DC-Build-Header: ncbi-seg 0.0.20000620-1 / 2014-06-17 15:18:21 +0000 DC-Task: source:ncbi-seg version:0.0.20000620-1 architecture:any chroot:unstable esttime:137 logfile:/tmp/ncbi-seg_0.0.20000620-1_unstable_clang.log modes:binary-only:parallel:clang DC-Sbuild-call: su user -c 'sbuild -n --apt-update -d unstable -v --chroot-setup-commands=/tmp/switch-to-clang --append-to-version "clang1" --maintainer "Lucas Nussbaum " --uploader "Lucas Nussbaum " ncbi-seg_0.0.20000620-1' sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on ip-172-31-15-70.us-west-2.compute.internal ╔══════════════════════════════════════════════════════════════════════════════╗ ║ ncbi-seg 0.0.20000620-1clang1 (amd64) 17 Jun 2014 15:18 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: ncbi-seg Version: 0.0.20000620-1clang1 Source Version: 0.0.20000620-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/ncbi-seg-IuydLO/ncbi-seg-0.0.20000620' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/ncbi-seg-IuydLO' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-db1b6fe9-c860-465e-9b5f-06ecaf8c7699' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Get:1 http://localhost:9999 unstable InRelease [206 kB] Get:2 http://localhost:9999 unstable/main Sources/DiffIndex [7876 B] Get:3 http://localhost:9999 unstable/main amd64 Packages/DiffIndex [7876 B] Get:4 http://localhost:9999 unstable/main Translation-en/DiffIndex [7876 B] Get:5 http://localhost:9999 unstable/main 2014-06-16-2054.31.pdiff [15.4 kB] Get:6 http://localhost:9999 unstable/main 2014-06-17-0253.05.pdiff [7983 B] Get:7 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [7757 B] Get:8 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [7757 B] Get:9 http://localhost:9999 unstable/main amd64 2014-06-16-2054.31.pdiff [20.7 kB] Get:10 http://localhost:9999 unstable/main amd64 2014-06-17-0253.05.pdiff [38.6 kB] Get:11 http://localhost:9999 unstable/main amd64 2014-06-17-0856.27.pdiff [9018 B] Get:12 http://localhost:9999 unstable/main 2014-06-16-2054.31.pdiff [699 B] Get:13 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [442 B] Get:14 http://localhost:9999 unstable/main amd64 2014-06-17-0856.27.pdiff [9018 B] Get:15 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [442 B] Fetched 330 kB in 5s (62.8 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: libc-bin libc-dev-bin libc6 libc6-dev linux-libc-dev multiarch-support 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 9447 kB of archives. After this operation, 10.2 kB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libc6-dev amd64 2.19-2 [2000 kB] Get:2 http://localhost:9999/debian/ unstable/main libc-dev-bin amd64 2.19-2 [235 kB] Get:3 http://localhost:9999/debian/ unstable/main linux-libc-dev amd64 3.14.7-1 [937 kB] Get:4 http://localhost:9999/debian/ unstable/main libc-bin amd64 2.19-2 [1288 kB] Get:5 http://localhost:9999/debian/ unstable/main libc6 amd64 2.19-2 [4816 kB] Get:6 http://localhost:9999/debian/ unstable/main multiarch-support amd64 2.19-2 [171 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9447 kB in 0s (31.8 MB/s) (Reading database ... 14215 files and directories currently installed.) Preparing to unpack .../libc6-dev_2.19-2_amd64.deb ... Unpacking libc6-dev:amd64 (2.19-2) over (2.19-1) ... Preparing to unpack .../libc-dev-bin_2.19-2_amd64.deb ... Unpacking libc-dev-bin (2.19-2) over (2.19-1) ... Preparing to unpack .../linux-libc-dev_3.14.7-1_amd64.deb ... Unpacking linux-libc-dev:amd64 (3.14.7-1) over (3.14.5-1) ... Preparing to unpack .../libc-bin_2.19-2_amd64.deb ... Unpacking libc-bin (2.19-2) over (2.19-1) ... Preparing to unpack .../libc6_2.19-2_amd64.deb ... Unpacking libc6:amd64 (2.19-2) over (2.19-1) ... Setting up libc6:amd64 (2.19-2) ... Setting up libc-bin (2.19-2) ... (Reading database ... 