Bug fix: the macro used for percentage in the unsigned types needed a cast to signed (the difference can be negative)
Unlike the 1.6 branch the unsigned long long conversion to float is supported by H5Tconvert , so the test commented for 1.6 is run (tools/testfiles/h5diff_16_2.txt)
Description: Multiple copies of Copyright appeared in Makefile.in. This was
due to automake copying the copyright right in the included files such as
config/commence.am.
Solution: Automake treats double hashes as comments and does not copy them
to Makefile.in. Changed all the copyright notices in config/*.am to use
double hashes for the Copyright right notice.
Tested: kagiso via bin/reconfigure.
Add small 'h5mkgrp' tool to create groups in an HDF5 file from the command
line, allowing the group structure for a file to be created in a script. This
tool closely follows the 'mkdir' command line tool in UNIX/Linux.
Allow tool library applications to pass a FAPL to the h5tool_fopen() call,
giving some additional flexibility to tools which are adding objects to an
existing HDF5 file (like h5copy & h5mkgrp).
Fix missing files in MANIFEST from previous checkin(s).
Tested on:
Linux/32 2.6 (chicago)
Linux/64 2.6 (chicago2)
Add feature to h5copy to allow it to add an object to an existing file,
instead of blowing away existing file.
Modify h5tools_fopen() routine to take access flags, so it can be used
to open an existing file for writing.
Added check to h5copy test script that verifies it has produced a file
with the correct structure.
Tested on:
Linux/32 2.6 (chicago)
Linux/64 2.6 (chicago2)
Tested platform:
Kagiso only since it is only a comment block change. If it works in one
machine, it should work in all, I hope. Still need to check the parallel
build on copper.
It seems that while Cygwin supports the time command, it has trouble with
the syntax
srcdir="../../hdf5/test" time ./testhdf5
and complains.
The solution is to test the above case in configure and not to use the time
command if it fails; Cygwin is fine with
srcdir="../../hdf5/test" ./testhdf5
Tested on Cygwin and kagiso. This feature shouldn't be a major compatibility
problem since every platform but Cygwin is already fine with the current
syntax.
New version of the function h5tools_dump_simple_subset, to display subsetting. The new algorithm is:
Introduced an outer loop for cases where dimensionality is greater
than 2D. In each iteration a 2D block is displayed by rows in a inner
loop. The remainning slower dimensions above the first 2 are incremented
one at a time in the outer loop
Note: when blocks are introduced, the display is not correct. This is a bug that requires an improvement of the algorithm.
Fixed#720 h5dump: improve how region references are displayed. h5dump now uses the new API function H5Rget_name to display the name of the dataset referenced instead of its ID. Added a case to the script test file
fix for bugzilla bug #551
several programming errors contributed to this bug
1) the parsing of subsetting was using atoi to convert the parameter to an int,
which caused problems for numbers greater that int. Substitute with atof
2) several index counters were declared as int, use hsize_t instead
3) the numerical format passed for printf was %lu, defined one compatible with
hsize_t instead (unsigned long long)
Fix several bugs
1) the parsing of subsetting was using atoi to convert the parameter to an int, which caused problems for numbers greater that int. Substitute with atof
2) the printing of indices in the subsetting case was not being done. Solution: calculate the element position at the start of the subsetting using the algorythm
Given an index I(z,y,x) its position from the beginning of an array of sizes A(size_z, size_y,size_x) is given by
Position of I(z,y,x) = index_z * size_y * size_x
+ index_y * size_x
+ index_x
And pass that position to the function that dumps data, h5tools_dump_simple_data.
3) several index counters were declared as int, use hsize_t instead
4) modified the test generation program so that it includes test cases for subsetting of 1d, 2d, 3d, and 4d arrays and add these tests to the shell script
fixed 2 initializations of char* with HDstrdup and HDcalloc
info->prefix = HDcalloc(1, 1);
fname = HDstrdup(argv[opt_ind]);
some were exposed by compiler warnings
Cleaned warnings
h5diff_array.c:804: warning: passing arg 1 of `fabs' as floating rather
than integer due to prototype
introduced double precision arithmetic when possible instead of single
precision
Added a relative error formula to deal with floating point uncertainty
in the comparison of floats and double types.
Added new tests for this feature to the file generator program and to
the shell script
Basic support for H5Literate() routine. Still needs to be fleshed out and
refactored to simplify. Also, needs tests. :-)
Tested on:
FreeBSD/32 4.11 (sleipnir)
Linux/32 2.4 (heping)
Linux/64 2.4 (mir)
AIX/32 5.? (copper)
Mac OS X/32 10.4.8 (amazon)
The version of libtool used by HDF5 isn't directly affected by the reconfigure
script; instead, libtoolize --force must be used by hand. Libtool was the
source of the problem, so rolling its version back to 1.5.14 should solve the
issue (at least temporarily).
Reconfigure should still work on both heping and kagiso.
Tested on heping, kagiso, and tg-login3.
Add new H5Lget_val_by_idx() routine & tests.
Also includes most of changes for H5Ldelete_by_idx() routine.
Tested on:
Mac OS X/32 10.4.8 (amazon)
FreeBSD/32 4.11 (sleipnir)
Linux/32 2.4 (heping)
Linux/64 2.4 (mir)
AIX/32 5.? (copper)
Should disable linking against shared libraries in Fortran for compilers that
don't support shared libraries.
Should also fix problem when the wrong Fortran file extension was specified.
If these changes don't solve the Daily Test issues, I'll look at backing out
the autotool version change until I have time to fix them.
Tested on heping, kagiso, juniper.
h5dump bug 701. Symptom: The creation of a hardlink pointing to the root group "/" causes h5dump to display it as a link pointing to itself.
Cure: the root group was not being inserted in the table that keeps track of object names and links.
Added a test for this in the test generation program, the creation of a hardlink to the root
the linkval buffer, per Elena and Frank's suggestions while revising
the documentation. Added error checking using this size, as well as a
couple of tests.
Tested on juniper, kagiso, and sol.
h5diff: print a message of "not comparable" in a case where the relative error
compare is not possible, due to the denominator being zero. Modified
the test file generator program to include a example for this and a new
test on the shell script
1) added a new parameter to the h5diff function diff_array that contains
the beginning position of the hyperslab, so that the total position in
the array is printed correctly when reading by hyperslabs.
2) added a new test to h5diff that reads and diffs by hyperslabs. The
test reads a 1GB dataset, from which a 1KB hyperslab was written with
differences .
3) added the generation of 2 files to the generator program to test the
h5diff hyperslab read.
4) changed the h5diff binary pre-generated file names to be more
descriptive (e.g, instead of file1.h5, made it h5diff_basic1.h5)
5) changed the name of the h5repack options text file to info.h5repack
Fixes for bugs 676, 228
676: both h5repack and h5diff use H5Dread. In the case of a "big"
dataset, use read/write by hyperslabs the same way h5dump uses. An
arbitrary value of 1GB was defined for "big", i.e, if the dataset is
greater than 1GB, then read/write by hyperslabs
228: use the file type in read/write by default. A new switch -n was
introduced if the user wants to use a native type, which was the
previous use by default.
Added a new test for h5repack that repacks a 1GB dataset
Tested: heping (serial, parallel), sol, copper
Add "use the latest format" support for dataspace object header encode/
decode routines and clean up format a bit for the latest format (new to 1.8.x
releases)
Remove storing 'perm' parameter for array datatypes in memory and the file,
and add test to make certain that if any user applications are attempting to
store them, we get some reports back. (Should be unlikely, since the RefMan
says that the parameter is not implemented and is unsupported).
Carry those changes into the tests, etc.
Clean up a bunch more compiler warnings.
Tested on:
FreeBSD/32 4.11 (sleipnir) w/threadsafe
Linux/32 2.4 (heping) w/FORTRAN & C++
Linux/64 2.4 (mir) w/enable-1.6-compat
and quote its arguments. Also checks for the 'socket' library on
Solaris.
If this patch passes the Daily Tests and makes the user happy, I'll
port it back to the 1.6 branch.
Tested on mir and sol.
File format is not stable, don't keep files produced!
Description:
First stage of checkins modifying the format of groups to support creation
order. Implement "dense" storage for links in groups.
Try to clarify some of the symbols for the H5L API.
Add the H5Pset_latest_format() flag for FAPLs, to choose to use the newest
file format options (including "dense" link storage in groups)
Add the H5Pset_track_creation_order() flag for GCPLs, to enable creation
order tracking in groups (although no index on creation order yet).
Remove --enable-group-revision configure flag, as file format issues are
now handled in a backwardly/forwardly compatible way.
Clean up lots of compiler warnings and other minor formatting issues.
Tested on:
FreeBSD/32 4.11 (sleipnir) w/threadsafe
Linux/32 2.4 (heping) w/FORTRAN & C++
Linux/64 2.4 (mir) w/enable-v1.6 compa
Mac OSX/32 10.4.8 (amazon)
AIX 5.3 (copper) w/parallel & FORTRAN
Code cleanup.
Description:
Removed argc and argv from the function arguments of h5tools_get_fapl() and
h5tools_fopen(). They were used to call MPI_Init() which was no longer
needed.
Tested:
heping (serial and parallel).
Since these examples need to follow filesystem paths, the Makefiles need
to create directories in the examples directory; added this to the
Makefile.am.
Tested on Windows, mir, juniper
Bug fixes.
