.c ./src/H5Epublic.h ./src/H5Fistore.c ./src/H5Oistore.c ./src/H5Oprivate.h Indexed, chunked, sparse storage (not ready for general consumption yet). ./src/H5V.c (new) ./src/H5Vprivate.h (new) ./test/hyperslab.c (new) Vector, array, and hyperslab functions. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Fistore.c ./src/H5Gnode.c ./src/H5V.c ./src/H5Vprivate.h ./test/hyperslab.c Added functionality for indexed storage. ./src/H5F.c Fixed problems with seek optimizing. Recommend we disable it until we can implement it in the file/address class since all of HDF5 must be aware of it. ./src/H5O.c Fixed comeent speling erorr :-) ./MANIFEST Added new files. ./config/conclude.in Added the word `Testing' to the test cases. So if a test program is called hyperslab then the make output will contain the line `Testing hyperslab'. ./config/linux The default file I/O library is Posix section 2 on my linux machine so I can do some I/O performance testing. ./src/H5C.c ./src/H5Cprivate.h ./src/H5Cpublic.h Added ability to set size of indexed-storage B-tree. ./src/H5D.c ./src/H5E.c ./src/H5Epublic.h ./src/H5F.c ./src/H5Fprivate.h ./src/H5G.c ./src/H5Gnode.c ./src/H5Gpkg.h ./src/H5Gprivate.h ./src/H5Gpublic.h ./src/H5Gshad.c ./src/H5Gstab.c ./test/stab.c Changed `directory' to `group' in numerous places. ./src/H5private.h The FILELIB constant can be set on the compile command-line. ./src/istore.c NEW Tests for indexed storage.
* [svn-r111] Changed hdf5_file_t to H5F_t, split data struct ito two halves, fixedRobb Matzke1997-09-241-16/+15
| | | | problems when opening the same file more than once.
* [svn-r100] Interim checkin for purify. Also contains H5G shadow stuff, changesRobb Matzke1997-09-191-3/+3
| | | | | | to int64 encode/decode to fix purify on 32-bit systems, changes to H5O_modify, changes to H5D.c to use H5F_open/close(), etc. Documentation will be mailed shortly...
* [svn-r71] Lost my changelog, but basically some new caching functions.Robb Matzke1997-09-101-7/+28
|
* [svn-r35] ./src/H5ACproto.hRobb Matzke1997-08-151-2/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/H5Aproto.h ./src/H5Bproto.h ./src/H5Cproto.h ./src/H5Dproto.h ./src/H5Eproto.h ./src/H5Fproto.h ./src/H5Gproto.h ./src/H5Hproto.h ./src/H5MFproto.h ./src/H5MMproto.h ./src/H5Mproto.h ./src/H5Oproto.h ./src/H5Pproto.h ./src/H5Tproto.h ./src/H5proto.h These files were removed from the library and renamed by changing `proto' to `public'. ./src/H5ACpublic.h NEW ./src/H5Apublic.h NEW ./src/H5Bpublic.h NEW ./src/H5Cpublic.h NEW ./src/H5Dpublic.h NEW ./src/H5Epublic.h NEW ./src/H5Fpublic.h NEW ./src/H5Gpublic.h NEW ./src/H5Hpublic.h NEW ./src/H5MFpublic.h NEW ./src/H5MMpublic.h NEW ./src/H5Mpublic.h NEW ./src/H5Opublic.h NEW ./src/H5Ppublic.h NEW ./src/H5Tpublic.h NEW ./src/H5public.h NEW These files came from the old H5*proto.h files. ./src/Makefile ./src/Makefile.in NEW Removed. Now generated automatically from Makefile.in by running configure. ./src/h5oplat.h ./src/hdf5fort.h ./src/hdf5gen.h ./src/hdf5glob.h ./src/hdf5lims.h ./src/hdf5meta.h ./src/hdf5pabl.h ./src/hdf5plat.h ./src/hdf5port.h ./src/hdf5type.h Removed. The contents of these files has moved to other header files or source files depending on it's nature. ./src/H5.c ./src/H5A.c ./src/H5B.c ./src/H5C.c ./src/H5D.c ./src/H5E.c ./src/H5F.c ./src/H5G.c ./src/H5H.c ./src/H5M.c ./src/H5MF.c ./src/H5MM.c ./src/H5O.c ./src/H5Ocont.c ./src/H5Oname.c ./src/H5Onull.c ./src/H5Ostab.c ./src/H5P.c ./src/H5T.c Fixed include files. Moved some things from old headers into these files. ./src/H5ACprivate.h ./src/H5Aprivate.h ./src/H5Bprivate.h ./src/H5Cprivate.h ./src/H5Dprivate.h ./src/H5Eprivate.h ./src/H5Fprivate.h ./src/H5Gprivate.h ./src/H5Hprivate.h ./src/H5MFprivate.h ./src/H5MMprivate.h ./src/H5Mprivate.h ./src/H5Oprivate.h ./src/H5Pprivate.h ./src/H5Tprivate.h ./src/H5private.h ./src/debug.c Fixed include files. ./src/hdf5.h This is now the top-level *PUBLIC* include file. It should never appear in the library *.c files.
