DC-Build-Header: vt 0.57721+ds-3 / 2021-10-26 21:50:49 +0000 DC-Task: type:rebuild-binarch-only source:vt version:0.57721+ds-3 chroot:unstable esttime:271 logfile:/tmp/vt_0.57721+ds-3_unstable_clang13.log modes:clang13:binarch-only DC-Sbuild-call: su user42 -c 'sbuild -n --arch-any --apt-update -d unstable -v --no-run-lintian --chroot-setup-commands=/tmp/clang13 vt_0.57721+ds-3' sbuild (Debian sbuild) 0.78.1 (09 February 2019) on ip-172-31-3-182.eu-central-1.compute.internal +==============================================================================+ | vt 0.57721+ds-3 (amd64) Tue, 26 Oct 2021 21:50:49 +0000 | +==============================================================================+ Package: vt Version: 0.57721+ds-3 Source Version: 0.57721+ds-3 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-fd3f32f5-d565-4ff4-a374-5dccb073a081' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /tmp/clang13 ------------ + echo 'Entering customization script...' Entering customization script... + CLANG_VERSION=13 + echo 'Install of clang-13' Install of clang-13 + apt-get update Get:1 http://127.0.0.1:12990/debian sid InRelease [165 kB] Get:2 http://127.0.0.1:12990/debian sid/main Sources.diff/Index [63.6 kB] Get:3 http://127.0.0.1:12990/debian sid/main amd64 Packages.diff/Index [63.6 kB] Get:4 http://127.0.0.1:12990/debian sid/main Sources T-2021-10-26-2004.40-F-2021-10-26-0202.15.pdiff [47.3 kB] Get:4 http://127.0.0.1:12990/debian sid/main Sources T-2021-10-26-2004.40-F-2021-10-26-0202.15.pdiff [47.3 kB] Get:5 http://127.0.0.1:12990/debian sid/main amd64 Packages T-2021-10-26-2004.40-F-2021-10-26-0202.15.pdiff [55.9 kB] Get:5 http://127.0.0.1:12990/debian sid/main amd64 Packages T-2021-10-26-2004.40-F-2021-10-26-0202.15.pdiff [55.9 kB] Get:6 http://127.0.0.1:12990/debian sid/main Translation-en [6586 kB] Fetched 6981 kB in 3s (2756 kB/s) Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-13 libomp-13-dev libobjc-9-dev Reading package lists... Building dependency tree... The following additional packages will be installed: lib32gcc-s1 lib32stdc++6 libasan5 libbsd0 libc6-i386 libclang-common-13-dev libclang-cpp13 libclang1-13 libedit2 libgc1 libgcc-9-dev libicu67 libllvm13 libmd0 libobjc-11-dev libobjc4 libomp5-13 libxml2 libz3-4 Suggested packages: clang-13-doc libomp-13-doc Recommended packages: llvm-13-dev python3 The following NEW packages will be installed: clang-13 lib32gcc-s1 lib32stdc++6 libasan5 libbsd0 libc6-i386 libclang-common-13-dev libclang-cpp13 libclang1-13 libedit2 libgc1 libgcc-9-dev libicu67 libllvm13 libmd0 libobjc-11-dev libobjc-9-dev libobjc4 libomp-13-dev libomp5-13 libxml2 libz3-4 0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded. Need to get 68.5 MB of archives. After this operation, 379 MB of additional disk space will be used. Get:1 http://127.0.0.1:12990/debian sid/main amd64 libmd0 amd64 1.0.4-1 [29.6 kB] Get:2 http://127.0.0.1:12990/debian sid/main amd64 libbsd0 amd64 0.11.3-1 [108 kB] Get:3 http://127.0.0.1:12990/debian sid/main amd64 libedit2 amd64 3.1-20210910-1 [97.5 kB] Get:4 http://127.0.0.1:12990/debian sid/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get:5 http://127.0.0.1:12990/debian sid/main amd64 libxml2 amd64 2.9.12+dfsg-5 [696 kB] Get:6 http://127.0.0.1:12990/debian sid/main amd64 libz3-4 amd64 4.8.12-1+b1 [6997 kB] Get:7 http://127.0.0.1:12990/debian sid/main amd64 libllvm13 amd64 1:13.0.0-8 [19.7 MB] Get:8 http://127.0.0.1:12990/debian sid/main amd64 libclang-cpp13 amd64 1:13.0.0-8 [10.5 MB] Get:9 http://127.0.0.1:12990/debian sid/main amd64 libgc1 amd64 1:8.0.4-3 [239 kB] Get:10 http://127.0.0.1:12990/debian sid/main amd64 libobjc4 amd64 11.2.0-10 [43.2 kB] Get:11 http://127.0.0.1:12990/debian sid/main amd64 libobjc-11-dev amd64 11.2.0-10 [170 kB] Get:12 http://127.0.0.1:12990/debian sid/main amd64 libc6-i386 amd64 2.32-4 [2624 kB] Get:13 http://127.0.0.1:12990/debian sid/main amd64 lib32gcc-s1 amd64 11.2.0-10 [49.9 kB] Get:14 http://127.0.0.1:12990/debian sid/main amd64 lib32stdc++6 amd64 11.2.0-10 [601 kB] Get:15 http://127.0.0.1:12990/debian sid/main amd64 libclang-common-13-dev amd64 1:13.0.0-8 [5730 kB] Get:16 http://127.0.0.1:12990/debian sid/main amd64 libclang1-13 amd64 1:13.0.0-8 [6093 kB] Get:17 http://127.0.0.1:12990/debian sid/main amd64 clang-13 amd64 1:13.0.0-8 [119 kB] Get:18 http://127.0.0.1:12990/debian sid/main amd64 libasan5 amd64 9.4.0-3 [2734 kB] Get:19 http://127.0.0.1:12990/debian sid/main amd64 libgcc-9-dev amd64 9.4.0-3 [2343 kB] Get:20 http://127.0.0.1:12990/debian sid/main amd64 libobjc-9-dev amd64 9.4.0-3 [219 kB] Get:21 http://127.0.0.1:12990/debian sid/main amd64 libomp5-13 amd64 1:13.0.0-8 [377 kB] Get:22 http://127.0.0.1:12990/debian sid/main amd64 libomp-13-dev amd64 1:13.0.0-8 [482 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 68.5 MB in 0s (147 MB/s) Selecting previously unselected package libmd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12431 files and directories currently installed.) Preparing to unpack .../00-libmd0_1.0.4-1_amd64.deb ... Unpacking libmd0:amd64 (1.0.4-1) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../01-libbsd0_0.11.3-1_amd64.deb ... Unpacking libbsd0:amd64 (0.11.3-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../02-libedit2_3.1-20210910-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20210910-1) ... Selecting previously unselected package libicu67:amd64. Preparing to unpack .../03-libicu67_67.1-7_amd64.deb ... Unpacking libicu67:amd64 (67.1-7) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../04-libxml2_2.9.12+dfsg-5_amd64.deb ... Unpacking libxml2:amd64 (2.9.12+dfsg-5) ... Selecting previously unselected package libz3-4:amd64. Preparing to unpack .../05-libz3-4_4.8.12-1+b1_amd64.deb ... Unpacking libz3-4:amd64 (4.8.12-1+b1) ... Selecting previously unselected package libllvm13:amd64. Preparing to unpack .../06-libllvm13_1%3a13.0.0-8_amd64.deb ... Unpacking libllvm13:amd64 (1:13.0.0-8) ... Selecting previously unselected package libclang-cpp13. Preparing to unpack .../07-libclang-cpp13_1%3a13.0.0-8_amd64.deb ... Unpacking libclang-cpp13 (1:13.0.0-8) ... Selecting previously unselected package libgc1:amd64. Preparing to unpack .../08-libgc1_1%3a8.0.4-3_amd64.deb ... Unpacking libgc1:amd64 (1:8.0.4-3) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../09-libobjc4_11.2.0-10_amd64.deb ... Unpacking libobjc4:amd64 (11.2.0-10) ... Selecting previously unselected package libobjc-11-dev:amd64. Preparing to unpack .../10-libobjc-11-dev_11.2.0-10_amd64.deb ... Unpacking libobjc-11-dev:amd64 (11.2.0-10) ... Selecting previously unselected package libc6-i386. Preparing to unpack .../11-libc6-i386_2.32-4_amd64.deb ... Unpacking libc6-i386 (2.32-4) ... Selecting previously unselected package lib32gcc-s1. Preparing to unpack .../12-lib32gcc-s1_11.2.0-10_amd64.deb ... Unpacking lib32gcc-s1 (11.2.0-10) ... Selecting previously unselected package lib32stdc++6. Preparing to unpack .../13-lib32stdc++6_11.2.0-10_amd64.deb ... Unpacking lib32stdc++6 (11.2.0-10) ... Selecting previously unselected package libclang-common-13-dev. Preparing to unpack .../14-libclang-common-13-dev_1%3a13.0.0-8_amd64.deb ... Unpacking libclang-common-13-dev (1:13.0.0-8) ... Selecting previously unselected package libclang1-13. Preparing to unpack .../15-libclang1-13_1%3a13.0.0-8_amd64.deb ... Unpacking libclang1-13 (1:13.0.0-8) ... Selecting previously unselected package clang-13. Preparing to unpack .../16-clang-13_1%3a13.0.0-8_amd64.deb ... Unpacking clang-13 (1:13.0.0-8) ... Selecting previously unselected package libasan5:amd64. Preparing to unpack .../17-libasan5_9.4.0-3_amd64.deb ... Unpacking libasan5:amd64 (9.4.0-3) ... Selecting previously unselected package libgcc-9-dev:amd64. Preparing to unpack .../18-libgcc-9-dev_9.4.0-3_amd64.deb ... Unpacking libgcc-9-dev:amd64 (9.4.0-3) ... Selecting previously unselected package libobjc-9-dev:amd64. Preparing to unpack .../19-libobjc-9-dev_9.4.0-3_amd64.deb ... Unpacking libobjc-9-dev:amd64 (9.4.0-3) ... Selecting previously unselected package libomp5-13:amd64. Preparing to unpack .../20-libomp5-13_1%3a13.0.0-8_amd64.deb ... Unpacking libomp5-13:amd64 (1:13.0.0-8) ... Selecting previously unselected package libomp-13-dev. Preparing to unpack .../21-libomp-13-dev_1%3a13.0.0-8_amd64.deb ... Unpacking libomp-13-dev (1:13.0.0-8) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libasan5:amd64 (9.4.0-3) ... Setting up libz3-4:amd64 (4.8.12-1+b1) ... Setting up libgc1:amd64 (1:8.0.4-3) ... Setting up libmd0:amd64 (1.0.4-1) ... Setting up libc6-i386 (2.32-4) ... Setting up libomp5-13:amd64 (1:13.0.0-8) ... Setting up libbsd0:amd64 (0.11.3-1) ... Setting up libxml2:amd64 (2.9.12+dfsg-5) ... Setting up libedit2:amd64 (3.1-20210910-1) ... Setting up libobjc4:amd64 (11.2.0-10) ... Setting up libgcc-9-dev:amd64 (9.4.0-3) ... Setting up lib32gcc-s1 (11.2.0-10) ... Setting up lib32stdc++6 (11.2.0-10) ... Setting up libllvm13:amd64 (1:13.0.0-8) ... Setting up libobjc-9-dev:amd64 (9.4.0-3) ... Setting up libclang-common-13-dev (1:13.0.0-8) ... Setting up libomp-13-dev (1:13.0.0-8) ... Setting up libobjc-11-dev:amd64 (11.2.0-10) ... Setting up libclang1-13 (1:13.0.0-8) ... Setting up libclang-cpp13 (1:13.0.0-8) ... Setting up clang-13 (1:13.0.0-8) ... Processing triggers for libc-bin (2.32-4) ... W: --force-yes is deprecated, use one of the options starting with --allow instead. + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSIONS='4.6 4.7 4.8 4.9 5 6 7 8 9 10 11' + cd /usr/bin + for VERSION in $VERSIONS + rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc + ln -s clang++-13 g++-4.6 + ln -s clang-13 gcc-4.6 + ln -s clang-13 cpp-4.6 + ln -s clang-13 gcc + echo 'gcc-4.6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.7 gcc-4.7 cpp-4.7 gcc + ln -s clang++-13 g++-4.7 + ln -s clang-13 gcc-4.7 + ln -s clang-13 cpp-4.7 + ln -s clang-13 gcc + echo 'gcc-4.7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.8 gcc-4.8 cpp-4.8 gcc + ln -s clang++-13 g++-4.8 + ln -s clang-13 gcc-4.8 + ln -s clang-13 cpp-4.8 + ln -s clang-13 gcc + echo 'gcc-4.8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.9 gcc-4.9 cpp-4.9 gcc + ln -s clang++-13 g++-4.9 + ln -s clang-13 gcc-4.9 + ln -s clang-13 cpp-4.9 + ln -s clang-13 gcc + echo 'gcc-4.9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-5 gcc-5 cpp-5 gcc + ln -s clang++-13 g++-5 + ln -s clang-13 gcc-5 + ln -s clang-13 cpp-5 + ln -s clang-13 gcc + echo 'gcc-5 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-5 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-5 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-5 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-6 gcc-6 cpp-6 gcc + ln -s clang++-13 g++-6 + ln -s clang-13 gcc-6 + ln -s clang-13 cpp-6 + ln -s clang-13 gcc + echo 'gcc-6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-7 gcc-7 cpp-7 gcc + ln -s clang++-13 g++-7 + ln -s clang-13 gcc-7 + ln -s clang-13 cpp-7 + ln -s clang-13 gcc + echo 'gcc-7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-8 gcc-8 cpp-8 gcc + ln -s clang++-13 g++-8 + ln -s clang-13 gcc-8 + ln -s clang-13 cpp-8 + ln -s clang-13 gcc + echo 'gcc-8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-9 gcc-9 cpp-9 gcc + ln -s clang++-13 g++-9 + ln -s clang-13 gcc-9 + ln -s clang-13 cpp-9 + ln -s clang-13 gcc + echo 'gcc-9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-10 gcc-10 cpp-10 gcc + ln -s clang++-13 g++-10 + ln -s clang-13 gcc-10 + ln -s clang-13 cpp-10 + ln -s clang-13 gcc + echo 'gcc-10 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-10 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-10 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-10 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-11 gcc-11 cpp-11 gcc + ln -s clang++-13 g++-11 + ln -s clang-13 gcc-11 + ln -s clang-13 cpp-11 + ln -s clang-13 gcc + echo 'gcc-11 hold' + dpkg --set-selections + echo 'g++-11 hold' + dpkg --set-selections + cd - /build/vt-xku7oO + echo 'Check if gcc, g++ & cpp are actually clang' Check if gcc, g++ & cpp are actually clang + gcc --version + grep clang + cpp --version + grep clang + g++ --version + grep clang + cd /usr/bin/ + rm -f clang++ clang + ln -s clang-13 clang++ + ln -s clang-13 clang + clang++ --version Debian clang version 13.0.0-8 Target: x86_64-pc-linux-gnu Thread model: posix InstalledDir: /usr/bin + clang --version Debian clang version 13.0.0-8 Target: x86_64-pc-linux-gnu Thread model: posix InstalledDir: /usr/bin + cd - /build/vt-xku7oO + apt install --yes --no-install-recommends --force-yes qt5-qmake WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: qt5-qmake-bin qtchooser The following NEW packages will be installed: qt5-qmake qt5-qmake-bin qtchooser 0 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 1322 kB of archives. After this operation, 4914 kB of additional disk space will be used. Get:1 http://127.0.0.1:12990/debian sid/main amd64 qt5-qmake-bin amd64 5.15.2+dfsg-12 [1046 kB] Get:2 http://127.0.0.1:12990/debian sid/main amd64 qtchooser amd64 66-2 [26.3 kB] Get:3 http://127.0.0.1:12990/debian sid/main amd64 qt5-qmake amd64 5.15.2+dfsg-12 [249 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 1322 kB in 0s (58.0 MB/s) Selecting previously unselected package qt5-qmake-bin. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 13528 files and directories currently installed.) Preparing to unpack .../qt5-qmake-bin_5.15.2+dfsg-12_amd64.deb ... Unpacking qt5-qmake-bin (5.15.2+dfsg-12) ... Selecting previously unselected package qtchooser. Preparing to unpack .../qtchooser_66-2_amd64.deb ... Unpacking qtchooser (66-2) ... Selecting previously unselected package qt5-qmake:amd64. Preparing to unpack .../qt5-qmake_5.15.2+dfsg-12_amd64.deb ... Unpacking qt5-qmake:amd64 (5.15.2+dfsg-12) ... Setting up qt5-qmake-bin (5.15.2+dfsg-12) ... Setting up qtchooser (66-2) ... Setting up qt5-qmake:amd64 (5.15.2+dfsg-12) ... W: --force-yes is deprecated, use one of the options starting with --allow instead. + cp /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-clang/qmake.conf /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-clang/qplatformdefs.h /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++/ + ls -al /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++/ total 16 drwxr-xr-x 2 root root 4096 Oct 26 21:51 . drwxr-xr-x 76 root root 4096 Oct 26 21:51 .. -rw-r--r-- 1 root root 276 Oct 26 21:51 qmake.conf -rw-r--r-- 1 root root 3218 Oct 26 21:51 qplatformdefs.h + cat /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++/qmake.conf # # qmake configuration for linux-clang # MAKEFILE_GENERATOR = UNIX CONFIG += incremental QMAKE_INCREMENTAL_STYLE = sublib include(../common/linux.conf) include(../common/gcc-base-unix.conf) include(../common/clang.conf) QMAKE_LFLAGS += -ccc-gcc-name g++ load(qt_config) + export QMAKESPEC=/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-clang/ + QMAKESPEC=/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-clang/ + sed -i -e 's|compare_problem(2,|compare_problem(0,|g' /usr/bin/dpkg-gensymbols + sed -i -e 's|compare_problem(1,|compare_problem(0,|g' /usr/bin/dpkg-gensymbols + grep 'compare_problem(' /usr/bin/dpkg-gensymbols compare_problem(4, g_('new libraries appeared in the symbols file: %s'), "@libs"); compare_problem(3, g_('some libraries disappeared in the symbols file: %s'), "@libs"); compare_problem(0, g_('some new symbols appeared in the symbols file: %s'), compare_problem(0, g_('some symbols or patterns disappeared in the symbols file: %s'), I: Finished running '/tmp/clang13'. Finished processing commands. -------------------------------------------------------------------------------- I: NOTICE: Log filtering will replace 'build/vt-xku7oO/resolver-sI3P9K' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://127.0.0.1:12990/debian sid InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'vt' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vt.git Please use: git clone https://salsa.debian.org/med-team/vt.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 18.6 MB of source archives. Get:1 http://127.0.0.1:12990/debian sid/main vt 0.57721+ds-3 (dsc) [2162 B] Get:2 http://127.0.0.1:12990/debian sid/main vt 0.57721+ds-3 (tar) [18.6 MB] Get:3 http://127.0.0.1:12990/debian sid/main vt 0.57721+ds-3 (diff) [8092 B] Fetched 18.6 MB in 0s (138 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/vt-xku7oO/vt-0.57721+ds' with '<>' I: NOTICE: Log filtering will replace 'build/vt-xku7oO' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbz2-dev, liblzma-dev, libcurl4-gnutls-dev, libssl-dev, libdeflate-dev, libhts-dev, libpcre2-dev, libsvm-dev, libtclap-dev, r-mathlib, r-base-core, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbz2-dev, liblzma-dev, libcurl4-gnutls-dev, libssl-dev, libdeflate-dev, libhts-dev, libpcre2-dev, libsvm-dev, libtclap-dev, r-mathlib, r-base-core, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [440 B] Get:5 copy:/<>/apt_archive ./ Packages [522 B] Fetched 1919 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils ca-certificates debhelper dh-autoreconf dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base groff-base intltool-debian libarchive-zip-perl libblas3 libbrotli1 libbz2-dev libcairo2 libcurl3-gnutls libcurl4 libcurl4-gnutls-dev libdatrie1 libdebhelper-perl libdeflate-dev libdeflate0 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libhts-dev libhts3 libhtscodecs2 libice6 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix2 libpipeline1 libpixman-1-0 libpng16-16 libpsl5 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libssh2-1 libssl-dev libsub-override-perl libsvm-dev libsvm3 libtcl8.6 libtclap-dev libthai-data libthai0 libtiff5 libtk8.6 libtool libuchardet0 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6 m4 man-db openssl po-debconf r-base-core r-mathlib readline-common sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libcurl4-doc libgnutls28-dev libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config liblzma-doc libssl-doc tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl elpa-ess r-doc-info | r-doc-pdf r-base-html readline-doc Recommended packages: curl | wget | lynx bzip2-doc libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl r-recommended r-base-dev r-doc-html libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils ca-certificates debhelper dh-autoreconf dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base groff-base intltool-debian libarchive-zip-perl libblas3 libbrotli1 libbz2-dev libcairo2 libcurl3-gnutls libcurl4 libcurl4-gnutls-dev libdatrie1 libdebhelper-perl libdeflate-dev libdeflate0 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libhts-dev libhts3 libhtscodecs2 libice6 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix2 libpipeline1 libpixman-1-0 libpng16-16 libpsl5 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libssh2-1 libssl-dev libsub-override-perl libsvm-dev libsvm3 libtcl8.6 libtclap-dev libthai-data libthai0 libtiff5 libtk8.6 libtool libuchardet0 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6 m4 man-db openssl po-debconf r-base-core r-mathlib readline-common sbuild-build-depends-main-dummy sensible-utils ucf unzip x11-common xdg-utils zip zlib1g-dev 0 upgraded, 112 newly installed, 0 to remove and 0 not upgraded. Need to get 72.7 MB of archives. After this operation, 165 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [952 B] Get:2 http://127.0.0.1:12990/debian