Your message dated Tue, 21 Oct 2025 08:34:17 +0000
with message-id <[email protected]>
and subject line Bug#1113092: fixed in lambda-align 1.0.3-8
has caused the Debian Bug report #1113092,
regarding lambda-align: 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.)
--
1113092: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1113092
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: lambda-align
Version: 1.0.3-6
Severity: serious
User: [email protected]
Usertags: cmake-4
Tags: ftbfs, forky, sid
Dear maintainer,
During a test rebuild for CMake 4, lambda-align failed to rebuild.
Log Summary:
-------------------------------------------------------------------------------
[...]
Testsuite: autopkgtest
Testsuite-Triggers: @builddeps@, coreutils, diffutils, gzip, openssl
Build-Depends: debhelper (>= 12~), libseqan2-dev, cmake, zlib1g-dev,
libbz2-dev, openssl
Package-List:
lambda-align deb science optional arch=any
Checksums-Sha1:
abf40a7204b2c249152a7e4275c6adb3628fe8cf 322730 lambda-align_1.0.3.orig.tar.gz
f7950e95ae15131b6a3ef5c0aac6a65e30b681de 8076
lambda-align_1.0.3-6.debian.tar.xz
Checksums-Sha256:
324f90dbc095c56792a77a002e64a98465a4853f74a141a1182e7a6f540545a2 322730
lambda-align_1.0.3.orig.tar.gz
273eb80db8d211a4962c9293da44c3c306f9285cac40bc16214792ac783c8aaf 8076
lambda-align_1.0.3-6.debian.tar.xz
Files:
b18d7c968b8c52851c8037dfc8066bce 322730 lambda-align_1.0.3.orig.tar.gz
c3059711cc55cec3d40ede08e067c36a 8076 lambda-align_1.0.3-6.debian.tar.xz
-----BEGIN PGP SIGNATURE-----
iQEzBAEBCgAdFiEEhFH5F4Fy5+Lcc/eVUfhKj+zKfgkFAl4+1N0ACgkQUfhKj+zK
fgn38wf/eQZYcur2B80xsxni8nDV4Gllx537JzWZrKZjljPw5jJ43NPo0q6eukyc
E1PSuSc7ZAsw9socn3OdAHODECCS2qaFxhUqTJHXnPsp2T8GnbW1Sxo6suhCA6+4
8xF//SRM3nETO+lSJbxHlWDlQ9Qm86D6nHsh7JvYkEfdA2bdnJBVxU/TcATSjVHs
e+3zbRN2E0aJfLQ6nN2TNyoe2cbeZ7kY5sDi+uuG77ln2E1FtPNdqTY7T2Ydn8en
m/LktqBcyeMs+UuWLYLdUt/gXFS21IpEm15JbRDcK6uoQCg1CctKyWVPuXuXYHwG
EvH+mavYPgSZDciQ/wysdXzHa9aWjA==
=pD29
-----END PGP SIGNATURE-----
dpkg-source: warning: cannot verify inline signature for
./lambda-align_1.0.3-6.dsc: no acceptable signature found
dpkg-source: info: extracting lambda-align in
/build/reproducible-path/lambda-align-1.0.3
dpkg-source: info: unpacking lambda-align_1.0.3.orig.tar.gz
dpkg-source: info: unpacking lambda-align_1.0.3-6.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying set-seqan-cmake-dir.patch
dpkg-source: info: applying force-link-rt-pthread.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
HOME=/sbuild-nonexistent
LANG=C.UTF-8
LC_ALL=C.UTF-8
LOGNAME=sbuild
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SHELL=/bin/sh
USER=sbuild
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage --sanitize-env -us -uc -b
dpkg-buildpackage: info: source package lambda-align
dpkg-buildpackage: info: source version 1.0.3-6
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Sascha Steinbiss <[email protected]>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
debian/rules clean
dh clean --builddirectory=build
debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/lambda-align-1.0.3'
rm -f *.1
dh_auto_clean --
make[1]: Leaving directory '/build/reproducible-path/lambda-align-1.0.3'
dh_autoreconf_clean -O--builddirectory=build
dh_clean -O--builddirectory=build
debian/rules binary
dh binary --builddirectory=build
dh_update_autotools_config -O--builddirectory=build
dh_autoreconf -O--builddirectory=build
debian/rules override_dh_auto_configure
make[1]: Entering directory '/build/reproducible-path/lambda-align-1.0.3'
dh_auto_configure -- -DLAMBDA_NATIVE_BUILD=OFF -DLAMBDA_MMAPPED_DB=ON
-DCMAKE_BUILD_TYPE=Release
cd build && DEB_PYTHON_INSTALL_LAYOUT=deb
PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr
-DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc
-DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
-DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF
-DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON
-DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix
Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON
-DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu -DLAMBDA_NATIVE_BUILD=OFF
-DLAMBDA_MMAPPED_DB=ON -DCMAKE_BUILD_TYPE=Release ..