Description:
There were MPI_init and MPI_finalize calls in the code of h5tools_fopen in
parallel mode. But if a non-MPI tool is invoke to open a non-existing
file, it tries to open the non-existing file with different VFD and
eventaully came to try with the MPIO or the MPIPOSIX vfd, then it would
try to do MPI_Init which would fail in the MPI environment if the a.out
was not launched by MPI properly.
Solution:
MPI_Init and MPI_Finalize in general should be called by the MPI application,
not called by a library subroutine as in the manner that was done here.
Removed the MPI_init and MPI_Finalize calls. Used MPI_Initialized to
verify if this has been launched as an MPI application in the proper
manner before attempting to use the MPIO or the MPIPOSIX VFD to open
the file.
Tested:
In tg-ncsa parallel, where it had failed explicitly and also in Heping,
using both serial and parallel mode.
Users can create external links using H5L_create_external(). These links
point to an object in another HDF5 file. Users can alter the behavior of
external links or create new kinds of links by registering callbacks
using the H5L interface.
Added tests, tools support, etc.
Also a number of other, minor changes have been made (some restructuring of
the H5L interface, for instance).
Additional documentation and examples are forthcoming.
"make check-vfd" will now run all tests in the test directory with different
file drivers (at least, all of those tests that use the testing framework's
FAPL). Tests that fail will be skipped.
This is not a perfect fix, but is better than nothing.
Along with this change, check-vfd should be added to the Daily Tests.
1. changed the -F flag option names to "BE and "LE" for big and little endian
2. added a more verbose usage message for these options
3. add a new test
4. add a make clean instruction to *.bin
bug fix
calling h5tools_get_fapl running the mpio driver caused H5FD_pl_copy to
fail silently in some conditions. a MPI call was made before MPI_Init.
solution: corrected the MPI call to be made after MPI_Init and added error return
conditions to H5FD_pl_copy and h5tools_get_fapl
tested on copper parallel, mir, shanti
new feature
Description:
added support for h5dump to dump binary data using the file type format
added one test to the test script that tests this
Solution:
Platforms tested:
mir
shanti
copper
Misc. update:
Code cleanup
Description:
Trim trailing whitespace in Makefile.am and C/C++ source files to make
diffing changes easier.
Platforms tested:
None necessary, whitespace only change
new feature. h5dump output of binary data
Description:
a new switch -b FILE_NAME that dumps the contents of memory data to file FILE_NAME in binary form
new program binread.c that reads the contents of this file and outputs it to stdout
added a test for the h5dump shell script that does a run of -b
the binread.c program reads the data used in this run, usage is ./binread FILE_NAME
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
Configuration feature
Description:
'make install' now tests both static and shared libraries if both are installed.
Solution:
Previously, shared libraries were only tested when static libraries were not installed.
Also cleaned up line in commence.am that was including HL library in all Makefiles.
Platforms tested:
mir (Makefile change only)
Bug fix - bugzilla #552
Description:
On Cray X1, trying to use : as an argument confused the system.
Solution:
Added a test in configure to see if : as an argument is bad.
If so, skipped the test.
Platforms tested:
mir, Cray X1 (change to configure only)
Bug fix.
Description:
The ${TR}, though avoid the error, is inconvenient. It is needed
because configure.in use the char range in the style of 'a-z'.
The other style of '[a-z]' is more commonly accepted by all tr
but autoconf tends to strip away [], making the syntax rather
clumsy.
Solution:
Learned from autoconf that it avoids the use of character range
by just spell all the letters out. Changed our tr commands to
use those variables defined by autoconf. Also removed the
definition of ${TR} since it will cause inconsistancy when
autoconf also use plain 'tr' in its generated code.
The Makefile.in are changed because the elimination of ${TR} from
configure triggered its removal from all Makefil.in. That is okay
because ${TR} is not used at all in Makefile.
Platforms tested:
h5committested. (sol failed to connected). also tested in shanti
using both /usr/ucb/tr and /bin/tr (the bad one before.)
Misc. update:
Updated both INSTALL and RELEASE files.
new feature
Description:
modified the test case for region points, so that there is not an ordered sequence of points that differ, but one with gaps
Solution:
Platforms tested:
linux
Misc. update:
new feature
Description:
added support for the printout of dataset region references differences
added a new test for this
merged the h5diff generator of test files into a single file
Solution:
Platforms tested:
linux 32, 64
solaris
Misc. update:
Several bug fixes
Description:
Added config file for Cray X1 (previous file was misnamed)
Simplified some code in hyperslab.c test that seemed to have been
confusing compiler on Cray X1.
Fixed typo in config/commence.am
Cleaned up hl/src/Makefile.am
Solution:
All four fixes should be straightforward. The failure on Cray was
very difficult to debug, but involved arithmetic errors.
This change seems to fix it.
Platforms tested:
heping, copper, sol, some Cray X1 (more testing when system comes back up)
Anti-feature
Description:
Revert changes to H5G_stat_t struct, to make it compatible with the 1.6.x
branch again. The information that was added to the H5G_stat_t struct will
be reported through other API routines.
Platforms tested:
FreeBSD 4.11 (sleipnir) w/C++
Linux 2.4/64 (mir) w/C++ & Fortran
Solaris 2.9 (shanti)
new feature
Description:
1) separated the HL library into "public" and "private" header files, with the same caracteristics as the basic library
2) added the public headers to hdf5.h (with a conditional include macro, defined in configure.in)
3) added the path to HL in all Makefile.am 's , because of the inclusion in hdf5.h
Solution:
Platforms tested:
linux 32, 64
AIX
solaris
with fortran and c++
(one packet table example fails)
Misc. update:
new feature
Description:
added the printout of the compression ratio for filters in h5repack, after the filter name, obtained with H5Dget_storage_size, before and after applying the filter
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
bug fix
Description:
the percent error calculation in h5diff using double precision floating point were causing different results
on the release and debug versions of Visual Studio version 6, due to a compiler bug
Solution:
used single precision (float)
Platforms tested:
windows
linux
solaris
AIX
Misc. update:
bug fixes
Description:
h5dump/h5ls were not displaying long doubles correctly
Solution:
1) the print datatype functions were incorrectly testing for the valid return value from H5Tequal,
(TRUE), causing the display of an incorrect name of a dataype in error cases from H5Tequal
2) h5tools_print_str did not have a case for native long double
3) added a file generator for a long double dataset
4) added one script test for the long double data (commented , some sytems don't have a native long double match, and the output differs)
5) added a vms file and h5dump script test
Platforms tested:
linux 32, 64
solaris
AIX
Misc. update:
Bug fix
Description:
Previous checkin did a bad thing; 'make clean' failed in example directories.
Solution:
Fixed commence.am so that examples no longer break, and fixed a mistake
in conclude.am.
Platforms tested:
heping (minor makefile change)
Misc. update:
bug fix
Description:
percent relative error was done using integer arythmetic; use floating point instead
added the case for unsigned long long integer to float conversion
Solution:
Platforms tested:
linux (32,64)
AIX
solaris
Misc. update:
Bug fix
Description:
make check-clean didn't clean results of example tests
Solution:
Fixed Makefiles so that check-clean recurses into example directories.
Also a little Makefile cleanup.
Platforms tested:
mir, modi4, heping, copper
bug fix
Description:
1) added a more explainative usage message
2) the percent relative error for the integer type (division) was being done using integer arythmetic; use floating point arythmetic instead
3) added a new test for integer percent
Solution:
Platforms tested:
linux (32,64)
AIX
solaris
Misc. update:
bug fix
Description:
the compare check for the datatype sign was not done in the correct place, causing invalid
comparisons to be made
Solution:
put it on the correct place
Platforms tested:
linux 32, 64
AIX
Misc. update:
bug fix
Description:
1) the compare flag test was not being put in a correct place, making comparisons attempts that were not supposed to be done
2) some duplicate warnings were being made
Solution:
eliminate the duplicate warnings, put the if compare flag on the correct place
Platforms tested:
linux 32, 64
solaris
Misc. update:
bug fixes
Description:
1) the option logic for the print of long types was done incorrectly (extra lines of code that were not supposed to be there)
2) the print of loong long types was incorrect
Solution:
1) removed the incorrect code
2) made a long long cast on the printf call
Platforms tested:
linux (32 and 64)
solaris
Misc. update:
bug fix
Description:
long long type was being incorrectly printed
Solution:
added a long_long cast to print function
Platforms tested:
linux
Misc. update:
bug fix, new features
Description:
when comparing links , the output for the number of differences found was not being done
Solution:
print it
add 3 more tests that test the output of differences for 1) groups 2) datatypes 3) links
Platforms tested:
linux
Misc. update:
Code cleanup
Description:
Check in some of the code cleanups from working on the external link
support. (This doesn't include any of the external link features)
Platforms tested:
FreeBSD 4.11 (sleipnir)
Mac OSX.4 (amazon)
Linux 2.4
bug fix
a call to sprintf was giving incorrect output in the system Fedora Core 4 with gcc 4.0
(not supported by us, but user reported)
Solution:
the call was using the same buffer for source and destination variables, used different ones
Platforms tested:
linux (mir)
solaris (sol)
Misc. update:
Bug fix
Description:
Fortran type generation was broken in two ways. Fixed both.
Solution:
Firstly, there were a couple of path problems. Fixed a typo and
specified the full path of a file.
