Added H5Fflush() and H5F_flush() which flush (and optionally
invalidate the cache) and flush the file boot block.
H5Fcreate() calls H5F_flush() to output the boot block.
H5Fclose() calls H5F_flush() to update the boot block.
H5F_debug() prints the root symbol table entry.
./src/H5Fpublic.h
Added H5Fflush() prototype.
./src/H5G.c
The name message is removed when an object moves from the root
object position into a directory.
Added H5G_debug() to print a symbol table entry. Most of the
code was just moved from H5G_node_debug().
./src/H5Gnode.c
Moved some debugging code into H5G_debug().
./src/H5Gprivate.c
Added H5G_debug() prototype.
./src/H5O.c
Implemented H5O_remove().
Added identifiers for H5O_SIM_DIM and H5O_SIM_DTYPE so they
can be read from files.
H5O_load() combines adjacent null messages for better memory
management.
./src/H5Oprivate.h
Changed minimum header data block size from 16 to 32 bytes.
Changed prototype for H5O_remove()
If the symbol table entry doesn't change then the ent_modified
argument to H5O_modify() doesn't change. This allows us to
set ent_modified to false and then call H5O_modify() a whole
bunch of times and easily determine if any of the calls
modified the symbol table entry.
./src/H5D.c
Fixed caching of things in the symbol table entry using the
scheme we came up with a couple months ago.
./test/tohdr.c
./test/tmeta.c
./test/theap.c
./test/tfile.c
./test/testhdf5.h
./test/testhdf5.c
Changed the MESSAGE macro so it doesn't have a semicolon
inside the argument list and automatic indentation tools work
better.
Old call: MESSAGE (5, printfunc("foo%s %d", s, i););
New call: MESSAGE (5, ("foo%s %d", s, i));
The parentheses are required.
./test/tstab.c
Added more tests.
Changed H5D_flush() to work with the new symbol table
functions. I just remembered that caching data in the symbol
table entries still needs some work, so there's a line in
there that invalidates the symbol table entry cache.
Also, there are some comments in there with the word `Quincey'
for you to read about inserting the messages in the dataset
object header.
I commented out a bunch of code in H5D_flush() so I could
compile and link the test cases. If you commit your changes
to that file, whatever they may be, I'll change H5D_flush() to
use the new directory functions described below...
./src/H5G.c
H5G_namei()
-----------
Understands files without directories. The root object
(directory or not) can be found by asking for `/' (or any
equivalent absolute or relative name like `/.//.///' or
`.//.///' (if the cwd is the root)) or by name like `/foo' (or
any other equivalent absolute or relative name) if the object
has a name message with the value `foo'. This function is
used by most of the other H5G functions so they now understand
directory-less files too.
H5G_new()
---------
Creates the root directory implicitly if it doesn't already
exist, moving any previous non-directory root object into the
new root directory before creating the requested directory
within the root. The creation of the root directory happens
first, regardless of whether the requested directory creation
succeeds. Once the root directory is created it never
disappears even if the file later has only one object. This
"feature" can be used to force a file to have a root directory
by saying something like:
H5G_new (..., "/", ...);
H5ECLEAR; /*we don't care about the H5E_EXISTS failure*/
The H5G_new() in the previous example fails because the root
directory is created implicitly before we attempt to create
the requested "/" directory.
H5G_find()
----------
Understands files without directories. If there is no root
object then this function is guaranteed to fail even if the
request is for `/'. As mentioned for H5G_namei(), the root
object can be retrieved with `/' or `/foo' (or equivalent
absolute or relative names).
H5G_insert()
------------
Understands files without directories and attempts to create
such files when there is only one object. The root symbol
table is created implicitly when necessary.
A root object can be given a name message by the caller and
then inserted with the name `/' or it can be inserted with
the name `/foo' in which case H5G_insert() will set the name
message to `foo'.
H5G_modify()
------------
Understands files without directories.
./src/H5Fprivate.h
Removed the root_type field from hdf5_file_t.
./src/H5Fprivate.h
./src/H5F.c
Removed H5F_root_type()
./src/H5Fpublic.h
Removed H5F_root_symtype_t.
./src/H5Oprivate.h
./src/H5O.c
Added H5O_remove() which is currently a no-op.
