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* [svn-r627] Changes since 19980827Robb Matzke1998-08-281-109/+248
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5G.c Fixed a link count on groups. Groups were always created with a link count of zero instead of one. ./src/H5Gpublic.h Added H5G_NTYPES so applications can easily declare arrays which are indexed by object type. ./src/H5O.c Calling `H5O_link(&ent,0)' will succeed when the file is open for read only because it's the only way to get the object's current link count. ./tools/h5ls.c Can take non-group object names on the command line (and multiple objects). Reorganized to be more extendible. The link count is displayed for `-v'. ./src/H5F.c Dumping of cache statistics is controlled by only the HDF5_DEBUG environment variable and not the H5F_ACC_DEBUG flag for H5Fopen() and H5Fcreate() since this makes it similar to the other debugging options. ./src/H5R.c ./test/ragged.c ./test/Makefile.in Tests pass but still a little work left to be done.
* [svn-r620] Changes since 19980825Robb Matzke1998-08-272-3/+29
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST ./src/H5R.c [NEW] ./src/H5Rprivate.h [NEW] ./src/H5Rpublic.h [NEW] ./src/Makefile.in ./src/hdf5.h ./test/ragged.c [NEW] Preliminary support for 2d ragged arrays for Mark Miller and Jim Reus. Not fully implemented yet. The test is not actually part of `make test' because we still have some memory problems. ./src/H5E.c ./src/H5Epublic.h Added H5E_RAGGED as a major error number. ./bin/release Checks the MANIFEST file against `svf ls' on systems that have it. ./bin/trace Fixed a bug that caused arguments of type `void *x[]' to not be handled. ./src/H5.c Removed unused variables and changed a couple types to fix compiler warnings. Added tracing support for ragged array object ID's and arrays of pointers. ./src/H5D.c H5Dcreate() will complain if either of the property lists are invalid (instead of using the default). ./src/H5D.c ./src/H5Dprivate.h Split H5Dget_space() into an API and internal function so it can be called from the new ragged array layer. ./src/H5Fistore.c Fixed warnings about unsigned vs. signed comparisons. ./src/H5Flow.c Fixed a warning about a variable being shadowed in the MPI-IO stuff. ./src/H5Iprivate.h ./src/H5Ipublic.h Added the H5_RAGGED atom group. ./src/H5Shyper.c Fixed some freeing-free-memory errors that resulted when certain arrays were freed but the pointers were left in the data structures. I simply set the pointers to null after they were freed. ./src/H5Sprivate.h ./src/H5Sselect.c Split the H5Sselect_hyperslab() function into an API and a private function so it could be called from the ragged array layer. Added H5S_SEL_ERROR and H5S_SEL_N to the switch statements to get rid or compiler warnings. ./src/H5Tconv.c Removed a misleading comment. ./test/bittests.c Fixed a warning about a printf(). ./test/cmpd_dset.c Fixed warnings about unused variables because of test #11 being commented out. ./bin/trace Shortened the right margin for the output to allow room for the `);' at the end of the TRACE() macros.
* [svn-r611] Removed warning messages during compilation.Ruey-Hsia Li1998-08-213-7/+5
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* [svn-r609] Debugging.htmlRobb Matzke1998-08-201-0/+5
| | | | | | | | | | | | | | | | | | | | | Fixed errors H5.c Fixed core dump with setvbuf() for debugging. H5Fistore.c Fixed bug with sparse datasets. H5Omtime.c Found a typo in "Posix Programmer's Guide". The `%z' in the strftime() should be `%Z' instead. H5T.c H5Tpublic.h Improved api tracing for H5Tinsert_array(). h5tools.c Doesn't dump core for empty datasets.