Secondly, the dependencies weren't right when building with HDF5-specific
commands (make lib, make check-s, etc.). Tweaked dependencies
to fix the problem.
Platforms tested:
mir, modi4, sleipnir
Configure feature
Description:
Added 'make trace' target.
Solution:
Added tracing to 1.7. This was done automatically in 1.6, but left out
of 1.7 until now (oops!).
Tracing in 1.7 only happens manually, when the user types 'make trace.'
Tracing automatically requires more framework than it's worth.
I also fixed a couple of tracing bugs and ran trace.
Platforms tested:
mir, sleipnir, modi4
Misc. update:
Bug fix
Description:
Before this checkin, 'gmake check-s' would fail if there was a file in
the current directory named 'check-s'.
This is fixed under gmake (not sure how to fix for other makes).
Solution:
check, progs, install, etc. are what gmake calls "phony" targets,
which means that no file should be created. These targets can be
specified by a line of the form
.PHONY: check progs install ...
Automake adds this line for targets it knows about, but HDF5 has a
lot of custom rules. This checkin adds a .PHONY line for those rules.
I believe that only gmake recognizes the .PHONY line (at least, pmake
doesn't seem to), but a partial solution is better than none.
This error should occur very rarely anyway (the user has to manually
create files with names like 'build-check-s' or '_test').
Platforms tested:
mir, sleipnir, modi4
Cleanup.
Description:
Removed reference to H5_HAVE_VSNPRINTF and the corresponding abort
since we do not use the home-grown potentially memory wacking version
any more.
Platforms tested:
heping.
Misc. update:
Bug fix
Description:
Correct use of H5Gget_objinfo() which recent compact group checkins
exposed: we were attempting to follow dangling soft links.
Solution:
Don't follow links for H5Gget_objinfo() when initializing object tables
for h5dump.
Platforms tested:
Solaris 2.8 w/64-bit enabled
Linux 2.4
FreeBSD 4.11 (sleipnir)
New feature
Description:
Check in baseline for compact group revisions, which radically revises the
source code for managing groups and object headers.
WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!!
WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!!
This initiates the "unstable" phase of the 1.7.x branch, leading up
to the 1.8.0 release. Please test this code, but do _NOT_ keep files created
with it - the format will change again before the release and you will not
be able to read your old files!!!
WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!!
WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!!
Solution:
There's too many changes to really describe them all, but some of them
include:
- Stop abusing the H5G_entry_t structure and split it into two separate
structures for non-symbol table node use within the library: H5O_loc_t
for object locations in a file and H5G_name_t to store the path to
an opened object. H5G_entry_t is now only used for storing symbol
table entries on disk.
- Retire H5G_namei() in favor of a more general mechanism for traversing
group paths and issuing callbacks on objects located. This gets us out
of the business of hacking H5G_namei() for new features, generally.
- Revised H5O* routines to take a H5O_loc_t instead of H5G_entry_t
- Lots more...
Platforms tested:
h5committested and maybe another dozen configurations.... :-)
Bug fix/feature
Description:
Added support for -shlib in h5fc and h5c++.
Made check-install use -shlib when only shared libraries have been installed.
Solution:
h5fc and h5c++ didn't recognize -shlib. Stole code from h5cc to link against
shared libraries.
When static libraries are disabled, the examples Makefiles will automatically
use the -shlib option to link against shared libraries. Thus,
--disable-static and make check-install should work together.
Platforms tested:
heping(disable-static, enable-static, fortran, c++), modi4 (disable-static, fortran, c++, parallel, enable-static)
Bug fix
Description:
Failed parallel tests now cause make to exit with an error.
Solution:
Edited config/conclude.am to throw an error if parallel test programs fail.
Platforms tested:
heping, modi4
bug fix
Description:
an assertion after the search for objects was saying that the number of
objects in file should be > 0
removed it, since there can be a case where the number of objects is 0.
in this case this was found by a case where zlib was not present and the output file
was not written any objects to
note: this was only detected on the windows batch files, that do not have a conditional
condition to not run tests when a filter is not present
Solution:
Platforms tested:
linux
Misc. update:
Bug fix
Description:
Changed configure.in to use an environment variable TR to set the path
to the tr utility.
Solution:
There are two kind of tr on Solaris with slightly different syntax.
HDF5's configure relies on the "standard" tr. Traditionally, HDF5ers
have needed to make sure that the "right" tr was found before the
wrong one in their path; now they can use an environment variable.
Platforms tested:
mir, shanti, sol
Misc. update:
Forgot to update release notes. Off to do that now.
Makefile bug fix
Description:
Previously, automake didn't output rules to build perform/mpi-perf or
the test/gen_* programs.
Now these can be built by typing 'make mpi-perf' (or 'make foo') or by
configuring with --enable-build-all.
Solution:
Automake doesn't like having rules for programs it doesn't build. Tricked
it by having these programs built "sometimes"--whenever the user enables
--build-all. This should be used mostly for testing and to ensure that
these helper programs compile.
***IMPORTANT***
These programs do *not* currently compile. When --enable-build-all is used
(not the default), gen_new_fill fails because it uses an old API. This is
an existing "bug" that has simply been exposed by this checkin.
Platforms tested:
sleipnir, modi4, sol
Misc. update:
bug fix.
Description:
When a parallel test script test fails, make would continue because the
way it was setup inside a for loop. Fixed it by issuing an exit 1 inside
the loop.
There was also a typo error in the newer command comparision that it
must be $${chkname} in order to be valid. Also, the test script itself
was not checked in the newer lists. All fixed.
Platforms tested:
h5committested and also hand tested in heping pp mode.
New feature.
Description:
Added the time command to the make check target to report time usage
of the execute of each test and test scripts. This gives us some idea
how long each test takes and some vague idea it is compute bound or
not.
powerpc-ibm-aix5.x:
Change $RUNPARALLEL default setting to allow it being invoked by the
time command.
Platforms tested:
h5committested.
Feature
Description:
Added H5_CFLAGS, etc. to 1.7 branch.
Now compilation flags can be put in H5_*FLAGS and they'll be used when
building hdf5 but not in h5cc.
Platforms tested:
mir, sleipnir, modi4
Misc. update:
Bug fix
Description:
Disabled C++ shared libraries for Sun Workshop compiler.
Solution:
This bug only seems to happen when using the -xarch=v9 flag to compile in
64-bit mode, but disabling shared libraries entirely for this compiler is
an easier fix (I don't know how to detect 64 bit mode from the command line).
The framework for disabling shared libraries for other C++ compilers is
in place.
Platforms tested:
sol, mir, sleipnir, modi4
Bug fix/feature
Description:
Disabled shared libraries for a number of Fortran compilers that don't
support them.
This allows other compilers to support shared Fortran libraries.
Solution:
Added a conditional, SHARED_FORTRAN_CONDITIONAL, which is true if
Fortran supports shared libraries. It is set in configure.in.
Platforms tested:
mir, sleipnir, colonelk, heping
Bug fix
Description:
Building with --disable-static seems to have been broken on several platforms.
Fixed this.
Configure will now disable shared libraries automatically when using pgf90
or when building on Cygwin.
Solution:
To avoid errors when using shared libraries with pgf90 (which I had not
realized were compiler-specific), I had manually set convenience libraries
to use the -static linking flag. Apparently, this is not necessary, and
caused these libraries to be created as empty archives when --disable-static
was used.
Also, some libraries were including other libraries, which was not
necessary.
I also fixed code in configure.in to correctly detect whether shared
or static libraries are enabled, and moved code that disables shared libraries
to before libtool is created (rather than editing libtool after the fact).
Despite repeated warnings that only one shared library can be linked at a
time, I have yet to have shared libraries break the linking of tests on
any system. We'll see if the Daily Tests turn up anything.
Platforms tested:
mir (fortran, C++), sleipnir (C++), modi4 (fortran, C++, parallel),
sol (fortran, C++), cygwin
Description: Brought back changes from SX-6.
Solution: Program will not compile. Fixed.
Platforms tested: SX-6, heping and mir with new g95
Misc. update:
tidy up.
Description:
MPE option created *.clog file whenever it is executed in MPI.
The cleanup of *.clog files were done in individual Makefile.in.
Often, it is forgotten.
Solution:
Moved the cleaning of *.clog files to CHECK_CLEANFILES in commence.am
so that it is applied whenever check-clean is called.
Platforms tested:
heping pp using MPE.
Bug fixes
Description:
This checkin fixes an occasional error on kelgia on sol during distclean.
It also causes test scripts to depend properly on the programs they're
supposed to be testing.
Solution:
The kelgia bug was due to some files being cleaned by automake and manually.
Removed the manual cleaning in src/Makefile.am.
Test script dependencies now need to be specified manually, since the
makefile can't guess what they test from their name. Currently all test
scripts in a given directory have a single list of dependencies--this was
easy and seems to be sufficient.
These dependencies are listed in the SCRIPT_DEPEND variable in the Makefile.am.
Platforms tested:
heping, mir, modi4, sol
Misc. update:
Code cleanup (sorta)
Description:
Adjust H5G_stat_t to prepare for eventual "external link" information.
This also puts the information for regular objects and soft links into more
obviously separate places.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4
minor tidy up.
Description:
Changed both test programs and test scripts to use the same suffixes
(.chkexe and .chklog). Changed from .log to .chklog to avoid running
into potential conflicts by other "things" (e.g., config.log).
