Package: src:macromoleculebuilder Version: 4.0.0+dfsg-5 Severity: serious Tags: ftbfs forky sid
Dear maintainer: During a rebuild of all packages in unstable, your package failed to build. Below you will find how the build ends (probably the most relevant part, but not necessarily). If required, the full build log is available here: https://people.debian.org/~sanvila/build-logs/202509/ 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:macromoleculebuilder, so that this is still visible in the BTS web page for this package. Thanks. -------------------------------------------------------------------------------- [...] 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 \ -DENABLE_LEPTON=OFF \ -DGEMMI_DIR=/usr \ -DOpenMM_INCLUDE_DIR=/usr/include \ [... snipped ...] CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL:STRING= //Flags used by the linker during the creation of static libraries // during RELEASE builds. CMAKE_STATIC_LINKER_FLAGS_RELEASE:STRING= //Flags used by the linker during the creation of static libraries // during RELWITHDEBINFO builds. CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO:STRING= //Path to a program. CMAKE_STRIP:FILEPATH=/usr/bin/strip //Path to a program. CMAKE_TAPI:FILEPATH=CMAKE_TAPI-NOTFOUND //If this value is on, makefiles will be generated without the // .SILENT directive, and all commands will be echoed to the console // during the make. This is useful for debugging only. With Visual // Studio IDE projects all commands are done without /nologo. CMAKE_VERBOSE_MAKEFILE:BOOL=ON //Enable SimTK Lepton math parser. Lepton library bundled with // OpenMM will be used if this option is enabled ENABLE_LEPTON:BOOL=OFF //Enable NtC code ENABLE_NTC:BOOL=ON //No help, variable specified on the command line. FETCHCONTENT_FULLY_DISCONNECTED:UNINITIALIZED=ON //Path to where Gemmi library is installed. This needs to be set // only when Gemmi is not installed system wide. GEMMI_DIR:STRING=/usr //Value Computed by CMake MMB_BINARY_DIR:STATIC=/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu //Value Computed by CMake MMB_IS_TOP_LEVEL:STATIC=ON //Value Computed by CMake MMB_SOURCE_DIR:STATIC=/<<PKGBUILDDIR>> //The directory containing a CMake configuration file for Molmodel. Molmodel_DIR:PATH=/usr/lib/x86_64-linux-gnu/cmake/molmodel //Location of OpenMM debug library OpenMM_DEBUG_LIBRARY:FILEPATH=OpenMM_DEBUG_LIBRARY-NOTFOUND //Location of OpenMM include files OpenMM_INCLUDE_DIR:PATH=/usr/include //OpenMM Link Libraries OpenMM_LIBRARIES:STRING=/usr/lib/x86_64-linux-gnu/libOpenMM.so //Location of OpenMM shared library OpenMM_LIBRARY:FILEPATH=/usr/lib/x86_64-linux-gnu/libOpenMM.so //Location of OpenMM static library OpenMM_STATIC_LIBRARY:FILEPATH=OpenMM_STATIC_LIBRARY-NOTFOUND //Path to where SeqAn library is installed. This needs to be set // only when SeqAn is not installed system wide. SEQAN_DIR:STRING= //No help, variable specified on the command line. SimTKmolmodel:UNINITIALIZED=/usr //The directory containing a CMake configuration file for Simbody. Simbody_DIR:PATH=/usr/lib/x86_64-linux-gnu/cmake/simbody //Path to a file. ZLIB_INCLUDE_DIR:PATH=/usr/include //Path to a library. ZLIB_LIBRARY_DEBUG:FILEPATH=ZLIB_LIBRARY_DEBUG-NOTFOUND //Path to a library. ZLIB_LIBRARY_RELEASE:FILEPATH=/usr/lib/x86_64-linux-gnu/libz.so ######################## # INTERNAL cache entries ######################## //ADVANCED property for variable: CMAKE_ADDR2LINE CMAKE_ADDR2LINE-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_AR CMAKE_AR-ADVANCED:INTERNAL=1 //This is the directory where this CMakeCache.txt was created CMAKE_CACHEFILE_DIR:INTERNAL=/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu //Major version of cmake used to create the current loaded cache CMAKE_CACHE_MAJOR_VERSION:INTERNAL=3 //Minor version of cmake used to create the current loaded cache CMAKE_CACHE_MINOR_VERSION:INTERNAL=31 //Patch version of cmake used to create the current loaded cache CMAKE_CACHE_PATCH_VERSION:INTERNAL=6 //ADVANCED property for variable: CMAKE_COLOR_MAKEFILE CMAKE_COLOR_MAKEFILE-ADVANCED: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 //ADVANCED property for variable: CMAKE_CXX_COMPILER CMAKE_CXX_COMPILER-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_CXX_COMPILER_AR CMAKE_CXX_COMPILER_AR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_CXX_COMPILER_RANLIB CMAKE_CXX_COMPILER_RANLIB-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_CXX_FLAGS CMAKE_CXX_FLAGS-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_CXX_FLAGS_DEBUG CMAKE_CXX_FLAGS_DEBUG-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_CXX_FLAGS_MINSIZEREL CMAKE_CXX_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_CXX_FLAGS_RELEASE CMAKE_CXX_FLAGS_RELEASE-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_CXX_FLAGS_RELWITHDEBINFO CMAKE_CXX_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_DLLTOOL CMAKE_DLLTOOL-ADVANCED:INTERNAL=1 //Executable file format CMAKE_EXECUTABLE_FORMAT:INTERNAL=ELF //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS CMAKE_EXE_LINKER_FLAGS-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_DEBUG CMAKE_EXE_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_MINSIZEREL CMAKE_EXE_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_RELEASE CMAKE_EXE_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_EXPORT_COMPILE_COMMANDS CMAKE_EXPORT_COMPILE_COMMANDS-ADVANCED:INTERNAL=1 //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=/<<PKGBUILDDIR>> //ADVANCED property for variable: CMAKE_INSTALL_BINDIR CMAKE_INSTALL_BINDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_DATADIR CMAKE_INSTALL_DATADIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_DATAROOTDIR CMAKE_INSTALL_DATAROOTDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_DOCDIR CMAKE_INSTALL_DOCDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_INCLUDEDIR CMAKE_INSTALL_INCLUDEDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_INFODIR CMAKE_INSTALL_INFODIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LIBDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_LIBEXECDIR CMAKE_INSTALL_LIBEXECDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_LOCALEDIR CMAKE_INSTALL_LOCALEDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_LOCALSTATEDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_MANDIR CMAKE_INSTALL_MANDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_OLDINCLUDEDIR CMAKE_INSTALL_OLDINCLUDEDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_RUNSTATEDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_SBINDIR CMAKE_INSTALL_SBINDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_SHAREDSTATEDIR CMAKE_INSTALL_SHAREDSTATEDIR-ADVANCED:INTERNAL=1 //Install .so files without execute permission. CMAKE_INSTALL_SO_NO_EXE:INTERNAL=1 //ADVANCED property for variable: CMAKE_INSTALL_SYSCONFDIR CMAKE_INSTALL_SYSCONFDIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_LINKER CMAKE_LINKER-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_MAKE_PROGRAM CMAKE_MAKE_PROGRAM-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS CMAKE_MODULE_LINKER_FLAGS-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_DEBUG CMAKE_MODULE_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL CMAKE_MODULE_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_RELEASE CMAKE_MODULE_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO CMAKE_MODULE_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_NM CMAKE_NM-ADVANCED:INTERNAL=1 //number of local generators CMAKE_NUMBER_OF_MAKEFILES:INTERNAL=1 //ADVANCED property for variable: CMAKE_OBJCOPY CMAKE_OBJCOPY-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_OBJDUMP CMAKE_OBJDUMP-ADVANCED:INTERNAL=1 //Platform information initialized CMAKE_PLATFORM_INFO_INITIALIZED:INTERNAL=1 //ADVANCED property for variable: CMAKE_RANLIB CMAKE_RANLIB-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_READELF CMAKE_READELF-ADVANCED:INTERNAL=1 //Path to CMake installation. CMAKE_ROOT:INTERNAL=/usr/share/cmake-3.31 //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS CMAKE_SHARED_LINKER_FLAGS-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_DEBUG CMAKE_SHARED_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_RELEASE CMAKE_SHARED_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_SKIP_INSTALL_RPATH CMAKE_SKIP_INSTALL_RPATH-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_SKIP_RPATH CMAKE_SKIP_RPATH-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS CMAKE_STATIC_LINKER_FLAGS-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_DEBUG CMAKE_STATIC_LINKER_FLAGS_DEBUG-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL CMAKE_STATIC_LINKER_FLAGS_MINSIZEREL-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_RELEASE CMAKE_STATIC_LINKER_FLAGS_RELEASE-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO CMAKE_STATIC_LINKER_FLAGS_RELWITHDEBINFO-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_STRIP CMAKE_STRIP-ADVANCED:INTERNAL=1 //ADVANCED property for variable: CMAKE_TAPI CMAKE_TAPI-ADVANCED:INTERNAL=1 //uname command CMAKE_UNAME:INTERNAL=/usr/bin/uname //ADVANCED property for variable: CMAKE_VERBOSE_MAKEFILE CMAKE_VERBOSE_MAKEFILE-ADVANCED:INTERNAL=1 //Details about finding OpenMM FIND_PACKAGE_MESSAGE_DETAILS_OpenMM:INTERNAL=[/usr/include][/usr/lib/x86_64-linux-gnu/libOpenMM.so][v()] //Details about finding ZLIB FIND_PACKAGE_MESSAGE_DETAILS_ZLIB:INTERNAL=[/usr/lib/x86_64-linux-gnu/libz.so][/usr/include][c ][v1.3.1()] //ADVANCED property for variable: OpenMM_DEBUG_LIBRARY OpenMM_DEBUG_LIBRARY-ADVANCED:INTERNAL=1 //ADVANCED property for variable: OpenMM_INCLUDE_DIR OpenMM_INCLUDE_DIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: OpenMM_LIBRARIES OpenMM_LIBRARIES-ADVANCED:INTERNAL=1 //ADVANCED property for variable: OpenMM_LIBRARY OpenMM_LIBRARY-ADVANCED:INTERNAL=1 //ADVANCED property for variable: OpenMM_STATIC_LIBRARY OpenMM_STATIC_LIBRARY-ADVANCED:INTERNAL=1 //ADVANCED property for variable: ZLIB_INCLUDE_DIR ZLIB_INCLUDE_DIR-ADVANCED:INTERNAL=1 //ADVANCED property for variable: ZLIB_LIBRARY_DEBUG ZLIB_LIBRARY_DEBUG-ADVANCED:INTERNAL=1 //ADVANCED property for variable: ZLIB_LIBRARY_RELEASE ZLIB_LIBRARY_RELEASE-ADVANCED:INTERNAL=1 //linker supports push/pop state _CMAKE_CXX_LINKER_PUSHPOP_STATE_SUPPORTED:INTERNAL=TRUE //linker supports push/pop state _CMAKE_LINKER_PUSHPOP_STATE_SUPPORTED:INTERNAL=TRUE //CMAKE_INSTALL_PREFIX during last run _GNUInstallDirs_LAST_CMAKE_INSTALL_PREFIX:INTERNAL=/usr 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 -DENABLE_LEPTON=OFF -DGEMMI_DIR=/usr -DOpenMM_INCLUDE_DIR=/usr/include -DSimTKmolmodel=/usr "-DCMAKE_CXX_FLAGS=-D BuildNtC -D USE_OPENMM -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O0" .. returned exit code 1 make[1]: *** [debian/rules:12: override_dh_auto_configure] Error 2 make[1]: Leaving directory '/<<PKGBUILDDIR>>' make: *** [debian/rules:9: binary] Error 2 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 --------------------------------------------------------------------------------