sid/main amd64 bsdextrautils amd64 2.37.2-4 [143 kB] Get:3 http://127.0.0.1:12990/debian sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:4 http://127.0.0.1:12990/debian sid/main amd64 groff-base amd64 1.22.4-7 [935 kB] Get:5 http://127.0.0.1:12990/debian sid/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get:6 http://127.0.0.1:12990/debian sid/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get:7 http://127.0.0.1:12990/debian sid/main amd64 readline-common all 8.1-2 [73.8 kB] Get:8 http://127.0.0.1:12990/debian sid/main amd64 libreadline8 amd64 8.1-2 [168 kB] Get:9 http://127.0.0.1:12990/debian sid/main amd64 sensible-utils all 0.0.17 [21.5 kB] Get:10 http://127.0.0.1:12990/debian sid/main amd64 openssl amd64 1.1.1l-1 [851 kB] Get:11 http://127.0.0.1:12990/debian sid/main amd64 ca-certificates all 20211016 [156 kB] Get:12 http://127.0.0.1:12990/debian sid/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get:13 http://127.0.0.1:12990/debian sid/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get:14 http://127.0.0.1:12990/debian sid/main amd64 file amd64 1:5.39-3 [69.1 kB] Get:15 http://127.0.0.1:12990/debian sid/main amd64 gettext-base amd64 0.21-4 [175 kB] Get:16 http://127.0.0.1:12990/debian sid/main amd64 ucf all 3.0043 [74.0 kB] Get:17 http://127.0.0.1:12990/debian sid/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get:18 http://127.0.0.1:12990/debian sid/main amd64 m4 amd64 1.4.18-5 [204 kB] Get:19 http://127.0.0.1:12990/debian sid/main amd64 autoconf all 2.71-2 [343 kB] Get:20 http://127.0.0.1:12990/debian sid/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get:21 http://127.0.0.1:12990/debian sid/main amd64 automake all 1:1.16.5-1 [823 kB] Get:22 http://127.0.0.1:12990/debian sid/main amd64 autopoint all 0.21-4 [510 kB] Get:23 http://127.0.0.1:12990/debian sid/main amd64 libdebhelper-perl all 13.5.2 [192 kB] Get:24 http://127.0.0.1:12990/debian sid/main amd64 libtool all 2.4.6-15 [513 kB] Get:25 http://127.0.0.1:12990/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB] Get:26 http://127.0.0.1:12990/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:27 http://127.0.0.1:12990/debian sid/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:28 http://127.0.0.1:12990/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.12.0-2 [26.3 kB] Get:29 http://127.0.0.1:12990/debian sid/main amd64 dh-strip-nondeterminism all 1.12.0-2 [15.5 kB] Get:30 http://127.0.0.1:12990/debian sid/main amd64 libelf1 amd64 0.185-2 [172 kB] Get:31 http://127.0.0.1:12990/debian sid/main amd64 dwz amd64 0.14-1 [98.3 kB] Get:32 http://127.0.0.1:12990/debian sid/main amd64 gettext amd64 0.21-4 [1311 kB] Get:33 http://127.0.0.1:12990/debian sid/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:34 http://127.0.0.1:12990/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:35 http://127.0.0.1:12990/debian sid/main amd64 debhelper all 13.5.2 [1056 kB] Get:36 http://127.0.0.1:12990/debian sid/main amd64 libexpat1 amd64 2.4.1-3 [104 kB] Get:37 http://127.0.0.1:12990/debian sid/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:38 http://127.0.0.1:12990/debian sid/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get:39 http://127.0.0.1:12990/debian sid/main amd64 libfreetype6 amd64 2.11.0+dfsg-1 [453 kB] Get:40 http://127.0.0.1:12990/debian sid/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get:41 http://127.0.0.1:12990/debian sid/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB] Get:42 http://127.0.0.1:12990/debian sid/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB] Get:43 http://127.0.0.1:12990/debian sid/main amd64 fontconfig amd64 2.13.1-4.2 [417 kB] Get:44 http://127.0.0.1:12990/debian sid/main amd64 libblas3 amd64 3.10.0-1 [156 kB] Get:45 http://127.0.0.1:12990/debian sid/main amd64 libbz2-dev amd64 1.0.8-4 [30.1 kB] Get:46 http://127.0.0.1:12990/debian sid/main amd64 libpixman-1-0 amd64 0.40.0-1 [543 kB] Get:47 http://127.0.0.1:12990/debian sid/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:48 http://127.0.0.1:12990/debian sid/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:49 http://127.0.0.1:12990/debian sid/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get:50 http://127.0.0.1:12990/debian sid/main amd64 libx11-data all 2:1.7.2-2 [311 kB] Get:51 http://127.0.0.1:12990/debian sid/main amd64 libx11-6 amd64 2:1.7.2-2+b1 [772 kB] Get:52 http://127.0.0.1:12990/debian sid/main amd64 libxcb-render0 amd64 1.14-3 [111 kB] Get:53 http://127.0.0.1:12990/debian sid/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB] Get:54 http://127.0.0.1:12990/debian sid/main amd64 libxext6 amd64 2:1.3.4-1 [53.1 kB] Get:55 http://127.0.0.1:12990/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:56 http://127.0.0.1:12990/debian sid/main amd64 libcairo2 amd64 1.16.0-5 [694 kB] Get:57 http://127.0.0.1:12990/debian sid/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get:58 http://127.0.0.1:12990/debian sid/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get:59 http://127.0.0.1:12990/debian sid/main amd64 libldap-2.4-2 amd64 2.4.59+dfsg-1 [232 kB] Get:60 http://127.0.0.1:12990/debian sid/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get:61 http://127.0.0.1:12990/debian sid/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:62 http://127.0.0.1:12990/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:63 http://127.0.0.1:12990/debian sid/main amd64 libssh2-1 amd64 1.10.0-2 [178 kB] Get:64 http://127.0.0.1:12990/debian sid/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+b1 [338 kB] Get:65 http://127.0.0.1:12990/debian sid/main amd64 libcurl4 amd64 7.74.0-1.3+b1 [341 kB] Get:66 http://127.0.0.1:12990/debian sid/main amd64 libcurl4-gnutls-dev amd64 7.74.0-1.3+b1 [429 kB] Get:67 http://127.0.0.1:12990/debian sid/main amd64 libdatrie1 amd64 0.2.13-2 [43.0 kB] Get:68 http://127.0.0.1:12990/debian sid/main amd64 libdeflate0 amd64 1.8-1 [53.1 kB] Get:69 http://127.0.0.1:12990/debian sid/main amd64 libdeflate-dev amd64 1.8-1 [46.7 kB] Get:70 http://127.0.0.1:12990/debian sid/main amd64 libfribidi0 amd64 1.0.8-2 [64.8 kB] Get:71 http://127.0.0.1:12990/debian sid/main amd64 libgfortran5 amd64 11.2.0-10 [710 kB] Get:72 http://127.0.0.1:12990/debian sid/main amd64 libglib2.0-0 amd64 2.70.0-3 [1401 kB] Get:73 http://127.0.0.1:12990/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:74 http://127.0.0.1:12990/debian sid/main amd64 libharfbuzz0b amd64 2.7.4-1 [1471 kB] Get:75 http://127.0.0.1:12990/debian