Tested:
Heping.
Code cleanup & speedup
Description:
Refactor h5dump & related code to be considerably cleaner & faster for
files with large #'s of objects.
Platforms tested:
FreeBS 4.11 (sleipnir)
Linux 2.4
bug fix
Description:
The set of h5diffdebugN macros that printed nothing did not have
the proper number of parameters. Some compilers (gcc) did not
like it.
Solution:
Fixed them to have the matching number of parameters.
Platforms tested:
heping pp (using both mpich-icc and mpich-gcc), modi4 pp.
Bug fix
Description:
ph5diff had been hanging in Tflops. Found out that vsnprintf ph5diff
uses was a local coded that did not limit printing according to the size
argument. That resulted in buffer overflow and other problems.
Solution:
Added some sort of size checking in the home-grown vsnprintf and
had ph5diff checked for error return of vsnprintf. Leon also
revamped the ph5diff manager's way of handling communications with
the workers. That eliminated all but the last case of hanging.
Platforms tested:
Tflops.
Misc. update:
Code cleanup
Description:
Trim trailing whitespace, which is making 'diff'ing the two branches
difficult.
Solution:
Ran this script in each directory:
foreach f (*.[ch] *.cpp)
sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f
end
Platforms tested:
FreeBSD 4.11 (sleipnir)
Too minor to require h5committest
Bug fix & code cleanup
Description:
Fix another bug in the file mounting code and refactor the unmount
code that it is simpler.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4
Too minor to require h5committest
Bug fix and improvement.
Description:
The test output were not displayed for parallel tests.
The serial tests output were always displayed whether the test was
actually ran this time or not.
Solution:
Moved the display of test output inside the target where the actual
tests are run.
Platforms tested:
Tested in heping using pp and fortran.
Bug fix and code minor cleanup.
Description:
The attempt to redirect stderr together to the log files were
done in the wrong order such that stderr output goes to where
stdout WAS. Fixed that.
Code minor cleanup--use shell variables to hold the name of the
log file and the test instead of generating them repeatedly. This
makes easier code reading, less crowded and avoid typos.
Only conclude.in is changed. The Makefile.in changes are all
derived from automake.
Platforms tested:
h5committested.
Makefile feature
Description:
'make check-clean' now cleans *.h5 files created by tests as well as
.log and .chkexe files.
Solution:
check-clean is now a separate target in its own right, which cleans less
than mostlyclean (check-clean < mostlyclean < clean < distclean).
Platforms tested:
mir, heping, modi4 (serial and parallel)
Feature: check-clean target
Description:
'make check-clean' cleans up output files from tests.
Solution:
Tests create foo.chkexe and foo.log files. Scripts create foo.chksh and
foo.logsh files. 'make check-clean' will clean these files up so that
the tests can be re-run.
Also suppressed some not-very-useful output of Makefiles when it would
echo commands.
Platforms tested:
mir, sleipnir, modi4
Misc. update:
Configuration feature
Description:
Serial test output is now stored in log files and printed when all tests
in a directory complete, or when a test fails. This should make test output
more readable and useful.
Also made changes to clean up ii_files directories that are created by some
C++ compilers/linkers.
Also fixed a few minor Makefile bugs.
Solution:
When serial tests run, their output is saved in *.log or *.logsh. While
running, tests only print when they begin and when they complete; their
more specific output (from the log file) is printed if the test fails or
when all tests have completed.
Comments welcome.
Platforms tested:
mir, modi4 (parallel and serial), copper, shanti
Bug fix
Description:
The ".chksh" file for a test script was being created in the "source"
location rather than the build location. This can cause problems when
multiple builds are running because "slower" machines will see the ".cshsh"
file from faster machines and will not run the test script as they should.
Solution:
Use 'basename' command to strip off the path of the script and create
the ".chksh" file in the build location.
Platforms tested:
FreeBSD 4.11 (sleipnir)
h5committest
bug fix.
Description:
-nt is not a universal option for the test command in all platforms.
The use of it in conclude.am cause some platforms to bark at the
Makefile generated.
Solution:
Created a command script bin/newer which tests if file1 is newer
than file2. Replace the "test file1 -nt file2" by
"newer file1 file2".
Platforms tested:
Tested in sol.
Bug fix
Description:
Fixed bugs that caused tests to be unable to find testhdf5.sh during
daily tests, and another that broke sol and shanti.
Solution:
When tests are run, their path is ./$testname .
When scripts are run, their path has no leading "./". Fixed.
Sol and shanti don't recognize the -e option for test, but they do know
-f. Fixed.
Also modified release notes.
Platforms tested:
mir, shanti, heping
Feature: tests now use parallel make and only run once
Description:
When make is invoked in parallel (using the -j option), several tests will
now be run simultaneously. This should speed up testing on a number of
systems.
When a test passes, it creates a foo.chkexe or foo.chksh file, which prevents
the test from running again unless the test or library changes.
Solution:
Most of the changes live in config/conclude.am. Added *.chkexe and *.chksh
files to the list of files to be cleaned at "make mostlyclean" time.
Parallel tests still run one at a time, but use the same make instructions
as serial tests.
Platforms tested:
mir, eirene, sleipnir, pommier, copper, modi4 (some errors occurred, probably
due to the test being run before updating hdf5. Will re-run tests after
checkin.)
bug fix
Description:
when diffing a string type string , a cycle is made using the hdf5 get_size function, which returns
the type size
some strings might have a NULL terminator character before the type size position
this was noticed on a HDF-EOS file on the HDFEOSVersion attribute which was defined as a type with a 32 size,
but contained a string with 12 characters, making h5diff to compare the extra garbage characters
Solution:
detect the NULL terminator character and end the diff at that position
Platforms tested:
linux
Misc. update:
Bug fix for parallel case for new "Some objects were not comparable" patch to h5diff.
Description:
The parallel h5diff wouldn't print out "Some objects were not comparable" because the worker
tasks were not communicating the not_cmp flag of the diff_opt_t struct back to the manager, who ultimately
prints everything.
Also, some miscellaneous fixes for error printing. Some errors were printed out with printf instead of fprintf(stderr,...).
In parallel environments, this can result in output getting lost.
Solution:
Had the worker tasks pass along the not_cmp flag to the manager when they sent along
the number of differences they found.
Platforms tested:
heping (pp), sol (pp)
Misc. update:
bug fix
Description:
when 2 objects were not comparable, the final print information for the non verbose mode printed "0 differences found"
Solution:
replaced instead with a Summary message that says
"Some objects were not comparable"
Platforms tested:
linux
solaris
Misc. update:
Description:
while compiling in mir with pgcc -O2 a condition
if (name ) {
do_something(name);
}
is executed when name is NULL
Solution:
avoid the error by checking the NULL pointer inside do_something(name);
Platforms tested:
linux (mir with pgcc 6.0)
Misc. update:
bug fix
Description:
check-s and check-p were set as pre-requistics of test. They
would get executed in parallel if parallel make is used. This
could cause problems since serial tests are used to be executed
before parallel tests. It is not known if it is always okay to
run serial and parallel tests in simultantously.
Solution:
Change check-s and check-p as actions of the target test so
that they get executed sequnentially.
Platforms tested:
heping PP.
Added check-s and check-p targets.
Description:
Added check-s and check-p targets to 1.7 branch to match changes to 1.6
branch. Now parallel and serial tests can be run separately.
Platforms tested:
mir, modi4, copper
bug fix 366
Description:
the printing of the array indices was done relatively to the stripmine data (data read
by hyperslabs when its memory requiremnts are too large)
this was causing an incorrect numbering of the array indices (the next read would initialize
the indices to zero)
Solution:
added a field to the print context that keeps track of the stripmine position
and pass to the rendering function the total element position
Platforms tested:
Linux
Misc. update:
Bug fix/code cleanup
Description:
Add tests to determine that very long (64K+) object names are working.
Fixed a couple of bugs in h5dump where they weren't...
Platforms tested:
FreeBSD 4.11 (sleipnir)
Solaris 2.9 (shanti)
Code cleanup
Description:
Clean up various warnings reported by the Windows team.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Too minor to require h5committest
Description: Removed support for SRB driver
Solution: Removed or modified appropriate files; ran reconfigure
to regenerate Makefile.in and configure files.
Platforms tested: heping and shanti
Misc. update: ran bin/chkmanifest on heping
Configuration feature
Description:
Different Fortran compilers mangle function names in different ways
(upper case, lower case, adding underscores). To link between
Fortran and C functions, we need to know what a given function's
name is under a given compiler.
Solution:
Use autoconf's FC_WRAPPERS check to determine the Fortran
naming scheme and define the FC_FUNC_ macro to name our
functions (in H5f90proto.h). Removed references to
our old FNAME macro, as well as flags that indicated whether
function names were upper or lower case.
Platforms tested:
mir, pommier, modi4, copper, more
Bug fix
Description:
On some machines, $RUNSERIAL variable needs to be used to run
tests. Set $RUNTESTS (which is used for non-parallel tests) to
be $RUNSERIAL in configure.am.
Also, since I was updating all Makefiles.in anyway, I updated
commence.am to point to autotools installs in AFS instead of
those on heping.
Platforms tested:
mir, sleipnir, modi4, copper
Purpose:
"Bug fix"
Description:
Hardcoded Makefiles to use /bin/sh instead of letting configure
detect shell automatically. This is what v1.6 does, and avoids
problems on janus.
