DC-Build-Header: libvcflib 1.0.0~rc2+dfsg-2 / 2019-01-09 21:51:25 +0000 DC-Task: type:rebuild-binarch-only source:libvcflib version:1.0.0~rc2+dfsg-2 chroot:unstable esttime:171 logfile:/tmp/libvcflib_1.0.0~rc2+dfsg-2_unstable_clang7.log modes:clang7:binarch-only DC-Sbuild-call: su user42 -c 'sbuild -n --arch-any --apt-update -d unstable -v --chroot-setup-commands=/tmp/clang7 libvcflib_1.0.0~rc2+dfsg-2' sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on ip-172-31-13-15.eu-central-1.compute.internal +==============================================================================+ | libvcflib 1.0.0~rc2+dfsg-2 (amd64) Wed, 09 Jan 2019 21:51:25 +0000 | +==============================================================================+ Package: libvcflib Version: 1.0.0~rc2+dfsg-2 Source Version: 1.0.0~rc2+dfsg-2 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-f8e8f6a1-9149-42eb-9920-3c9b4922e869' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /tmp/clang7 ----------- + echo 'Entering customization script...' Entering customization script... + CLANG_VERSION=7 + echo 'Install of clang-7' Install of clang-7 + apt-get update Get:1 http://127.0.0.1:9999/debian sid InRelease [238 kB] Get:2 http://127.0.0.1:9999/debian sid/main Sources.diff/Index [27.9 kB] Get:3 http://127.0.0.1:9999/debian sid/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://127.0.0.1:9999/debian sid/main Sources 2019-01-09-1430.36.pdiff [24.1 kB] Get:5 http://127.0.0.1:9999/debian sid/main Sources 2019-01-09-2026.40.pdiff [16.8 kB] Get:6 http://127.0.0.1:9999/debian sid/main amd64 Packages 2019-01-09-1430.36.pdiff [40.9 kB] Get:7 http://127.0.0.1:9999/debian sid/main amd64 Packages 2019-01-09-2026.40.pdiff [32.0 kB] Get:5 http://127.0.0.1:9999/debian sid/main Sources 2019-01-09-2026.40.pdiff [16.8 kB] Get:7 http://127.0.0.1:9999/debian sid/main amd64 Packages 2019-01-09-2026.40.pdiff [32.0 kB] Get:8 http://127.0.0.1:9999/debian sid/main Translation-en [6274 kB] Fetched 6681 kB in 2s (3131 kB/s) Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-7 libomp-7-dev libobjc-8-dev Reading package lists... Building dependency tree... The following additional packages will be installed: lib32gcc1 lib32stdc++6 libbsd0 libc6-i386 libclang-common-7-dev libclang1-7 libedit2 libgc1c2 libllvm7 libobjc4 libomp5-7 Suggested packages: clang-7-doc libomp-7-doc Recommended packages: llvm-7-dev python The following NEW packages will be installed: clang-7 lib32gcc1 lib32stdc++6 libbsd0 libc6-i386 libclang-common-7-dev libclang1-7 libedit2 libgc1c2 libllvm7 libobjc-8-dev libobjc4 libomp-7-dev libomp5-7 0 upgraded, 14 newly installed, 0 to remove and 5 not upgraded. Need to get 34.5 MB of archives. After this operation, 185 MB of additional disk space will be used. Get:1 http://127.0.0.1:9999/debian sid/main amd64 libbsd0 amd64 0.9.1-1 [99.3 kB] Get:2 http://127.0.0.1:9999/debian sid/main amd64 libedit2 amd64 3.1-20181209-1 [94.0 kB] Get:3 http://127.0.0.1:9999/debian sid/main amd64 libllvm7 amd64 1:7.0.1-4 [13.0 MB] Get:4 http://127.0.0.1:9999/debian sid/main amd64 libgc1c2 amd64 1:7.6.4-0.4 [224 kB] Get:5 http://127.0.0.1:9999/debian sid/main amd64 libobjc4 amd64 8.2.0-14 [50.4 kB] Get:6 http://127.0.0.1:9999/debian sid/main amd64 libobjc-8-dev amd64 8.2.0-14 [225 kB] Get:7 http://127.0.0.1:9999/debian sid/main amd64 libc6-i386 amd64 2.28-4 [2873 kB] Get:8 http://127.0.0.1:9999/debian sid/main amd64 lib32gcc1 amd64 1:8.2.0-14 [47.9 kB] Get:9 http://127.0.0.1:9999/debian sid/main amd64 lib32stdc++6 amd64 8.2.0-14 [406 kB] Get:10 http://127.0.0.1:9999/debian sid/main amd64 libclang-common-7-dev amd64 1:7.0.1-4 [3155 kB] Get:11 http://127.0.0.1:9999/debian sid/main amd64 libclang1-7 amd64 1:7.0.1-4 [5991 kB] Get:12 http://127.0.0.1:9999/debian sid/main amd64 clang-7 amd64 1:7.0.1-4 [7887 kB] Get:13 http://127.0.0.1:9999/debian sid/main amd64 libomp5-7 amd64 1:7.0.1-4 [318 kB] Get:14 http://127.0.0.1:9999/debian sid/main amd64 libomp-7-dev amd64 1:7.0.1-4 [57.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 34.5 MB in 0s (112 MB/s) Selecting previously unselected package libbsd0: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 ... 11802 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../01-libedit2_3.1-20181209-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20181209-1) ... Selecting previously unselected package libllvm7:amd64. Preparing to unpack .../02-libllvm7_1%3a7.0.1-4_amd64.deb ... Unpacking libllvm7:amd64 (1:7.0.1-4) ... Selecting previously unselected package libgc1c2:amd64. Preparing to unpack .../03-libgc1c2_1%3a7.6.4-0.4_amd64.deb ... Unpacking libgc1c2:amd64 (1:7.6.4-0.4) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../04-libobjc4_8.2.0-14_amd64.deb ... Unpacking libobjc4:amd64 (8.2.0-14) ... Selecting previously unselected package libobjc-8-dev:amd64. Preparing to unpack .../05-libobjc-8-dev_8.2.0-14_amd64.deb ... Unpacking libobjc-8-dev:amd64 (8.2.0-14) ... Selecting previously unselected package libc6-i386. Preparing to unpack .../06-libc6-i386_2.28-4_amd64.deb ... Unpacking libc6-i386 (2.28-4) ... Selecting previously unselected package lib32gcc1. Preparing to unpack .../07-lib32gcc1_1%3a8.2.0-14_amd64.deb ... Unpacking lib32gcc1 (1:8.2.0-14) ... Selecting previously unselected package lib32stdc++6. Preparing to unpack .../08-lib32stdc++6_8.2.0-14_amd64.deb ... Unpacking lib32stdc++6 (8.2.0-14) ... Selecting previously unselected package libclang-common-7-dev. Preparing to unpack .../09-libclang-common-7-dev_1%3a7.0.1-4_amd64.deb ... Unpacking libclang-common-7-dev (1:7.0.1-4) ... Selecting previously unselected package libclang1-7:amd64. Preparing to unpack .../10-libclang1-7_1%3a7.0.1-4_amd64.deb ... Unpacking libclang1-7:amd64 (1:7.0.1-4) ... Selecting previously