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* Updated source file copyright headers to remove "Copyright by the Board of Trustees
of the University of Illinois", which is kept in the top-level COPYING file.
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* Modify temporary rpath for testing in java example scripts.
* Update URL in source file Copyright headers for web copy of COPYING
file - files not in src or test.
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the changes to config/gnu-fflags.
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* Removed conclude_fc.am, which was causing verbose builds. Need to
investigate more, though.
* Added gfortran 9 warnings and flags. This will need to be separated
into other version blocks based on when the options first appeared.
* The standard is now explicitly set at 2008.
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Removed from autools install, cmake does not have this issue.
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hdf5_1_10
* commit '54957d37f5aa73912763dbb6e308555e863c43f4':
Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes.
Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh.
Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1
Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
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(HDFFV-9949, MSB, 7/7/16)
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h5tbmake_table_f is missing the fill_data parameter (which is in the C counterpart)
ADDED NEW API: h5tbread_table_f
Tested: platypus, ostrich
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pre-processor compiler (This mainly causes issues with the xlf compilers)
Tested: h5committest
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Tested: h5committest --PASSED--
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several files are left
behind by "make distclean" (see below); modified appropriate Makefile.am files and ran
bin/reconfigure to create Makefile.in to fix the problem.
Here is the list of the files "make disclean" doesn't remove:
tools/h5dump/testfiles
tools/h5repack/testfiles/h5diff_attr1.h5
tools/h5repack/testfiles/tfamily00000.h5
tools/h5repack/testfiles/tfamily00010.h5
tools/h5repack/testfiles/tfamily00002.h5
tools/h5repack/testfiles/tfamily00004.h5
tools/h5repack/testfiles/tfamily00006.h5
tools/h5repack/testfiles/tfamily00008.h5
tools/h5repack/testfiles/tfamily00001.h5
tools/h5repack/testfiles/tfamily00003.h5
tools/h5repack/testfiles/tfamily00005.h5
tools/h5repack/testfiles/tfamily00007.h5
tools/h5repack/testfiles/tfamily00009.h5
tools/h5jam/testfiles/h5jam-ub-nohdf5.txt.err-sav
tools/h5jam/testfiles/h5jam-help.txt.err-sav
tools/h5jam/testfiles/h5unjam-help.txt.err-sav
tools/h5jam/testfiles/h5jam-ub-nohdf5.txt.out-sav
tools/h5jam/testfiles/h5jam-help.txt.out-sav
tools/h5jam/testfiles/h5unjam-help.txt.out-sav
hl/fortran/test/dsetf5.h5
c++/test/tattr_multi.h5
c++/test/tattr_scalar.h5
c++/test/tfattrs.h5
c++/test/tattr_basic.h5
c++/test/tattr_compound.h5
c++/test/tattr_dtype.h5
Tested on jam and emu in place and using srcdir with the svn stat command.
This fix doesn't address two problems:
tool/h5dump/testfiles directory is not removed by "make distclean" and it should be
tools/misc/testfiles directory is removed by "make distclean" and it shouldn't be
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Tested: jam (intel, gnu, pgi)
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CFLAGS overhaul
Description:
Modified the way configure handles CFLAGS.
(note: all changes also apply to FCFLAGS, CXXFLAGS, CPPFLAGS, and LDFLAGS).
1. The configure process will now always preserve a user's CFLAGS
environment variable setup. Any additional flags necessary for compilation
added at configure time will be passed into the Makefiles as AM_CFLAGS,
which is an automake construct to be used in addition to CFLAGS.
This will allow a user to have the final say, as CFLAGS will always appear
later in the compile line than AM_CFLAGS. Additionally, setting CFLAGS
during make will no longer completely erase all flags set by configure,
since they're maintained in AM_CFLAGS.
2. Additionally, where possible, flags previously being assigned directly
into CFLAGS (and thus propagating into h5cc) have now been redirected into
H5_CFLAGS, so they're used ONLY for compiling hdf5, and not embedded into
the h5cc wrapper script as well.
*Note that H5_CFLAGS ultimately is assigned into AM_CFLAGS for use in the
Makefiles. Complete description of changes and build process will be
included in a Configure Document that Elena and I are working on.
3. Removed unsupported config files. This includes:
config/dec-osf*
config/hpux11.00
config/irix5.x
config/powerpc-ibm-aix4.x
config/rs6000-ibm-aix5.x
config/unicos*
4. Modified configure summary to display additional values. Specifically,
appropriate AM_* variables are being shown, as well as H5_FCFLAGS and
H5_CXXFLAGS, which were for some reason not already present.
Tested:
- H5committest
- Tested on all THG / NCSA machines, using several combinations of the more
prominent configure options (c++, fortran, szip, threadsafe, parallel,
et cetera). (Thanks to Quincey for rysnc testing setup!)
- With regards to new automated testing, anything *necessary* for
compilation will be caught by the daily tests as it stands now. (i.e.,
if LDFLAGS is not properly set when szip is used, linking will fail).
Additionally, with regards to which flags get into h5cc, if any
*necessary* flags have been improperly removed, then daily tests should
fail during make installcheck. Additional machine-specific desired
behaviors and/or checks may have to be set up separately within the
daily tests, so this is something to work on.
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Description:
The fortran Makefile.am used HDF_FORTRAN to indicate it is part of the
Fortran API source so that conclude.am will give fortran api prefix in the
test output. The symbox HDF_FORTRAN is also used in configure for a different
purpose (indicated --enable-fortran). They conflicted.
Similar problem for the symbol HDF_CXX.
Solution:
Changed all the involved Makefile.am to use "FORTRAN_API" instead. It is
a more appropriate name. Same for CXX_API.
Along the way, discovered that the Makefile.am of hl/fortran/test and
hl/cxx/test did not have those symbols at all. Added them in.
Platform tested:
Kagiso only. It is a trivia change.
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Ran reconfigure to generate the Makefile.in files.
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Fixed the copyright notice.
Tested in heping.
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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
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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
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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)
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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.)
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Description:
1.7 daily tests failed in HL library when Fortran was not
enabled; also long long instead of long_long declarations
were used and caused failures on Windows
Solution:
Removed Fortran related functions (except H5IM_find_palette) from
H5IM.c file and put it into fortran/src/H5IMcc.c
Modified appropriate Makefile.am files, regenerated Makefile.in files, updated header files, MANIFEST, etc.
Note: H5IM_find_palette should be also in H5IMcc.c, but
for some unknown to me reason, linking fails if the function is
included in H5IMcc.c. I will really appreciate if some C guru
will look into the code and figure out what is wrong :-) Thanks!
Platforms tested: mir with g95, heping with and without Fortran enabled
Misc. update:
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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.
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Bug fix
Description:
Fortran builds were dying with unknown flags.
Solution:
Fortran builds should be static, not shared. Static flags had been specified
for libraries, but apparently were also needed for executables.
Solved problem by adding static flag to everything in fortran directories.
Platforms tested:
mir, eirene
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Code cleanup
Description:
Clean up some test files.
Platforms tested:
FreeBSD 4.11 (sleipnir) w/FORTRAN
Too minor to require h5committest
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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
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Configuration update
Description:
HDF5 now uses automake
Solution:
Ditto to previous checkin
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