CMake Error at CMakeLists.txt:5 (cmake_minimum_required):
Compatibility with CMake < 3.5 has been removed from CMake.
Update the VERSION argument <min> value. Or, use the <min>...<max> syntax
to tell CMake that the project requires at least <min> but has been updated
to work with policies introduced by <max> or earlier.
Or, add -DCMAKE_POLICY_VERSION_MINIMUM=3.5 to try configuring anyway.
-- Configuring incomplete, errors occurred!
cd build && tail -v -n \+0 CMakeCache.txt
==> CMakeCache.txt <==
# This is the CMakeCache file.
# For build in directory: /build/reproducible-path/lambda-align-1.0.3/build
# It was generated by CMake: /usr/bin/cmake
# You can edit this file to change values found and used by cmake.
# If you do not want to change any of the values, simply exit the editor.
# If you do want to change a value, simply edit, save, and exit the editor.
# The syntax for the file is as follows:
# KEY:TYPE=VALUE
# KEY is the name of a variable in the cache.
# TYPE is a hint to GUIs for the type of VALUE, DO NOT EDIT TYPE!.
# VALUE is the current value for the KEY.
########################
# EXTERNAL cache entries
########################
//No help, variable specified on the command line.
CMAKE_BUILD_TYPE:UNINITIALIZED=Release
//No help, variable specified on the command line.
CMAKE_EXPORT_NO_PACKAGE_REGISTRY:UNINITIALIZED=ON
//No help, variable specified on the command line.
CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY:UNINITIALIZED=ON
//Value Computed by CMake.
CMAKE_FIND_PACKAGE_REDIRECTS_DIR:STATIC=/build/reproducible-path/lambda-align-1.0.3/build/CMakeFiles/pkgRedirects
//No help, variable specified on the command line.
CMAKE_FIND_USE_PACKAGE_REGISTRY:UNINITIALIZED=OFF
//No help, variable specified on the command line.
CMAKE_INSTALL_LIBDIR:UNINITIALIZED=lib/aarch64-linux-gnu
//No help, variable specified on the command line.
CMAKE_INSTALL_LOCALSTATEDIR:UNINITIALIZED=/var
//No help, variable specified on the command line.
CMAKE_INSTALL_PREFIX:UNINITIALIZED=/usr
//No help, variable specified on the command line.
CMAKE_INSTALL_RUNSTATEDIR:UNINITIALIZED=/run
//No help, variable specified on the command line.
CMAKE_INSTALL_SYSCONFDIR:UNINITIALIZED=/etc
//No help, variable specified on the command line.
CMAKE_VERBOSE_MAKEFILE:UNINITIALIZED=ON
//No help, variable specified on the command line.
FETCHCONTENT_FULLY_DISCONNECTED:UNINITIALIZED=ON
//No help, variable specified on the command line.
LAMBDA_MMAPPED_DB:UNINITIALIZED=ON
//No help, variable specified on the command line.
LAMBDA_NATIVE_BUILD:UNINITIALIZED=OFF
########################
# INTERNAL cache entries
########################
//This is the directory where this CMakeCache.txt was created
CMAKE_CACHEFILE_DIR:INTERNAL=/build/reproducible-path/lambda-align-1.0.3/build
//Major version of cmake used to create the current loaded cache
CMAKE_CACHE_MAJOR_VERSION:INTERNAL=4
//Minor version of cmake used to create the current loaded cache
CMAKE_CACHE_MINOR_VERSION:INTERNAL=1
//Patch version of cmake used to create the current loaded cache
CMAKE_CACHE_PATCH_VERSION:INTERNAL=1
//Path to CMake executable.
CMAKE_COMMAND:INTERNAL=/usr/bin/cmake
//Path to cpack program executable.
