| Commit message (Collapse) | Author | Age | Files | Lines |
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Formatting...
Platforms tested:
Solaris
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Fix for install-doc feature
Description:
I fixed the install-doc feature so that it actually works! (Imagine
:-).
Solution:
It manually checks if the DOCDIR exists. If not, then it mkdir's it.
Then it does the install of the appropriate docs.
Platforms tested:
Linux, Solaris
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Config cleanup
Description:
In production environments, the optimization flag for gcc was set to
-O6, which has some code-generation problems in certain environments.
Solution:
Turned optimizations down to -O2, which is still pretty bleeding edge.
Platforms tested:
FreeBSD 4.2 (hawkwind)
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New platform
Description:
Support the Cray SV1 machine. (config file is identical to unicosmk file
right now).
Platforms tested:
Cray SV1 (killeen.nersc.gov)
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Feature Fix
Description:
This checks before printing the warning message about hsizet type if
the user specified --disable-hsizet on the command line.
Platforms tested:
Linux
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Bug fix
Description:
install method was cached as 'cp -r'. It did not work
in --srcdir option as the configure set the method to ../cp -r.
Solution:
Removed the cached entry. Let it look for install or use install-sh.
Platforms tested:
LLNL Blue (found and used /usr/local/gnu/bin/install).
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Bug fix
Description:
TFLOPS was configured to use '-g' flag even when --enable-production
option was used. It was because configure hard set CFLAGS to '-g'
if it is a valid C compiler option and if $CFLAGS is not set yet.
This is not noticed in other platforms because the config/* files
they all set CFLAGS in one form or another.
Solution:
This is a bug in configure but it is risky to change it so close
to code release. Instead, just set CFLAGS in this file to bypass
the configure bug which should be squashed after code release.
Platform tested:
Tflops with parallel, both debug and production modes.
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New File
Description:
T3E needs this file so that configure will find it. The name was
changed.
Platforms tested:
T3E
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Improvement
Description:
During configure, it tries to find the size of various basic
C data types (int, int8, fast_int8, ...) by running a small
program for each data type. But Pecific blue uses a batch queue
system to launch all jobs and the whole process takes couple
minutes. With over 20 basic types to test, that takes "forever"
for the configure to complete.
Solution:
Let the configure complete, then save all those valid values in
the config.cache file into the specific config file for Pac. Blue.
With the values cached, configure does not need to run those little
problems.
Platform Tested:
Pacific blue with mpicc.
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Purpose:
Bugfix
Description:
The gcc linker couldn't resolve any socket routine symbols
if the Stream VFD was configure.
Solution:
Add the socket library to the LIBS makefile variable not just
when compiling with the native cc compiler
but also if using GNU tools (such as on Solaris x86 systems).
Platforms tested:
SunOS 5.5 with GNU cc (hatteras),
SunOS 5.6 with native cc (thor.sistec.kp.dlr.de)
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Bug Fix
Description:
configure on Cray T3E is looking for a differently named config file,
so at it under that name.
Platforms tested:
Cray T3E (mcurie)
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Messed up
Description:
The compile line doesn't like the -dlopen self flag...
Solution:
removed
Platforms tested:
Eirene
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Buglet
Description:
If we compiled with -all-static, then the compiler could complain
about not being able to find dlopen and friends.
Solution:
Used the ``-dlopen self'' libtool command.
Platforms tested:
Linux
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Bug Fix
Description:
Some platforms don't have support for dlopen and friends when the
library is static.
Solution:
This is part of the attempt to correct this "feature". libtool
wants AC_LIBTOOL_DLOPEN in the configure.in file and -dlopen on
this line...
Platforms tested:
(untested)
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Bug fix
Description:
make reconfigure complained syntax error.
Solution:
The for loop previous added contained a typo. Replaced $$test
with $$sub.
Platforms tested:
modi4-64.
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Fix
Description:
Changed so that only *.c files are run through the tracing
program. This is so the fortran stuff won't return spurious
warnings.
Platforms tested:
Linux
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Purpose:
Set compiler flag to force BSD compliance.
Description:
In order to set a socket descriptor into non-blocking mode
via ioctl(2) the Stream driver uses the FIONBIO constant.
Under Solaris this is defined only when compiled as BSD code.
I hope this doesn't break anything.
Platforms tested:
Solaris 5.7
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Bug fix
Description:
During a `reconfigure', it wasn't traversing the
subdirectories...
Solution:
Added a loop to the reconfigure logic to do just that.