unselected package clang-7. Preparing to unpack .../11-clang-7_1%3a7.0.1-4_amd64.deb ... Unpacking clang-7 (1:7.0.1-4) ... Selecting previously unselected package libomp5-7:amd64. Preparing to unpack .../12-libomp5-7_1%3a7.0.1-4_amd64.deb ... Unpacking libomp5-7:amd64 (1:7.0.1-4) ... Selecting previously unselected package libomp-7-dev. Preparing to unpack .../13-libomp-7-dev_1%3a7.0.1-4_amd64.deb ... Unpacking libomp-7-dev (1:7.0.1-4) ... Setting up libgc1c2:amd64 (1:7.6.4-0.4) ... Setting up libc6-i386 (2.28-4) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libomp5-7:amd64 (1:7.0.1-4) ... Processing triggers for libc-bin (2.28-4) ... Setting up libomp-7-dev (1:7.0.1-4) ... Setting up lib32gcc1 (1:8.2.0-14) ... Setting up libedit2:amd64 (3.1-20181209-1) ... Setting up libobjc4:amd64 (8.2.0-14) ... Setting up libobjc-8-dev:amd64 (8.2.0-14) ... Setting up libllvm7:amd64 (1:7.0.1-4) ... Setting up libclang1-7:amd64 (1:7.0.1-4) ... Setting up lib32stdc++6 (8.2.0-14) ... Setting up libclang-common-7-dev (1:7.0.1-4) ... Setting up clang-7 (1:7.0.1-4) ... Processing triggers for libc-bin (2.28-4) ... 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' + cd /usr/bin + for VERSION in $VERSIONS + rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc + ln -s clang++-7 g++-4.6 + ln -s clang-7 gcc-4.6 + ln -s clang-7 cpp-4.6 + ln -s clang-7 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++-7 g++-4.7 + ln -s clang-7 gcc-4.7 + ln -s clang-7 cpp-4.7 + ln -s clang-7 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++-7 g++-4.8 + ln -s clang-7 gcc-4.8 + ln -s clang-7 cpp-4.8 + ln -s clang-7 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++-7 g++-4.9 + ln -s clang-7 gcc-4.9 + ln -s clang-7 cpp-4.9 + ln -s clang-7 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++-7 g++-5 + ln -s clang-7 gcc-5 + ln -s clang-7 cpp-5 + ln -s clang-7 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++-7 g++-6 + ln -s clang-7 gcc-6 + ln -s clang-7 cpp-6 + ln -s clang-7 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++-7 g++-7 + ln -s clang-7 gcc-7 + ln -s clang-7 cpp-7 + ln -s clang-7 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++-7 g++-8 + ln -s clang-7 gcc-8 + ln -s clang-7 cpp-8 + ln -s clang-7 gcc + echo 'gcc-8 hold' + dpkg --set-selections + echo 'g++-8 hold' + dpkg --set-selections + cd - /build/libvcflib-q0vE7I + 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 I: Finished running '/tmp/clang7'. Finished processing commands. -------------------------------------------------------------------------------- +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://127.0.0.1:9999/debian sid InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libmpfr6 libpam-modules libpam-modules-bin libpam-runtime libpam0g 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 1519 kB of archives. After this operation, 7168 B of additional disk space will be used. Get:1 http://127.0.0.1:9999/debian sid/main amd64 libpam0g amd64 1.1.8-4 [124 kB] Get:2 http://127.0.0.1:9999/debian sid/main amd64 libpam-modules-bin amd64 1.1.8-4 [106 kB] Get:3 http://127.0.0.1:9999/debian sid/main amd64 libpam-modules amd64 1.1.8-4 [305 kB] Get:4 http://127.0.0.1:9999/debian sid/main amd64 libpam-runtime all 1.1.8-4 [211 kB] Get:5 http://127.0.0.1:9999/debian sid/main amd64 libmpfr6 amd64 4.0.2~rc1-1 [773 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 1519 kB in 0s (26.2 MB/s) (Reading database ... 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Processing triggers for libc-bin (2.28-4) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'libvcflib' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libvcflib.git Please use: git clone https://salsa.debian.org/med-team/libvcflib.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 8183 kB of source archives. Get:1 http://127.0.0.1:9999/debian sid/main libvcflib 1.0.0~rc2+dfsg-2 (dsc) [2340 B] Get:2 http://127.0.0.1:9999/debian sid/main libvcflib 1.0.0~rc2+dfsg-2 (tar) [8169 kB] Get:3 http://127.0.0.1:9999/debian sid/main libvcflib 1.0.0~rc2+dfsg-2 (diff) [11.7 kB] Fetched 8183 kB in 0s (26.6 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/libvcflib-q0vE7I/libvcflib-1.0.0~rc2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/libvcflib-q0vE7I' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-7mecyh/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-7mecyh/apt_archive ./ InRelease Get:2 copy:/<>/resolver-7mecyh/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-7mecyh/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-7mecyh/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-7mecyh/apt_archive ./ Packages [433 B] Fetched 1739 B in 0s (0 B/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 856 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-7mecyh/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 856 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 12592 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper (>= 11~), dh-exec, python-markdown, libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev (>= 0.0+20160702-2), libssw-dev, libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~), pkg-config, libipc-run3-perl Filtered Build-Depends: debhelper (>= 11~), dh-exec, python-markdown, libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev (>= 0.0+20160702-2), libssw-dev, libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~), pkg-config, libipc-run3-perl dpkg-deb: building package 'sbuild-build-depends-libvcflib-dummy' in '/<>/resolver-7mecyh/apt_archive/sbuild-build-depends-libvcflib-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-libvcflib-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-7mecyh/apt_archive ./ InRelease Get:2 