Your message dated Tue, 19 Nov 2024 19:00:12 +0000
with message-id <[email protected]>
and subject line Bug#1078026: fixed in openmpi 5.0.6-1
has caused the Debian Bug report #1078026,
regarding -lmpi_mpifh does not work
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
1078026: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1078026
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: libopenmpi-dev
Version: 4.1.6-13.3
When I attempt to run the mesonbuild testsuite as downloaded from
https://github.com/mesonbuild/meson, using the following command:
./run_project_tests.py -v --only frameworks/17
it is intended to test that meson can detect openmpi and build a dummy
project against it.
Instead I get this error:
(inprocess) $ setup --prefix /usr --libdir lib 'test cases/frameworks/17
mpi' '/meson/b 6903cddbd2' --backend=ninja -Dmethod=pkg-config
The Meson build system
Version: 1.5.99
Source dir: /meson/test cases/frameworks/17 mpi
Build dir: /meson/b 6903cddbd2
Build type: native build
Project name: mpi
Project version: undefined
C compiler for the host machine: cc (gcc 14.2.0 "cc (Debian 14.2.0-1)
14.2.0")
C linker for the host machine: cc ld.bfd 2.43
C++ compiler for the host machine: c++ (gcc 14.2.0 "c++ (Debian
14.2.0-1) 14.2.0")
C++ linker for the host machine: c++ ld.bfd 2.43
Host machine cpu family: x86_64
Host machine cpu: x86_64
Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1
Run-time dependency MPI for c found: YES 4.1.6
Run-time dependency MPI for cpp found: YES 4.1.6
Checking if "C++ MPI" with dependency ompi-cxx: links: YES
Fortran compiler for the host machine: gfortran (gcc 14.2.0 "GNU Fortran
(Debian 14.2.0-1) 14.2.0")
Fortran linker for the host machine: gfortran ld.bfd 2.43
Run-time dependency MPI for fortran found: YES 4.1.6
Checking if "Fortran MPI" with dependency ompi-fort: links: YES
Run-time dependency MPI found: YES 4.1.6
Build targets in project: 3
mpi undefined
User defined options
backend: ninja
libdir : lib
method : pkg-config
prefix : /usr
Found ninja-1.12.1 at /usr/bin/ninja
ninja explain: deps for 'exec.p/main.c.o' are missing
ninja explain: exec.p/main.c.o is dirty
ninja explain: exec is dirty
ninja explain: deps for 'execpp.p/main.cpp.o' are missing
ninja explain: execpp.p/main.cpp.o is dirty
ninja explain: execpp is dirty
ninja explain: output exef.p/depscan.dd doesn't exist
ninja explain: deps for 'exef.p/main.f90.o' are missing
ninja explain: exef.p/main.f90.o is dirty
ninja explain: exef is dirty
ninja explain: meson-test-prereq is dirty
ninja explain: output meson-benchmark-prereq of phony edge with no
inputs doesn't exist
ninja explain: meson-benchmark-prereq is dirty
ninja explain: exec is dirty
ninja explain: execpp is dirty
ninja explain: exef is dirty
[1/7] Compiling C object exec.p/main.c.o
[2/7] Linking target exec
[3/7] Module scanner.
