Package: src:pbseqlib Version: 5.3.5+dfsg-10 Severity: serious Tags: ftbfs forky sid
Dear maintainer: During a rebuild of all packages in unstable, this package failed to build. Below you will find the last part of the build log (probably the most relevant part, but not necessarily). If required, the full build log is available here: https://people.debian.org/~sanvila/build-logs/202510/ 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 cannot 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:pbseqlib, so that this is still visible in the BTS web page for this package. Thanks. -------------------------------------------------------------------------------- [...] debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<<PKGBUILDDIR>>' dh_auto_clean find -name defines.mk -delete rm -f pbdata/libconfig.h make[1]: Leaving directory '/<<PKGBUILDDIR>>' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 meson setup .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/x86_64-linux-gnu -Dpython.bytecompile=-1 The Meson build system Version: 1.9.1 Source dir: /<<PKGBUILDDIR>> Build dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu Build type: native build DEPRECATION: WrapDB v1 is deprecated, updated using `meson wrap update htslib` DEPRECATION: WrapDB v1 is deprecated, updated using `meson wrap update gtest` DEPRECATION: WrapDB v1 is deprecated, updated using `meson wrap update zlib` Project name: libblasr Project version: 5.3.5 C++ compiler for the host machine: c++ (gcc 15.2.0 "c++ (Debian 15.2.0-4) 15.2.0") C++ linker for the host machine: c++ ld.bfd 2.45 Host machine cpu family: x86_64 Host machine cpu: x86_64 Compiler for C++ supports arguments -Wno-delete-non-virtual-dtor: YES Compiler for C++ supports arguments -Wno-unused-variable: YES Compiler for C++ supports arguments -Wno-non-virtual-dtor: YES Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1 Run-time dependency Boost found: NO (tried system) ../meson.build:50:21: ERROR: Dependency "boost" not found, tried system A full log can be found at /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-logs/meson-log.txt cd obj-x86_64-linux-gnu && tail -v -n \+0 meson-logs/meson-log.txt ==> meson-logs/meson-log.txt <== Build started at 2025-10-05T15:09:31.575778 Main binary: /usr/bin/python3 Build Options: -Dpython.bytecompile=-1 -Dprefix=/usr -Dlibdir=lib/x86_64-linux-gnu -Dlocalstatedir=/var -Dsysconfdir=/etc -Dbuildtype=plain -Dwrap_mode=nodownload Python system: Linux The Meson build system Version: 1.9.1 Source dir: /<<PKGBUILDDIR>> Build dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu Build type: native build DEPRECATION: WrapDB v1 is deprecated, updated using `meson wrap update htslib` DEPRECATION: WrapDB v1 is deprecated, updated using `meson wrap update gtest` DEPRECATION: WrapDB v1 is deprecated, updated using `meson wrap update zlib` Project name: libblasr Project version: 5.3.5 ----------- Detecting compiler via: `c++ --version` -> 0 stdout: c++ (Debian 15.2.0-4) 15.2.0 Copyright (C) 2025 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. ----------- Running command: -cpp -x c++ -E -dM - ----- ----------- Detecting linker via: `c++ -Wl,--version -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -I/usr/include/hdf5/serial` -> 0 stdout: GNU ld (GNU Binutils for Debian) 2.45 Copyright (C) 2025 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) a later version. This program has absolutely no warranty. ----------- stderr: collect2 version 15.2.0 /usr/bin/ld -plugin /usr/libexec/gcc/x86_64-linux-gnu/15/lib [too-long-redacted] ./../../x86_64-linux-gnu/crtn.o ----------- Sanity testing C++ compiler: c++ Is cross compiler: False. Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -I/usr/include/hdf5/serial -D_FILE_OFFSET_BITS=64 -Wl,-z,relro -Wl,-z,now Sanity check compile stdout: ----- Sanity check compile stderr: ----- Running test binary command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/sanitycheckcpp.exe ----------- Sanity check: `/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/sanitycheckcpp.exe` -> 0 C++ compiler for the host machine: c++ (gcc 15.2.0 "c++ (Debian 15.2.0-4) 15.2.0") C++ linker for the host machine: c++ ld.bfd 2.45 ----------- Detecting archiver via: `gcc-ar --version` -> 0 stdout: GNU ar (GNU Binutils for Debian) 2.45 Copyright (C) 2025 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) any later version. This program has absolutely no warranty. ----------- ----------- Detecting compiler via: `c++ --version` -> 0 stdout: c++ (Debian 15.2.0-4) 15.2.0 Copyright (C) 2025 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. ----------- Running command: -cpp -x c++ -E -dM - ----- ----------- Detecting linker via: `c++ -Wl,--version -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -I/usr/include/hdf5/serial` -> 0 stdout: GNU ld (GNU Binutils for Debian) 2.45 Copyright (C) 2025 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) a later version. This program has absolutely no warranty. ----------- stderr: collect2 version 15.2.0 /usr/bin/ld -plugin /usr/libexec/gcc/x86_64-linux-gnu/15/lib [too-long-redacted] ./../../x86_64-linux-gnu/crtn.o ----------- Sanity testing C++ compiler: c++ Is cross compiler: False. Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -I/usr/include/hdf5/serial -D_FILE_OFFSET_BITS=64 -Wl,-z,relro -Wl,-z,now Sanity check compile stdout: ----- Sanity check compile stderr: ----- Running test binary command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/sanitycheckcpp.exe ----------- Sanity check: `/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/sanitycheckcpp.exe` -> 0 C++ compiler for the build machine: c++ (gcc 15.2.0 "c++ (Debian 15.2.0-4) 15.2.0") C++ linker for the build machine: c++ ld.bfd 2.45 ----------- Detecting archiver via: `gcc-ar --version` -> 0 stdout: GNU ar (GNU Binutils for Debian) 2.45 Copyright (C) 2025 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) any later version. This program has absolutely no warranty. ----------- Build machine cpu family: x86_64 Build machine cpu: x86_64 Host machine cpu family: x86_64 Host machine cpu: x86_64 Target machine cpu family: x86_64 Target machine cpu: x86_64 Running compile: Working directory: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmprjuz5313 Code: extern int i; int i; ----------- Command line: `c++ -I/usr/include/hdf5/serial /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmprjuz5313/testfile.cpp -o /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmprjuz5313/output.obj -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -D_FILE_OFFSET_BITS=64 -O0 -fpermissive -Wdelete-non-virtual-dtor -Wno-delete-non-virtual-dtor` -> 0 Compiler for C++ supports arguments -Wno-delete-non-virtual-dtor: YES Running compile: Working directory: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmpztf45m8b Code: extern int i; int i; ----------- Command line: `c++ -I/usr/include/hdf5/serial /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmpztf45m8b/testfile.cpp -o /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmpztf45m8b/output.obj -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -D_FILE_OFFSET_BITS=64 -O0 -fpermissive -Wunused-variable -Wno-unused-variable` -> 0 Compiler for C++ supports arguments -Wno-unused-variable: YES Running compile: Working directory: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmp1b0m2t40 Code: extern int i; int i; ----------- Command line: `c++ -I/usr/include/hdf5/serial /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmp1b0m2t40/testfile.cpp -o /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmp1b0m2t40/output.obj -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -D_FILE_OFFSET_BITS=64 -O0 -fpermissive -Wnon-virtual-dtor -Wno-non-virtual-dtor` -> 0 Compiler for C++ supports arguments -Wno-non-virtual-dtor: YES Pkg-config binary missing from cross or native file, or env var undefined. Trying a default Pkg-config fallback at pkg-config Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1 Determining dependency 'boost' with pkg-config executable '/usr/bin/pkg-config' env[PKG_CONFIG_PATH]: env[PKG_CONFIG]: /usr/bin/pkg-config ----------- Called: `/usr/bin/pkg-config --modversion boost` -> 1 stderr: Package boost was not found in the pkg-config search path. Perhaps you should add the directory containing `boost.pc' to the PKG_CONFIG_PATH environment variable Package 'boost', required by 'virtual:world', not found ----------- Checking potential boost root /usr/include/c++ Checking potential boost root /usr/include/x86_64-linux-gnu/c++ Checking potential boost root /usr/include/c++/15 Checking potential boost root /usr/lib/gcc/x86_64-linux-gnu/15 Checking potential boost root /usr/local Checking potential boost root /usr/include Running compile: Working directory: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmp80sec8v0 Code: ----------- Command line: `c++ -I/usr/include/hdf5/serial /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmp80sec8v0/testfile.cpp -o /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/meson-private/tmp80sec8v0/output.obj -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -D_FILE_OFFSET_BITS=64 -O0 -fpermissive --print-search-dirs` -> 0 stdout: install: /usr/lib/gcc/x86_64-linux-gnu/15/ programs: =/usr/libexec/gcc/x86_64-linux-gnu/15/:/usr/libexec/gcc/x86_64-linux-gnu/15/:/usr/libexec/gcc/x86_64-linux-gnu/:/usr/lib/gcc/x86_64-linux-gnu/15/:/usr/lib/gcc/x86_64-linux-gnu/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../x86_64-linux-gnu/bin/x86_64-linux-gnu/15/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../x86_64-linux-gnu/bin/x86_64-linux-gnu/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../x86_64-linux-gnu/bin/ libraries: =/usr/lib/gcc/x86_64-linux-gnu/15/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../x86_64-linux-gnu/lib/x86_64-linux-gnu/15/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../x86_64-linux-gnu/lib/x86_64-linux-gnu/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../x86_64-linux-gnu/lib/../lib/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/15/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib/:/lib/x86_64-linux-gnu/15/:/lib/x86_64-linux-gnu/:/lib/../lib/:/usr/lib/x86_64-linux-gnu/15/:/usr/lib/x86_64-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../../x86_64-linux-gnu/lib/:/usr/lib/gcc/x86_64-linux-gnu/15/../../../:/lib/:/usr/lib/ ----------- - potential library dirs: ['/usr/include/librtmp'] - potential include dirs: ['/usr/include'] Checking potential boost root /usr - potential library dirs: ['/usr/lib/gcc/x86_64-linux-gnu/15', '/usr/lib/x86_64-linux-gnu', '/usr/lib'] - potential include dirs: ['/usr/include'] Run-time dependency Boost found: NO (tried system) ../meson.build:50:21: ERROR: Dependency "boost" not found, tried system dh_auto_configure: error: cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 meson setup .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/x86_64-linux-gnu -Dpython.bytecompile=-1 returned exit code 1 make: *** [debian/rules:24: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 --------------------------------------------------------------------------------