copy:/<>/resolver-7mecyh/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-7mecyh/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-7mecyh/apt_archive ./ Sources [610 B] Get:5 copy:/<>/resolver-7mecyh/apt_archive ./ Packages [693 B] Fetched 2266 B in 0s (0 B/s) Reading package lists... Reading package lists... Install libvcflib 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 bsdmainutils debhelper dh-autoreconf dh-exec dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbz2-dev libcroco3 libcurl3-gnutls libdisorder-dev libdisorder0 libelf1 libexpat1 libfastahack-dev libfastahack0 libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libhts-dev libhts2 libicu63 libipc-run3-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsmithwaterman-dev libsmithwaterman0 libsqlite3-0 libssh2-1 libssl1.1 libssw-dev libssw0 libtabixpp-dev libtabixpp0 libtool libuchardet0 libxml2 m4 man-db mime-support pkg-config po-debconf python python-markdown python-minimal python-pkg-resources python2 python2-minimal python2.7 python2.7-minimal readline-common sensible-utils zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff krb5-doc krb5-user liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python-doc python-tk python-markdown-doc python-setuptools python2-doc python2.7-doc binfmt-support readline-doc Recommended packages: curl | wget | lynx bzip2-doc ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libgpm2 publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl python-pygments python-yaml The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-exec dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbz2-dev libcroco3 libcurl3-gnutls libdisorder-dev libdisorder0 libelf1 libexpat1 libfastahack-dev libfastahack0 libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libhts-dev libhts2 libicu63 libipc-run3-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsmithwaterman-dev libsmithwaterman0 libsqlite3-0 libssh2-1 libssl1.1 libssw-dev libssw0 libtabixpp-dev libtabixpp0 libtool libuchardet0 libxml2 m4 man-db mime-support pkg-config po-debconf python python-markdown python-minimal python-pkg-resources python2 python2-minimal python2.7 python2.7-minimal readline-common sbuild-build-depends-libvcflib-dummy sensible-utils zlib1g-dev 0 upgraded, 83 newly installed, 0 to remove and 0 not upgraded. Need to get 33.1 MB of archives. After this operation, 107 MB of additional disk space will be used. Get:1 copy:/<>/resolver-7mecyh/apt_archive ./ sbuild-build-depends-libvcflib-dummy 0.invalid.0 [984 B] Get:2 http://127.0.0.1:9999/debian sid/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get:3 http://127.0.0.1:9999/debian sid/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:4 http://127.0.0.1:9999/debian sid/main amd64 groff-base amd64 1.22.4-2 [917 kB] Get:5 http://127.0.0.1:9999/debian sid/main amd64 libpipeline1 amd64 1.5.0-2 [29.5 kB] Get:6 http://127.0.0.1:9999/debian sid/main amd64 man-db amd64 2.8.5-1 [1274 kB] Get:7 http://127.0.0.1:9999/debian sid/main amd64 libpython2.7-minimal amd64 2.7.15-5 [394 kB] Get:8 http://127.0.0.1:9999/debian sid/main amd64 python2.7-minimal amd64 2.7.15-5 [1365 kB] Get:9 http://127.0.0.1:9999/debian sid/main amd64 python2-minimal amd64 2.7.15-3 [41.3 kB] Get:10 http://127.0.0.1:9999/debian sid/main amd64 python-minimal amd64 2.7.15-3 [20.9 kB] Get:11 http://127.0.0.1:9999/debian sid/main amd64 mime-support all 3.61 [37.1 kB] Get:12 http://127.0.0.1:9999/debian sid/main amd64 libexpat1 amd64 2.2.6-1 [105 kB] Get:13 http://127.0.0.1:9999/debian sid/main amd64 readline-common all 7.0-5 [70.6 kB] Get:14 http://127.0.0.1:9999/debian sid/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:15 http://127.0.0.1:9999/debian sid/main amd64 libsqlite3-0 amd64 3.26.0+fossilbc891ac6b-1 [634 kB] Get:16 http://127.0.0.1:9999/debian sid/main amd64 libssl1.1 amd64 1.1.1a-1 [1527 kB] Get:17 http://127.0.0.1:9999/debian sid/main amd64 libpython2.7-stdlib amd64 2.7.15-5 [1909 kB] Get:18 http://127.0.0.1:9999/debian sid/main amd64 python2.7 amd64 2.7.15-5 [299 kB] Get:19 http://127.0.0.1:9999/debian sid/main amd64 libpython2-stdlib amd64 2.7.15-3 [20.7 kB] Get:20 http://127.0.0.1:9999/debian sid/main amd64 libpython-stdlib amd64 2.7.15-3 [20.7 kB] Get:21 http://127.0.0.1:9999/debian sid/main amd64 python2 amd64 2.7.15-3 [41.5 kB] Get:22 http://127.0.0.1:9999/debian sid/main amd64 python amd64 2.7.15-3 [22.7 kB] Get:23 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[4212 B] Get:68 http://127.0.0.1:9999/debian sid/main amd64 libfastahack0 amd64 0.0+git20160702.bbc645f+dfsg-6 [24.3 kB] Get:69 http://127.0.0.1:9999/debian sid/main amd64 libfastahack-dev amd64 0.0+git20160702.bbc645f+dfsg-6 [24.3 kB] Get:70 http://127.0.0.1:9999/debian sid/main amd64 libhts2 amd64 1.9-8 [306 kB] Get:71 http://127.0.0.1:9999/debian sid/main amd64 liblzma-dev amd64 5.2.2-1.3 [292 kB] Get:72 http://127.0.0.1:9999/debian sid/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] Get:73 http://127.0.0.1:9999/debian sid/main amd64 libhts-dev amd64 1.9-8 [4345 kB] Get:74 http://127.0.0.1:9999/debian sid/main amd64 libipc-run3-perl all 0.048-1 [37.8 kB] Get:75 http://127.0.0.1:9999/debian sid/main amd64 libsmithwaterman0 amd64 0.0+git20160702.2610e25-7 [36.0 kB] Get:76 http://127.0.0.1:9999/debian sid/main amd64 libsmithwaterman-dev amd64 0.0+git20160702.2610e25-7 [38.9 kB] Get:77 http://127.0.0.1:9999/debian sid/main amd64 libssw0 amd64 1.1-2 [16.5 kB] Get:78 http://127.0.0.1:9999/debian sid/main amd64 libssw-dev amd64 1.1-2 [19.3 kB] Get:79 http://127.0.0.1:9999/debian sid/main amd64 libtabixpp0 amd64 1.0.0-4 [7828 B] Get:80 http://127.0.0.1:9999/debian sid/main amd64 libtabixpp-dev amd64 1.0.0-4 [7160 B] Get:81 http://127.0.0.1:9999/debian sid/main amd64 pkg-config amd64 0.29-4+b1 [63.3 kB] Get:82 http://127.0.0.1:9999/debian sid/main amd64 python-pkg-resources all 40.6.2-1 [181 kB] Get:83 http://127.0.0.1:9999/debian sid/main amd64 python-markdown all 3.0.1-2 [60.