Bug 795510 – dev-python/mpi4py-3.1.3 - /.../ld: /.../libmpi.so: undefined reference to MPIR_being_debugged

• Status: RESOLVED INVALID
• Product: Gentoo Linux

[Description Toralf Förster 2021-06-12 08:34:12 UTC]

/usr/bin/mpicc -pipe -march=native -fno-diagnostics-color -O2 -fPIC -I/usr/include/python3.9 -c _configtest.c -o _configtest.o
/usr/bin/mpicc -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -pipe -march=native -fno-diagnostics-color -O2 _configtest.o -L/var/tmp/portage/dev-python/mpi4py-3.0.3/work/mpi4py-3.0.3-python3_9/build/temp.linux-x86_64-3.9 -o _configtest
/usr/lib/gcc/x86_64-pc-linux-gnu/11.1.0/../../../../x86_64-pc-linux-gnu/bin/ld: /usr/lib64/libmpi.so: undefined reference to `MPIR_being_debugged'
/usr/lib/gcc/x86_64-pc-linux-gnu/11.1.0/../../../../x86_64-pc-linux-gnu/bin/ld: /usr/lib64/libmpi.so: undefined reference to `orte_data_server_uri'
collect2: error: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o

  -------------------------------------------------------------------

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_desktop_systemd-j3-20210610-203140

  -------------------------------------------------------------------

gcc-config -l:
 [1] x86_64-pc-linux-gnu-11.1.0 *
clang version 12.0.0
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/lib/llvm/12/bin
/usr/lib/llvm/12
12.0.0
Python 3.9.5
Available Ruby profiles:
  [1]   ruby26 (with Rubygems)
  [2]   ruby30 (with Rubygems) *
Available Rust versions:
  [1]   rust-bin-1.52.1 *
The following VMs are available for generation-2:
*)	AdoptOpenJDK 8.292_p10 [openjdk-bin-8]
Available Java Virtual Machines:
  [1]   openjdk-bin-8  system-vm

The Glorious Glasgow Haskell Compilation System, version 8.10.4
  [1]   php7.3 *
  [2]   php7.4
  [3]   php8.0
  HEAD of ::gentoo
commit f38155cff96ca9b599cd28a342297d339722e636
Author: Repository mirror & CI <[e-mail]>
Date:   Sat Jun 12 04:35:24 2021 +0000

    2021-06-12 04:35:24 UTC

emerge -qpvO dev-python/mpi4py
[ebuild  N    ] dev-python/mpi4py-3.0.3  USE="-doc -examples -test" PYTHON_TARGETS="python3_9 -python3_8"

[Comment 1 Toralf Förster 2021-06-12 08:34:13 UTC]

Created attachment 715431 [details]
emerge-info.txt

[Comment 2 Toralf Förster 2021-06-12 08:34:14 UTC]

Created attachment 715434 [details]
dev-python:mpi4py-3.0.3:20210612-062326.log

[Comment 3 Toralf Förster 2021-06-12 08:34:16 UTC]

Created attachment 715437 [details]
emerge-history.txt

[Comment 4 Toralf Förster 2021-06-12 08:34:17 UTC]

Created attachment 715440 [details]
environment

[Comment 5 Toralf Förster 2021-06-12 08:34:18 UTC]

Created attachment 715443 [details]
etc.portage.tar.bz2

[Comment 6 Toralf Förster 2021-06-12 08:34:20 UTC]

Created attachment 715446 [details]
temp.tar.bz2

[Comment 7 Agostino Sarubbo 2022-08-19 07:03:56 UTC]

tinderbox_musl has reproduced this issue with version 3.1.3 - Updating summary.

[Comment 8 Alex Fan 2022-09-05 01:55:12 UTC]

(In reply to Agostino Sarubbo from comment #7)
> tinderbox_musl has reproduced this issue with version 3.1.3 - Updating
> summary.

I am trying to investigate this. looks like the same issue of  https://bugs.gentoo.org/789960 Most likely not related to mpi4py