* [svn-r605] Added in h5dump tools created by Ruey-Hsia.Albert Cheng1998-08-194-3/+1349
| | | | | | | | Renamed what was called h5dump.c to h5tools.c. Changed Makefile.in to reflect all the changes. (Make dependence is to be processed later.) Tested in Solaris 2.5
* [svn-r578] Changes since 19980805Robb Matzke1998-08-061-2/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST Replaced Compression.html with Filters.html ./doc/html/Filters.html ./src/H5Ocomp.c ./src/H5P.c ./src/H5Ppublic.h ./src/H5Z.c ./src/H5Zprivate.h Added two extra arguments to H5Pget_filter() in order to retrieve the filter name. The name is the name registered for the filter with H5Zregister(), but if the dataset creation property originally came from an existing file then the name is that which is stored in the file. ./tools/h5ls.c The `-v' option now prints the names of the filters. ./src/H5B.c ./src/H5Fistore.c ./src/H5O.c ./src/H5Oefl.c ./src/H5Oprivate.h ./src/H5P.c Plugged a memory leak. ./src/H5MMprivate.h H5MM_malloc(0) and H5MM_calloc(0) actually allocate a single byte in order to be sure that we get a valid pointer. ./src/H5S.c ./src/H5Sselect.c Fixed pointer->integer conversions in error return values in three places.
* [svn-r569] Changes since 19980731Robb Matzke1998-08-052-5/+31
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./bin/release Added ./Makefile to the distribution again -- it got lost in the changes last week although it isn't all that important a file since it gets clobbered by configure anyway. ./bin/trace ./doc/html/Filters.html ./doc/html/H5.format.html ./doc/html/H5.user.html ./src/H5.c ./src/H5D.c ./src/H5Dprivate.h ./src/H5E.c ./src/H5Epublic.h ./src/H5Farray.c ./src/H5Fistore.c ./src/H5Fprivate.h ./src/H5O.c ./src/H5Ocomp.c ./src/H5Oprivate.h ./src/H5P.c ./src/H5Ppublic.h ./src/H5Sall.c ./src/H5Shyper.c ./src/H5Spoint.c ./src/H5Sprivate.h ./src/H5Ssimp.c ./src/H5Z.c ./src/H5Zprivate.h ./src/H5Zpublic.h ./src/hdf5.h ./test/dsets.c ./tools/h5ls.c Added the data filter pipeline, a generalization of the compression stuff which allows things like checksums, encryption, compression, performance monitoring, etc. See ./doc/html/Filters.html for details -- it replaces the Compression.html doc. ./src/H5T.c Cleaned up debugging output. ./config/linux Added checks for egcs and pgcc and changed optimization flags for the compilers. ./src/H5G.c ./tools/h5dump.c Fixed compiler warnings in these files and others. ./configure.in ./src/H5private.h ./test/mtime.c Added a check for difftime() and defined HDdifftime() to do something else on systems that don't have difftime().
* [svn-r546] Changes since 19980724Robb Matzke1998-07-293-38/+115
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./MANIFEST ./doc/html/H5.format.html ./src/H5O.c ./src/H5Oprivate.h ./src/H5Omtime.c [NEW] ./src/H5private.h ./src/Makefile.in Added the modification time message. If an object header has this message then it's value is updated with the current time whenever anything changes in the object header. ./acconfig.h ./configure.in Alas, there seems to be no standard way to convert a string time like 19980727122800 in UTC to a time_t since mktime() only converts local times to time_t. So I've modified the configuration to check for various ways of getting the time zone information: * Added checks for the `tm_gmtoff' field of `struct tm'. * Added a check for the `timezone' global variable. * Added a check for `struct timezone'. * Added a check for BSDgettimeofday(). * Added a check for gettimeofday() although it doesn't actually set the timezone argument on some systems. * Added a check to see if `tm_zone' is a member of `struct tm'. * Added a check to see if `tzname' is a global variable. * Added a check to see if `struct tm' is defined in time.h or sys/time.h. It's not difficult to get the right UTC modification message into the