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 33.1 MB in 2s (18.2 MB/s) Selecting previously unselected package bsdmainutils. (Reading database ... 12592 files and directories currently installed.) Preparing to unpack .../00-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-2_amd64.deb ... Unpacking groff-base (1.22.4-2) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.0-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.0-2) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.8.5-1_amd64.deb ... Unpacking man-db (2.8.5-1) ... Selecting previously unselected package libpython2.7-minimal:amd64. Preparing to unpack .../05-libpython2.7-minimal_2.7.15-5_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.15-5) ... 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Selecting previously unselected package python-markdown. Preparing to unpack .../61-python-markdown_3.0.1-2_all.deb ... Unpacking python-markdown (3.0.1-2) ... Selecting previously unselected package sbuild-build-depends-libvcflib-dummy. Preparing to unpack .../62-sbuild-build-depends-libvcflib-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-libvcflib-dummy (0.invalid.0) ... Setting up readline-common (7.0-5) ... Setting up libexpat1:amd64 (2.2.6-1) ... Setting up libbz2-dev:amd64 (1.0.6-9) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libdisorder0:amd64 (0.0.2+git20130809.8062ee1-1) ... Setting up libnghttp2-14:amd64 (1.35.1-1+b1) ... Setting up libfastahack0 (0.0+git20160702.bbc645f+dfsg-6) ... Setting up mime-support (3.61) ... Setting up libicu63:amd64 (63.1-5) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libldap-common (2.4.47+dfsg-1) ... Setting up libssw0:amd64 (1.1-2) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up libelf1:amd64 (0.175-2) ... Setting up libglib2.0-0:amd64 (2.58.2-3) ... No schema files found: doing nothing. Setting up libssw-dev:amd64 (1.1-2) ... Setting up libdisorder-dev:amd64 (0.0.2+git20130809.8062ee1-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up libpipeline1:amd64 (1.5.0-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up m4 (1.4.18-2) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+b3) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libmagic-mgc (1:5.34-2) ... Setting up libmagic1:amd64 (1:5.34-2) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up libfastahack-dev (0.0+git20160702.bbc645f+dfsg-6) ... Setting up pkg-config (0.29-4+b1) ... Setting up sensible-utils (0.0.12) ... Setting up libssh2-1:amd64 (1.8.0-2) ... Processing triggers for libc-bin (2.28-4) ... Setting up dwz (0.12-3) ... Setting up autotools-dev (20180224.1) ... Setting up libssl1.1:amd64 (1.1.1a-1) ... Setting up libsqlite3-0:amd64 (3.26.0+fossilbc891ac6b-1) ... Setting up libipc-run3-perl (0.048-1) ... Setting up liblzma-dev:amd64 (5.2.2-1.3) ... Setting up libkeyutils1:amd64 (1.5.9-9.3) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libncurses6:amd64 (6.1+20181013-1) ... Setting up libpython2.7-stdlib:amd64 (2.7.15-5) ... Setting up autopoint (0.19.8.1-9) ... Setting up libsmithwaterman0 (0.0+git20160702.2610e25-7) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ... Setting up libfile-stripnondeterminism-perl (1.0.0-1) ... Setting up gettext (0.19.8.1-9) ... Setting up groff-base (1.22.4-2) ... Setting up python2.7 (2.7.15-5) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.34-2) ... Setting up libkrb5support0:amd64 (1.16.2-1) ... Setting up libsmithwaterman-dev (0.0+git20160702.2610e25-7) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.8.5-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython2-stdlib:amd64 (2.7.15-3) ... Setting up libtool (2.4.6-6) ... Setting up libk5crypto3:amd64 (1.16.2-1) ... Setting up po-debconf (1.0.21) ... Setting up python2 (2.7.15-3) ... Setting up libpython-stdlib:amd64 (2.7.15-3) ... Setting up libkrb5-3:amd64 (1.16.2-1) ... Setting up python (2.7.15-3) ... Setting up python-pkg-resources (40.6.2-1) ... Setting up libgssapi-krb5-2:amd64 (1.16.2-1) ... Setting up python-markdown (3.0.1-2) ... Setting up libsasl2-modules-db:amd64 (2.1.27~rc8-1) ... Setting up libsasl2-2:amd64 (2.1.27~rc8-1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-1) ... Setting up libcurl3-gnutls:amd64 (7.62.0-1) ... Setting up libhts2:amd64 (1.9-8) ... Setting up libtabixpp0:amd64 (1.0.0-4) ... Setting up libhts-dev:amd64 (1.9-8) ... Setting up libtabixpp-dev:amd64 (1.0.0-4) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.0.0-1) ... Setting up debhelper (12) ... Setting up dh-exec (0.23.1) ... Setting up sbuild-build-depends-libvcflib-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.28-4) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-8-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.31.1-11 dpkg-dev_1.19.2 g++-8_8.2.0-14 gcc-8_8.2.0-14 libc6-dev_2.28-4 libstdc++-8-dev_8.2.0-14 libstdc++6_8.2.0-14 linux-libc-dev_4.19.13-1 Package versions: adduser_3.118 apt_1.8.0~alpha3 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1 base-passwd_3.5.45 bash_4.4.18-3.1 binutils_2.31.1-11 binutils-common_2.31.1-11 binutils-x86-64-linux-gnu_2.31.1-11 bsdmainutils_11.1.2+b1 bsdutils_1:2.33-0.2 build-essential_12.5 bzip2_1.0.6-9 clang-7_1:7.0.1-4 coreutils_8.30-1 cpp_4:8.2.0-2 cpp-8_8.2.0-14 dash_0.5.10.2-4 debconf_1.5.69 debhelper_12 debian-archive-keyring_2018.1 debianutils_4.8.6 dh-autoreconf_19 dh-exec_0.23.1 dh-strip-nondeterminism_1.0.0-1 diffutils_1:3.6-1 dpkg_1.19.2 dpkg-dev_1.19.2 dwz_0.12-3 e2fsprogs_1.44.5-1 fakeroot_1.23-1 fdisk_2.33-0.2 file_1:5.34-2 findutils_4.6.0+git+20181018-1 g++_4:8.2.0-2 