Your message dated Tue, 28 Oct 2025 10:36:29 +0000
with message-id <[email protected]>
and subject line Bug#1078861: fixed in numpy 1:2.3.4+ds-1
has caused the Debian Bug report #1078861,
regarding python3-numpy: f2py does not link object files correctly when
building extension modules
to be marked as done.
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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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--
1078861: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1078861
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: python3-numpy
Version: 1:1.26.4+ds-11
Severity: normal
X-Debbugs-Cc: [email protected]
Dear Maintainer,
I use f2py to use fortran subroutines from python scripts. With meson backend
I am having problems, when I link object files to create extension modules.
I report the following simplified example.
I have two files:
provamod.f90
subroutine pp(x,y)
implicit none
double precision x,y
y=sin(x)
end subroutine
and
provasub.f90
subroutine func(x,f)
!f2py intent(in) x
!f2py intent(out) f
implicit none
double precision x,f
call pp(x,f)
end subroutine
The compilation is the following
gfortran -c provamod.f90 <enter>
ls provamod* <enter>
provamod.f90 provamod.o
f2py -c -m prova provasub.f90 provamod.o <enter>
Cannot use distutils backend with Python>=3.12, using meson backend instead.
Using meson backend
Will pass --lower to f2py
See https://numpy.org/doc/stable/f2py/buildtools/meson.html
Reading fortran codes...
Reading file 'provasub.f90' (format:free)
Post-processing...
Block: prova
Block: func
Applying post-processing hooks...
character_backward_compatibility_hook
Post-processing (stage 2)...
Building modules...
Building module "prova"...
Generating possibly empty wrappers"
Maybe empty "prova-f2pywrappers.f"
Constructing wrapper function "func"...
f = func(x)
Wrote C/API module "prova" to file "./provamodule.c"
The Meson build system
Version: 1.5.1
Source dir: /tmp/tmpumsqkcku
Build dir: /tmp/tmpumsqkcku/bbdir
Build type: native build
Project name: prova
Project version: 0.1
Fortran compiler for the host machine: gfortran (gcc 13.3.0 "GNU Fortran
(Debian 13.3.0-3) 13.3.0")
Fortran linker for the host machine: gfortran ld.bfd 2.43
C compiler for the host machine: cc (gcc 13.3.0 "cc (Debian 13.3.0-3) 13.3.0")
C linker for the host machine: cc ld.bfd 2.43
Host machine cpu family: x86_64
Host machine cpu: x86_64
Program /usr/bin/python3 found: YES (/usr/bin/python3)
Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1
Run-time dependency python found: YES 3.12
Library quadmath found: YES
Build targets in project: 1
Found ninja-1.12.1 at /usr/bin/ninja
INFO: autodetecting backend as ninja
INFO: calculating backend command to run: /usr/bin/ninja -C
/tmp/tmpumsqkcku/bbdir
ninja: Entering directory `/tmp/tmpumsqkcku/bbdir'
[6/6] Linking target prova.cpython-312-x86_64-linux-gnu.so
ls prova* <enter>
prova.cpython-312-x86_64-linux-gnu.so provamod.o provasub.f90
provamod.f90
Now I start python and I get:
python3 <enter>
Python 3.12.4 (main, Jul 15 2024, 12:17:32) [GCC 13.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>>
>>> import prova
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError:
/home/stefano/Downloads/prova/prova.cpython-312-x86_64-linux-gnu.so: undefined
symbol: pp_
>>>
It looks like the object file was not loaded.
I get the same thing if I indicate the path of the object file
f2py -c -m prova provasub.f90 $(pwd)/provamod.o
Cannot use distutils backend with Python>=3.12, using meson backend instead.
Using meson backend
Will pass --lower to f2py
See https://numpy.org/doc/stable/f2py/buildtools/meson.html
Reading fortran codes...
Reading file 'provasub.f90' (format:free)
Post-processing...
Block: prova
Block: func
Applying post-processing hooks...
character_backward_compatibility_hook
Post-processing (stage 2)...
Building modules...
Building module "prova"...
Generating possibly empty wrappers"
Maybe empty "prova-f2pywrappers.f"
Constructing wrapper function "func"...
f = func(x)
Wrote C/API module "prova" to file "./provamodule.c"
The Meson build system
Version: 1.5.1
Source dir: /tmp/tmp3jiab8oq
Build dir: /tmp/tmp3jiab8oq/bbdir
Build type: native build
Project name: prova
Project version: 0.1
Fortran compiler for the host machine: gfortran (gcc 13.3.0 "GNU Fortran
(Debian 13.3.0-3) 13.3.0")
Fortran linker for the host machine: gfortran ld.bfd 2.43
C compiler for the host machine: cc (gcc 13.3.0 "cc (Debian 13.3.0-3) 13.3.0")
C linker for the host machine: cc ld.bfd 2.43
Host machine cpu family: x86_64
Host machine cpu: x86_64
Program /usr/bin/python3 found: YES (/usr/bin/python3)
Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1
Run-time dependency python found: YES 3.12
Library quadmath found: YES
Build targets in project: 1
Found ninja-1.12.1 at /usr/bin/ninja
INFO: autodetecting backend as ninja
INFO: calculating backend command to run: /usr/bin/ninja -C
/tmp/tmp3jiab8oq/bbdir
ninja: Entering directory `/tmp/tmp2jiab8oq/bbdir'
[6/6] Linking target prova.cpython-312-x86_64-linux-gnu.so
python3
Python 3.12.4 (main, Jul 15 2024, 12:17:32) [GCC 13.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import prova
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError:
/home/stefano/Downloads/prova/prova.cpython-312-x86_64-linux-gnu.so: undefined
symbol: pp_
>>>
Only the complete compilation works:
f2py -c -m prova provasub.f90 provamod.f90
Cannot use distutils backend with Python>=3.12, using meson backend instead.