Platforms tested:
sleipnir, copper, modi4, mir
Feature - conditional compilation
Description:
SRB file driver and tests are now compiled only when SRB is enabled
(using --with-srb during configure).
Solution:
Added an automake conditional in configure.in, altered Makefiles.am in
src and test directories to depend on that conditional.
This should make a nice example for posterity to add conditionally
compiled sources.
Platforms tested:
heping (only configure change)
Purpose:
Added C++ wrapper for Packet Table API.
Description:
Added macro for high-level C++ library (LIBH5CPP_HL), which changes every
Makefile.in.
Added directories for high-level C++ library (though currently only Packet
Table API is supported).
Added both C++ source and tests.
Platforms tested:
sleipnir, mir, modi4
Misc. update:
Bug fix
Description:
Typo in #ifdef to check for snprintf functionality.
Solution:
That should have been H5_VSNPRINTF_WORKS.
Platforms tested:
heping, modi4
Misc. update:
Purpose:
Bug fix.
Description:
ph5diff fails on modi4 due to the way snprintf works on IRIX.
Solution:
The C99 standard says that, if there isn't enough room in the string,
snprintf should return the number of characters that
would have been written to the output string if there were enough room.
The snprintf on modi4 would return the number of characters that is was able to write
succesfully to the string if space ran out. The ph5diff logic that checks if
the output buffer was full did not handle this sort of return value correctly.
Used VSNPRINTF_WORKS from configure test to check how snprintf works and do
the logic accordingly.
Platforms tested:
modi4
Misc. update:
Bug Fixes
Description:
Fixes for several bugs, including dumping of excess output to a temporary file, fix for printing
hsize_t datatype, and the long awaited fix for intermixed output.
Solution:
Fix 1: Overflow file
Previously, any output that a worker task made was buffered locally in memory, up to a point. Any
output beyond the size of the buffer (used to be 10k) was discarded. Now, the memory buffer size has been
changed to 1k and any output beyond this amount is sent a temporary file. This way, no output is lost
and memory usage is kept under control. The temporary file is deleted as soon as a worker task finishes
sending its contents to the manager.
Fix 2: hsize_t printing
Printing of the hsize_t datatype used to be handled by %Hu passed to HDfprintf. However, there is no corresponding HDvsnprintf that
is able to print hsize_t types. These are now printed with the aid of H5_PRINTF_LL_WIDTH.
Fix 3: Intermixed output fix
Intermixed output would occur on some machines (although I haven't seen it happen for a while) due to the unpredictability of the underlying network
and the speed at which various message would travel. This has been fixed by having all output send to the manager
for printing. The worker tasks no longer print the output themselves upon receipt of a token, but instead
send that data to the manager.
Platforms tested:
heping, eirene, tg-login (the only place that seems to still experience intermixed output every now and then)
Misc. update:
Automake version upgrade
Description:
Upgraded automake version from 1.6.2 to 1.9.5.
Changed bin/reconfigure script to use automake 1.9.5.
Changed configure.in and Makefiles to use new FCFLAGS and FC variables
instead of FFLAGS and F9X.
Automake and configure should now do the lion's share of the work
supporting Fortran 9X; macros in acsite.m4 are now mostly unused (will
be cleaned later).
Altered how configure handles pmake; now root-level Makefile.in is
processed by bin/reconfigure to have a .MAKEFLAGS target, since
automake no longer allows us to define unused variables.
Configure now always checks for C++ compiler even if it is not
used, since automake thinks this is the Right Thing To Do and
will break otherwise.
Platforms tested:
Sol, copper, heping, mir, sleipnir, eirene, pommier, kelgia, modi4.
Bug fix.
Description:
MPI_LONG_LONG, which is not standard yet, was used to pass the
nubmer of differences found. This was needed because number of
differences is defined as type hsize_t which can be arbitary large
such that there is no MPI type that matches it. The value is passed
between processes as an array of bytes in order to be portable. But this
may not work in non-homogeneous MPI environments.
This fix was actually Leon's idea.
Platforms tested:
Tested in QSC in which this failed.
Removed GASS configuration and software packages associated with
it. The following software are no longer configurable.
checking for main in -lcrypto... yes
checking for SSL_get_version in -lssl... yes
checking globus_common.h usability... yes
checking globus_common.h presence... yes
checking for globus_common.h... yes
checking for globus_module_activate in -lglobus_common... yes
checking for main in -lglobus_gass_cache... yes
checking for main in -lglobus_gaa... yes
checking for main in -lglobus_gss... yes
checking for main in -lglobus_gss_assist... yes
checking for main in -lglobus_io... yes
checking for main in -lglobus_gass_transfer_assist... yes
checking for main in -lglobus_gass_transfer... yes
checking for globus_gass_open in -lglobus_gass_file... yes
Platforms tested:
h5committested (but copper was down.) tested in modi4 too.
Purpose:
Bug fix
Description:
modi4 dies during build with strange errors.
The root cause of these is a two-year-old hack in HDF5's libtool
script that only takes effect on IRIX.
Solution:
Edited the libtool hack (by editing ltmain.sh) to correct a bug in
the hack.
Also made sure that compiler-specific DEFAULT_LIBS are used
when linking.
Platforms tested:
sleipnir, copper, modi4, sol
Bug fix
Description:
Arabica exhibited strange errors when linker found wrong versions of
header files. This happened because include directories were
given to linker in the wrong order.
Solution:
Move include directories from AM_CFLAGS variable to INCLUDES
variable to put them before CPPFLAGS variable. Trust me, it works.
This bug may also have contributed to strange errors on other platforms
(kelgia?).
Platforms tested:
copper, sleipnir, arabica.
(h5dump broke while building on arabica, but this happened in
a clean checkout, too).
Bug fix
Description:
pmake (on modi4, for instance) complains about undefined variables
if it is run without the -V flag, which turns those errors to warnings.
Solution:
Added test to configure.in to see if $MAKE will allow Makefiles
with undefined variables. If not, sets -V flag in AM_MAKEFLAGS.
Ensured that all custom make targets use AM_MAKEFLAGS.
Also defined all variables that caused errors in top-level Makefile.am.
This means that pmake can be used to build hdf5 *from the top level
only*. To run make from a subdirectory, still need to use -V flag
(or use make or gmake).
Platforms tested:
modi4, heping, copper, sleipnir
Correction to previous print_manager_output bugfix
Description:
Although the previous bugfix did fix all the errors, it was not the correct way
to fix the problem. Since the manager will only buffer output when run in
parallel mode, in serial mode this function should not even be called.
Solution:
Wrapped print_manager_output in #define's to prevent it from being included in
serial builds.
Platforms tested:
heping (serial + parallel)
Misc. update:
bug fix
Description:
g++ was not happy with missing protocols of external functions.
Added print_manager_output(void) and phdiff_dismiss_workers(void)
to the public declarations.
Platforms tested:
Tested in sleipnir (g++) and heping (serial, pp)
Misc. update:
Purpose:
bug fix, new test file
Description:
h5dump was not properly displaying array indices > 3D
Solution:
added the same algorythm and data structure that h5diff uses to calculate the array index
from a element number position
Platforms tested:
linux
solaris
Misc. update:
Bug fix.
Description:
print_manager_output was missing because it was compiled in
only parallel mode.
Solution:
Made it available all the times.
Platforms tested:
h5committested. (testph5diff.sh failed in copper but that
is a different error.)
Also tested in heping, serial and pp.
Misc. update:
Fixed numerous ph5diff bugs.
Description:
Fixed manager output printing
Fixed out of order output printing
Fixed test script execution problem
Temporary fix for large amounts of output overflowing buffer.
Solution:
The manager task buffers its output. However, since the manager task
never gets a print token, this output was lost. Solution: new function called
print_manager_output that prints buffered output is called in places where the
manager buffers its output.
printf was apparently buffering output. This means that a task would sometimes
print even after it had given up its print token. Added fflush() call after
printf() calls, which seems to have fixed the problem.
calling rsh multiple times in succession seems to overwhelm something in Linux,
as it begins to refuse new connections until the old ones reset. Since each
call to mpirun in the test script starts up 4 rsh sessions, the test script
eventually is unable to run any further tests. Solution: Added a short delay in the
testscript between successive calls to mpirun to allow old connections to reset.
The 10k output buffer was of insufficient size to hold the large amounts of
output generated by some of the tests. Since code to buffer to a file has not
been implemented yet, a temporary fix was to increase the size of the output
buffer to 50k.
Platforms tested:
heping
Misc. update:
Feature
Description:
Added a new function, phdiff_dismiss_workers, which tells the phdiff
worker processes to end.
Platforms tested:
Tested in heping, serial and parallel.
Misc. update:
Purpose:
Bug fix
Description:
Parallel builds were breaking in tools/lib
Solution:
talign didn't realize it depended on libh5tools.la because its
dependencies listed the full path (../../tools/lib/libh5tools.la).
Changed this, and made similar changes in a couple of other
directories.
This checkin should also add the --foreign flag to every Makefile.in
Platforms tested:
sleipnir (minor change)
New feature
Description:
Add basic code for new B-tree implementation. They don't do much yet,
aren't hooked up to anything yet and the format may change, but I'd like to
start getting them into the daily tests.