g++-8_8.2.0-14 gcc_4:8.2.0-2 gcc-8_8.2.0-14 gcc-8-base_8.2.0-14 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpgv_2.2.12-1 grep_3.3-1 groff-base_1.22.4-2 gzip_1.9-3 hostname_3.21 init-system-helpers_1.56+nmu1 intltool-debian_0.35.0+20060710.4 lib32gcc1_1:8.2.0-14 lib32stdc++6_8.2.0-14 libacl1_2.2.52-3+b1 libapt-pkg5.0_1.8.0~alpha3 libarchive-zip-perl_1.64-1 libasan5_8.2.0-14 libatomic1_8.2.0-14 libattr1_1:2.4.47-2+b2 libaudit-common_1:2.8.4-2 libaudit1_1:2.8.4-2 libbinutils_2.31.1-11 libblkid1_2.33-0.2 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libbz2-dev_1.0.6-9 libc-bin_2.28-4 libc-dev-bin_2.28-4 libc6_2.28-4 libc6-dev_2.28-4 libc6-i386_2.28-4 libcap-ng0_0.7.9-1+b1 libcc1-0_8.2.0-14 libclang-common-7-dev_1:7.0.1-4 libclang1-7_1:7.0.1-4 libcom-err2_1.44.5-1 libcroco3_0.6.12-3 libcurl3-gnutls_7.62.0-1 libdb5.3_5.3.28+dfsg1-0.2 libdebconfclient0_0.246 libdisorder-dev_0.0.2+git20130809.8062ee1-1 libdisorder0_0.0.2+git20130809.8062ee1-1 libdpkg-perl_1.19.2 libedit2_3.1-20181209-1 libelf1_0.175-2 libexpat1_2.2.6-1 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfastahack-dev_0.0+git20160702.bbc645f+dfsg-6 libfastahack0_0.0+git20160702.bbc645f+dfsg-6 libfdisk1_2.33-0.2 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.0.0-1 libgc1c2_1:7.6.4-0.4 libgcc-8-dev_8.2.0-14 libgcc1_1:8.2.0-14 libgcrypt20_1.8.4-4 libgdbm-compat4_1.18.1-2 libgdbm6_1.18.1-2 libglib2.0-0_2.58.2-3 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.5-2 libgomp1_8.2.0-14 libgpg-error0_1.33-3 libgssapi-krb5-2_1.16.2-1 libhogweed4_3.4.1~rc1-1 libhts-dev_1.9-8 libhts2_1.9-8 libicu63_63.1-5 libidn2-0_2.0.5-1 libipc-run3-perl_0.048-1 libisl19_0.20-2 libitm1_8.2.0-14 libk5crypto3_1.16.2-1 libkeyutils1_1.5.9-9.3 libkrb5-3_1.16.2-1 libkrb5support0_1.16.2-1 libldap-2.4-2_2.4.47+dfsg-1 libldap-common_2.4.47+dfsg-1 libllvm7_1:7.0.1-4 liblsan0_8.2.0-14 liblz4-1_1.8.3-1 liblzma-dev_5.2.2-1.3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.34-2 libmagic1_1:5.34-2 libmount1_2.33-0.2 libmpc3_1.1.0-1 libmpfr6_4.0.2~rc1-1 libmpx2_8.2.0-14 libncurses6_6.1+20181013-1 libncursesw6_6.1+20181013-1 libnettle6_3.4.1~rc1-1 libnghttp2-14_1.35.1-1+b1 libobjc-8-dev_8.2.0-14 libobjc4_8.2.0-14 libomp-7-dev_1:7.0.1-4 libomp5-7_1:7.0.1-4 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-4 libpam-modules-bin_1.1.8-4 libpam-runtime_1.1.8-4 libpam0g_1.1.8-4 libpcre3_2:8.39-11 libperl5.28_5.28.1-3 libpipeline1_1.5.0-2 libpsl5_0.20.2-2 libpython-stdlib_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7-minimal_2.7.15-5 libpython2.7-stdlib_2.7.15-5 libquadmath0_8.2.0-14 libreadline7_7.0-5 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27~rc8-1 libsasl2-modules-db_2.1.27~rc8-1 libseccomp2_2.3.3-3 libselinux1_2.8-1+b1 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.33-0.2 libsmithwaterman-dev_0.0+git20160702.2610e25-7 libsmithwaterman0_0.0+git20160702.2610e25-7 libsqlite3-0_3.26.0+fossilbc891ac6b-1 libss2_1.44.5-1 libssh2-1_1.8.0-2 libssl1.1_1.1.1a-1 libssw-dev_1.1-2 libssw0_1.1-2 libstdc++-8-dev_8.2.0-14 libstdc++6_8.2.0-14 libsystemd0_240-2 libtabixpp-dev_1.0.0-4 libtabixpp0_1.0.0-4 libtasn1-6_4.13-3 libtinfo6_6.1+20181013-1 libtool_2.4.6-6 libtsan0_8.2.0-14 libubsan1_8.2.0-14 libuchardet0_0.0.6-3 libudev1_240-2 libunistring2_0.9.10-1 libuuid1_2.33-0.2 libxml2_2.9.4+dfsg1-7+b3 libzstd1_1.3.8+dfsg-3 linux-libc-dev_4.19.13-1 login_1:4.5-1.1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-1 mawk_1.3.3-17+b3 mime-support_3.61 mount_2.33-0.2 ncurses-base_6.1+20181013-1 ncurses-bin_6.1+20181013-1 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.28.1-3 perl-base_5.28.1-3 perl-modules-5.28_5.28.1-3 pkg-config_0.29-4+b1 po-debconf_1.0.21 python_2.7.15-3 python-markdown_3.0.1-2 python-minimal_2.7.15-3 python-pkg-resources_40.6.2-1 python2_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-5 python2.7-minimal_2.7.15-5 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-libvcflib-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.93-3 tar_1.30+dfsg-4 tzdata_2018i-1 util-linux_2.33-0.2 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Fri Sep 14 12:04:52 2018 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 ./libvcflib_1.0.0~rc2+dfsg-2.dsc dpkg-source: info: extracting libvcflib in /<>/libvcflib-1.0.0~rc2+dfsg dpkg-source: info: unpacking libvcflib_1.0.0~rc2+dfsg.orig.tar.xz dpkg-source: info: unpacking libvcflib_1.0.0~rc2+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_tabixpp.patch dpkg-source: info: applying use_debian_packaged_smithwaterman.patch dpkg-source: info: applying multichoose.h.patch dpkg-source: info: applying filevercmp.h.patch dpkg-source: info: applying use_debian_packaged_fastahack.patch dpkg-source: info: applying intervaltree.patch dpkg-source: info: applying shared_lib.patch dpkg-source: info: applying keep_R_files.patch dpkg-source: info: applying use_debian_packaged_libssw.patch dpkg-source: info: applying pkg-config.patch dpkg-source: info: applying fix_ssw_cpp_header_name.patch dpkg-source: info: applying fix_installation.