CMAKE_CPACK_COMMAND:INTERNAL=/usr/bin/cpack
//Path to ctest program executable.
CMAKE_CTEST_COMMAND:INTERNAL=/usr/bin/ctest
//Name of external makefile project generator.
CMAKE_EXTRA_GENERATOR:INTERNAL=
//Name of generator.
CMAKE_GENERATOR:INTERNAL=Unix Makefiles
//Generator instance identifier.
CMAKE_GENERATOR_INSTANCE:INTERNAL=
//Name of generator platform.
CMAKE_GENERATOR_PLATFORM:INTERNAL=
//Name of generator toolset.
CMAKE_GENERATOR_TOOLSET:INTERNAL=
//Source directory with the top level CMakeLists.txt file for this
// project
CMAKE_HOME_DIRECTORY:INTERNAL=/build/reproducible-path/lambda-align-1.0.3
//Name of CMakeLists files to read
CMAKE_LIST_FILE_NAME:INTERNAL=CMakeLists.txt
//number of local generators
CMAKE_NUMBER_OF_MAKEFILES:INTERNAL=1
//Path to CMake installation.
CMAKE_ROOT:INTERNAL=/usr/share/cmake-4.1
dh_auto_configure: error: cd build && DEB_PYTHON_INSTALL_LAYOUT=deb
PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr
-DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc
-DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
-DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF
-DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON
-DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix
Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON
-DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu -DLAMBDA_NATIVE_BUILD=OFF
-DLAMBDA_MMAPPED_DB=ON -DCMAKE_BUILD_TYPE=Release .. returned exit code 1
make[1]: *** [debian/rules:28: override_dh_auto_configure] Error 2
make[1]: Leaving directory '/build/reproducible-path/lambda-align-1.0.3'
make: *** [debian/rules:7: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2025-08-30T03:06:37Z
-------------------------------------------------------------------------------
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/2398835/
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/153648/
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: lambda-align
Source-Version: 1.0.3-8
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
lambda-align, 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.
Andreas Tille <[email protected]> (supplier of updated lambda-align 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, 21 Oct 2025 09:39:59 +0200
Source: lambda-align
Architecture: source
Version: 1.0.3-8
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 1113092
Changes:
lambda-align (1.0.3-8) unstable; urgency=medium
.
* Team upload.
.
[ Michael R. Crusoe ]
* removing myself as an uploader
.
[ Enrico Seiler ]
* salsa ci: added
* d/rules: respect DEB_BUILD_OPTIONS for parallel test running.
.
[ Andreas Tille ]
* Fix build using CMake 4
Closes: #1113092
* d/watch: version=5
* Standards-Version: 4.7.2 (routine-update)
* debhelper-compat 13 (routine-update)
* debputy lint --auto-fix (routine-update)
Checksums-Sha1:
748b3f3862408df28f05bc85ed06914bf492eae2 2122 lambda-align_1.0.3-8.dsc
eb1568d0f92821f82f873041a5b0410747d77805 8648
lambda-align_1.0.3-8.debian.tar.xz
6414fad68c7d40c23db632bd2e1e788d705bfba9 6729
lambda-align_1.0.3-8_amd64.buildinfo
Checksums-Sha256:
2deb307a97fdf0df64858db8b470b785e00c5877ef84e32e3f28e2b47306d5a7 2122
lambda-align_1.0.3-8.dsc
19c895a9b1e31fa9bf0dd5d851f23450b80e39da78d879c853873e00889a2d81 8648
lambda-align_1.0.3-8.debian.tar.xz
c180170f6ca6ab21f25f22738c87ac24049f4af097618dc09c8a221b6b507271 6729
lambda-align_1.0.3-8_amd64.buildinfo
Files:
e09e3d2aeb9988b44ce898c22c234ed1 2122 science optional lambda-align_1.0.3-8.dsc
26e4b06ea7f6b38b474e6e34c9c3135b 8648 science optional
lambda-align_1.0.3-8.debian.tar.xz
a16f29c82e56bc6cead704e776638e4f 6729 science optional
lambda-align_1.0.3-8_amd64.buildinfo
-----BEGIN PGP SIGNATURE-----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=9I3H
-----END PGP SIGNATURE-----
pgpUPIsx8xu8s.pgp
Description: PGP signature
--- End Message ---