14216 files and directories currently installed.) Preparing to unpack .../multiarch-support_2.19-2_amd64.deb ... Unpacking multiarch-support (2.19-2) over (2.19-1) ... Setting up multiarch-support (2.19-2) ... Setting up libc-dev-bin (2.19-2) ... Setting up linux-libc-dev:amd64 (3.14.7-1) ... Setting up libc6-dev:amd64 (2.19-2) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'ncbi-seg' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/debian-med/trunk/packages/seg/trunk/ Need to get 98.5 kB of source archives. Get:1 http://localhost:9999/debian/ unstable/main ncbi-seg 0.0.20000620-1 (dsc) [1424 B] Get:2 http://localhost:9999/debian/ unstable/main ncbi-seg 0.0.20000620-1 (tar) [86.8 kB] Get:3 http://localhost:9999/debian/ unstable/main ncbi-seg 0.0.20000620-1 (diff) [10.3 kB] Fetched 98.5 kB in 1s (91.7 kB/s) Download complete and in download only mode Check arch ────────── ┌──────────────────────────────────────────────────────────────────────────────┐ │ Chroot Setup Commands │ └──────────────────────────────────────────────────────────────────────────────┘ /tmp/switch-to-clang ──────────────────── + echo 'Entering customization script...' Entering customization script... + echo 'Install of clang-3.4' Install of clang-3.4 + apt-get update Hit http://localhost:9999 unstable InRelease Hit http://localhost:9999 unstable/main Sources/DiffIndex Hit http://localhost:9999 unstable/main amd64 Packages/DiffIndex Hit http://localhost:9999 unstable/main Translation-en/DiffIndex Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-3.4 Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: libclang-common-3.4-dev libclang1-3.4 libffi6 libllvm3.4 libobjc-4.9-dev libobjc4 Suggested packages: gnustep gnustep-devel Recommended packages: llvm-3.4-dev python The following NEW packages will be installed: clang-3.4 libclang-common-3.4-dev libclang1-3.4 libffi6 libllvm3.4 libobjc-4.9-dev libobjc4 0 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. Need to get 30.6 MB of archives. After this operation, 118 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libffi6 amd64 3.1-2 [19.8 kB] Get:2 http://localhost:9999/debian/ unstable/main libllvm3.4 amd64 1:3.4.2-2 [6721 kB] Get:3 http://localhost:9999/debian/ unstable/main libobjc4 amd64 4.9.0-6 [112 kB] Get:4 http://localhost:9999/debian/ unstable/main libobjc-4.9-dev amd64 4.9.0-6 [372 kB] Get:5 http://localhost:9999/debian/ unstable/main libclang1-3.4 amd64 1:3.4.2-2 [3619 kB] Get:6 http://localhost:9999/debian/ unstable/main libclang-common-3.4-dev amd64 1:3.4.2-2 [543 kB] Get:7 http://localhost:9999/debian/ unstable/main clang-3.4 amd64 1:3.4.2-2 [19.2 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 30.6 MB in 0s (33.7 MB/s) Selecting previously unselected package libffi6:amd64. (Reading database ... 14216 files and directories currently installed.) Preparing to unpack .../libffi6_3.1-2_amd64.deb ... Unpacking libffi6:amd64 (3.1-2) ... Selecting previously unselected package libllvm3.4:amd64. Preparing to unpack .../libllvm3.4_1%3a3.4.2-2_amd64.deb ... Unpacking libllvm3.4:amd64 (1:3.4.2-2) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../libobjc4_4.9.0-6_amd64.deb ... Unpacking libobjc4:amd64 (4.9.0-6) ... Selecting previously unselected package libobjc-4.9-dev:amd64. Preparing to unpack .../libobjc-4.9-dev_4.9.0-6_amd64.deb ... Unpacking libobjc-4.9-dev:amd64 (4.9.0-6) ... Selecting previously unselected package libclang1-3.4:amd64. Preparing to unpack .../libclang1-3.4_1%3a3.4.2-2_amd64.deb ... Unpacking libclang1-3.4:amd64 (1:3.4.2-2) ... Selecting previously unselected package libclang-common-3.4-dev. Preparing to unpack .../libclang-common-3.4-dev_1%3a3.4.2-2_amd64.deb ... Unpacking libclang-common-3.4-dev (1:3.4.2-2) ... Selecting previously unselected package clang-3.4. Preparing to unpack .../clang-3.4_1%3a3.4.2-2_amd64.deb ... Unpacking clang-3.4 (1:3.4.2-2) ... Setting up libffi6:amd64 (3.1-2) ... Setting up libllvm3.4:amd64 (1:3.4.2-2) ... Setting up libobjc4:amd64 (4.9.0-6) ... Setting up libobjc-4.9-dev:amd64 (4.9.0-6) ... Setting up libclang1-3.4:amd64 (1:3.4.2-2) ... Setting up libclang-common-3.4-dev (1:3.4.2-2) ... Setting up clang-3.4 (1:3.4.2-2) ... Processing triggers for libc-bin (2.19-2) ... + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSIONS='4.6 4.7 4.8 4.9' + cd /usr/bin + for VERSION in '$VERSIONS' + rm -f g++-4.6 gcc-4.6 cpp-4.6 + ln -s clang++ g++-4.6 + ln -s clang gcc-4.6 + ln -s clang cpp-4.6 + echo 'gcc-4.6 hold' + dpkg --set-selections + echo 'g++-4.6 hold' + dpkg --set-selections + for VERSION in '$VERSIONS' + rm -f g++-4.7 gcc-4.7 cpp-4.7 + ln -s clang++ g++-4.7 + ln -s clang gcc-4.7 + ln -s clang cpp-4.7 + echo 'gcc-4.7 hold' + dpkg --set-selections + echo 'g++-4.7 hold' + dpkg --set-selections + for VERSION in '$VERSIONS' + rm -f g++-4.8 gcc-4.8 cpp-4.8 + ln -s clang++ g++-4.8 + ln -s clang gcc-4.8 + ln -s clang cpp-4.8 + echo 'gcc-4.8 hold' + dpkg --set-selections dpkg: warning: package not in database at line 1: gcc-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method + echo 'g++-4.8 hold' + dpkg --set-selections dpkg: warning: package not in database at line 1: g++-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method + for VERSION in '$VERSIONS' + rm -f g++-4.9 gcc-4.9 cpp-4.9 + ln -s clang++ g++-4.9 + ln -s clang gcc-4.9 + ln -s clang cpp-4.9 + echo 'gcc-4.9 hold' + dpkg --set-selections + echo 'g++-4.9 hold' + dpkg --set-selections + cd - /«BUILDDIR» + 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/switch-to-clang'. Finished processing commands. ──────────────────────────────────────────────────────────────────────────────── Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-oS7zuJ/apt_archive/sbuild-build-depends-core-dummy.deb'. OK 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 debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/816 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14431 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), dh-autoreconf Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), dh-autoreconf dpkg-deb: building package `sbuild-build-depends-ncbi-seg-dummy' in `/«BUILDDIR»/resolver-8DGXRL/apt_archive/sbuild-build-depends-ncbi-seg-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install ncbi-seg build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libglib2.0-0 libmagic1 libpipeline1 libsigsegv2 libtool libunistring0 libxml2 m4 man-db po-debconf Suggested packages: autoconf2.13 autoconf-archive gnu-standards autoconf-doc wamerican wordlist whois vacation dh-make gettext-doc groff libtool-doc automaken gfortran fortran95-compiler gcj-jdk less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info libltdl-dev xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libglib2.0-0 libmagic1 libpipeline1 libsigsegv2 libtool libunistring0 libxml2 m4 man-db po-debconf sbuild-build-depends-ncbi-seg-dummy 0 upgraded, 25 newly installed, 0 to remove and 0 not upgraded. Need to get 11.0 MB/11.0 MB of archives. After this operation, 32.2 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libpipeline1 amd64 1.3.0-1 [25.8 kB] Get:2 http://localhost:9999/debian/ unstable/main groff-base amd64 1.22.2-5 [1043 kB] Get:3 http://localhost:9999/debian/ unstable/main bsdmainutils amd64 9.0.5 [211 kB] Get:4 http://localhost:9999/debian/ unstable/main man-db amd64 2.6.7.1-1 [990 kB] Get:5 http://localhost:9999/debian/ unstable/main libasprintf0c2 amd64 0.18.3.2-2 [29.4 kB] Get:6 http://localhost:9999/debian/ unstable/main libmagic1 amd64 1:5.19-1 [237 kB] Get:7 http://localhost:9999/debian/ unstable/main libxml2 amd64 2.9.1+dfsg1-3 [791 kB] Get:8 http://localhost:9999/debian/ unstable/main libglib2.0-0 amd64 2.40.0-3 [2405 kB] Get:9 http://localhost:9999/debian/ unstable/main libcroco3 amd64 0.6.8-2 [133 kB] Get:10 http://localhost:9999/debian/ unstable/main libsigsegv2 amd64 2.10-4 [28.8 kB] Get:11 http://localhost:9999/debian/ unstable/main libunistring0 amd64 0.9.3-5 [434 kB] Get:12 http://localhost:9999/debian/ unstable/main file amd64 1:5.19-1 [58.0 kB] Get:13 http://localhost:9999/debian/ unstable/main gettext-base amd64 0.18.3.2-2 [116 kB] Get:14 http://localhost:9999/debian/ unstable/main m4 amd64 1.4.17-4 [254 kB] Get:15 http://localhost:9999/debian/ unstable/main autoconf all 2.69-6 [340 kB] Get:16 http://localhost:9999/debian/ unstable/main autotools-dev all 20140510.1 [70.3 kB] Get:17 http://localhost:9999/debian/ unstable/main automake all 1:1.14.1-3 [725 kB] Get:18 http://localhost:9999/debian/ unstable/main autopoint all 0.18.3.2-2 [393 kB] Get:19 http://localhost:9999/debian/ unstable/main gettext amd64 0.18.3.2-2 [1202 kB] Get:20 http://localhost:9999/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:21 http://localhost:9999/debian/ unstable/main po-debconf all 1.0.16+nmu2 [224 kB] Get:22 http://localhost:9999/debian/ unstable/main debhelper all 9.20140613 [692 kB] Get:23 http://localhost:9999/debian/ unstable/main libtool amd64 2.4.2-1.7 [505 kB] Get:24 http://localhost:9999/debian/ unstable/main dh-autoreconf all 9 [15.5 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 11.0 MB in 0s (20.3 MB/s) Selecting previously unselected package libpipeline1:amd64. (Reading database ... 14431 files and directories currently installed.) Preparing to unpack .../libpipeline1_1.3.0-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.3.0-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../groff-base_1.22.2-5_amd64.deb ... Unpacking groff-base (1.22.2-5) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../bsdmainutils_9.0.5_amd64.deb ... Unpacking bsdmainutils (9.0.5) ... Selecting previously unselected package man-db. Preparing to unpack .../man-db_2.6.7.1-1_amd64.deb ... Unpacking man-db (2.6.7.1-1) ... Selecting previously unselected package libasprintf0c2:amd64. Preparing to unpack .../libasprintf0c2_0.18.3.2-2_amd64.deb ... Unpacking libasprintf0c2:amd64 (0.18.3.2-2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../libmagic1_1%3a5.19-1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.19-1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../libxml2_2.9.1+dfsg1-3_amd64.deb ... Unpacking libxml2:amd64 (2.9.1+dfsg1-3) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../libglib2.0-0_2.40.0-3_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.40.0-3) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../libcroco3_0.6.8-2_amd64.deb ... Unpacking libcroco3:amd64 (0.6.8-2) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../libsigsegv2_2.10-4_amd64.deb ... Unpacking libsigsegv2:amd64 (2.10-4) ... Selecting previously unselected package libunistring0:amd64. Preparing to unpack .../libunistring0_0.9.3-5_amd64.deb ... Unpacking libunistring0:amd64 (0.9.3-5) ... Selecting previously unselected package file. Preparing to unpack .../file_1%3a5.19-1_amd64.deb ... Unpacking file (1:5.19-1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../gettext-base_0.18.3.2-2_amd64.deb ... Unpacking gettext-base (0.18.3.