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=POSIX 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-f8e8f6a1-9149-42eb-9920-3c9b4922e869 SCHROOT_UID=1001 SCHROOT_USER=user42 SHELL=/bin/sh USER=user42 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package libvcflib dpkg-buildpackage: info: source version 1.0.0~rc2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean dh_auto_clean make -j4 clean make[1]: Entering directory '/<>/libvcflib-1.0.0~rc2+dfsg' make[1]: git: Command not found rm -f binaries/vcfecho binaries/vcfnormalizesvs binaries/dumpContigsFromHeader binaries/bFst binaries/pVst binaries/hapLrt binaries/popStats binaries/wcFst binaries/iHS binaries/segmentFst binaries/segmentIhs binaries/genotypeSummary binaries/sequenceDiversity binaries/pFst binaries/smoother binaries/vcfld binaries/plotHaps binaries/abba-baba binaries/permuteGPAT++ binaries/permuteSmooth binaries/normalize-iHS binaries/meltEHH binaries/vcfaltcount binaries/vcfhetcount binaries/vcfhethomratio binaries/vcffilter binaries/vcf2tsv binaries/vcfgenotypes binaries/vcfannotategenotypes binaries/vcfcommonsamples binaries/vcfremovesamples binaries/vcfkeepsamples binaries/vcfsamplenames binaries/vcfgenotypecompare binaries/vcffixup binaries/vcfclassify binaries/vcfsamplediff binaries/vcfremoveaberrantgenotypes binaries/vcfrandom binaries/vcfparsealts binaries/vcfstats binaries/vcfflatten binaries/vcfprimers binaries/vcfnumalt binaries/vcfcleancomplex binaries/vcfintersect binaries/vcfannotate binaries/vcfallelicprimitives binaries/vcfoverlay binaries/vcfaddinfo binaries/vcfkeepinfo binaries/vcfkeepgeno binaries/vcfafpath binaries/vcfcountalleles binaries/vcflength binaries/vcfdistance binaries/vcfrandomsample binaries/vcfentropy binaries/vcfglxgt binaries/vcfroc binaries/vcfcheck binaries/vcfstreamsort binaries/vcfuniq binaries/vcfuniqalleles binaries/vcfremap binaries/vcf2fasta binaries/vcfsitesummarize binaries/vcfbreakmulti binaries/vcfcreatemulti binaries/vcfevenregions binaries/vcfcat binaries/vcfgenosummarize binaries/vcfgenosamplenames binaries/vcfgeno2haplo binaries/vcfleftalign binaries/vcfcombine binaries/vcfgeno2alleles binaries/vcfindex binaries/vcf2dag binaries/vcfsample2info binaries/vcfqual2info binaries/vcfinfo2qual binaries/vcfglbound binaries/vcfunphase binaries/vcfnull2ref binaries/vcfinfosummarize src/Variant.o src/rnglib.o src/var.o src/pdflib.o src/cdflib.o src/split.o rm -f ssw_cpp.o ssw.o rm -f libvcflib.so rm -rf binaries rm -rf lib rm -rf include rm -rf obj # cd tabixpp && make clean # cd smithwaterman && make clean # cd fastahack && make clean make[1]: Leaving directory '/<>/libvcflib-1.0.0~rc2+dfsg' debian/rules override_dh_clean make[1]: Entering directory '/<>/libvcflib-1.0.0~rc2+dfsg' dh_clean find . -name "*.o" -delete make[1]: Leaving directory '/<>/libvcflib-1.0.0~rc2+dfsg' debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>/libvcflib-1.0.0~rc2+dfsg' dh_auto_build make -j4 "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/libvcflib-1.0.0~rc2+dfsg' make[2]: git: Command not found if [ ! -d binaries ]; then mkdir -p binaries; fi if [ ! -d lib ]; then mkdir -p lib; fi if [ ! -d include ]; then mkdir -p include; fi if [ ! -d obj ]; then mkdir -p obj; fi echo "Source does not contain dir multichoose" #mkdir -p filevercmp echo "Source does not contain dir intervaltree" Source does not contain dir multichoose # cd multichoose && make && cp *.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ Source does not contain dir intervaltree #cp /usr/share/gnulib/lib/filevercmp.* filevercmp # cd intervaltree && make && cp *.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ #echo 'Proper use of filevercmp would be: `gnulib-tool --import filevercmp` - but it needs ./configure.ac' mkdir -p /<>/libvcflib-1.0.0~rc2+dfsg/include/ && cp -a debian/include/* /<>/libvcflib-1.0.0~rc2+dfsg/include/ #We here go with quilt patches from upstream files cd filevercmp && g++ -O3 -D_FILE_OFFSET_BITS=64 -std=c++0x -fPIC -c filevercmp.c clang: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is deprecated [-Wdeprecated] ln -sf ../filevercmp/filevercmp.h /<>/libvcflib-1.0.0~rc2+dfsg/include/filevercmp.h g++ -c -g -O2 -fdebug-prefix-map=/<>/libvcflib-1.0.0~rc2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/Variant.o src/Variant.cpp `pkg-config --cflags libsmithwaterman` `pkg-config --cflags libfastahack` -Iinclude -Llib -lvcflib -lhts -lpthread -lz -lm -llzma -lbz2 -ltabixpp `pkg-config --libs libsmithwaterman` `pkg-config --libs libfastahack` -ldisorder -O3 -D_FILE_OFFSET_BITS=64 -std=c++0x && cp src/*.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ g++ -c -g -O2 -fdebug-prefix-map=/<>/libvcflib-1.0.0~rc2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/rnglib.o src/rnglib.cpp `pkg-config --cflags libsmithwaterman` `pkg-config --cflags libfastahack` -Iinclude -Llib -lvcflib -lhts -lpthread -lz -lm -llzma -lbz2 -ltabixpp `pkg-config --libs libsmithwaterman` `pkg-config --libs libfastahack` -ldisorder -O3 -D_FILE_OFFSET_BITS=64 -std=c++0x && cp src/*.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ g++ -c -g -O2 -fdebug-prefix-map=/<>/libvcflib-1.0.0~rc2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/var.o src/var.cpp `pkg-config --cflags libsmithwaterman` `pkg-config --cflags libfastahack` -Iinclude -Llib -lvcflib -lhts -lpthread -lz -lm -llzma -lbz2 -ltabixpp `pkg-config --libs libsmithwaterman` `pkg-config --libs libfastahack` -ldisorder -O3 -D_FILE_OFFSET_BITS=64 -std=c++0x && cp src/*.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ g++ -c -g -O2 -fdebug-prefix-map=/<>/libvcflib-1.0.0~rc2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/pdflib.o src/pdflib.cpp `pkg-config --cflags libsmithwaterman` `pkg-config --cflags libfastahack` -Iinclude -Llib -lvcflib -lhts -lpthread -lz -lm -llzma -lbz2 -ltabixpp `pkg-config --libs libsmithwaterman` `pkg-config --libs libfastahack` -ldisorder -O3 -D_FILE_OFFSET_BITS=64 -std=c++0x && cp src/*.