Platforms tested:
NOT tested...
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Bug Fix
Description:
On some platforms, if you don't have . in your PATH, it won't
find the test program it's supposed to run.
Solution:
Changed instead to ./$$test so that it picks up the program in
the current directory.
Platforms tested:
Opus and Linux
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Site specific configure files
Description:
Some machines need to specify things during the configure
but they aren't necessary for all machines of that type. Those
site-specific changes should go here. The format of the filename
is:
host-$hostname
where $hostname is the output from the `hostname' command.
Needless to say, this is optional to those sites which don't need
it.
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Added support for compiling in subdirectories.
Platforms tested:
Solaris, IRIX (O2K)
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Fix Irix pmake bugs
Description:
Build fails on Irix when builddir != srcdir
Solution:
* acconfig.h
* src/H5config.h.in [REGENERATED]
Added definition for HAVE_STREAM
* config/conclude.in
* config/depend1.in
* config/depend2.in
* config/depend3.in
* config/depend4.in
The `Dependencies' file is located in the source
tree. This fixes bugs for Irix pmake when compiling
outside the source tree. Hopefully it still preserves
Albert's changes which allow concurrent compilations
to not stomp on each other's Dependencies files.
* examples/Dependencies [REGENERATED]
* src/Dependencies [REGENERATED]
* test/Dependencies [REGENERATED]
* tools/Dependencies [REGENERATED]
Regenerated for testing purposes.
Platforms:
i686-pc-linux
mips-sgi-irix6.5
sparc-sun-solaris2.6
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Feature
Description:
Most tests are done inside a for-loop. Whenever a test exits
with error, the for-loop does a "exit 1" to exit the make.
"make -i" could not catch and ignore the error status.
Solution:
Replaced "exit 1" with break. At the end of the for-loop,
test if all tests have been run. If not, the for-loop is
ended by the break command, thus raise an error. Now,
'make -i' can catch and ignor it.
Also added the test of variable HDF5_Make_Ignore inside the
for-loop to indicate the desire to ignore errors when the
HDF5_Make_Ignore is set to a non-null/blank string.
Platforms:
Tested on modi4 and eirene.
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Add the socket library to make's LIBS variable.
Description:
The socket library is needed to build HDF5 with the Stream VFD.
Platforms:
Solaris
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created
in the configure script, basically replacing all -L/<path> constructs
with -R/<path> ones so that libtools will pass it along to the compiler
correctly.
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that are to be installed.
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config file.
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reconfigure.
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processors.
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Feature "improvement".
Problem:
The Makefile target triggers gmake to redo the whole auto-configure
process if it sees any autoconfigure related files changed. It causes
couple problems. One is that when multiple machines using --srcdir
are running make, they may detect the changes and launch the autoconf
at the same time. These end up as multiple hosts updating the same
srcdir area together--bad things can happen. Another one is that
when one modifies some Makefile.in, then try "make distclean" before
launching the configure process. Instead of cleaning things, it
started a configure, recreate all Makefiles and other files, then
finally come around to do the distclean--who knows what it cleans
by now since the Makefile is changed too. Last problem was that
this auto-process will launch even for command "gmake -n ...".
Solution:
Renamed Makefile target to reconfigure so that the auto-checking
is still available but must be launched explicitedly. If one
wishes to have the auto-checking as default, one may do
alias gmake "\gmake -i reconfigure; gmake \!* ".
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Configuration improvement
Problem:
Arabica has a zlib library that is a dynamic lib in /usr/ncsa/lib.
Binary generated would fail to run with a missig libz.so complain
if /usr/ncsa/lib is not in $LD_LIBRARY_PATH. This exposed the
problem that if the binary is linked with -L$mylibpath -lxyz
where libxyz is a dynamic type, the binary can't run if $mylibpath
is not in $LD_LIBRARY_PATH (or equivalent) or as part of the
system default library paths (e.g., /usr/lib, /usr/local/lib).
This problem also caused failures during configure (when trying
to see what format to print long long) and during H5detect.
The base cause is because libtool does not "transfer" the
knowledge of -L$mylibpath to the wrapper file its mode=link
generates.
Solution:
bin/ltmain.sh:
Changed it so that it transfers the libpaths from -Llibpaths
to the wrapper generated. I used the already defined variable
finalize_shlibpath. Not sure it is correct to use it this way.
Need to check on this.
configure.in:
Put in a patch to transfer information from LDFLAGS to LD_LIBRARY_PATH
right before the AC_TRY_RUN. The above fix for ltmain.sh does not
work here because libtool is generated later than this point.