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../archives/m4_1.4.17-4_amd64.deb ... Unpacking m4 (1.4.17-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../autoconf_2.69-6_all.deb ... Unpacking autoconf (2.69-6) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../autotools-dev_20140510.1_all.deb ... Unpacking autotools-dev (20140510.1) ... Selecting previously unselected package automake. Preparing to unpack .../automake_1%3a1.14.1-3_all.deb ... Unpacking automake (1:1.14.1-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../autopoint_0.18.3.2-2_all.deb ... Unpacking autopoint (0.18.3.2-2) ... Selecting previously unselected package gettext. Preparing to unpack .../gettext_0.18.3.2-2_amd64.deb ... Unpacking gettext (0.18.3.2-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../intltool-debian_0.35.0+20060710.1_all.deb ... Unpacking intltool-debian (0.35.0+20060710.1) ... Selecting previously unselected package po-debconf. Preparing to unpack .../po-debconf_1.0.16+nmu2_all.deb ... Unpacking po-debconf (1.0.16+nmu2) ... Selecting previously unselected package debhelper. Preparing to unpack .../debhelper_9.20140613_all.deb ... Unpacking debhelper (9.20140613) ... Selecting previously unselected package libtool. Preparing to unpack .../libtool_2.4.2-1.7_amd64.deb ... Unpacking libtool (2.4.2-1.7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../dh-autoreconf_9_all.deb ... Unpacking dh-autoreconf (9) ... Selecting previously unselected package sbuild-build-depends-ncbi-seg-dummy. Preparing to unpack .../sbuild-build-depends-ncbi-seg-dummy.deb ... Unpacking sbuild-build-depends-ncbi-seg-dummy (0.invalid.0) ... Setting up libpipeline1:amd64 (1.3.0-1) ... Setting up groff-base (1.22.2-5) ... Setting up bsdmainutils (9.0.5) ... 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 man-db (2.6.7.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libasprintf0c2:amd64 (0.18.3.2-2) ... Setting up libmagic1:amd64 (1:5.19-1) ... Setting up libxml2:amd64 (2.9.1+dfsg1-3) ... Setting up libglib2.0-0:amd64 (2.40.0-3) ... No schema files found: doing nothing. Setting up libcroco3:amd64 (0.6.8-2) ... Setting up libsigsegv2:amd64 (2.10-4) ... Setting up libunistring0:amd64 (0.9.3-5) ... Setting up file (1:5.19-1) ... Setting up gettext-base (0.18.3.2-2) ... Setting up m4 (1.4.17-4) ... Setting up autoconf (2.69-6) ... Setting up autotools-dev (20140510.1) ... Setting up automake (1:1.14.1-3) ... update-alternatives: using /usr/bin/automake-1.14 to provide /usr/bin/automake (automake) in auto mode Setting up autopoint (0.18.3.2-2) ... Setting up gettext (0.18.3.2-2) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20140613) ... Setting up libtool (2.4.2-1.7) ... Setting up dh-autoreconf (9) ... Setting up sbuild-build-depends-ncbi-seg-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.19-2) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-xen-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.24.51.20140604-3 dpkg-dev_1.17.10 g++-4.6_4.6.4-7 g++-4.9_4.9.0-6 gcc-4.6_4.6.4-7 gcc-4.7_4.7.4-1 gcc-4.9_4.9.0-6 libc6-dev_2.19-2 libstdc++-4.9-dev_4.9.0-6 libstdc++6_4.9.0-6 libstdc++6-4.6-dev_4.6.4-7 linux-libc-dev_3.14.7-1 Package versions: apt_1.0.4 autoconf_2.69-6 automake_1:1.14.1-3 autopoint_0.18.3.2-2 autotools-dev_20140510.1 base-files_7.3 base-passwd_3.5.33 bash_4.3-7 binutils_2.24.51.20140604-3 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.8 build-essential_11.6 bzip2_1.0.6-5 clang-3.4_1:3.4.2-2 coreutils_8.21-1.2 cpp_4:4.9.0-3 cpp-4.6_4.6.4-7 cpp-4.7_4.7.4-1 cpp-4.9_4.9.0-6 dash_0.5.7-4 debconf_1.5.53 