sid/main amd64 libhtscodecs2 amd64 1.1.1-3+b1 [50.1 kB] Get:76 http://127.0.0.1:12990/debian sid/main amd64 libhts3 amd64 1.13+ds-2 [395 kB] Get:77 http://127.0.0.1:12990/debian sid/main amd64 liblzma-dev amd64 5.2.5-2 [229 kB] Get:78 http://127.0.0.1:12990/debian sid/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get:79 http://127.0.0.1:12990/debian sid/main amd64 libhts-dev amd64 1.13+ds-2 [4086 kB] Get:80 http://127.0.0.1:12990/debian sid/main amd64 x11-common all 1:7.7+23 [252 kB] Get:81 http://127.0.0.1:12990/debian sid/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get:82 http://127.0.0.1:12990/debian sid/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:83 http://127.0.0.1:12990/debian sid/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get:84 http://127.0.0.1:12990/debian sid/main amd64 liblapack3 amd64 3.10.0-1 [2213 kB] Get:85 http://127.0.0.1:12990/debian sid/main amd64 libthai-data all 0.1.28-4.1 [171 kB] Get:86 http://127.0.0.1:12990/debian sid/main amd64 libthai0 amd64 0.1.28-4.1 [54.5 kB] Get:87 http://127.0.0.1:12990/debian sid/main amd64 libpango-1.0-0 amd64 1.48.10+ds1-1 [204 kB] Get:88 http://127.0.0.1:12990/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.48.10+ds1-1 [73.3 kB] Get:89 http://127.0.0.1:12990/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.48.10+ds1-1 [60.7 kB] Get:90 http://127.0.0.1:12990/debian sid/main amd64 libpaper1 amd64 1.1.28+b1 [21.6 kB] Get:91 http://127.0.0.1:12990/debian sid/main amd64 libpaper-utils amd64 1.1.28+b1 [18.3 kB] Get:92 http://127.0.0.1:12990/debian sid/main amd64 libpcre2-16-0 amd64 10.36-2 [231 kB] Get:93 http://127.0.0.1:12990/debian sid/main amd64 libpcre2-32-0 amd64 10.36-2 [220 kB] Get:94 http://127.0.0.1:12990/debian sid/main amd64 libpcre2-posix2 amd64 10.36-2 [49.1 kB] Get:95 http://127.0.0.1:12990/debian sid/main amd64 libpcre2-dev amd64 10.36-2 [731 kB] Get:96 http://127.0.0.1:12990/debian sid/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get:97 http://127.0.0.1:12990/debian sid/main amd64 libssl-dev amd64 1.1.1l-1 [1809 kB] Get:98 http://127.0.0.1:12990/debian sid/main amd64 libsvm3 amd64 3.24+ds-6 [43.6 kB] Get:99 http://127.0.0.1:12990/debian sid/main amd64 libsvm-dev amd64 3.24+ds-6 [64.2 kB] Get:100 http://127.0.0.1:12990/debian sid/main amd64 libtcl8.6 amd64 8.6.11+dfsg-1 [1018 kB] Get:101 http://127.0.0.1:12990/debian sid/main amd64 libtclap-dev amd64 1.2.4-3 [7868 kB] Get:102 http://127.0.0.1:12990/debian sid/main amd64 libwebp6 amd64 0.6.1-2.1 [258 kB] Get:103 http://127.0.0.1:12990/debian sid/main amd64 libtiff5 amd64 4.3.0-2 [294 kB] Get:104 http://127.0.0.1:12990/debian sid/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:105 http://127.0.0.1:12990/debian sid/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:106 http://127.0.0.1:12990/debian sid/main amd64 libtk8.6 amd64 8.6.11.1-1 [779 kB] Get:107 http://127.0.0.1:12990/debian sid/main amd64 libxt6 amd64 1:1.2.0-1 [189 kB] Get:108 http://127.0.0.1:12990/debian sid/main amd64 zip amd64 3.0-12 [232 kB] Get:109 http://127.0.0.1:12990/debian sid/main amd64 unzip amd64 6.0-26 [171 kB] Get:110 http://127.0.0.1:12990/debian sid/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get:111 http://127.0.0.1:12990/debian sid/main amd64 r-base-core amd64 4.1.1-2 [25.7 MB] Get:112 http://127.0.0.1:12990/debian sid/main amd64 r-mathlib amd64 4.1.1-2 [2223 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 72.7 MB in 0s (152 MB/s) Selecting previously unselected package bsdextrautils. 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Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up libxcb1:amd64 (1.14-3) ... Setting up bsdextrautils (2.37.2-4) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libdatrie1:amd64 (0.2.13-2) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libxcb-render0:amd64 (1.14-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.70.0-3) ... No schema files found: doing nothing. Setting up unzip (6.0-26) ... Setting up libdebhelper-perl (13.5.2) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of restart. Setting up libnghttp2-14:amd64 (1.43.0-1) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up libdeflate0:amd64 (1.8-1) ... Setting up gettext-base (0.21-4) ... Setting up libxcb-shm0:amd64 (1.14-3) ... Setting up file (1:5.39-3) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libpcre2-16-0:amd64 (10.36-2) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up zip (3.0-12) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libpcre2-32-0:amd64 (10.36-2) ... Setting up libblas3:amd64 (3.10.0-1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libx11-data (2:1.7.2-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up libfribidi0:amd64 (1.0.8-2) ... Setting up libssl-dev:amd64 (1.1.1l-1) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libtcl8.6:amd64 (8.6.11+dfsg-1) ... Setting up autopoint (0.21-4) ... Setting up libwebp6:amd64 (0.6.1-2.1) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libpcre2-posix2:amd64 (10.36-2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up libgfortran5:amd64 (11.2.0-10) ... Setting up libtclap-dev (1.2.4-3) ... Setting up liblzma-dev:amd64 (5.2.5-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.17) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up r-mathlib (4.1.1-2) ... Setting up libsub-override-perl (0.09-2) ... Setting up libx11-6:amd64 (2:1.7.2-2+b1) ... Setting up libthai-data (0.1.28-4.1) ... Setting up libssh2-1:amd64 (1.10.0-2) ... Setting up libtiff5:amd64 (4.3.0-2) ... Setting up openssl (1.1.1l-1) ... Setting up libdeflate-dev:amd64 (1.8-1) ... Setting up libelf1:amd64 (0.185-2) ... Setting up readline-common (8.1-2) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libsvm3:amd64 (3.24+ds-6) ... Setting up libbz2-dev:amd64 (1.0.8-4) ... Setting up libfile-stripnondeterminism-perl (1.12.0-2) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up liblapack3:amd64 (3.10.0-1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up gettext (0.21-4) ... Setting up libpcre2-dev:amd64 (10.36-2) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libtool (2.4.6-15) ... Setting up libreadline8:amd64 (8.1-2) ... Setting up libxext6:amd64 (2:1.3.4-1) ... Setting up libldap-2.4-2:amd64 (2.4.59+dfsg-1) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+b1) ... Setting up libcurl4-gnutls-dev:amd64 (7.74.0-1.3+b1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libthai0:amd64 (0.1.28-4.1) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 127 added, 0 removed; done. Setting up libfreetype6:amd64 (2.11.0+dfsg-1) ... Setting up libsvm-dev:amd64 (3.24+ds-6) ... Setting up ucf (3.0043) ... Setting up autoconf (2.71-2) ... Setting up dh-strip-nondeterminism (1.12.0-2) ... Setting up dwz (0.14-1) ... Setting up groff-base (1.22.4-7) ... Setting up libcurl4:amd64 (7.74.0-1.3+b1) ... Setting up libharfbuzz0b:amd64 (2.7.4-1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up automake (1:1.16.5-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libpaper1:amd64 (1.1.28+b1) ... Creating config file /etc/papersize with new version Setting up libhts3:amd64 (1.13+ds-2) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhts-dev:amd64 (1.13+ds-2) ... Setting up libpaper-utils (1.1.28+b1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up libxt6:amd64 (1:1.2.0-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up fontconfig (2.13.1-4.2) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.2-2) ... Setting up libtk8.6:amd64 (8.6.11.1-1) ... Setting up libpango-1.0-0:amd64 (1.48.10+ds1-1) ... Setting up debhelper (13.5.2) ... Setting up libcairo2:amd64 (1.16.0-5) ... Setting up libpangoft2-1.0-0:amd64 (1.48.10+ds1-1) ... Setting up libpangocairo-1.0-0:amd64 (1.48.10+ds1-1) ... Setting up r-base-core (4.1.1-2) ... Creating config file /etc/R/Renviron with new version Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.32-4) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-6-cloud-amd64 #1 SMP Debian 4.19.67-2+deb10u2 (2019-11-11) amd64 (x86_64) Toolchain package versions: binutils_2.37-7 dpkg-dev_1.20.9 g++-11_11.2.0-10 gcc-11_11.2.0-10 libc6-dev_2.32-4 libstdc++-11-dev_11.2.0-10 libstdc++6_11.2.0-10 linux-libc-dev_5.14.12-1 Package versions: adduser_3.118 apt_2.3.11 autoconf_2.71-2 automake_1:1.16.5-1 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_12 base-passwd_3.5.52 bash_5.1-3+b2 binutils_2.37-7 binutils-common_2.37-7 binutils-x86-64-linux-gnu_2.37-7 bsdextrautils_2.37.2-4 bsdutils_1:2.37.2-4 build-essential_12.9 bzip2_1.0.8-4 ca-certificates_20211016 clang-13_1:13.0.0-8 coreutils_8.32-4+b1 cpp_4:11.2.0-2 cpp-11_11.2.0-10 dash_0.5.11+git20210120+802ebd4-2 debconf_1.5.78 debhelper_13.5.2 debian-archive-keyring_2021.1.1 debianutils_5.5-1 dh-autoreconf_20 dh-strip-nondeterminism_1.12.0-2 diffutils_1:3.7-5 dpkg_1.20.9 dpkg-dev_1.20.9 dwz_0.14-1 e2fsprogs_1.46.4-1 fakeroot_1.26-1 file_1:5.39-3 findutils_4.8.0-1 fontconfig_2.13.1-4.2 fontconfig-config_2.13.1-4.2 fonts-dejavu-core_2.37-2 g++_4:11.2.0-2 g++-11_11.2.0-10 gcc_4:11.2.0-2 gcc-10-base_10.3.0-11 gcc-11_11.2.0-10 gcc-11-base_11.2.0-10 gcc-9-base_9.4.0-3 gettext_0.21-4 gettext-base_0.21-4 gpgv_2.2.27-2 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4 hostname_3.23 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 lib32gcc-s1_11.2.0-10 lib32stdc++6_11.2.0-10 libacl1_2.3.1-1 libapt-pkg6.0_2.3.11 libarchive-zip-perl_1.68-1 libasan5_9.4.0-3 libasan6_11.2.0-10 libatomic1_11.2.0-10 libattr1_1:2.5.1-1 libaudit-common_1:3.0.6-1 libaudit1_1:3.0.6-1 libbinutils_2.37-7 libblas3_3.10.0-1 libblkid1_2.37.2-4 libbrotli1_1.0.9-2+b2 libbsd0_0.11.3-1 libbz2-1.0_1.0.8-4 libbz2-dev_1.0.8-4 libc-bin_2.32-4 libc-dev-bin_2.32-4 libc6_2.32-4 libc6-dev_2.32-4 libc6-i386_2.32-4 libcairo2_1.16.0-5 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-10 libclang-common-13-dev_1:13.0.0-8 libclang-cpp13_1:13.0.0-8 libclang1-13_1:13.0.0-8 libcom-err2_1.46.4-1 libcrypt-dev_1:4.4.25-2 libcrypt1_1:4.4.25-2 libctf-nobfd0_2.37-7 libctf0_2.37-7 libcurl3-gnutls_7.74.0-1.3+b1 libcurl4_7.74.0-1.3+b1 libcurl4-gnutls-dev_7.74.0-1.3+b1 libdatrie1_0.2.13-2 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.260 libdebhelper-perl_13.5.2 libdeflate-dev_1.8-1 libdeflate0_1.8-1 libdpkg-perl_1.20.9 libedit2_3.1-20210910-1 libelf1_0.185-2 libexpat1_2.4.1-3 libext2fs2_1.46.4-1 libfakeroot_1.26-1 libffi8_3.4.2-3 libfile-stripnondeterminism-perl_1.12.0-2 libfontconfig1_2.13.1-4.2 libfreetype6_2.11.0+dfsg-1 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libobjc-11-dev_11.2.0-10 libobjc-9-dev_9.4.0-3 libobjc4_11.2.0-10 libomp-13-dev_1:13.0.0-8 libomp5-13_1:13.0.0-8 libp11-kit0_0.24.0-5 libpam-modules_1.4.0-10 libpam-modules-bin_1.4.0-10 libpam-runtime_1.4.0-10 libpam0g_1.4.0-10 libpango-1.0-0_1.48.10+ds1-1 libpangocairo-1.0-0_1.48.10+ds1-1 libpangoft2-1.0-0_1.48.10+ds1-1 libpaper-utils_1.1.28+b1 libpaper1_1.1.28+b1 libpcre2-16-0_10.36-2 libpcre2-32-0_10.36-2 libpcre2-8-0_10.36-2 libpcre2-dev_10.36-2 libpcre2-posix2_10.36-2 libpcre3_2:8.39-13 libperl5.32_5.32.1-6 libpipeline1_1.5.3-1 libpixman-1-0_0.40.0-1 libpng16-16_1.6.37-3 libpsl5_0.21.0-1.2 libquadmath0_11.2.0-10 libreadline8_8.1-2 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.27+dfsg-2.1 libsasl2-modules-db_2.1.27+dfsg-2.1 libseccomp2_2.5.2-2 libselinux1_3.1-3 libsemanage-common_3.1-1 libsemanage1_3.1-1+b2 libsepol1_3.1-1 libsigsegv2_2.13-1 libsm6_2:1.2.3-1 libsmartcols1_2.37.2-4 libss2_1.46.4-1 libssh2-1_1.10.0-2 libssl-dev_1.1.1l-1 libssl1.1_1.1.1l-1 libstdc++-11-dev_11.2.0-10 libstdc++6_11.2.0-10 libsub-override-perl_0.09-2 libsvm-dev_3.24+ds-6 libsvm3_3.24+ds-6 libsystemd0_249.5-1 libtasn1-6_4.17.0-2 libtcl8.6_8.6.11+dfsg-1 libtclap-dev_1.2.4-3 libthai-data_0.1.28-4.1 libthai0_0.1.28-4.1 libtiff5_4.3.0-2 libtinfo6_6.2+20210905-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtk8.6_8.6.11.1-1 libtool_2.4.6-15 libtsan0_11.2.0-10 libubsan1_11.2.0-10 libuchardet0_0.0.7-1 libudev1_249.5-1 libunistring2_0.9.10-6 libuuid1_2.37.2-4 libwebp6_0.6.1-2.1 libx11-6_2:1.7.2-2+b1 libx11-data_2:1.7.2-2 libxau6_1:1.0.9-1 libxcb-render0_1.14-3 libxcb-shm0_1.14-3 libxcb1_1.14-3 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.4-1 libxft2_2.3.2-2 libxml2_2.9.12+dfsg-5 libxrender1_1:0.9.10-1 libxss1_1:1.2.3-1 libxt6_1:1.2.0-1 libxxhash0_0.8.0-2 libz3-4_4.8.12-1+b1 libzstd1_1.4.8+dfsg-3 linux-libc-dev_5.14.12-1 login_1:4.8.1-1 logsave_1.46.4-1 lsb-base_11.1.0 m4_1.4.18-5 make_4.3-4.1 man-db_2.9.4-2 mawk_1.3.4.20200120-2 mount_2.37.2-4 ncurses-base_6.2+20210905-1 ncurses-bin_6.2+20210905-1 openssl_1.1.1l-1 passwd_1:4.8.1-1 patch_2.7.6-7 perl_5.32.1-6 perl-base_5.32.1-6 perl-modules-5.32_5.32.1-6 po-debconf_1.0.21+nmu1 qt5-qmake_5.15.2+dfsg-12 qt5-qmake-bin_5.15.2+dfsg-12 qtchooser_66-2 r-base-core_4.1.1-2 r-mathlib_4.1.1-2 readline-common_8.1-2 rpcsvc-proto_1.4.2-4 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.00-1 tar_1.34+dfsg-1 tzdata_2021e-1 ucf_3.0043 unzip_6.0-26 util-linux_2.37.2-4 x11-common_1:7.7+23 xdg-utils_1.1.3-4.1 xz-utils_5.2.5-2 zip_3.0-12 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: vt Binary: vt, vt-examples Architecture: any all Version: 0.57721+ds-3 Maintainer: Debian Med Packaging Team Uploaders: Antoni Villalonga Homepage: https://genome.sph.umich.edu/wiki/Vt Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/vt Vcs-Git: https://salsa.debian.org/med-team/vt.