Your message dated Mon, 13 Oct 2025 12:49:15 +0000
with message-id <[email protected]>
and subject line Bug#1112841: fixed in dials 3.25.0+dfsg3-3
has caused the Debian Bug report #1112841,
regarding dials: FTBFS with CMake 4
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.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)
--
1112841: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1112841
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: dials
Version: 3.22.1+dfsg3-1
Severity: serious
User: [email protected]
Usertags: cmake-4
Tags: ftbfs, forky, sid
Dear maintainer,
During a test rebuild for CMake 4, dials failed to rebuild.
Log Summary:
-------------------------------------------------------------------------------
[...]
Setting up libboost-thread-dev:arm64 (1.83.0.2+b2) ...
Setting up libpangocairo-1.0-0:arm64 (1.56.3-1) ...
Setting up python3-ptyprocess (0.7.0-6) ...
Setting up python3-mrcfile (1.5.4-2) ...
Setting up python3-prompt-toolkit (3.0.52-1) ...
Setting up dh-python (6.20250414) ...
Setting up libatk-bridge2.0-0t64:arm64 (2.57.1-1) ...
Setting up python3-more-itertools (10.7.0-1) ...
Setting up libfabric1:arm64 (2.1.0-1.1) ...
Setting up python3-iniconfig (1.1.1-2) ...
Setting up libinput10:arm64 (1.28.1-1) ...
Setting up python3-sympy (1.14.0-2) ...
Setting up python3-attr (25.3.0-1) ...
Setting up python3-tornado (6.4.2-3) ...
Setting up python3-gemmi (0.7.1+ds-1) ...
Setting up python3-pure-eval (0.2.3-1) ...
Setting up tk8.6-blt2.5 (2.5.3+dfsg-8) ...
Setting up libqt5dbus5t64:arm64 (5.15.15+dfsg-6) ...
Setting up libglx-mesa0:arm64 (25.2.1-2) ...
Setting up python3-scipy (1.15.3-1) ...
Setting up libpython3-dev:arm64 (3.13.7-1) ...
Setting up python3-cairo (1.27.0-2) ...
Setting up python3-jaraco.functools (4.1.0-1) ...
Setting up libglx0:arm64 (1.7.0-1+b2) ...
Setting up python3-jaraco.context (6.0.1-1) ...
Setting up libcurl4t64:arm64 (8.16.0~rc2-1) ...
Setting up python3-joblib (1.4.2-5) ...
Setting up python3-parso (0.8.4-1) ...
Setting up python3-lz4 (4.4.4+dfsg-1) ...
Setting up libpocl2t64:arm64 (6.0-6) ...
Setting up python3-asttokens (3.0.0-2) ...
Setting up python3-charset-normalizer (3.4.3-1) ...
Setting up python3.13-dev (3.13.7-1) ...
Setting up python3-pytest (8.4.1-1) ...
Setting up blt (2.5.3+dfsg-8) ...
Setting up python3-pandas-lib:arm64 (2.2.3+dfsg-9) ...
Setting up python3-tqdm (4.67.1-5) ...
Setting up python3-typeguard (4.4.4-1) ...
Setting up libqt5network5t64:arm64 (5.15.15+dfsg-6) ...
Setting up python3-threadpoolctl (3.1.0-1) ...
Setting up libcurl3t64-gnutls:arm64 (8.16.0~rc2-1) ...
Setting up python3-sklearn-lib:arm64 (1.4.2+dfsg-8) ...
Setting up python3-tabulate (0.9.0-1) ...
Setting up libqt5xml5t64:arm64 (5.15.15+dfsg-6) ...
Setting up python3-all (3.13.7-1) ...
Setting up python3-coverage (7.8.2+dfsg1-1) ...
Setting up python3-ordered-set (4.1.0-1) ...
Setting up python3-yaml (6.0.2-2) ...
Setting up python3-tk:arm64 (3.13.5-1) ...
Setting up debhelper (13.26) ...
Setting up python3-pytz (2025.2-3) ...
Setting up dconf-service (0.40.0-5) ...