Platforms tested:
FreeBSD 4.11 (sleipnir) w/parallel
Too minor to require h5committest
Bug Fix
Description:
Permanent fix for the incompatibilities between h5diff and h5repack.
Solution:
h5diff now contains the code to run both parallel and serial diffs.
Depending on how the binary is called, it will run either the serial or
the parallel versions respectively.
Platforms tested:
heping(serial + parallel), copper.
Misc. update:
Bug fix
Description:
Found the permanant fix to automake/CVS dependency problem
Solution:
Added AM_MAINTAINER_MODE macro to configure.in.
Now automake will never try to regenerate Makefiles, Makefiles.in,
configure, H5config.h, etc. when they are out of date, nor will it
print any warnings.
Developers should be very very careful to use reconfigure script,
and can add --enable-maintainer-mode flag to configure on heping
to regenerate these files correctly.
Platforms tested:
heping sleipnir copper
Bug fix
Description:
Configuration files' timestamps were incorrect.
Solution:
Update Makefiles.in. Also added correct paths to autotools on heping,
so heping build should be able to re-generate configuration files even
if they are still broken.
Platforms tested:
sleipnir
Bug fix
Description:
Dependencies between configure files (aclocal, configure.in, configure,
Makefiles.am and .in) are still causing Makefiles to try to run autotools
during build.
Solution:
Committed all Makefiles.in to update their timestamps.
As a temporary measure, forcibly prevented automake from running
autotools during build by redefining the variables it uses.
Platforms tested:
sleipnir (No changes to Makefile content)
Bug fix
Description:
Different compilers use different flags to include Fortran module files
Solution:
Changed boilerplate to use configure variable rather than hardcoded -M flag.
Platforms tested:
sleipnir, sol, copper
fix bugs.
Description:
The three variables, g_nTasks, outBuff, and outBuffOffset, were
declared in ph5diff.h. That means they are declared in various
*.c files that include it, thus having the appearance of multiple
defined. Most C compilers are forgiving of this error but
the g++ rejects this practice.
Solution:
Make it only an extern declaration in ph5diff.h but really
defined them in h5diff_util.c
Platforms tested:
sleipnir using g++ since this only failed in Daily test.
Also testes in heping, serial and parallel modes.
Configuration feature
Description:
HDF5 now uses automake to generate Makefiles
Solution:
Makefile.in files are now generated from Makefile.am files.
To reconfigure (after chaning a Makefile.am or configure.in):
/bin/sh bin/reconfigure.sh
Platforms tested:
Many
Temporary daily tests fix.
Description:
The newly added ph5diff is not quite compatible with the h5repack tool.
Disabled the ph5diff build (reverted back to building serial h5diff)
to allow daily tests to work while ph5diff is fixed.
Platforms tested:
Tested in heping both serial and parallel modes.
Misc. update:
Description:
the print_paralell h5diff function had a call to vsnprintf.
this causes a linking error on Windows
Solution:
replaced with HDvsnprintf
Platforms tested:
windows (vs6)
linux
Misc. update:
Bug fix: Temporary fix for h5repack failures in all parallel builds.
Description:
The parallel additions to h5diff interfered with h5repack.
Solution:
Added a second set of "parallel" functions to h5diff.c. h5repack uses the serial versions, whereas h5diff will use the parallel versions.
Also, h5diff will now be smart about when to enter parallel mode. If is run with mpirun with more than 1 task, it will enter parallel mode. Otherwise, it will stay in serial mode as before.
Platforms tested:
heping (serial and parallel)
Misc. update:
New feature.
Description:
Added new tool ph5diff. (Code done by Leon Arber.)
Code is changed but test is not working yet. For now,
it skipped all tests.
Platforms tested:
Tested in heping, serial and parallel modes.
Remove feature
Description:
Retire threaded, balanced binary tree code from HDF5 use. Requiescat in
pace...
Also, regenerate dependencies files.
Platforms tested:
FreeBSD 4.10 (sleipnir) w/parallel
Too minor to require full h5committesting (the code is already
disconnected from everything except its tests)
Bug Fix/Code Cleanup/Doc Cleanup/Optimization/Branch Sync :-)
Description:
Generally speaking, this is the "signed->unsigned" change to selections.
However, in the process of merging code back, things got stickier and stickier
until I ended up doing a big "sync the two branches up" operation. So... I
brought back all the "infrastructure" fixes from the development branch to the
release branch (which I think were actually making some improvement in
performance) as well as fixed several bugs which had been fixed in one branch,
but not the other.
I've also tagged the repository before making this checkin with the label
"before_signed_unsigned_changes".
Platforms tested:
FreeBSD 4.10 (sleipnir) w/parallel & fphdf5
FreeBSD 4.10 (sleipnir) w/threadsafe
FreeBSD 4.10 (sleipnir) w/backward compatibility
Solaris 2.7 (arabica) w/"purify options"
Solaris 2.8 (sol) w/FORTRAN & C++
AIX 5.x (copper) w/parallel & FORTRAN
IRIX64 6.5 (modi4) w/FORTRAN
Linux 2.4 (heping) w/FORTRAN & C++
Misc. update:
enhanced performance for h5diff
Description:
the comparison cycle for the 2 buffers read from file was using a compare function
where the type must be checked for each datum (e.g due to recursive calls in compound types)
for atomic types this checking can be avoided
Solution:
introduced cycles for each one of the atomic integer and float class types
Platforms tested:
linux
aix
solaris
Misc. update:
Description: H5Pset_fapl_family sets family member size only for creating
new file. The file doesn't keep this size information. When the file is
re-opened, the size of first member file is used as the member size.
Solution: Assume user knows the original member size and sets it through
H5Pset_fapl_family. That will be the member size. User can pass in value 0
as member size if he doesn't know the original member size. Library will
choose the size of current first member size as the member file size.
Platforms tested: h5committest and fuss.
Fix SZIP filter to dynmically detect encoder.
Description:
Solution:
See:
http://hdf.ncsa.uiuc.edu/RFC/SZIP/Szip_dynamic_12_Oct.pdf
Changes to h5repack tests, contingent on detecting SZIP encoder.
Note new program:
testh5repack_detect_szip
Checks fo rencoder, prints out "yes" or "no". Used by hrepack.sh
to detect encoder. Can also be used for windows tests. This is
only used as part of the tests.
Had to modify Makefile to build and clean this program.
Make talign work on windows.
Description:
msvc++ uses _unlink instead of unlink.
Solution:
change the code to use HDunlink and include H5private.h(Not good?).
Platforms tested:
windows, Linux 2.4
Misc. update:
Bug fix
Description:
Correct a couple of array bounds issues exposed by the PGI compiler
Platforms tested:
Linux 2.4 (verbena) w/PGI compilers
Too minor too requie h5committest
Refactor code
Description:
Refactor common code for determining the native type for using in the
tools into separate routine.
Also, reduce diffs between the two branches and bring back some fixes from
the development branch to the release branch.
Platforms tested:
FreeBSD 4.10 (sleipnir)
too minor to require h5committest
Purpose: change feature
Description: Back up support bitfield and time datatypes in H5Tget_native_type.Leave it to future support. Let it return "not supported" error message for
now.
Platforms tested: h5committest and fuss.
Misc. update: RELEASE.txt
bug fixes
Description:
the return error code for a function was not initialized.
in HP-UX it happened that this variable was initialized to -1
causing the function to return with an error condtion
solution : initialized the variable to 0
the name of the dataset was printed after the differences in verbose mode
and report when differences were found
solution : check first if differences were found and then
print the name of dataset and differences
in verbose mode always print the name first
Solution:
Platforms tested:
linux
aix
solaris
Misc. update:
h5diff and h5repack changes
Description:
h5diff
introduced the following four modes of output:
Normal mode: print the number of differences found and where they occured
Report mode: print the above plus the differences
Verbose mode: print the above plus a list of objects and warnings
Quiet mode: do not print output (h5diff always returns an exit code of 1 when differences are found)
h5repack
added an extra parameter for SZIP filter (coding method)
the new syntax is
-f SZIP=<pixels per block,coding>
(pixels per block is a even number in 2-32 and coding method is 'EC' or 'NN')
Example of use:
./h5repack -i file1 -o file2 -f SZIP=8,NN -v
updated usage messages, test scripts and files accordingly
Solution:
Platforms tested:
linux
AIX
solaris
Misc. update:
h5repack changes
Description:
there were some requests to change some minor h5repack features
h5repack only made a warning about a non available filter in verbose mode ( -v )
without -v it kept silent, and users sometimes missed this warning
the request was that it should print this warning always. so, the new format, is e.g
./h5repack -i test_szip.h5 -o out.h5
Warning: dataset </dset_szip> cannot be read, SZIP filter is not available
due to this, and to avoid a lot of these messages in the shell test script, I modified
the script h5repack.sh so that it detects the presence of all filters in the environment
(previously it only detected SZIP)
the test files were also divided in more files , to make the script code easier to
follow
Solution:
Platforms tested:
linux
AIX (no szip)
solaris (no szip, no gzip )
Misc. update:
bug fix
Description:
when printing array indices , the calculation of the current column was not done correctly
Solution:
Platforms tested:
linux
AIX
solaris
Misc. update:
change features
Description:
for the file contents dump and for hardlinks, one arrow "->" is printed, followed
by the first found name for that object
options for not printing specific types of objects were postponed
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
Purpose:
HDF5 now supports SZIP with no encoder.