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbz2-dev, liblzma-dev, libcurl4-gnutls-dev, libssl-dev, libdeflate-dev, libhts-dev, libpcre2-dev, libsvm-dev, libtclap-dev, r-mathlib, r-base-core Package-List: vt deb science optional arch=any vt-examples deb science optional arch=all Checksums-Sha1: 8d1f794a59a8497084272acc1d6d6d8e5557c961 18574416 vt_0.57721+ds.orig.tar.xz 883ef66dd524310822a2ca0b1e9355515edb7f69 8092 vt_0.57721+ds-3.debian.tar.xz Checksums-Sha256: ce6e49949e5a61cd8e06ebac2dea1db94e2df78881350aba1cd178a1e4f73865 18574416 vt_0.57721+ds.orig.tar.xz 52295d9de36ef140fd0959a1220b85b7acd4e5c34e69a3b65abe56f9a2a3a95a 8092 vt_0.57721+ds-3.debian.tar.xz Files: d431231e862dc0adaa30457001f064f0 18574416 vt_0.57721+ds.orig.tar.xz 2ffd195b13c6e4b77b0d6673787fe57d 8092 vt_0.57721+ds-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl+qvC4RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGmlRAAg/60CIJgKD2VWa5Vm0ZhR+dED4ZPr2B6 Q0Npp9RQUGwGWVukhU5u5FBGMbV81gCHbj9aegPYNKAaf4c+gwV4yrz7/WPTViKA A5315jD7mtlW9RPcykbf5Lur9FprAyAQFKcx1xqNbKGRRPTjIPJJaItvl+5mHZPf kcVC980xikw5uKDp5PWDydafvfktB9QGRAHMgVNFVBLtHIptntmFYQglKCNEM2e/ efEWXloaY+P9earGLqaDJATR2yUWiAkYQn+SJuJqzWcjT7W79OHaYWcV24QpcY1P l/gLlTDFuAH/shq3Oz1DEohpcwpzMdKQEcfBHNAevF6sxt5axmyINMv9H+JulpXO BKHUQW0Foog8LCnCWzYfa589j9a3I4nlpm83xlcDKsBlzNjFoCSNM4ymDH1uQMT8 EBrVbFNEKCNM7HJZU6JvZ96ES1pZQ1pY2oaXyoZJ4qcE0At4IbXjZR8i5Zxw+/lW KM/3HGzsS2CvsBUKCZVDELMMNv10sfBGTA3Nf0nwIEEcZoMn3pHiJcIfFLlewIxg Lnb4n3IOGTzCG5A6t1y22Bwy+61EPzMwijZwXZ6pz7SpHId/c1LiV8TNSNlMuIzN xnKUxoi3EJMA0vqXU0DwINIex7v4Ph+lCHgXzY6lMj0W+k8v4ygZv50zZPxBu9UG f220BfJ9PjQ= =6/1/ -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.UbUfNXGy/trustedkeys.kbx': General error gpgv: Signature made Tue Nov 10 16:13:34 2020 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./vt_0.57721+ds-3.dsc dpkg-source: info: extracting vt in /<> dpkg-source: info: unpacking vt_0.57721+ds.orig.tar.xz dpkg-source: info: unpacking vt_0.57721+ds-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying makefile dpkg-source: info: applying fix-spelling dpkg-source: info: applying test-fail-on-error dpkg-source: info: applying 0001-updated-faidx_fetch_uc_seq.patch dpkg-source: info: applying 0002-hts-1.11.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=user42 PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable SCHROOT_CHROOT_NAME=sid-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1001 SCHROOT_GROUP=user42 SCHROOT_SESSION_ID=sid-amd64-sbuild-fd3f32f5-d565-4ff4-a374-5dccb073a081 SCHROOT_UID=1001 SCHROOT_USER=user42 SHELL=/bin/sh USER=user42 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -b -rfakeroot dpkg-buildpackage: info: source package vt dpkg-buildpackage: info: source version 0.57721+ds-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Antoni Villalonga dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j4 clean make[1]: Entering directory '/<>' rm -rf vt ahmm.o align.o allele.o annotate_1000g.o annotate_dbsnp_rsid.o annotate_indels.o annotate_indels2.o annotate_regions.o annotate_variants.o annotate_vntrs.o augmented_bam_record.o bcf_genotyping_buffered_reader.o bcf_single_genotyping_buffered_reader.o bam_ordered_reader.o bcf_ordered_reader.o bcf_ordered_writer.o bcf_synced_reader.o bed.o candidate_motif_picker.o candidate_region_extractor.o cat.o chmm.o complex_genotyping_record.o compute_concordance.o compute_features.o compute_features2.o compute_rl_dist.o config.o consolidate_multiallelics.o consolidate_vntrs.o consolidate.o construct_probes.o decompose.o decompose2.o decompose_blocksub.o discover.o duplicate.o estimate.o estimator.o extract_vntrs.o filter.o filter_overlap.o flank_detector.o fuzzy_aligner.o fuzzy_partition.o gencode.o genome_interval.o genotype.o genotyping_record.o ghmm.o hts_utils.o hfilter.o indel_annotator.o indel_genotyping_record.o index.o info2tab.o interval_tree.o interval.o lfhmm.o lhmm.o lhmm1.o liftover.o log_tool.o merge.o merge_candidate_variants.o merge_genotypes.o milk_filter.o motif_tree.o motif_map.o multi_partition.o multiallelics_consolidator.o needle.o normalize.o nuclear_pedigree.o ordered_bcf_overlap_matcher.o ordered_region_overlap_matcher.o partition.o paste.o paste_and_compute_features_sequential.o paste_genotypes.o pedigree.o peek.o pileup.o pregex.o profile_afs.o profile_chm1.o profile_chrom.o profile_fic_hwe.o profile_hwe.o profile_indels.o profile_len.o profile_mendelian.o profile_na12878.o profile_snps.o profile_vntrs.o program.o read_filter.o reference_sequence.o rfhmm.o rfhmm_x.o rminfo.o seq.o set_ref.o snp_genotyping_record.o sort.o subset.o sv_tree.o svm_train.o svm_predict.o tbx_ordered_reader.o test.o trio.o union_variants.o uniq.o utils.o validate.o variant.o variant_manip.o variant_filter.o view.o vntr.o vntr_annotator.o vntr_consolidator.o vntr_extractor.o vntr_genotyping_record.o vntr_tree.o vntrize.o wdp_ahmm.o main.o make[1]: Leaving directory '/<>' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j4 "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>' g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o ahmm.o -c ahmm.cpp g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o align.o -c align.cpp g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o allele.o -c allele.cpp g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_1000g.o -c annotate_1000g.cpp clangclang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] clangclang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] : warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] : warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_dbsnp_rsid.o -c annotate_dbsnp_rsid.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_indels.o -c annotate_indels.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_indels2.o -c annotate_indels2.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_regions.o -c annotate_regions.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_variants.o -c annotate_variants.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o annotate_vntrs.o -c annotate_vntrs.