object header, but some systems might have problems getting the right time back out (Irix64 is one) and those systems will report zero for the H5G_stat_t.mtime from an H5Gstat() call as if the mtime message isn't even present. It will, however, continue to be updated as normal. ./src/H5G.c ./src/H5Gpublic.h The H5G_stat_t struct now contains an `mtime' field which will hold the object modification time. If the object has no object modification time then the `mtime' will be initialized to zero. Fixed a bug in H5G_stat() that caused the `objno' field of the H5G_stat_t to be set incorrectly on some machines. ./src/H5D.c Writing to external datasets fail if the hdf5 file is not open for writing. A modification time message is added to the dataset object header when it's created and H5O_touch() is called from H5D_write() to update that message. ./src/H5T.c Fixed a bug in H5Tget_member_dims() that caused a segmentation fault if one of the output array arguments was the null pointer. Relaxed the member dimension checking in H5Tinsert_array() so it can also be used for scalar members. ./test/Makefile.in Added additional file names to the `mostlyclean' target. ./tools/h5dump.c ./tools/h5tools.h Increased the temporary buffer size to 1MB. Added support for printing compound data types with array members. When printing H5T_NATIVE_CHAR and H5T_NATIVE_UCHAR we escape double quote characters. ./tools/h5ls.c Changed the output format a little because we were starting to get too much info to fit on a line. Without `--verbose' each object occupies one line of output. Otherwise, additional information is printed below the object name: object file address, comment, and modification time. If `--dump' is given then the data is printed after the other information. ./test/cmpd_dset.c Changed the way the dataset is initialized to be more uniform.
* [svn-r541] Changes since 19980723Robb Matzke1998-07-243-59/+220
| | | | | | | | | | | ---------------------- ./tools/h5dump.c ./tools/h5ls.c ./tools/h5tools.h Able to handle compound data types now. Moved code that chooses memory data type based on file data type from h5ls to libh5tools.a(h5dump.o)
* [svn-r537] Changes since 19980722Robb Matzke1998-07-234-42/+520
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5A.c ./src/H5Apublic.h ./test/tattr.c Switched the order of the second and third argument of H5Aget_name() to make it consistent with other functions that take buffers and buffer sizes. ./src/H5G.c ./src/H5Gpublic.h ./src/H5Gprivate.h The H5Gget_comment() function returns the size of the comment including the null terminator. If the object has no comment then zero is returned. If an error occurs then a negative value is returned. ./MANIFEST ./tools/Makefile.in ./tools/h5tools.h [NEW] ./tools/h5dump.c [NEW] Created a library for printing values of datasets in a way that looks nice. It's not done yet, but I needed it for debugging the contents of files from Jim Reus. ./tools/h5ls.c Added the `-d' and `--dump' options which cause the contents of a dataset to be printed. Added `-w N' and `--width=N' options to control how wide the raw data output should be. If you want single-column output then say `-w1'. Printing dataset values can now handle datasets of any integer or floating point atomic type. As a special case, integers which are one byte wide are treated a character strings for now. Sample output: $ h5ls --dump --width=60 banana.hdf ARCHIVE 0:0:0:744 Dataset {52/Inf} Data: (0) "U struct complex { double R; double I; };\012V" (43) " double;\012" U 0:0:0:2500 Dataset {256/512} Data: printing of compound data types is not implemented yet V 0:0:0:3928 Dataset {256/512} Data: (0) 0, 0.015625, 0.03125, 0.046875, 0.0625, (5) 0.078125, 0.09375, 0.109375, 0.125, 0.140625, (10) 0.15625, 0.171875, 0.1875, 0.203125, 0.21875, (15) 0.234375, 0.25, 0.265625, 0.28125, 0.296875, ...