ninja explain: loading dyndep file 'exef.p/depscan.dd'
ninja explain: output exef.p/main.f90.o doesn't exist
ninja explain: exef.p/main.f90.o is dirty
ninja explain: exec is dirty
ninja explain: execpp is dirty
ninja explain: exef is dirty
ninja explain: meson-test-prereq is dirty
ninja explain: meson-benchmark-prereq is dirty
ninja explain: exec is dirty
ninja explain: execpp is dirty
ninja explain: exef is dirty
[4/7] Compiling Fortran object exef.p/main.f90.o
[5/7] Linking target exef
FAILED: exef
gfortran -o exef exef.p/main.f90.o -Wl,--no-undefined
-Wl,-rpath,/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran:/usr/lib/x86_64-linux-gnu/openmpi/lib
-Wl,-rpath-link,/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran
-Wl,-rpath-link,/usr/lib/x86_64-linux-gnu/openmpi/lib -Wl,--start-group
/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran/libmpi_usempif08.so
/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran/libmpi_usempi_ignore_tkr.so
/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran/libmpi_mpifh.so
/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so -Wl,--end-group
/usr/bin/ld: exef.p/main.f90.o: in function `MAIN__':
/meson/b 6903cddbd2/../test cases/frameworks/17
mpi/main.f90:1:(.text+0x13): undefined reference to `mpi_init_'
/usr/bin/ld: /meson/b 6903cddbd2/../test cases/frameworks/17
mpi/main.f90:1:(.text+0xc3): undefined reference to `mpi_initialized_'
/usr/bin/ld: /meson/b 6903cddbd2/../test cases/frameworks/17
mpi/main.f90:1:(.text+0x16c): undefined reference to `mpi_finalize_'
collect2: error: ld returned 1 exit status
[6/7] Compiling C++ object execpp.p/main.cpp.o
ninja: build stopped: subcommand failed.
Let's see the link flags it finds:
$ pkg-config --libs ompi-fort
-L/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran
-L/usr/lib/x86_64-linux-gnu/openmpi/lib -lmpi_usempif08
-lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi
This says to link against:
$ realpath
/usr/lib/x86_64-linux-gnu/openmpi/lib/../../fortran/gfortran/libmpi_mpifh.so
/usr/lib/x86_64-linux-gnu/libmpi_mpifh-gfortran.so.40.30.0
which in turn does not contain the desired symbols:
$ nm -D /usr/lib/x86_64-linux-gnu/libmpi_mpifh-gfortran.so.40.30.0
w _ITM_deregisterTMCloneTable
w _ITM_registerTMCloneTable
w __cxa_finalize
w __gmon_start__
In fact, I wonder what this library exists for at all. It's not a valid
library for building openmpi software against. It doesn't appear to be
installed by any other distros. It seems like it is something Debian has
patched in, but I cannot figure out why.
--
Eli Schwartz
OpenPGP_signature.asc
Description: OpenPGP digital signature
--- End Message ---
--- Begin Message ---
Source: openmpi
Source-Version: 5.0.6-1
Done: Alastair McKinstry <[email protected]>
We believe that the bug you reported is fixed in the latest version of
openmpi, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Alastair McKinstry <[email protected]> (supplier of updated openmpi package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Tue, 19 Nov 2024 11:05:55 +0000
Source: openmpi
Binary: libopenmpi-dev libopenmpi40 libopenmpi40-dbgsym openmpi-bin
openmpi-bin-dbgsym openmpi-common openmpi-doc
Architecture: source arm64 all
Version: 5.0.6-1
Distribution: experimental
Urgency: medium
Maintainer: Debian Science Maintainers
<[email protected]>
Changed-By: Alastair McKinstry <[email protected]>
Description:
libopenmpi-dev - high performance message passing library -- header files
libopenmpi40 - high performance message passing library -- shared library
openmpi-bin - high performance message passing library -- binaries
openmpi-common - high performance message passing library -- common files
openmpi-doc - high performance message passing library -- man pages
Closes: 1078026 1087683
Changes:
openmpi (5.0.6-1) experimental; urgency=medium
.
* Upstream 5.0.6 bugfix release
* Don't ship orte.pc
* Merge 5.0.5-6 changes to debian/experimental for transition.
Closes: #1087683, #1078026
* Fix PRTE bug for #1087800 (prte-types.patch)
* Updated library minor versions:
- libmpi_mpifh.so.40.40.1
- libmpi_usempi_ignore_tkr.so.40.40.1
- libmpi_usempif08.so.40.40.3
- libmpi_java.so.40.40.1
- libmpi.so.40.40.6
- libopen-pal.so.80.0.5
- liboshmem.so.40.40.4
- libprrte.so.3.0.7
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