Your message dated Fri, 03 Feb 2023 11:21:31 +0000
with message-id <[email protected]>
and subject line Bug#1030142: fixed in scipy 1.10.0-3
has caused the Debian Bug report #1030142,
regarding scipy: Has reverted to using bundled copy of L-BFGS-B library
to be marked as done.
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If this is not the case it is now your responsibility to reopen the
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1030142: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1030142
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: scipy
Version: 1.10.0-2
Severity: normal
Tags: patch
X-Debbugs-Cc: [email protected]
Dear Maintainer,
Ever since #778635, the SciPy package has carried a patch that makes it
use the system LBFGSB library provided by liblbfgsb0 instead of the
bundled copy that upstream uses. It seems that this patch no longer does
the trick with SciPy's move to building with Meson, as has become
evident with 1.10.0-2 entering unstable:
* python3-scipy no longer depends on liblbfgsb0
*
/usr/lib/python3/dist-packages/scipy/optimize/_lbfgsb.cpython-311-x86_64-linux-gnu.so
has no reference to liblbfgsb.so.0
Attached is an updated patch, to replace the old one with the same name,
that seems to rectify the situation. I have tested that it restores
linking with liblbfgsb.so.0, and that no tests fail.
Best,
Gard
From: Gard Spreemann <[email protected]>
Date: Sun, 29 Jan 2023 19:55:15 +0100
Subject: Use system LBFGSB.
---
scipy/optimize/meson.build | 5 +----
scipy/optimize/setup.py | 4 +++-
2 files changed, 4 insertions(+), 5 deletions(-)
diff --git a/scipy/optimize/meson.build b/scipy/optimize/meson.build
index c7079e7..78a006f 100644
--- a/scipy/optimize/meson.build
+++ b/scipy/optimize/meson.build
@@ -100,15 +100,12 @@ lbfgsb_module = custom_target('lbfgsb_module',
_lbfgsb = py3.extension_module('_lbfgsb',
[
- 'lbfgsb_src/lbfgsb.f',
- 'lbfgsb_src/linpack.f',
- 'lbfgsb_src/timer.f',
lbfgsb_module,
],
c_args: numpy_nodepr_api,
fortran_args: fortran_ignore_warnings,
include_directories: [inc_np, inc_f2py],
- link_args: version_link_args,
+ link_args: version_link_args + ['-llbfgsb'],
dependencies: [lapack, fortranobject_dep],
install: true,
link_language: 'fortran',
diff --git a/scipy/optimize/setup.py b/scipy/optimize/setup.py
index c24ef50..1dabc2b 100644
--- a/scipy/optimize/setup.py
+++ b/scipy/optimize/setup.py
@@ -64,8 +64,10 @@ def configuration(parent_package='', top_path=None):
pre_build_hook = None
lapack = combine_dict(lapack, numpy_nodepr_api)
+ lapack.setdefault('libraries', [])
+ lapack['libraries'].append('lbfgsb')
- sources = ['lbfgsb.pyf', 'lbfgsb.f', 'linpack.f', 'timer.f']
+ sources = ['lbfgsb.pyf']
ext = config.add_extension('_lbfgsb',
sources=[join('lbfgsb_src', x)
for x in sources],
signature.asc
Description: PGP signature
--- End Message ---
--- Begin Message ---
Source: scipy
Source-Version: 1.10.0-3
Done: Drew Parsons <[email protected]>
We believe that the bug you reported is fixed in the latest version of
scipy, 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.
Drew Parsons <[email protected]> (supplier of updated scipy 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: Fri, 03 Feb 2023 10:48:29 +0100
Source: scipy
Architecture: source
Version: 1.10.0-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Python Team <[email protected]>
Changed-By: Drew Parsons <[email protected]>
Closes: 1030142
Changes:
scipy (1.10.0-3) unstable; urgency=medium
.
* Team upload.
* drop scipy/_lib/boost/ from debian/copyright
(no longer provided in upstream source)
* skip build-time tests
- hurd-i386: test_mip1
- ia64: test_maxiter_worsening[lgmres]
- x32: test_input_validation
* update skips in debian/tests:
- i386: skip test_simple_overdet_complex with blis
- armhf: skip test_rosenbrock_with_no_exception
* update debian patch Use-system-LBFGSB.patch for the new meson build
Closes: #1030142.
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