* [svn-r529] Changes since 19980722Robb Matzke1998-07-221-4/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5.c Handle hid_t of type H5_TEMPBUF, arguments usually called tbuf_id. Added array tracing where the array rank is stored in a simple data space. Just use the name of the data space argument when declaring the array argument: herr_t H5Sselect_hyperslab (hid_t space_id, H5S_seloper_t op, const hssize_t start[/*space_id*/], const hsize_t _stride[/*space_id*/], const hsize_t count[/*space_id*/], const hsize_t _block[/*space_id*/]) and when the program runs you'll see array values printed: H5Sselect_hyperslab(space=218103813, op=H5S_SELECT_SET, start=0xbfffef4c {0}, _stride=NULL, count=0xbfffef44 {64}, _block=NULL) = SUCCEED; Added more symbolic data types to the tracing output. ./src/H5A.c ./src/H5Apublic.h ./src/H5D.c ./src/H5Dpublic.h ./src/H5F.c ./src/H5Fpublic.h ./src/H5G.c ./src/H5Gpublic.h ./src/H5P.c ./src/H5Ppublic.h ./src/H5S.c ./src/H5Sall.c ./src/H5Shyper.c ./src/H5Spoint.c ./src/H5Spublic.h ./src/H5Sselect.c ./src/H5Ssimp.c ./src/H5TB.c ./src/H5V.c Changed some API argument names to be more consistent with other API functions and to produce better tracing output. Reformatted some long lines. Indented printf statements. ./tools/h5ls.c Fixed warnings about unsigned vs. signed comparisons.
* [svn-r526] Changes since 19980721Robb Matzke1998-07-221-0/+55
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./tools/h5ls.c If the dataset is of type H5T_NATIVE_CHAR then we print the value as a string. This is temporary -- I plan to add better control of this later but needed something now for debugging. ./src/H5Fistore.c Squashed a bug in the chunk caching code that caused the wrong chunk to be returned. ./bin/trace ./src/H5.c Added support for printing values of array arguments when the size of the array is supplied by some previous argument. You must declare the argument as an array in order for the automatic tracing stuff to work. For instance, the third argument of H5Pset_chunk() is an array whose size is determined by the second argument `ndims'. Here's how you should declare it: herr_t H5Pset_chunk(hid_t plist_id, intn rank, hsize_t dims[/*rank*/]) The comment inside the `[]' is the name of some previous integer argument (int, unsigned, size_t, ssize_t, hsize_t, hssize_t). The trace output will look something like: H5Pset_chunk(plist=1234567, rank=2, dims=0x112233 {11, 22}) Changed tracing so that data types are printed out symbolically when possible. Changed tracing so data type initializations are not printed. This used to be confusing because lots of H5Tcopy() and H5Tregister...() calls showed up before the applications first explicit API call. ./src/H5Ipublic.h Changed the file atom group from zero to one so printing of atoms during tracing is more consistent -- they're all big numbers now. ./src/H5A.c ./src/H5E.c ./src/H5F.c ./src/H5G.c ./src/H5Sselect.c ./src/H5T.c ./src/H5TB.c ./src/H5Z.c Accidently modified these when working on the tracing, but nothing should have changed. ./src/H5P.c Changed the definition of H5Pset_chunk() for tracing. ./src/H5S.c ./src/H5Spublic.h Changed the definitions of H5Sset_extent_simple() and H5Screate_simple() for tracing. Changed the FUNC_ENTER() name for H5Screate_simple() so tracing shows the correct name.
* [svn-r522] Changes since 19980720Robb Matzke1998-07-201-1/+6
| | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5Gpublic.h ./src/H5Gprivate.h ./src/H5G.c ./test/dsets.c ./doc/html/Groups.html Added the H5Gset_comment() and H5Gget_comment() functions described in an earlier e-mail. ./src/H5.c Fixed a bug in the tracing code that caused certain data space enum types to not be printed. Nested case statements can get confusing to the eyes! ./tools/h5ls.c Prints the first 50 bytes or so of object comments.
* [svn-r517] Changes since 19980720Robb Matzke1998-07-202-10/+17
| | | | | | | | | | | | | | | | | | | | | ---------------------- ./bin/release The archive names have only three parts to a version number. Instead of `hdf5-1.2.3d.tar.gz' they will be named like `hdf5-1.2.3.tar.gz'. ./src/H5public.h ./src/H5.c Dropped the patch level from the version number. The version number is now a major number, a minor number, and a release number. ./doc/html/Version.html Updated to get rid of patch numbers. ./tools/h5repart.c Added a `-V' flag like for `h5ls' that prints the version number.