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o augmented_bam_record.o -c augmented_bam_record.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_genotyping_buffered_reader.o -c bcf_genotyping_buffered_reader.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_single_genotyping_buffered_reader.o -c bcf_single_genotyping_buffered_reader.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bam_ordered_reader.o -c bam_ordered_reader.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_ordered_reader.o -c bcf_ordered_reader.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_ordered_writer.o -c bcf_ordered_writer.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bcf_synced_reader.o -c bcf_synced_reader.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o bed.o -c bed.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] bcf_ordered_writer.cpp:129:5: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] bcf_hdr_write(file, hdr); ^~~~~~~~~~~~~ ~~~~~~~~~ bcf_ordered_writer.cpp:168:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] bcf_get_pos1(v), ^~~~~~~~~~~~~~~ ./hts_utils.h:467:25: note: expanded from macro 'bcf_get_pos1' #define bcf_get_pos1(v) ((v)->pos+1) ^~~~~~~~~~~~ bcf_ordered_writer.cpp:170:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] bcf_get_pos1(buffer.front()), ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./hts_utils.h:467:25: note: expanded from macro 'bcf_get_pos1' #define bcf_get_pos1(v) ((v)->pos+1) ^~~~~~~~~~~~ bcf_ordered_writer.cpp:172:43: warning: format specifies type 'int' but the argument has type 'long' [-Wformat] bcf_get_pos1(buffer.front())-bcf_get_pos1(v)+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./hts_utils.h:467:25: note: expanded from macro 'bcf_get_pos1' #define bcf_get_pos1(v) ((v)->pos+1) ^ bcf_ordered_writer.cpp:195:9: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] bcf_write(file, hdr, v); ^~~~~~~~~ ~~~~~~~~~~~~ bcf_ordered_writer.cpp:245:13: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] bcf_write(file, hdr, buffer.back()); ^~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~ bcf_ordered_writer.cpp:261:21: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] bcf_write(file, hdr, buffer.back()); ^~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o candidate_motif_picker.o -c candidate_motif_picker.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] 7 warnings generated. g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o candidate_region_extractor.o -c candidate_region_extractor.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o cat.o -c cat.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o chmm.o -c chmm.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o complex_genotyping_record.o -c complex_genotyping_record.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_concordance.o -c compute_concordance.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_features.o -c compute_features.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_features2.o -c compute_features2.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o compute_rl_dist.o -c compute_rl_dist.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o config.o -c config.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o consolidate_multiallelics.o -c consolidate_multiallelics.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o consolidate_vntrs.o -c consolidate_vntrs.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o consolidate.o -c consolidate.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o construct_probes.o -c construct_probes.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o decompose.o -c decompose.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o decompose2.o -c decompose2.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o decompose_blocksub.o -c decompose_blocksub.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] g++ -Wl,-z,relro -Wl,-z,now -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -pipe -std=c++0x -O3 -I. -I/usr/share/R/include -D__STDC_LIMIT_MACROS -DPCRE2_CODE_UNIT_WIDTH=8 -o discover.o -c discover.cpp clang: warning: -Wl,-z,relro: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -Wl,-z,now: 'linker' input unused [-Wunused-command-line-argument] discover.cpp:355:45: error: non-constant-expression cannot be narrowed from type 'long' to 'int32_t' (aka 'int') in initializer list [-Wc++11-narrowing] kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; ^~~~~~~~~~~~~~~ ./hts_utils.h:124:25: note: expanded from macro 'bam_get_pos1' #define bam_get_pos1(s) ((s)->core.pos + 1) ^~~~~~~~~~~~~~~~~~~ discover.cpp:355:45: note: insert an explicit cast to silence this issue kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; ^~~~~~~~~~~~~~~ static_cast( ) ./hts_utils.h:124:25: note: expanded from macro 'bam_get_pos1' #define bam_get_pos1(s) ((s)->core.pos + 1) ^~~~~~~~~~~~~~~~~~~ discover.cpp:355:62: error: non-constant-expression cannot be narrowed from type 'long' to 'int32_t' (aka 'int') in initializer list [-Wc++11-narrowing] kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./hts_utils.h:124:25: note: expanded from macro 'bam_get_pos1' #define bam_get_pos1(s) ((s)->core.pos + 1) ^ discover.cpp:355:62: note: insert an explicit cast to silence this issue kh_val(reads, k) = {bam_get_pos1(s), bam_get_pos1(s)+bam_get_l_qseq(s)-1}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ static_cast( ) ./hts_utils.h:124:25: note: expanded from macro 'bam_get_pos1' #define bam_get_pos1(s) ((s)->core.pos + 1) ^ 2 errors generated. make[1]: *** [Makefile:154: discover.o] Error 1 make[1]: *** Waiting for unfinished jobs.... make[1]: Leaving directory '/<>' dh_auto_build: error: make -j4 "INSTALL=install --strip-program=true" returned exit code 2 make: *** [debian/rules:8: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2021-10-26T21:51:57Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 58492 Build-Time: 28 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 18 Job: vt_0.57721+ds-3 Machine Architecture: amd64 Package: vt Package-Time: 68 Source-Version: 0.57721+ds-3 Space: 58492 Status: attempted Version: 0.57721+ds-3 -------------------------------------------------------------------------------- Finished at 2021-10-26T21:51:57Z Build needed 00:01:08, 58492k disk space E: Build failure (dpkg-buildpackage died) DC-Status: Failed 68.568854503s DC-Time-Estimation: 68.568854503 versus expected 271 (r/m: 2.9522316941745514 ; m: 68.568854503)