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ clangclangclangclang: : : warningwarning: warning: : -lvcflib: 'linker' input unused [-Wunused-command-line-argument] -lvcflib: 'linker' input unused [-Wunused-command-line-argument] -lvcflib: 'linker' input unused [-Wunused-command-line-argument] clang: warningclang: clang: -lhts: 'linker' input unused [-Wunused-command-line-argument]: warningwarning : : -lhts: 'linker' input unused [-Wunused-command-line-argument]-lhts: 'linker' input unused [-Wunused-command-line-argument]clang : warningclang: clang: : -lpthread: 'linker' input unused [-Wunused-command-line-argument]warning warning: : clang-lpthread: 'linker' input unused [-Wunused-command-line-argument]-lpthread: 'linker' input unused [-Wunused-command-line-argument]: warningclang: : -lz: 'linker' input unused [-Wunused-command-line-argument]clangwarning : : warningclang-lz: 'linker' input unused [-Wunused-command-line-argument]: : -lz: 'linker' input unused [-Wunused-command-line-argument]warningclang : : warning-lm: 'linker' input unused [-Wunused-command-line-argument]clang: : -lm: 'linker' input unused [-Wunused-command-line-argument]warning : clang-lm: 'linker' input unused [-Wunused-command-line-argument]: clang warning: : warningclang: -llzma: 'linker' input unused [-Wunused-command-line-argument]: -llzma: 'linker' input unused [-Wunused-command-line-argument] warning : clang-llzma: 'linker' input unused [-Wunused-command-line-argument]: clang warning: : warningclang-lbz2: 'linker' input unused [-Wunused-command-line-argument]: : -lbz2: 'linker' input unused [-Wunused-command-line-argument]warning : clang-lbz2: 'linker' input unused [-Wunused-command-line-argument]clang: : warningwarning: clang: -ltabixpp: 'linker' input unused [-Wunused-command-line-argument]: -ltabixpp: 'linker' input unused [-Wunused-command-line-argument]warning : clangclang-ltabixpp: 'linker' input unused [-Wunused-command-line-argument]: : warningwarning: : -lsmithwaterman: 'linker' input unused [-Wunused-command-line-argument]clang-lsmithwaterman: 'linker' input unused [-Wunused-command-line-argument] : warningclangclang: : : -lsmithwaterman: 'linker' input unused [-Wunused-command-line-argument]warningwarning : : -ldisorder: 'linker' input unused [-Wunused-command-line-argument]-ldisorder: 'linker' input unused [-Wunused-command-line-argument]clang : warningclangclang: : : warning-ldisorder: 'linker' input unused [-Wunused-command-line-argument]: warning -lfastahack: 'linker' input unused [-Wunused-command-line-argument]: -lfastahack: 'linker' input unused [-Wunused-command-line-argument]clang clang: : warningclangwarning: : : -lfastahack: 'linker' input unused [-Wunused-command-line-argument]-ldisorder: 'linker' input unused [-Wunused-command-line-argument]warning : -ldisorder: 'linker' input unused [-Wunused-command-line-argument]clang : warning: -ldisorder: 'linker' input unused [-Wunused-command-line-argument] : warning: -lvcflib: 'linker' input unused [-Wunused-command-line-argument] clang: clang: warningclang: : argument unused during compilation: '-Llib' [-Wunused-command-line-argument]warning : argument unused during compilation: '-Llib' [-Wunused-command-line-argument] warning: -lhts: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lpthread: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lz: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lm: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -llzma: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lbz2: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ltabixpp: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lsmithwaterman: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ldisorder: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lfastahack: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ldisorder: 'linker' input unused [-Wunused-command-line-argument] clang: warning: argument unused during compilation: '-Llib' [-Wunused-command-line-argument] clang: warning: argument unused during compilation: '-Llib' [-Wunused-command-line-argument] g++ -c -g -O2 -fdebug-prefix-map=/<>/libvcflib-1.0.0~rc2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/cdflib.o src/cdflib.cpp `pkg-config --cflags libsmithwaterman` `pkg-config --cflags libfastahack` -Iinclude -Llib -lvcflib -lhts -lpthread -lz -lm -llzma -lbz2 -ltabixpp `pkg-config --libs libsmithwaterman` `pkg-config --libs libfastahack` -ldisorder -O3 -D_FILE_OFFSET_BITS=64 -std=c++0x && cp src/*.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ clang: warning: -lvcflib: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lhts: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lpthread: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lz: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lm: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -llzma: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lbz2: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ltabixpp: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lsmithwaterman: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ldisorder: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lfastahack: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ldisorder: 'linker' input unused [-Wunused-command-line-argument] clang: warning: argument unused during compilation: '-Llib' [-Wunused-command-line-argument] src/Variant.cpp:174:1: warning: control may reach end of non-void function [-Wreturn-type] }; ^ src/Variant.cpp:502:5: warning: control may reach end of non-void function [-Wreturn-type] } ^ src/Variant.cpp:627:5: warning: control may reach end of non-void function [-Wreturn-type] } ^ src/Variant.cpp:661:5: warning: control may reach end of non-void function [-Wreturn-type] } ^ src/Variant.cpp:699:5: warning: control may reach end of non-void function [-Wreturn-type] } ^ g++ -c -g -O2 -fdebug-prefix-map=/<>/libvcflib-1.0.0~rc2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -o src/split.o src/split.cpp `pkg-config --cflags libsmithwaterman` `pkg-config --cflags libfastahack` -Iinclude -Llib -lvcflib -lhts -lpthread -lz -lm -llzma -lbz2 -ltabixpp `pkg-config --libs libsmithwaterman` `pkg-config --libs libfastahack` -ldisorder -O3 -D_FILE_OFFSET_BITS=64 -std=c++0x && cp src/*.h* /<>/libvcflib-1.0.0~rc2+dfsg/include/ clang: warning: -lvcflib: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lhts: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lpthread: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lz: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lm: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -llzma: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lbz2: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ltabixpp: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lsmithwaterman: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ldisorder: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -lfastahack: 'linker' input unused [-Wunused-command-line-argument] clang: warning: -ldisorder: 'linker' input unused [-Wunused-command-line-argument] clang: warning: argument unused during compilation: '-Llib' [-Wunused-command-line-argument] src/cdflib.cpp:2223:36: warning: '&&' within '||' [-Wlogical-op-parentheses] if(!(*s < 0.0e0 || *which != 3 && *s > *xn)) goto S160; ~~ ~~~~~~~~~~~~^~~~~~~~~~~ src/cdflib.cpp:2223:36: note: place parentheses around the '&&' expression to silence this warning if(!(*s < 0.0e0 || *which != 3 && *s > *xn)) goto S160; ^ ( ) src/cdflib.cpp:3909:20: warning: '&&' within '||' [-Wlogical-op-parentheses] if(!(qporq && cum > 1.5e0 || !qporq && ccum > 1.5e0)) goto S280; ~~~~~~^~~~~~~~~~~~~~ ~~ src/cdflib.cpp:3909:20: note: place parentheses around the '&&' expression to silence this warning if(!(qporq && cum > 1.5e0 || !qporq && ccum > 1.5e0)) goto S280; ^ ( ) src/cdflib.cpp:3909:45: warning: '&&' within '||' [-Wlogical-op-parentheses] if(!(qporq && cum > 1.5e0 || !qporq && ccum > 1.5e0)) goto S280; ~~ ~~~~~~~^~~~~~~~~~~~~~~ src/cdflib.cpp:3909:45: note: place parentheses around the '&&' expression to silence this warning if(!(qporq && cum > 1.5e0 || !qporq && ccum > 1.5e0)) goto S280; ^ ( ) src/cdflib.cpp:6924:17: warning: '&&' within '||' [-Wlogical-op-parentheses] qup = qincr && yy < 0.0e0 || !qincr && yy > 0.0e0; ~~~~~~^~~~~~~~~~~~~ ~~ src/cdflib.cpp:6924:17: note: place parentheses around the '&&' expression to silence this warning qup = qincr && yy < 0.0e0 || !qincr && yy > 0.0e0; ^ ( ) src/cdflib.cpp:6924:41: warning: '&&' within '||' [-Wlogical-op-parentheses] qup = qincr && yy < 0.0e0 || !qincr && yy > 0.0e0; ~~ ~~~~~~~^~~~~~~~~~~~~ src/cdflib.cpp:6924:41: note: place parentheses around the '&&' expression to silence this warning qup = qincr && yy < 0.0e0 || !qincr && yy > 0.0e0; ^ ( ) src/cdflib.cpp:6946:18: warning: '&&' within '||' [-Wlogical-op-parentheses] qbdd = qincr && yy >= 0.0e0 || !qincr && yy <= 0.0e0; ~~~~~~^~~~~~~~~~~~~~ ~~ src/cdflib.cpp:6946:18: note: place parentheses around the '&&' expression to silence this warning qbdd = qincr && yy >= 0.0e0 || !qincr && yy <= 0.0e0; ^ ( ) src/cdflib.cpp:6946:43: warning: '&&' within '||' [-Wlogical-op-parentheses] qbdd = qincr && yy >= 0.0e0 || !qincr && yy <= 0.0e0; ~~ ~~~~~~~^~~~~~~~~~~~~~ src/cdflib.cpp:6946:43: note: place parentheses around the '&&' expression to silence this warning qbdd = qincr && yy >= 0.0e0 || !qincr && yy <= 0.0e0; ^ ( ) src/cdflib.cpp:6985:18: warning: '&&' within '||' [-Wlogical-op-parentheses] qbdd = qincr && yy <= 0.0e0 || !qincr && yy >= 0.0e0; ~~~~~~^~~~~~~~~~~~~~ ~~ src/cdflib.cpp:6985:18: note: place parentheses around the '&&' expression to silence this warning qbdd = qincr && yy <= 0.0e0 || !qincr && yy >= 0.0e0; ^ ( ) src/cdflib.cpp:6985:43: warning: '&&' within '||' [-Wlogical-op-parentheses] qbdd = qincr && yy <= 0.0e0 || !qincr && yy >= 0.0e0; ~~ ~~~~~~~^~~~~~~~~~~~~~ src/cdflib.cpp:6985:43: note: place parentheses around the '&&' expression to silence this warning qbdd = qincr && yy <= 0.0e0 || !qincr && yy >= 0.0e0; ^ ( ) src/cdflib.cpp:7190:26: warning: '&&' within '||' [-Wlogical-op-parentheses] qrzero = fc >= 0.0e0 && fb <= 0.0e0 || fc < 0.0e0 && fb >= 0.0e0; ~~~~~~~~~~~~^~~~~~~~~~~~~~ ~~ src/cdflib.cpp:7190:26: note: place parentheses around the '&&' expression to silence this warning qrzero = fc >= 0.0e0 && fb <= 0.0e0 || fc < 0.0e0 && fb >= 0.0e0; ^ ( ) src/cdflib.cpp:7190:55: warning: '&&' within '||' [-Wlogical-op-parentheses] qrzero = fc >= 0.0e0 && fb <= 0.0e0 || fc < 0.0e0 && fb >= 0.0e0; ~~ ~~~~~~~~~~~^~~~~~~~~~~~~~ src/cdflib.cpp:7190:55: note: place parentheses around the '&&' expression to silence this warning qrzero = fc >= 0.0e0 && fb <= 0.0e0 || fc < 0.0e0 && fb >= 0.0e0; ^ ( ) src/cdflib.cpp:10043:15: error: ordered comparison between pointer and zero ('int *' and 'int') if ( n_data < 0 ) ~~~~~~ ^ ~ 11 warnings and 1 error generated. make[2]: *** [Makefile:157: src/cdflib.o] Error 1 make[2]: *** Waiting for unfinished jobs.... 5 warnings generated. make[2]: Leaving directory '/<>/libvcflib-1.0.0~rc2+dfsg' dh_auto_build: make -j4 "INSTALL=install --strip-program=true" returned exit code 2 make[1]: *** [debian/rules:15: override_dh_auto_build] Error 2 make[1]: Leaving directory '/<>/libvcflib-1.0.0~rc2+dfsg' make: *** [debian/rules:8: build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2019-01-09T21:52:04Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 60436 Build-Time: 8 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 15 Job: libvcflib_1.0.0~rc2+dfsg-2 Machine Architecture: amd64 Package: libvcflib Package-Time: 39 Source-Version: 1.0.0~rc2+dfsg-2 Space: 60436 Status: attempted Version: 1.0.0~rc2+dfsg-2 -------------------------------------------------------------------------------- Finished at 2019-01-09T21:52:04Z Build needed 00:00:39, 60436k disk space E: Build failure (dpkg-buildpackage died) DC-Status: Failed 40.295811377s DC-Time-Estimation: 40.295811377 versus expected 171 (r/m: 3.2436172434935306 ; m: 40.295811377)