* [svn-r17] ./src/H5AC.cRobb Matzke1997-08-091-3/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Renamed H5AC_find() to H5AC_find_f() which is invoked from the H5AC_find() macro. Changed HASH() to H5AC_HASH(). ./src/H5ACprivate.h Increased the number of cache slots from 1033 to 10330 to see how it affects performance. This should probably be changeable on a per-file basis. ./src/H5B.c Fixed some bugs now that symbol tables are actually using the stuff. Improved debugging a little. Fixed uninitialized memory appearing in the file. ./src/H5D.c Changed a FUNC_ENTER() argument from H5Dset_info to H5Dwrite. ./src/H5F.c Plugged a memory leak in H5F_dest(). ./src/H5G.c ./src/H5Gprivate.h Many of these functions take a symbol table entry which describes the symbol table rather than just the symbol table address. Moved some functions to make room for the ones that understand directory names: H5G_new() -> H5G_stab_new() H5G_find() -> H5G_stab_find() H5G_modify() -> H5G_stab_modify() H5G_insert() -> H5G_stab_insert() H5G_list() -> H5G_stab_list() ./src/H5Gnode.c Added more assertions. Zero new memory so junk doesn't appear in the data file. This is a problem when one tries to declassify a classified data file. H5G_node_debug() can take an extra argument which is the address of the heap for the symbol table. If supplied, the symbol names are printed along with the heap offsets. ./src/H5H.c ./src/H5Hprivate.h Fixed a bug with the free blocks by forcing things to align on even boundaries. It's still possible to lose heap memory if the hole is smaller than the free list header. The alternative is to align heap objects on 12 or 20 byte boundaries, but this tends to waste to much space. Zero new memory like with H5Gnode.c. Fixed a "mispeling" of NDEBUG. ./src/H5Ocont.c ./src/H5Onull.c Added the pablo mask defn. ./src/H5Ostab.c Added the pablo mask defn. Fixed a read from uninitialized memory. ./src/H5Oprivate.h Tuned some parameters to see how they affect performance. ./src/debug.c An optional third argument can be supplied which is the address of a heap to use to display names in a symbol table. ./src/hdf5pabl.h Changed `int' to `intn'.
* [svn-r15] ./src/H5AC.cRobb Matzke1997-08-071-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ./src/H5ACprivate.h ./src/H5ACproto.h ./src/H5Bproto.h ./src/H5Gproto.h ./src/H5Hproto.h ./src/H5MFprivate.h ./src/H5MFproto.h ./src/H5MM.c ./src/H5MMprivate.h ./src/H5MMproto.h Changed my e-mail address. ./src/H5O.c NEW ./src/H5Onull.c NEW ./src/H5Ocont. NEW ./src/H5Ostab.c NEW New functions for dealing with object headers. The H5O.c is the generic stuff, and each particular message has a source file for the specific stuff. Use ./src/H5Ostab.c as a model for implementing other messages. ./src/Makefile ./src/test/Makefile Added new files ./src/debug.c Added debugging calls for object headers. ./src/H5B.c ./src/H5Bprivate.h ./src/H5Gnode.c ./src/H5MF.c Changed my e-mail address. Improved error handling. ./src/H5Eprivate.h ./src/H5Eproto.h Added more error symbols ./src/H5F.c Changed my e-mail address. Used macros for sizeof offsets and lengths. Added the interface initialization function to H5F_block_read() and H5F_block_write(). Updated H5F_debug() ./src/H5Fprivate.h Got rid of H5F_symbol_table_size(). Use H5G_SIZEOF_ENTRY() instead. Reformatted H5F_decode_offset() for readability. ./src/H5G.c Changed my e-mail address. Improved error handling. Replaced not_implemented_yet__*() with real functions from H5O. ./src/H5Gprivate.h Changed `symtab' to `stab' to be consistent with other stuff. ./src/H5H.c ./src/H5Hprivate.h Changed my e-mail address. Improved error handling. Added an extra argument to H5H_new() to indicate whether you want a global heap or a local heap. ./src/hdf5gen.h Added NELMTS() Fixed FUNC_ENTER() Rewrote FUNC_LEAVE() in terms of HRETURN(). ./src/hdf5meta.h Added `const' to the decode macros. ./src/hdf5pabl.h Added PABLO_SAVE() ./test/testhdf5.c ./test/testhdf5.h Added calls for object header testing. ./test/theap.c Turned off some output.
* [svn-r4] Changed SIZEOF_OFFSET and SIZEOF_SIZE to H5F_SIZEOF_OFFSET andRobb Matzke1997-08-011-7/+8
| | | | | | | | | H5F_SIZEOF_SIZE. Modified files to use these instead of accessing the hdf5_file_t struct directly. Changed address return values from H5B to -1 for error. Changed off_t to haddr_t for anything that's a file address.
* [svn-r2] Oops...Quincey Koziol1997-07-301-0/+71
generated by cgit v0.12 at 2024-11-06 16:10:16 (GMT)