Using meson backend
Will pass --lower to f2py
See https://numpy.org/doc/stable/f2py/buildtools/meson.html
Reading fortran codes...
Reading file 'provasub.f90' (format:free)
Reading file 'provamod.f90' (format:free)
Post-processing...
Block: prova
Block: func
Block: pp
Applying post-processing hooks...
character_backward_compatibility_hook
Post-processing (stage 2)...
Building modules...
Building module "prova"...
Generating possibly empty wrappers"
Maybe empty "prova-f2pywrappers.f"
Constructing wrapper function "func"...
f = func(x)
Generating possibly empty wrappers"
Maybe empty "prova-f2pywrappers.f"
Constructing wrapper function "pp"...
pp(x,y)
Wrote C/API module "prova" to file "./provamodule.c"
The Meson build system
Version: 1.5.1
Source dir: /tmp/tmpr_f2k6hu
Build dir: /tmp/tmpr_f2k6hu/bbdir
Build type: native build
Project name: prova
Project version: 0.1
Fortran compiler for the host machine: gfortran (gcc 13.3.0 "GNU Fortran
(Debian 13.3.0-3) 13.3.0")
Fortran linker for the host machine: gfortran ld.bfd 2.43
C compiler for the host machine: cc (gcc 13.3.0 "cc (Debian 13.3.0-3) 13.3.0")
C linker for the host machine: cc ld.bfd 2.43
Host machine cpu family: x86_64
Host machine cpu: x86_64
Program /usr/bin/python3 found: YES (/usr/bin/python3)
Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1
Run-time dependency python found: YES 3.12
Library quadmath found: YES
Build targets in project: 1
Found ninja-1.12.1 at /usr/bin/ninja
INFO: autodetecting backend as ninja
INFO: calculating backend command to run: /usr/bin/ninja -C
/tmp/tmpr_f2k6hu/bbdir
ninja: Entering directory `/tmp/tmpr_f2k6hu/bbdir'
[7/7] Linking target prova.cpython-312-x86_64-linux-gnu.so
python3
Python 3.12.4 (main, Jul 15 2024, 12:17:32) [GCC 13.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import prova
>>>
I have never encountered this difficulty before (with distutils). I also tried
to transform the object into provamod.a library and then link it also
indicating -L$(pwd) but it doesn't work.
Thank you in advance
Stefano
-- System Information:
Debian Release: trixie/sid
APT prefers stable-updates
APT policy: (500, 'stable-updates'), (500, 'stable-security'), (500,
'testing'), (500, 'stable')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 6.9.12-amd64 (SMP w/8 CPU threads; PREEMPT)
Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE,
TAINT_UNSIGNED_MODULE
Locale: LANG=it_IT.UTF-8, LC_CTYPE=it_IT.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages python3-numpy depends on:
ii libatlas3-base [liblapack.so.3] 3.10.3-14
ii libblas3 [libblas.so.3] 3.12.0-3
ii libc6 2.39-6
ii libgcc-s1 14-20240330-1
ii liblapack3 [liblapack.so.3] 3.12.0-3
ii libopenblas0-pthread [liblapack.so.3] 0.3.27+ds-2
ii python3 3.12.4-1
ii python3-pkg-resources 70.3.0-2
python3-numpy recommends no packages.
Versions of packages python3-numpy suggests:
ii gcc 4:13.2.0-7
ii gfortran 4:13.2.0-7
pn python-numpy-doc <none>
ii python3-dev 3.12.4-1
pn python3-pytest <none>
-- no debconf information
--- End Message ---
--- Begin Message ---
Source: numpy
Source-Version: 1:2.3.4+ds-1
Done: Timo Röhling <[email protected]>
We believe that the bug you reported is fixed in the latest version of
numpy, 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.
Timo Röhling <[email protected]> (supplier of updated numpy 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: SHA512
Format: 1.8
Date: Tue, 28 Oct 2025 10:40:01 +0100
Source: numpy
Architecture: source
Version: 1:2.3.4+ds-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Python Team <[email protected]>
Changed-By: Timo Röhling <[email protected]>
Closes: 1078861
Changes:
numpy (1:2.3.4+ds-1) unstable; urgency=medium
.
* New upstream version 2.3.4+ds
* Disable version warning banner in offline documentation
* Migrate debian/watch to version 5 format
* Refresh patches (no functional changes)
* Fix f2py object file handling regression with meson backend
(Closes: #1078861)
* Build-Depend on python3-pytz instead of deprecated python3-tz
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