Setting up fonts-urw-base35 (20200910-8) ...
Setting up libqt5test5t64:arm64 (5.15.15+dfsg-6) ...
Setting up python3-wheel (0.46.1-2) ...
Setting up python3-matplotlib-inline (0.1.7-1) ...
Setting up python3-comm (0.2.1-1) ...
Setting up python3-pil:arm64 (11.3.0-1) ...
Setting up python3-inflect (7.3.1-2) ...
Setting up libgl1:arm64 (1.7.0-1+b2) ...
Setting up python3-flexparser (0.4-1) ...
Setting up python3-pandas (2.2.3+dfsg-9) ...
Setting up pocl-opencl-icd:arm64 (6.0-6) ...
Setting up python3-pil.imagetk:arm64 (11.3.0-1) ...
Setting up python3-executing (2.2.0-0.3) ...
Setting up python3-rlpycairo (0.3.0-3) ...
Setting up libpython3-all-dev:arm64 (3.13.7-1) ...
Setting up python3-jaraco.text (4.0.0-1) ...
Setting up python3-pexpect (4.9-3) ...
Setting up libglut3.12:arm64 (3.4.0-4) ...
Setting up python3-zmq (26.4.0-1) ...
Setting up python3-dev (3.13.7-1) ...
Setting up python3-requests (2.32.4+dfsg-1) ...
Setting up libboost-python1.83-dev (1.83.0-4.2) ...
Setting up python3-sklearn (1.4.2+dfsg-8) ...
Setting up python3-numexpr (2.11.0-1) ...
Setting up python3-pytools (2025.1.2-1) ...
Setting up libglew2.2:arm64 (2.2.0-4+b2) ...
Setting up python3-reportlab (4.4.3-1) ...
Setting up libhdf5-310:arm64 (1.14.5+repack-3) ...
Setting up libhsa-runtime64-1:arm64 (6.1.2-3) ...
Setting up cmake (4.1.1-1) ...
Setting up python3-jupyter-client (8.6.3-2) ...
Setting up libwxbase3.2-1t64:arm64 (3.2.8+dfsg-2) ...
Setting up python3-dials-data (2.4.0-3) ...
Setting up python3-build (1.2.2-4) ...
Setting up python3-stack-data (0.6.3-1) ...
Setting up python3-pyopencl (2025.1-1) ...
Setting up python3-pkg-resources (78.1.1-0.1) ...
Setting up python3-all-dev (3.13.7-1) ...
Setting up libhdf5-hl-310:arm64 (1.14.5+repack-3) ...
Setting up libdebuginfod1t64:arm64 (0.192-4) ...
Setting up libcbf1t64:arm64 (0.9.7+dfsg1-5+b1) ...
Setting up python3-setuptools (78.1.1-0.1) ...
Setting up dconf-gsettings-backend:arm64 (0.40.0-5) ...
Setting up python3-jedi (0.19.1+ds1-1) ...
Setting up pybuild-plugin-pyproject (6.20250414) ...
Setting up libnetcdf22:arm64 (1:4.9.3-1+b1) ...
Setting up python3-h5py-serial (3.14.0-2) ...
Setting up python3-opengl (3.1.10+dfsg-1) ...
Setting up libboost-python-dev (1.83.0.2+b2) ...
Setting up python3-pint (0.25-1) ...
Setting up libqt5gui5t64:arm64 (5.15.15+dfsg-6) ...
Setting up gdb (16.3-4) ...
Setting up libamdhip64-5:arm64 (5.7.1-6) ...
Setting up python3-pooch (1.8.2-1) ...
Setting up python3-ipython (8.35.0-1) ...
Setting up python3-pycbf (0.9.7+dfsg1-5+b1) ...
Setting up python3-h5py (3.14.0-2) ...
Setting up python3-hdf5plugin (5.1.0-1) ...
Setting up python3-nxmx (0.0.4-1) ...
Setting up libgtk-3-common (3.24.50-2) ...
Setting up libcctbx0 (2024.10+ds2+~3.22.1+ds1-5) ...