Description:
SZIP can be configured to have both encoder and decoder or just to have the decoder. HDF5 can now query the configuration of any filter, and will throw errors if users try to write using a filter with encoding disabled.
Solution:
Added H5Zget_filter_info function, changed API for H5Pget_filter and H5P_get_filter_by_id. See SZIP RFC.
Platforms tested:
Copper (fortran, C++, parallel), Sleipnir (C++), Arabica (fortran, C++), Verbena (fortran, C++)
Misc. update:
bug fix
Description:
the indentation was not made properly for nested objects when printing array indices
Solution:
added the indentation to h5tools_simple_prefix function
Platforms tested:
linux
AIX
solaris
Misc. update:
Code cleanup & small bug fix
Description:
Regenerate dependency files
Add htri_t as separate type from hbool_t for code tracing purposes.
Platforms tested:
FreeBSD 4.10 (sleipnir) w/parallel
too minor to require h5committest
h5dump new feature, bug fix
Description:
added the dump of unmamed types to the file contents
fixed a bug in the type array, it was printing invalid characters with the array indices option on
Solution:
Platforms tested:
linux
AIX
solaris
Misc. update:
dumper new features
Description:
1) added options for not printing : datasets, groups, datatypes, links
2) added a section for the user block
3) in the traversal routine, added the printing of an arrow for soft links and t
he word HARDLINK for hardlinks
the print of the file contents is made during traversal , instead of at the e
nd of it (this is helpful
for very large files, where the wait time can be very long)
4) changed the description of the fill value properties
5) added a colon after the printing of the array indices
Solution:
Platforms tested:
linux
AIX
solaris
Misc. update:
h5dump output change, new tests
Description:
the storage layout output format the storage layout output format had some changes
same for the user defined filter
add an option (-y) for not printing the array indices (default is print indices )
the option for escaping non printable characters covers all characters (default is not escape)
(this might be not very portable, the test files are tstring.ddl and tstringe.ddl )
add tests for the new options
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
h5dump new feature
Description:
add processing of tab characters (in the context of the new option process CR/LF)
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
bug fix
Description:
a prototype for a new function used by h5tools_str.c was accidently left in that file
the c++ treats this as an error
Solution:
removed the prototype, and pointed to the correct one (in h5tools_ref.h )
Platforms tested:
Free BSD (c++)
linux
Misc. update:
Description:
added the code for print strings with new line and display the path of references (new source files h5tools_ref.c and .h )
added a test suite in testh5dump.sh.in for
( note : to create testh5dump.sh , one must redo ./configure; this detects the availability of filters
and generates testh5dump.sh accordingly)
1) storage layout
2) fill value
3) print reference with path
4) print strings with new lines
5) filters
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
h5dump new version
Description:
added the changes already made for 1.6
support for dumping of
1) filters
2) storage layout
3) fill value
4) comments
5) superblock
6) file contents
7) array indices
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
bug fix
Description:
Currently h5dump test on windows won't separate error form standard output; which shows at function error_message.
A #ifdef WIN32 macro at this file make stderr to be the same as stdout on windows.
Solution:
Separate standard error from standard output.
Platforms tested:
windows xp VS 6.0(by xuan bai), no needs to test on other platforms
Misc. update:
Bug fixes
Description:
Updated dependencies
Fixed error with C++ compiler builds of main library
Added H5Pset_data_transform to MPE info
Platforms tested:
FreeBSD 4.9 (sleipnir)
Code cleanup
Description:
Clean up lots of warnings based on those reported from the SGI compilers
as well as gcc.
Platforms tested:
SGI O3900, IRIX64 6.5 (Cheryl's SGI machine)
FreeBSD 4.9 (sleipnir) w/ & w/o parallel
h5committest
bug fix, new tests
Description:
added a couple of #ifdefs to check if a specific filter is available for read
added more tests
the h5tools check filters had a mismatched filter variable
Solution:
Platforms tested:
linux, with several filter configurations (all, some , none )
Misc. update:
1) new function for tools library
2) new test script for h5repack
Description:
1) currently all the tools (h5dump, h5diff, etc) do not check if a filter is available
for reading some dataset that might have a filter not available on the current configuration (the behaviour
of the tools until now was to trigger a library error, saying that the dataset cannot be read
due to the lack of the filter)
Solution:
1) added a new function h5tools_canreadf that checks if a dataset can be read
depending on the availability of filters.
this function was added in calls for h5diff and h5repack.
instead of triggering the library error, a message is printed, saying that the dataset
cannot be read (the print is optional, it is on on verbose mode)
2) added a shell script that tests the commannd line tool behaviour of h5repack
the script does a series of runs of h5repack with several options on the same file (this file test4.h5
was added to the testfiles dir).
then, it runs the h5diff tool, with the input and output files , in each run.
the goal of the test is also to check item 1) . the binary file was saved with filters
that might not be available on other configurations
Platforms tested:
linux (all filters enabled)
linux (some filters disabled)
solaris (some filters disabled)
AIX (some filters disabled)
windows (all filters on and off )
Misc. update:
Bug fix
Description:
Fix h5tools routines to not try to call MPI_Init() unless an MPI-based
VFD is actually used.
Platforms tested:
FreeBSD 4.9 (sleipnir) w/parallel
Linux 2.4 (verbena) w/parallel
New Feature. (Contributed by Robb)
Description:
Allow h5ls to specify a VFL with the '--vfl=' command line flag.
Add MPI-I/O & MPI-POSIX VFL drivers to list of drivers available for
h5ls and h5dump.
Platforms tested:
FreeBSD 4.9 (sleipnir) w/parallel
h5committested
new library function H5Pdelete_filter
deletes one or all filters from a dataset creation property list
this was done for the NONE option of h5repack, added tests for this feature
added a test for the new function in /test/dsets.c
Description:
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
added h5repack and h5diff support for copying and differences of references to dataset regions
modified the behaviour in the diff of attributes, when a difference in name is detected
in the attribute cycle (number of attributes of object), instead of exiting the
cycle, rather continue
Description:
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
h5repack new features
Description:
addded the copy routines for hard links
changed the traversal structure to store information about the hard links
added tests
Solution:
Platforms tested:
linux
solaris
IRIX
Misc. update:
h5repack new features
Description:
added debugging functions and a hard link generated dataset for the test suite
Solution:
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
code clean, bug fix
Description:
the attributes of the root group were not being compared
removed compiler warnings on IRIX and solaris
Solution:
added a special function to compare the attributes of the root group
Platforms tested:
linux
IRIX 6.5
solaris 2.7
Misc. update:
bug fix
Description:
sleipnir was complaining about a missing header declaration
Solution:
added the include
Platforms tested:
linux (small)
Misc. update:
h5diff new features
Description:
added comparison for attributes
adeded comparison for all dataset datatypes
added tests for the new features
changed the output format
Solution:
Platforms tested:
linux
solaris 5.7
IRIX 6.5 (64)
Misc. update:
Bug fix
Description:
Variable length strings and sequences with NULL pointers were not handled
by library, causing problems access the data. This also affected fill values
for variable-length datatypes.
Solution:
Address the issues in the library by detecting NULL sequences/strings
and avoid trying to convert them.
Patched up dumper to display NULL sequences/strings.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
h5diff new feature
Description:
added compare for attributes
a new options flag (-a) was added to the options structure. it is 0 by default (no compare )
the output of the compare is the same that for datasets, and all the other flags also apply for attributes
(the memory compare is done in the same function diff_array)
all the other requirements for compare of datasets (type, space) are identical too
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
h5diff improvment
Description:
changed a call to exit(1) for return -1 for user friendiness in the h5diff function
in the case that H5Fopen fails
Solution:
Platforms tested:
linux (small change )
Misc. update:
h5diff new features
Description:
added the diff for variable lenght, opaque, enum, and bitfield datasets
Solution:
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
h5diff new features
bug fix
Description:
implemented the diff for STRING and ARRAY types
fixed a bug. when the datasets are empty, do not try to compare them .
the check empty is made with H5Dgetstorage_size
Solution:
Platforms tested:
linux
solaris 5.7
IRIX
Misc. update:
h5diff new features
Description:
implemented diff for compound types. so far it only compares the integer and float classes
of these compound types. this is done with a new recursive function
that compares datum by datum
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
h5repack new features
Description:
added a copy routine for all types
added a copy routine for attributes
commnented some debug messages in h5trav
added the verbose option to some h5diff messages
Platforms tested:
linux
solaris 2.5
IRIX
Misc. update:
Code cleanup
Description:
Change field member count and indices for compound and enumerated types from
'int' to 'unsigned' to better reflect actual use.
Cleaned up a few other minor compiler warnings, etc.
Platforms tested:
FreeBSD 4.9 (sleipnir)
Linux 2.4 (verbena)
too minor to require h5committest
Bug fixes and code cleanup
Description:
Corrected output of array separator when vlen separator was needed.
datatypes.
Parts of formatting cleanup to greatly reduce the amount of trailing
whitespace emitted in output.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
Code cleanup
Description:
Remove various "fixtype" routines which duplicate (and actually pre-date)
the functionality in H5Tget_native_type in favor of having the tools call
H5Tget_native_type(). This provides the same functionality (actually better
functionality, since the old "fixtype" routines didn't handle alignment of
compound fields correctly) and reduces the amount of code to maintain.