There should be a cleaner way to do this.
Removed the hardcode of NCSA_LT_LINK_EXE because it is no longer
needed.
commence.in:
Removed the hardcode of NCSA_LT_LINK_EXE because it is no longer
needed.
Makefile.in:
Another patch of LDFLAGS to LD_LIBRARY_PATH because I could not
make it to generate H5detect in the wrapper form of libtool.
Need to make it to use the libtool correctly. Later.
Platform tested:
arabica (solaris 2.7)
baldric (solaris 2.6)
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Albert's
automated tests will work correctly on arabica.
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The Dependencies files were generated in $srcdir even when
--srcdir is used. It caused conflicts if multiple hosts
are doing make sharing the same $srcdir. It also violated
the rule that --srcdir would not modify the content of $srcdir
which could be on a read-only media like a CD-ROM.
Solution:
Dependencies files are generated in the "current" directory.
Platform tested:
dangermouse (linux), modi4 (IRIX64).
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A minor tweak to the way GNU systems generate file dependencies for
the Makefiles.
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doesn't
recognize our "UNUSED" macro and whines a lot about the unused parameters.
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** config/depend1.in
We don't regenerate the Dependencies files if we're compiling in the
source tree because `gcc -MM' doesn't output enough information to
make the result usable when compiling outside the source tree.
** src/H5config.h.in
Regenerated to include HAVE_LIBMPI and HAVE_LIBMPIO because of recent
changes to configure.in
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** bin/rpmsync
** config/depend1.in
Tweaks for versions of `make' that can't search directories.
** examples/Dependencies
** src/Dependencies
** test/Dependencies
** testpar/Dependencies
** tools/Dependencies
Regenerated all these with more complete path names.
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----------------------
./MANIFEST
./configure.in
./configure [REGENERATED]
Added more checking for `make' features.
./Makefile.in
./doc/Makefile.in
./doc/html/Makefile.in
./doc/html/Tutor/Makefile.in
./examples/Makefile.in
./pablo/Makefile.in
./src/Makefile.in
./test/Makefile.in
./testpar/Makefile.in
./tools/Makefile.in
./config/commence.in
./config/conclude.in
./config/depend.in [REMOVED]
./config/depend1.in [NEW]
./config/depend2.in [NEW]
./config/depend3.in [NEW]
./config/depend4.in [NEW]
./config/dependN.in [NEW]
The directory search stuff was moved into commence.in, thereby
shortening the Makefile.in prologues.
./doc/html/Dependencies [NEW]
./doc/html/Tutor/Dependencies [NEW]
./examples/Dependencies [NEW]
./src/Dependencies [NEW]
./test/Dependencies [NEW]
./testpar/Dependencies [NEW]
./tools/Dependencies [NEW]
The `.distdep' files were all renamed to `Dependencies' to make them
more obvious. They are required (but may be empty) in every directory
that has a Makefile.in that ends with @CONCLUDE@ (you'll get an
obvious error from make if you forgot to create one).
./bin/trace
./src/H5.c
Added H5E_major_t and H5E_minor_t although tracing only prints the
integer value.
./src/H5E.c
./src/H5Epublic.h
Added tracing information.
./src/H5FDcore.c
./src/H5FDfamily.c
./src/H5FDgass.c
./src/H5FDmpio.c
./src/H5FDsec2.c
./src/H5FDstdio.c
Fixed places where FUNC_LEAVE() evaluated it's argument more than
once.
Added tracing information.
Wrapped long lines.
./config/gnu-flags
Fixed a syntax error when we don't have a gnu compiler.
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disable-shared.
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----------------------
./configure.in
./src/H5config.h.in [REGENERATED]
The /usr/ncsa/{include,lib} directories are only added if they
actually exist. This fixes a warning on some systems.
Checks for the <pdb.h> header file and also for either the PDB or Silo
library, and if found prepares to compile the pdb2hdf program.
./config/distdep
Relative path names for include files are changed to base names since
the makefile contains the logic for searching and since it's likely
that building the .distdep files happed from a location other than
where they would be used in the file system.
./config/conclude.in
Fixed shell errors when `for' loops iterate over nothing for the
`uninstall' target.
./src/H5D.c
./src/H5Oefl.c
File names for the external files are added to the heap when the
dataset is created instead of when the object header is written. This
fixes a rare infinite recursion bug.