Setting up libucx0:arm64 (1.18.1+ds-2+b1) ...
Setting up libqt5widgets5t64:arm64 (5.15.15+dfsg-6) ...
Setting up libqt5svg5:arm64 (5.15.15-2) ...
Setting up python3-debugpy (1.8.12+ds-1) ...
Setting up libqt5help5:arm64 (5.15.15-6) ...
Setting up libgtk-3-0t64:arm64 (3.24.50-2) ...
Setting up python3-ipykernel (6.30.1-1) ...
Setting up libqt5opengl5t64:arm64 (5.15.15+dfsg-6) ...
Setting up libwxgtk3.2-1t64:arm64 (3.2.8+dfsg-2) ...
Setting up libcctbx-dev (2024.10+ds2+~3.22.1+ds1-5) ...
Setting up libqt5printsupport5t64:arm64 (5.15.15+dfsg-6) ...
Setting up libopenmpi40:arm64 (5.0.8-4) ...
Setting up libwxgtk-gl3.2-1t64:arm64 (3.2.8+dfsg-2) ...
Setting up libqt5designer5:arm64 (5.15.15-6) ...
Setting up python3-wxgtk4.0 (4.2.3+dfsg-2) ...
Setting up libhdf5-openmpi-310:arm64 (1.14.5+repack-3) ...
Setting up python3-qtconsole (5.6.1-4) ...
Setting up python3-pyqt5 (5.15.11+dfsg-2) ...
Setting up python3-pyqt5.qtsvg (5.15.11+dfsg-2) ...
Setting up bitshuffle (0.5.2-1+b3) ...
Setting up python3-pyqt5.qtopengl (5.15.11+dfsg-2) ...
Setting up python3-pymol (3.1.0+dfsg-1+b1) ...
Setting up python3-fonttools (4.57.0-1) ...
Setting up python3-ufolib2 (0.17.1+dfsg1-1) ...
Setting up python3-matplotlib (3.10.1+dfsg1-4) ...
Setting up python3-fabio (2024.9.0-8) ...
Setting up python3-silx (2.2.1+dfsg-3) ...
Setting up python3-cctbx (2024.10+ds2+~3.22.1+ds1-5) ...
/usr/lib/python3/dist-packages/iotbx/pdb/utils.py:18: SyntaxWarning: invalid
escape sequence '\{'
[]_,.;:"&<>()/\{}'`~!@#$%*|+-
/usr/lib/python3/dist-packages/iotbx/pdb/utils.py:46: SyntaxWarning: invalid
escape sequence '\/'
special_characters = """[]_,.;:"&<>()\/\{}'`~!@#$%*|+-"""
/usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:724:
SyntaxWarning: invalid escape sequence '\o'
width=pairwise_differences_db, label='$\omega_{hkl}$'
/usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:739:
SyntaxWarning: invalid escape sequence '\o'
axes[0].set_ylabel('Distribution of $\omega_{hbk}$')
/usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:740:
SyntaxWarning: invalid escape sequence '\o'
axes[0].set_xlabel('Normalized PD ($\omega_{hbk}$)')
/usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:759:
SyntaxWarning: invalid escape sequence '\o'
axes[1].set_xlabel('Sorted Normalized PD ($\omega_{hbk}$)')
/usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:778:
SyntaxWarning: invalid escape sequence '\s'
axes[2].set_ylabel('Standard Deviation of $I_{hbk}/\sigma_{hbk}$')
/usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:807:
SyntaxWarning: invalid escape sequence '\m'
axes_sadd.set_ylabel('$s_{\mathrm{fac}}^2 \\times s_{\mathrm{add}}^2$')
Setting up python3-pyfai (2025.03-1) ...
Processing triggers for debianutils (5.23.2) ...
Processing triggers for libc-bin (2.41-12) ...
Processing triggers for systemd (258~rc3-1) ...
Processing triggers for sgml-base (1.31+nmu1) ...
Setting up w3c-sgml-lib (1.3-3) ...