* [svn-r514] Changes since 19980715Robb Matzke1998-07-171-12/+93
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ---------------------- ./src/H5Flow.c ./src/H5Fprivate.h ./src/H5Fsplit.c Changed the allocation size request from `size_t' to `hsize_t' because it was overflowing for the `big' test. ./src/H5detect.c If `long double' and `double' are the same size then we define H5T_NATIVE_LDOUBLE to be the same as H5T_NATIVE_DOUBLE. Similarly for `long' vs. `long long' and `unsigned long' vs. `unsigned long long'. ./test/Makefile.in Added `big' to the list of tests to normally run. ./test/big.c Added a check to see if the file system supports holes and if it doesn't then the test is skipped. ./RELEASE Added a couple minor details details about API tracing and symbolic links. ./src/H5public.h Added comments about the use of hbool_t. Fixed a comment spelling error. ./test/testhdf5.h Changed the way the version number is printed. The old method was `hdf5-1.2.3d' and the new method is `hdf5 version 1.2 release 3' ./tools/h5ls.c Only prints the max dimension if it differs from the current dimension or if verbose mode is enabled. Added switches `-?', `-h', and `--help' to print a usage message. Added switches `-v' and `--verbose' to generate more verbose output. Added switches `-V' and `--version' to print the version number and exit. The version number is printed like: This is h5ls version 1.0 release 24' ./bin/h5vers [NEW] This script prints, sets, and/or increments the hdf5 version number. It can be run from the top directory or any of the child directories like src, tools, test, etc. Some examples: $ h5vers # Display current version 1.0.24 $ h5vers -v version 1.0 release 24 # Display current version. $ h5vers -s 5.2.8 # Set version and display 5.2.8 $ h5vers -s 2.1 2.1.0 $ h5vers -s hdf5-1.0.24a.tar.bz2 1.0.24 $ h5vers -s 'version 2.0 release 8' 2.0.8 $ h5vers -s 'junk 22 junk 33 more junk 66 and 99 junk' 33.66.99 $ h5vers -i major # Increment from 1.0.24 2.0.0 $ h5vers -i minor # Increment from 1.0.24 1.1.0 $ h5vers -i release # Increment from 1.0.24 1.0.25 $ h5vers ~/hdf5/src/H5public.h # Use an alternate file 1.0.24 ./bin/checkapi [NEW] Run from the src directory with arguments H5[A-Z]*.c and it will print the locations of each place where an API function was called from within the library. Use it as the compile or grep command under Emacs and you can C-x ` through the list. ./bin/debug-ohdr [NEW] Keeps track of H5O_open() and H5O_close() debugging messages and lists the file addresses of the object headers that are opened but never closed. You must enable the `o' debugging at configuration time and pipe stderr into this script. ./bin/errors Added a note to indicate that this script no longer works because of changes in the HRETURN_ERROR() and HGOTO_ERROR() macros. ./bin/iostats [NEW] Watches output from the Linux strace program and accumulates statistics about low-level access to an hdf5 file. The output is a list of 2d data points which can be plotted by gnuplot to show file seeking behavior. ./MANIFEST Added new files.
* [svn-r490] Changed more API functions to the new names as documented.Quincey Koziol1998-07-141-2/+2
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* [svn-r485] Changes since 19980710Robb Matzke1998-07-135-0/+914
---------------------- ./Makefile.in ./config/commence.in ./config/conclude.in ./config/depend.in ./src/Makefile.in ./test/Makefile.in Tests are no longer installed for `make install'. Added a new target `make tests' that builds the tests but doesn't run them. ./configure.in ./configure [REGENERATED] ./src/H5config.h.in [REGENERATED] Added detection of fork() and waitpid(). If present the contants HAVE_FORK and HAVE_WAITPID will be defined in H5config.h. ./test/dtypes.c Minor tweaks for systems that don't have fork() or waitpid(). ./MANIFEST ./tools [NEW] ./tools/Makefile.in [NEW] ./tools/h5debug.c [NEW] ./tools/h5import.c [NEW] ./tools/h5ls.c [NEW] ./tools/h5repart.c [NEW] Added a tools directory and moved tools from the src directory to here.
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