./test/testhdf5.h
./test/tfile.c
./test/theap.c
./test/tmeta.c
./test/tohdr.c
./test/tstab.c
Fixed include files.
./test/Makefile.in NEW
./test/Makefile
Removed Makefile; it is now generated from Makefile.in by
configure.
./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.
./config/conclude.in NEW
Templates for the beginning and end of each Makefile.
./config/depend.in NEW
Template for the part of the Makefile that generates source
dependencies.
./config/freebsd2.2.1 NEW
./config/linux NEW
Personal preference files. These are not part of a
distribution but are for fine tuning configure for particular
systems and are used by the HDF5 maintainers.
./bin/config.sub NEW
Shell scripts for guessing the CPU, vendor name, and operating
system. Used by configure.
./bin/install-sh NEW
A portable BSD-compatible install script which is used if a
BSD-compatible `install' can't be found.
Instructions for end users.
./INSTALL_MAINT NEW
Instructions and hints for maintainers.
./MANIFEST NEW
A list of names of files that are part of the HDF5
distribution.
./Makefile.in NEW
Top-level makefile template. See INSTALL and/or INSTALL_MAINT
for instructions on how to generate the Makefile from this
file.
./configure NEW
./configure.in NEW
Configuration shell script generated from configure.in.
./Makefile
Removed from CVS. This file is now generated by running
configure.
Removed tests for H5_BTREEPAGE_SIZE and added tests for
H5_SYM_LEAF_K and H5_SYM_INTERN_K.
./test/tstab.c
Removed call to H5O_link() since it's handled by H5G_insert().
./src/H5Bprivate.h
The B-tree K value comes from a combination of the B-tree
subclass and the file.
./src/H5C.c
./src/H5F.c
./src/hdf5lims.h
./src/hdf5type.h
Removed the B-tree size parameter and added an array of B-tree
K values. Also added symbol table node K value.
./src/H5Eprivate.h
./src/H5Eproto.h
Added H5E_LINK for errors involving link counts.
./src/H5G.c
Inserting something into a directory with H5G_insert()
increments the link count in the object header. The root
object should always have a link count of at least 1.
./src/H5Gnode.c
./src/H5Gprivate.h
The symbol table node K value comes from the file instead of
being a constant.
./src/H5Olink.c
Added an assert(), fixed a hard-link bug.
We sort the cache before a complete flush because it might be
more efficient to write things back to disk in order of
increasing address. If you want the old way then undef the
SORT_BY_ADDR constant at the top of H5AC.c I haven't
determined which systems and I/O libraries this helps or
hurts. (This is currently off because of a bug I need to track
down that causes qsort() to run for a really long time).
./src/H5B.c
Fixed a couple more bugs.
./src/H5Eprivate.h
./src/H5Eproto.h
Added major H5E_DIRECTORY and minor H5E_EXISTS, H5E_COMPLEN.
./src/H5G.c
Added directory-aware functions.
The heap and B-tree are created when a directory is created
instead of when the first symbol is added. This simplifies
symbol table entry caching for the directory since the cached
value never changes now.
./src/H5Gnode.c
./src/H5Gprivate.h
Fine tuned the B-tree K values for symbol tables assuming an
average number of symbols is about 100 per directory. The
tuning minimizes storage space.
Fixed a return value in H5G_node_cmp().
./src/H5H.c
./src/H5Hprivate.h
Moved some macros the the header file.
./src/H5O.c
./src/H5Ocont.c
./src/H5Onull.c
./src/H5Ostab.c
Changed the arguments for the decode method for messages. The
second argument is the raw message size.
Added a class variable for native message size.
Added H5O_reset() to free memory used internally by a message.
./src/H5Oname.c NEW
./src/H5Oprivate.h
./src/Makefile
The object name message.
./src/hdf5port.h
Added defn for HDstrdup()
./src/H5Bprivate.h
./src/H5G.c
H5B_new() only takes two arguments.
./src/H5C.c
Fixed initializer for default_file_create to be the same order
as it's definition.
./src/H5D.c
Changed commented-out code to #if 0/#endif. #if'd out a
variable that was unused because of #if'd out code.
./src/H5Dproto.c
Added a prototype for H5Dwrite().
./src/H5F.c
Changed parentheses to fix precedence problems from:
flags & (~H5AC_OVERWRITE) != 0
to
(flags & ~H5AC_OVERWRITE) != 0
./src/H5H.c
Heap reallocation doubles the heap size instead of tripling it.
