Your message dated Sun, 19 Oct 2025 15:43:51 +0000
with message-id <[email protected]>
and subject line Bug#1113273: fixed in megadepth 1.2.0-5
has caused the Debian Bug report #1113273,
regarding megadepth: 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.)
--
1113273: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1113273
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: megadepth
Version: 1.2.0-4
Severity: serious
User: [email protected]
Usertags: cmake-4
Tags: ftbfs, forky, sid
Dear maintainer,
During a test rebuild for CMake 4, megadepth failed to rebuild.
Log Summary:
-------------------------------------------------------------------------------
[...]
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kL4A0nHrMc8=
=aG9X
-----END PGP SIGNATURE-----
dpkg-source: warning: cannot verify inline signature for
./megadepth_1.2.0-4.dsc: no acceptable signature found
dpkg-source: info: extracting megadepth in
/build/reproducible-path/megadepth-1.2.0
dpkg-source: info: unpacking megadepth_1.2.0.orig.tar.gz
dpkg-source: info: unpacking megadepth_1.2.0-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying addCurlLibrary.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 megadepth
dpkg-buildpackage: info: source version 1.2.0-4
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Mohammed Bilal <[email protected]>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
debian/rules clean
if [ ! -r CMakeLists.txt ]; then ln -s CMakeLists.txt.ci CMakeLists.txt; fi
#if [ ! -d htslib ]; then mkdir -p htslib; ln -s /usr/lib/`dpkg-architecture
-qDEB_BUILD_MULTIARCH`/libhts.a htslib/; fi
#if [ ! -d libBigWig ]; then mkdir -p libBigWig; ln -s
/usr/lib/`dpkg-architecture -qDEB_BUILD_MULTIARCH`/libBigWig.a libBigWig/; fi
#if [ ! -d libdeflate ]; then mkdir -p libdeflate; ln -s
/usr/lib/`dpkg-architecture -qDEB_BUILD_MULTIARCH`/libdeflate.a libdeflate/; fi
#if [ ! -d zlib ]; then mkdir -p zlib; ln -s /usr/lib/`dpkg-architecture
-qDEB_BUILD_MULTIARCH`/libz.a zlib/; fi
dh clean
debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/megadepth-1.2.0'
dh_auto_clean
if [ -d zlib_ci ]; then rmdir zlib_ci; fi
if [ -d libBigWig_ci ]; then rmdir libBigWig_ci; fi
if [ -d libdeflate_ci ]; then rmdir libdeflate_ci; fi
if [ -d htslib_ci ]; then rmdir htslib_ci; fi
rm -rf htslib libbigwig libBigWig libdeflate libz zlib
rm CMakeLists.txt
make[1]: Leaving directory '/build/reproducible-path/megadepth-1.2.0'
dh_clean
debian/rules binary
if [ ! -r CMakeLists.txt ]; then ln -s CMakeLists.txt.ci CMakeLists.txt; fi
#if [ ! -d htslib ]; then mkdir -p htslib; ln -s /usr/lib/`dpkg-architecture
-qDEB_BUILD_MULTIARCH`/libhts.a htslib/; fi
#if [ ! -d libBigWig ]; then mkdir -p libBigWig; ln -s
/usr/lib/`dpkg-architecture -qDEB_BUILD_MULTIARCH`/libBigWig.a libBigWig/; fi
#if [ ! -d libdeflate ]; then mkdir -p libdeflate; ln -s
/usr/lib/`dpkg-architecture -qDEB_BUILD_MULTIARCH`/libdeflate.a libdeflate/; fi
#if [ ! -d zlib ]; then mkdir -p zlib; ln -s /usr/lib/`dpkg-architecture
-qDEB_BUILD_MULTIARCH`/libz.a zlib/; fi
dh binary
dh_update_autotools_config
dh_autoreconf
dh_auto_configure
cd obj-aarch64-linux-gnu && 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
-DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles"
-DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu ..
CMake Error at CMakeLists.txt:1 (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 obj-aarch64-linux-gnu && tail -v -n \+0 CMakeCache.txt
==> CMakeCache.txt <==
# This is the CMakeCache file.
# For build in directory:
/build/reproducible-path/megadepth-1.2.0/obj-aarch64-linux-gnu
# 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=None
//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/megadepth-1.2.0/obj-aarch64-linux-gnu/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_SKIP_INSTALL_ALL_DEPENDENCY:UNINITIALIZED=ON
//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
########################
# INTERNAL cache entries
########################
//This is the directory where this CMakeCache.txt was created
CMAKE_CACHEFILE_DIR:INTERNAL=/build/reproducible-path/megadepth-1.2.0/obj-aarch64-linux-gnu
//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/megadepth-1.2.0
//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 obj-aarch64-linux-gnu &&
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
-DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles"
-DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu ..
returned exit code 1
make: *** [debian/rules:23: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2025-08-30T07:06:48Z
-------------------------------------------------------------------------------
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/2403989/
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/154094/
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: megadepth
Source-Version: 1.2.0-5
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
megadepth, 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 megadepth 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: Sun, 19 Oct 2025 10:44:24 +0200
Source: megadepth
Architecture: source
Version: 1.2.0-5
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 1113273
Changes:
megadepth (1.2.0-5) unstable; urgency=medium
.
* Team upload.
* Fix build with CMake 4
Closes: #1113273
* d/rules: remove some comments that look outdated
* d/watch: version=5
* Standards-Version: 4.7.2 (routine-update)
* Remove trailing whitespace in debian/changelog (routine-update)
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b6f9c90a166316145efb38cd76afb1a0b68b4b18 8263 megadepth_1.2.0-5_amd64.buildinfo
Checksums-Sha256:
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Files:
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23ced47ca7a85e9394b12f418e589f9f 8636 science optional
megadepth_1.2.0-5.debian.tar.xz
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megadepth_1.2.0-5_amd64.buildinfo
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