[Debian-med-packaging] Bug#1095338: diamond-aligner: FTBFS: collect2: fatal error: cannot find 'ld'
Santiago Vila
sanvila at debian.org
Fri Feb 7 12:11:20 GMT 2025
Package: src:diamond-aligner
Version: 2.1.9-1
Severity: serious
Tags: ftbfs trixie sid
Dear maintainer:
During a rebuild of all packages in unstable, your package failed to build:
--------------------------------------------------------------------------------
[...]
debian/rules clean
dh clean
dh_clean
debian/rules binary
dh binary
dh_update_autotools_config
dh_autoreconf
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_configure -- -DCMAKE_BUILD_TYPE=Release
cd obj-x86_64-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/x86_64-linux-gnu -DCMAKE_BUILD_TYPE=Release ..
CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 3.10 will be removed from a future version of
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.
-- The C compiler identification is GNU 14.2.0
-- The CXX compiler identification is GNU 14.2.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - failed
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc - broken
CMake Error at /usr/share/cmake-3.31/Modules/CMakeTestCCompiler.cmake:67 (message):
The C compiler
"/usr/bin/cc"
is not able to compile a simple test program.
It fails with the following output:
Change Dir: '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeScratch/TryCompile-PvCHcV'
Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile cmTC_5569c/fast
gmake[2]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeScratch/TryCompile-PvCHcV'
/usr/bin/gmake -f CMakeFiles/cmTC_5569c.dir/build.make CMakeFiles/cmTC_5569c.dir/build
gmake[3]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeScratch/TryCompile-PvCHcV'
Building C object CMakeFiles/cmTC_5569c.dir/testCCompiler.c.o
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/cmTC_5569c.dir/testCCompiler.c.o -c /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeScratch/TryCompile-PvCHcV/testCCompiler.c
Linking C executable cmTC_5569c
/usr/bin/cmake -E cmake_link_script CMakeFiles/cmTC_5569c.dir/link.txt --verbose=1
collect2: fatal error: cannot find ‘ld’
compilation terminated.
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fuse-ld=gold -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/cmTC_5569c.dir/testCCompiler.c.o -o cmTC_5569c
gmake[3]: *** [CMakeFiles/cmTC_5569c.dir/build.make:102: cmTC_5569c] Error 1
gmake[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeScratch/TryCompile-PvCHcV'
gmake[2]: *** [Makefile:134: cmTC_5569c/fast] Error 2
gmake[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeScratch/TryCompile-PvCHcV'
CMake will not be able to correctly generate this project.
Call Stack (most recent call first):
CMakeLists.txt:2 (project)
-- Configuring incomplete, errors occurred!
cd obj-x86_64-linux-gnu && tail -v -n \+0 CMakeCache.txt
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dh_auto_configure: error: cd obj-x86_64-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/x86_64-linux-gnu -DCMAKE_BUILD_TYPE=Release .. returned exit code 1
make[1]: *** [debian/rules:26: override_dh_auto_configure] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:23: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------
The above is just how the build ends and not necessarily the most relevant part.
If required, the full build log is available here:
https://people.debian.org/~sanvila/build-logs/202502/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you could not reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:diamond-aligner, so that this is still
visible in the BTS web page for this package.
Thanks.
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