./src/H5FD.c
./src/H5FDpublic.h
Optimization to the free list causes H5FD_alloc() usage to go from >10
seconds to <0.4 second for one example (converting a 30MB equation of
state file from PDB to HDF5 format). The optimization is to simply
keep track of the largest item in the free list and not search the
free list when the largest item is not big enough to satisfy the
request.
./src/H5FDcore.c
./src/H5FDcore.h
./test/h5test.c
If the `backing_store' property is true then a flush causes the entire
contents of memory to be written to the specified file. This is in
preparation for the ASCI/red optimizations and is currently tested by
the pdb2hdf `--cached' switch.
./src/H5Odtypes.c
Wrapped three long lines.
./tools/Makefile.in
./tools/pdb2hdf.c [NEW]
A PDB-to-HDF5 translator. It only translates meta data -- the
resulting HDF5 points into the PDB file for the raw data.
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ltconfig used just an empty source file to test the share lib
compiler options. SUNSpro CC returns succeed though it issues
a warning too. ltconfig did not like the warning.
Changed it to test with a file containing a simple dummy program.
Platform tested: solaris 2.6 and 2.7
config/solaris2.x:
Changed default compiler to "cc" now that Sunpro CC can produce
static and shared codes correctly.
Also added -s to PROD_CFLAGS to produce leaner binary files.
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Problems:
libtool generated compiler linking commands with dependency_libs
appended to any dynamic library used but only "-lz -lmfhdf ..." were
appended but "-L...", if used, are not appended. So, the "-lz ..."
information is incomplete and solaris cc does not allow even if the
"-L..." information is provide in later part of the command.
Solution:
Included $LDFLAGS in the building of $(LIB).
irix5.x:
irix6.x:
Added "-s" to PROD_CFLAGS so that production code are striped for
smaller sizes.
Platform Tested:
Solaris 2.6
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----------------------
This extensive change is the virtual file layer implementation. I've
ported and tested the sec2, family, and core drivers and only ported
the mpio driver (Albert will test it). So if you need MPIO I would
recommend sticking with the previous version for a while.
You will get a few compile warnings about split and stdio drivers not
being implemented and possibly tracing information not inserted in
some of the drivers. You can safely ignore them but I plan to fix
them.
I'm still working on the split driver because I just realized that it
needs a part of the VFL that isn't written yet.
Documentation is being updated also because there were some minor
changes (mostly just name changes). It should be available on my web
site later this week.
./MANIFEST
./src/Makefile.in
./src/hdf5.h
./src/H5Flow.c [REMOVED]
./src/H5Fstdio.c [REMOVED]
./src/H5Fsec2.c [REMOVED]
./src/H5Fsplit.c [REMOVED]
./src/H5Fmpio.c [REMOVED]
./src/H5Ffamily.c [REMOVED]
./src/H5Fcore.c [REMOVED]
./src/H5MFpublic.h [REMOVED]
./src/H5FD.c [NEW]
./src/H5FDcore.c [NEW]
./src/H5FDcore.h [NEW]
./src/H5FDfamily.c [NEW]
./src/H5FDfamily.h [NEW]
./src/H5FDmpio.c [NEW]
./src/H5FDmpio.h [NEW]
./src/H5FDprivate.h [NEW]
./src/H5FDpublic.h [NEW]
./src/H5FDsec2.c [NEW]
./src/H5FDsec2.h [NEW]
Removed/added files for virtual file layer.
./bin/trace
./src/H5.c
Removed unused public datatypes and added new VFL public
datatypes.
Changed an error message.
./config/BlankForm
./config/dec-flags
./config/gnu-flags
./config/hpux10.20
./config/hpux9.03
./config/irix5.x
./config/irix6.x
./config/solaris2.x
./config/unicosmk
Removed the H5F_OPT_SEEK and H5F_LOW_DFLT constants from the
configuration since they're no longer applicable. The default
file driver is always the sec2 driver and it always optimizes
calls to lseek() or lseek64().
./config/depend.in
C preprocessor errors generated during automatic dependency
building are sent to /dev/null to prevent them from appearing
twice in the make output.
./src/H5AC.c
./src/H5B.c
./src/H5D.c
./src/H5F.c
./src/H5G.c
./src/H5Gent.c
./src/H5Gnode.c
./src/H5HG.c
./src/H5HL.c
./src/H5O.c
./src/H5Oattr.c
./src/H5Odtype.c
./src/H5Oefl.c
./src/H5Oshared.c
./src/H5T.c
./src/H5detect.c
./test/ohdr.c
Changed H5F_ADDR_UNDEF to HADDR_UNDEF to be more consistent
with the `haddr_t' datatype which is now a public type.