Add additional tests to dump out a "complex" compound datatype which
exercises more code in the library for aligning compound fields correctly.
Platforms tested:
FreeBSD 4.8 (sleipnir)
h5committest
Updated the copyright notice--mostly by rearranging
some text to make them consistent.
Solution:
Platforms tested:
"h5committested"--sol is down, so, no SUn test.
Misc. update:
Bug Fix
Description:
The SUBDIRS macro is now defined as "" in the config/commence.in
file. We shouldn't have definitions of this macro before the
inclusion of config/commence.in.
Solution:
Placed all definitions of SUBDIRS after config/commence.in inclusion.
Platforms tested:
Modi4 (Small fix yet again).
Misc. update:
Bug fix/new feature
Description:
Teach h5dump/h5ls to display variable-length datatypes correctly.
Change "raw byte" output of array elements from "0xde8141b1a818" to
"de:81:41:b1:a8:18" so that it's easier for users to read.
Platforms tested:
FreeBSD 4.8 (sleipnir)
h5committest
Misc. update:
Patch provided by Robb Matzke (matzke@llnl.gov)
Bug Fix (Bug #806)
Description:
When compiling/installing with the command "make install" (without
performing a "make" beforehand) the tools weren't being made. This
was because the `install' command in the Makefiles only relied upon
public libraries, not private ones (which the one in the tools
directory is).
Solution:
Had the `install' command be dependent upon an "AUX_LIB" macro which
includes libraries which are needed but aren't distributed (that is,
they're staticly compiled).
Platforms tested:
Linux
Migrate from configure macros of XYZ_ABC to H5_XYZ_ABC
Description:
configure generates many macros definitions on the fly and
were stored in src/H5config.h which is included by H5public.h.
But other software that uses hdf5 may also run their own configure.
There can be a clash in macro name space. We decided awhile ago
to prepend all generated macros with "H5_" to avoid conflicts.
The process has started and this commit completes it (at least attempt
to).
Solution:
Many macros symbols (e.g. SIZEOF_xxx and HAVE_xxx were changed to
H5_SIZEOF_xxx and H5_HAVE_xxx). Then H5private.h no longer includes
H5config.h. This cuts H5config.h away from HDF5 source code.
Pending issues:
The module of fortran and pablo are to be resolved in a different
commit.
Platforms tested:
eirene (parallel), arabica (solaris 7 --enable-fortran, --enable-cxx)
Bug Fix
Description:
There was a problem with having a lot of groups nested together. We
could only handle 1024 characters at most, but, in a parallel program
especially, it could occur that there were lots and lots of groups
and would be more than 1024.
Solution:
I made the "objname" part of the obj_t structure a pointer instead of
a fixed size. Added code to allocate/deallocate the memory we need
for it. Had to fix how the "prefix" was being handled in the h5dump
program. It was also set to only 1024 characters in length. I made it
dynamic.
Added a test case...Go me!
Platforms tested:
Linux, Solaris
Purpose:
Small Fix
Description:
Changed how the list of drivers were listed from:
{ "driver1",
"driver2",
/* ... */
"drivern",
#ifdef FOO
"driverm"
#endif
};
to
{ "driver1"
,"driver2"
/* ... */
,"drivern"
#ifdef FOO
,"driverm"
#endif
};
since it's a nicer way of doing the same thing without the annoying
warning of an extraneous , if FOO isn't defined.
Platforms tested:
Dangermouse, Modi4, Kelgia
Removing the DPSS (gridstorage) driver source code.
Description:
The DPSS (using Grid-Storage) driver is retired.
Removed the configure option with-gridstorage from configure.in.
Cvs remove the following files
./src/H5FDdpss.c
./src/H5FDdpss.h
./test/dpss_read.c
./test/dpss_write.c
Regenerated Dependencies files (some had to be hand-edited since
'make depend' did not cover them.)
Removed reference to DPSS Virtual file driver from H5F.c.
Platforms tested:
modi4 (Parallel; -with-gass=...), eirene, arabica (fortran, cxx).
Bug Fix.
Description:
The H5Rget_object_type function could not get the object type for dataset
region references.
Solution:
Added a new function, H5Rget_obj_type, to replace H5Rget_object_type.
The new function requires the reference type as an additional parameter,
in order to allow queries on different reference types to be performed
correctly.
Platforms tested:
FreeBSD 4.4. (sleipnir)
Code cleanup
Description:
Windows is generating hundreds of warnings from some of the practices in
the library. Mostly, they are because size_t is 32-bit and hsize_t is
64-bit on Windows and we were carelessly casting the larger values down to
the smaller ones without checking for overflow.
Also, some other small code cleanups,etc.
Solution:
Re-worked some algorithms to eliminate the casts and also added more
overflow checking for assignments and function parameters which needed
casts.
Kent did most of the work, I just went over his changes and fit them into
the the library code a bit better.
Platforms tested:
FreeBSD 4.4 (hawkwind)
Kludge
Description:
Since we're only about halfway through converting the internal use of
property lists from the "old way" to the generic property lists, we turned
off snapshots to avoid exposing lots of API changes to users, until the
APIs settled down.
Getting the snapshots rolling again seems to have become a priority, so
some changes are going to have to be made now that were going to be
postponed until we were completely finished with the conversion. This
requires that the old API functions be able to deal with both the old
and new property lists smoothly.
Solution:
Kludge together the property list code so that they can transparently handle
dealing with both the old and new property lists
Platforms tested:
FreeBSD 4.4 (hawkwind)
Code cleanups, mostly..
Description:
Work on pacifying the SGI compiler to get the generic properties working
correctly with --enable-parallel and --enable-fortran. It's not quite
fixed yet, but I need to head home and these patches help... :-/
Platforms tested:
IRIX64 6.5 (modi4)
New Features!
Description:
Start migrating the internal use of property lists in the library from the
older implementation to the new generic property lists.
Currently, only the dataset transfer property lists are migrated to the
new architecture, all the rest of the property list types are still using
the older architecture.
Also, the backward compatibility features are not implemented yet, so
applications which use dataset transfer properties may need to make the
following changes:
H5Pcreate(H5P_DATASET_XFER) -> H5Pcreate_list(H5P_DATASET_XFER_NEW)
and
H5Pclose(<a dataset transfer property list>) -> H5Pclose_list(id)
This still may have some bugs in it, especially with Fortran, but I should
be wrapping up those later today.
Platforms tested:
FreeBSD 4.4 (hawkwind)
Feature shift
Description:
Take out the v1.2.x compatibility stubs and put in the hooks for v1.4.x
compatibility when needed.
Platforms tested:
FreeBSD 4.3 (hawkwind)
Purpose:
Bug Fix
Description:
The way we were generating Dependencies and .depend files was broken.
If the $srcdir or other macros began with a ".", then it would match
anything and cause problems since it would then overwrite the
beginning of the header file's path.
Solution:
Wrote a Perl script which can handle this type of weirdness better.
It's only used when the environment is a GNU one with a GCC
compiler...
Platforms tested:
Linux
Purpose:
Bug Fix/Feature Add
Description:
Added new flag ("-f" and "--family") to allow user to specify which
file driver to use to open the file. If they don't specify anything,
then it defaults to the old behaviour of trying each driver in turn
until one actually opens the file.
If the driver the user specified doesn't succeed in opening the
file, then we do NOT try other file drivers.
Platforms tested:
Linux
Update
Description:
Updated the way the subsetting data is retrieved. It now does it one
row of blocks at a time. It may still run out of memory, but this is
at least a good first step.
Also, the start parameter defaults to (0, 0, ...) if it isn't
specified.
Platforms tested:
Linux
Feature Add
Description:
This is the first (alpha) version of h5tools which does subsetting
according to the subsetting document. There's still some niceties
which need to be worked out, but this is the ground work.
Platforms tested:
Linux
Purpose:
fixing the format of dumper output for windows test
Description:
New dumptest includes the feature that an error of the output will be put into stderr in linux
On windows, that stderr will not be redirected into the output file and the comparsion between the expected file and the dumper output is not correct.
Solution:
change fprintf(stderr .....) at h5tool_util.c into fprintf(stdout ......) so that it fits the comparison.
Platforms tested:
windows 2000
Code Cleanup
Description:
Moved some code out which wasn't specific to the h5tools into the
h5tools_utils and h5tools_str modules. Also started on adding the
subsetting feature to the dumping.
Platforms tested:
Linux
Code Movement
Description:
Moved some functions which worked only with the h5tools_str_t
structure from the h5tools module to the h5tools_str module.
Platforms tested:
Linux
New Modules
Description:
Separated the "generic" functions out of the h5tools module into
their own separate module to make things a bit nicer to deal with.
Platforms tested:
Linux
More Subsetting
Description:
Wanted to do a check-in of the current subsetting stuff. The
command-line parsing was already in there. I now added the feature to
the h5dump_t structure and it now outputs the new SUBSET DDL stuff in
the correct format. It doesn't yet do the actual subsetting, but
we're getting there...
Platforms tested:
Linux
Bug Fix
Description:
Some platforms (gondolin) don't necessarily have the vsnprintf
function.
Solution:
Changed it to HDvsnprintf and added a header for H5private to include
it...
Platforms tested:
Linux
Bug Fix
Description:
We were trying to build the talign test program before the library
was actually built.
Solution:
Moved talign test to the lib directory since it belongs with the
library anyway.
Platforms tested:
Linux