Setting up python3-biopython (1.85+dfsg-4) ...
Setting up sbuild-build-depends-main-dummy (0.invalid.0) ...
Processing triggers for ca-certificates (20250419) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Check architectures Fri, 29 Aug 2025 16:51:34 +0000 |
+------------------------------------------------------------------------------+
E: dsc: arm64 not in arch list or does not match any arch wildcards: amd64 --
skipping
+------------------------------------------------------------------------------+
| Cleanup Fri, 29 Aug 2025 16:51:35 +0000 |
+------------------------------------------------------------------------------+
Purging /build/reproducible-path
Not cleaning session: cloned chroot in use
E: dsc: arm64 not in arch list or does not match any arch wildcards: amd64 --
skipping
+------------------------------------------------------------------------------+
| Summary Fri, 29 Aug 2025 16:51:39 +0000 |
+------------------------------------------------------------------------------+
Build Architecture: arm64
Build Type: binary
Build-Space: n/a
Build-Time: 0
Distribution: sid
Fail-Stage: arch-check
Host Architecture: arm64
Install-Time: 254
Job: /tmp/debusine-fetch-exec-upload-83wclll8/dials_3.22.1+dfsg3-1.dsc
Machine Architecture: arm64
Package: dials
Package-Time: 0
Source-Version: 3.22.1+dfsg3-1
Space: n/a
Status: skipped
Version: 3.22.1+dfsg3-1
--------------------------------------------------------------------------------
Finished at 2025-08-29T16:46:45Z
Build needed 00:00:00, no disk space
-------------------------------------------------------------------------------
The above is just how the build ends and not necessarily the most relevant part.
If required, the full build log is available here (for the next 30 days):
https://debusine.debian.net/artifact/2391122/
The most likely cause of build failures is the removed backwards compatibility
for
CMake versions earlier than 3.5. You can find additional information in my
debian-devel announcement:
https://lists.debian.org/debian-devel/2025/04/msg00310.html
About the archive rebuild: The build was made on debusine.debian.net,
using sbuild.
You can find the build task here:
https://debusine.debian.net/work-request/152697/
If this is really a bug in one of the build-depends, please use
reassign and affects, so that this is still visible in the BTS web
page for this package.
Thanks,
Timo
--- End Message ---
--- Begin Message ---
Source: dials
Source-Version: 3.25.0+dfsg3-3
Done: Santiago Vila <[email protected]>
We believe that the bug you reported is fixed in the latest version of
dials, 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.
Santiago Vila <[email protected]> (supplier of updated dials 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: Mon, 13 Oct 2025 14:25:00 +0200
Source: dials
Architecture: source
Version: 3.25.0+dfsg3-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers
<[email protected]>
Changed-By: Santiago Vila <[email protected]>
Closes: 1112841 1116728
Changes:
dials (3.25.0+dfsg3-3) unstable; urgency=medium
.
* Team upload.
* Fix build with CMake 4. Closes: #1112841.
* d/control: Drop <!nocheck> from python3-cctbx. Closes: #1116728.
* d/control: Drop "Rules-Requires-Root: no" (default).
* d/control: Update standards-version.
* d/salsa-ci.yml: Use the standard simplified version.
* d/salsa-ci.yml: Disable building on i386.
* d/salsa-ci.yml: Allow blhc to fail.
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11188dd24cac04a9f39de3a2128df971f03f0207 13616
dials_3.25.0+dfsg3-3.debian.tar.xz
acc7c594dc28aac0042733c849bcccd710b980ad 8745
dials_3.25.0+dfsg3-3_source.buildinfo
Checksums-Sha256:
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dials_3.25.0+dfsg3-3.dsc
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dials_3.25.0+dfsg3-3.debian.tar.xz
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dials_3.25.0+dfsg3-3_source.buildinfo
Files:
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1d28f3e08d6891de507549b414cb3ff8 13616 science optional
dials_3.25.0+dfsg3-3.debian.tar.xz
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dials_3.25.0+dfsg3-3_source.buildinfo
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--- End Message ---