./src/H5D.c
./src/H5P.c
./src/H5Ppublic.h
./src/H5Tconv.c
./test/cmpd_dset.c
./test/dsets.c
./test/overhead.c
./test/tselect.c
./test/tvltypes.c
The H5P_DATASET_XFER constant was changed to H5P_DATA_XFER
because the properties apply to all types of I/O operations,
not just datasets.
./src/H5B.c
./src/H5Bprivate.h
./src/H5D.c
./src/H5Dpublic.h
./src/H5F.c
./src/H5Farray.c
./src/H5Fistore.c
./src/H5Fprivate.h
./src/H5Fpublic.h
./src/H5Gnode.c
./src/H5Gpkg.h
./src/H5HG.c
./src/H5HL.c
./src/H5O.c
./src/H5R.c
./src/H5Sall.c
./src/H5Shyper.c
./src/H5Smpio.c
./src/H5Spoint.c
./src/H5Sprivate.h
./test/big.c
./test/h5test.c
./test/istore.c
./testpar/t_dset.c
./testpar/t_file.c
./tools/h5debug.c
./tools/h5ls.c
Modified to work with the virtual file layer by calling H5FD_*
functions instead of H5F_low_* functions and by passing file
access and data transfer properties by object ID instead of
pointer.
Changed H5D_transfer_t to H5FD_mpio_xfer_t since the
COLLECTIVE vs. INDEPENDENT transfer mode is specific to the
MPIO file driver.
Moved MPIO-specific stuff into the MPIO driver.
./src/H5B.c
./src/H5D.c
./src/H5Fprivate.h
The H5F_mpio_* private functions were renamed and placed in
the H5FDmpio driver except those which appeared in H5Smpio.c.
./src/H5E.c
./src/H5Epublic.h
Added major error number H5E_VFL for virtual file layer
related errors.
./src/H5F.c
./src/H5Fprivate.h
Changed the logic that controls whether the boot block is
written. Instead of assuming that the first call to write the
boot block is only to allocate space, I've added a function
argument which makes this explicit.
Changed the way files are compared so that a driver-defined
comparison function can be called. Files which belong to
different drivers are always considered different.
Removed H5F_driver_t since file drivers are now identified by
object ID instead of a special non-user-extendible datatype.
Removed all the hard-coded low-level file properties which
have been replaced by the various file drivers.
./src/H5I.c
./src/H5Iprivate.h
Added the H5I_inc_ref() which was removed a few months ago
since we finally have a use for it.
./src/H5Ipublic.h
Added the H5I_VFL object ID type to identify file drivers in
the virtual file layer.
./src/H5MF.c
./src/H5MFprivate.h
Moved all the allocation/deallocation code into the virtual
file layer which allows file drivers to override much of it.
./src/H5P.c
./src/H5Ppublic.h
Moved file driver-specific code into the various file driver
files.
The H5Pcopy() and H5Pclose() functions make calls into the
virtual file driver to manage the memory for driver-specific
file access and data transfer properties.
./src/H5private.h
./src/H5public.h
The `haddr_t' type is now public.
./test/tfile.c
Added a few more comments.
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----------------------
NOTE: These bug fixes but have been applied only to the 1.3 branch per
Albert's request.
./config/gnu-flags [1.3]
Added support for gcc-2.95 by adding full optimization and
debugging flags and applied a patch from Marcus Daniels.
./src/Makefile.in [1.3]
Removes the `libhdf5.settings' file for `make clean'.
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----------------------
./Makefile.in [1.3]
./examples/Makefile.in [1.3]
./pablo/Makefile.in [1.3]
./src/Makefile.in [1.3]
./test/Makefile.in [1.3]
./testpar/Makefile.in [1.3]
./tools/Makefile.in [1.3]
./config/commence.in [1.3]
./config/conclude.in [1.3]
./config/depend.in [1.3]
Added a `.PATH' target for Irix pmake which is identical to
the VPATH used by most other `make' programs. Irix 6.5 (or
6.4?) and later `make' ignores VPATH.
Started all beginning-of-line comments with `##' instead of
just `#' because Irix `pmake' barfs on things like the
following because it sees the `# if' as a directive:
# make will barf on the following line
# if running Irix pmake
./config/commence.in [1.3]
Added empty definitions for optional `make' macros because
Irix pmake complains if it sees a macro which has never been
defined. The main body of the Makefiles can redefine these
macros to whatever they need.
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