./src/H5O.c
Got rid of a statement with no effect.
./src/hdf5port.h
Indented a few #defines. Added a defn for MAX3().
Added defn for int64 and uint64 on irix. It seems to be
wrong, but at least things compile and run. This file will go
away with autoconf anyway.
./test/testhdf5.c
./test/Makefile
Added tstab.c
./test/testhdf5.h
Added tstab.c
Fixed bugs with CHECK_I() and CHECK_PTR().
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'.
./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.
Added an `_g' to the end of library_initialize,
thread_initialize, and interface_initialize to abide by the
naming convention. Removed setting of these variables from
the various initialization functions since it happens in the
FUNC_ENTER() macro now.
Defined PABLO_MASK.
Removed `CONSTR(FUNC,"function_name")' everywhere since it's
handled by the various FUNC_ENTER macros.
Fixed calls to FUNC_ENTER(), FUNC_LEAVE(), and HRETURN_ERROR()
so they don't need so many arguments.
Changed PABLO_TRACE_ON() to FUNC_ENTER() since there is no
longer any danger of infinite recursion.
H5_term_library() now returns SUCCEED/FAIL and uses
FUNC_ENTER/FUNC_EXIT macros.
./src/H5A.c
Changes similar to H5.c.
Most (all?) of the functions called PABLO_TRACE_ON() and the
package doesn't have an interface initializer that I can see,
so the second argument to FUNC_ENTER() is always NULL.
H5A_release_atom_node() returns SUCCEED/FAIL.
./src/H5AC.c
Added error handling.
Arguments for internal functions are checked with assert().
./src/H5C.c
Changes similar to H5.c
Fixed the FUNC variable in H5C_get_default_atom() since it was
initialized to the wrong name.
./src/H5D.c
Changes similar to H5.c
./src/H5E.c
Changes similar to H5.c
Changed the pablo mask from H5_mask to H5E_mask in
H5E_init_interface().
H5Eclear(), H5E_store(), and H5Epush() return SUCCEED/FAIL.
Changed PABLO_TRACE_OFF() calls to FUNC_LEAVE() calls in the
same functions.
./src/H5Eprivate.h
./src/H5Eproto.h
Added additional error symbols for the H5AC package.
Changed prototypes for H5Eclear() and H5Epush().
Changes to HRETURN_ERROR() and HGOTO_ERROR() to reduce the
number of arguments.
./src/H5F.c
Changes similr to H5.c
Changed the pablo mask from H5_mask to H5F_mask for the
FUNC_LEAVE() call of H5F_init_interface().
Added FUNC_ENTER() and FUNC_LEAVE() calls to some functions
that didn't have them.
./src/H5M.c
Changes similar to H5.c
Fixed the FUNC variable in H5M_init_interface() since it was
initialized to the wrong name.
./src/H5P.c
Changes similar to H5.c
./src/H5T.c
Changes similar to H5.c
./src/hdf5gen.c
Changes to FUNC_ENTER() and FUNC_EXIT() to reduce the number
of arguments. FUNC_ENTER() is now safe from infinite
recursion since it updates the library_initialize_g,
thread_initialize_g, or interface_initialize_g variables
before calling the appropriate initialize function.
Fails sooner if the type of object requested doesn't match
the type of object cached.
./src/H5B.c
./src/H5Bprivate.h
./src/H5Fprivate.h
./src/H5G.c
./src/H5Gnode.c
./src/H5Gprivate.h
./src/H5H.c
./src/H5Hprivate.h
Changed lots of `H5*_HDR_SIZE' macros to `H5*_SIZEOF_HDR' to make
things more consistent.
Added H5*_SIZEOF_MAGIC macros.
Added debugging functions to some of the packages.
./src/H5F.c
Fixed a bug with reading past the end of a buffer.
./src/H5Tproto.h
Added prototypes for H5Tadd_field() and H5Tget_fields().
./src/debug.c
Low-level file debugging program.
./src/Makefile
Builds `debug' as one of the main targets. The target is
called `debug_hdf5' so it doesn't conflict with the `debug'
target that was already there. But the executable is called
`debug'.
the object header in the dataset structure). Also deleted the support for a
"per file" error stack, since we've decided to go with a "per thread" model
(currently).
