Am 04.02.2022 um 18:54 schrieb Satish Balay:
On Fri, 4 Feb 2022, Anton Popov wrote:
Thanks Matt, Barry and Satish, for your suggestions.
The problem was indeed in mismatch between the gfortran library version
(system has libgfortran.so.4 libflame needs libgfortran.so.5)
3.9.4 did not detect this during configure, but only gave error later during
test.
3.16.4 detected this immediately.
After installing libgfortran.so.5, both PETSc versions install just fine,
however I get the warning mentioned by Satish.
Hm - you could install libgfortran.so.5 without the corresponding compiler?
Yes, apparently it is possible on Ubuntu 18.04.
/opt/amd/amd-libflame-3.1.0/lib/lp64/libflame.so
Ah - this is a binary download - not something compiled locally?
Yes it is the latest binary from AMD website.
I wonder if the compiler gave both an error [return code] and a warning
previously [with the missing libgfortran.so.5] - as Barry was suggesting.
It was an error at runtime, configure was just fine.
As you say - you still get that warning [which is expected - as you are using a
different version of gfortran than what libflame.so was built with]
Now since libgfortran.so.5 coexists with libgfortran.so.4 it links
against the proper one, but gives a warning that both versions are
available.
I think I will just compile BLIS and LibFLAME from sources on my system
to avoid these problems altogether.
Best,
Anton
Satish
Maybe it is indeed worth upgrading everything to the compatible versions.
Best,
Anton
On 04.02.22 18:33, Barry Smith wrote:
On Feb 4, 2022, at 12:27 PM, Satish Balay <[email protected]> wrote:
Probably best if you can use the same version of gfortran to build both
petsc and libflame/blis
/usr/bin/ld: warning: libgfortran.so.5, needed by
/opt/amd/amd-libflame-3.1.0/lib/lp64/libflame.so, not found (try using
-rpath or -rpath-link):
This is probably an ignore-able warning - but configure defaults to -Werror
mode here.
Hmm, if it needs libgfortran.so.5 then it needs it and it cannot be
ignored since a link cannot succeed. Flame presumably contains a lot of
old Fortran code from Lapack so would normally need the fortran
libraries.
Wrt forcing link with static libraries - you can try:
LIBS="/opt/amd/amd-libflame-3.1.0/lib/lp64/libflame.a
/opt/amd/amd-blis-3.1.0/lib/lp64/libblis.a"
[instead of --with-blas-lib= --with-lapack-lib= options].
Satish
On Fri, 4 Feb 2022, Barry Smith wrote:
Please do
ldd -O /opt/amd/amd-libflame-3.1.0/lib/lp64/libflame.so
You may need to list the gfortran library directory of libgfortran.so.5 it
needs to use in LDFLAGS passed to PETSc configure
Barry
Note: Even though you explicitly listed a static library of libflame to
use our configure is goofy and loses that information and wants to link
with the shared version
On Feb 4, 2022, at 12:00 PM, Anton Popov <[email protected]> wrote:
On 04.02.22 17:39, Matthew Knepley wrote:
On Fri, Feb 4, 2022 at 11:35 AM Anton Popov <[email protected]
<mailto:[email protected]>> wrote:
Hi Satish,
I just discovered that PETSc 3.16.4 fails to link against the latest AMD
BLIS and LibFLAME libraries on a Linux box.
-------------------------------------------------------------------------------
You set a value for --with-blas-lib=<lib> and --with-lapack-lib=<lib>,
but ['/opt/amd/amd-blis-3.1.0/lib/lp64/libblis.a'] and
['/opt/amd/amd-libflame-3.1.0/lib/lp64/libflame.a'] cannot be used
*******************************************************************************
My previous experience with 3.9.4 on the same system was fully
successful. Looking in the configure logs (attached) reveals small
difference in the linking compared to 3.9.4
Could you please make a guess what went wrong?
Down in the log I see:
/usr/bin/ld: warning: libgfortran.so.5, needed by
/opt/amd/amd-libflame-3.1.0/lib/lp64/libflame.so, not found (try using
-rpath or -rpath-link):
Thanks Matt, I'll try.
Did the gfortran library move or get upgraded?
Not at all. I have configured 3.9.4 just now to make a test, and it
perfectly finds all the libraries. So there must be something that 3.16.4
does differently.
Best,
Anton
Thanks,
Matt
Best regards,
Anton
--
What most experimenters take for granted before they begin their
experiments is infinitely more interesting than any results to which
their experiments lead.
-- Norbert Wiener
https://www.cse.buffalo.edu/~knepley/
<http://www.cse.buffalo.edu/~knepley/>