debconf-i18n_1.5.53 debfoster_2.7-1.2 debhelper_9.20140613 debian-archive-keyring_2012.4 debianutils_4.4 dh-autoreconf_9 diffutils_1:3.3-1 dpkg_1.17.10 dpkg-dev_1.17.10 e2fslibs_1.42.10-1 e2fsprogs_1.42.10-1 fakeroot_1.20-3 file_1:5.19-1 findutils_4.4.2-8 g++_4:4.9.0-3 g++-4.6_4.6.4-7 g++-4.9_4.9.0-6 gcc_4:4.9.0-3 gcc-4.4-base_4.4.7-8 gcc-4.5-base_4.5.4-1 gcc-4.6_4.6.4-7 gcc-4.6-base_4.6.4-7 gcc-4.7_4.7.4-1 gcc-4.7-base_4.7.4-1 gcc-4.8-base_4.8.3-3 gcc-4.9_4.9.0-6 gcc-4.9-base_4.9.0-6 gettext_0.18.3.2-2 gettext-base_0.18.3.2-2 gnupg_1.4.16-1.1 gpgv_1.4.16-1.1 grep_2.18-2 groff-base_1.22.2-5 gzip_1.6-3 hostname_3.15 initscripts_2.88dsf-53.2 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 libacl1_2.2.52-1 libapt-pkg4.12_1.0.4 libarchive-extract-perl_0.72-1 libasan1_4.9.0-6 libasprintf0c2_0.18.3.2-2 libatomic1_4.9.0-6 libattr1_1:2.4.47-1 libaudit-common_1:2.3.7-1 libaudit1_1:2.3.7-1 libblkid1_2.20.1-5.8 libbz2-1.0_1.0.6-5 libc-bin_2.19-2 libc-dev-bin_2.19-2 libc6_2.19-2 libc6-dev_2.19-2 libcap2_1:2.22-1.2 libcilkrts5_4.9.0-6 libclang-common-3.4-dev_1:3.4.2-2 libclang1-3.4_1:3.4.2-2 libclass-isa-perl_0.36-5 libcloog-isl4_0.18.2-1 libcloog-ppl1_0.16.1-5 libcomerr2_1.42.10-1 libcroco3_0.6.8-2 libdb5.1_5.1.29-5 libdb5.3_5.3.28-3 libdebconfclient0_0.191 libdpkg-perl_1.17.10 libfakeroot_1.20-3 libffi6_3.1-2 libfile-fcntllock-perl_0.20-1 libgc1c2_1:7.2d-6 libgcc-4.7-dev_4.7.4-1 libgcc-4.9-dev_4.9.0-6 libgcc1_1:4.9.0-6 libgdbm3_1.8.3-12 libglib2.0-0_2.40.0-3 libgmp10_2:6.0.0+dfsg-4 libgmpxx4ldbl_2:6.0.0+dfsg-4 libgomp1_4.9.0-6 libgpm2_1.20.4-6.1 libisl10_0.12.2-1 libitm1_4.9.0-6 libllvm3.4_1:3.4.2-2 liblocale-gettext-perl_1.05-8 liblog-message-simple-perl_0.10-1 liblsan0_4.9.0-6 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.19-1 libmodule-pluggable-perl_5.1-1 libmount1_2.20.1-5.8 libmpc2_0.9-4 libmpc3_1.0.1-1 libmpfr4_3.1.2-1 libncurses5_5.9+20140118-1 libobjc-4.9-dev_4.9.0-6 libobjc4_4.9.0-6 libpam-modules_1.1.8-3 libpam-modules-bin_1.1.8-3 libpam-runtime_1.1.8-3 libpam0g_1.1.8-3 libpcre3_1:8.31-5 libpipeline1_1.3.0-1 libpod-latex-perl_0.61-1 libppl-c4_1:1.1-2+b1 libppl13_1:1.1-2+b1 libquadmath0_4.9.0-6 libreadline6_6.3-6 libselinux1_2.3-1 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-1 libsigsegv2_2.10-4 libslang2_2.2.4-16 libss2_1.42.10-1 libstdc++-4.9-dev_4.9.0-6 libstdc++6_4.9.0-6 libstdc++6-4.6-dev_4.6.4-7 libswitch-perl_2.17-1 libterm-ui-perl_0.42-1 libtext-charwidth-perl_0.04-7+b2 libtext-iconv-perl_1.7-5+b1 libtext-soundex-perl_3.4-1+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_2.3000-2 libtinfo5_5.9+20140118-1 libtool_2.4.2-1.7 libtsan0_4.9.0-6 libubsan0_4.9.0-6 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.3 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.8 libvtv0_4.9.0-6 libxml2_2.9.1+dfsg1-3 linux-libc-dev_3.14.7-1 login_1:4.2-2 lsb-base_4.1+Debian13 m4_1.4.17-4 make_4.0-8 man-db_2.6.7.1-1 mawk_1.3.3-17 mount_2.20.1-5.8 multiarch-support_2.19-2 ncurses-base_5.9+20140118-1 ncurses-bin_5.9+20140118-1 passwd_1:4.2-2 patch_2.7.1-5 perl_5.18.2-4 perl-base_5.18.2-4 perl-modules_5.18.2-4 po-debconf_1.0.16+nmu2 readline-common_6.3-6 rename_0.20-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-ncbi-seg-dummy_0.invalid.0 sed_4.2.2-4 sensible-utils_0.0.9 startpar_0.59-3 sudo_1.8.9p5-1 sysv-rc_2.88dsf-53.2 sysvinit_2.88dsf-53.2 sysvinit-core_2.88dsf-53.2 sysvinit-utils_2.88dsf-53.2 tar_1.27.1-2 tzdata_2014e-1 ucf_3.0030 util-linux_2.20.1-5.8 vim_2:7.4.273-2+b1 vim-common_2:7.4.273-2+b1 vim-runtime_2:7.4.273-2 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Mon Jul 9 15:08:29 2012 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./ncbi-seg_0.0.20000620-1.dsc dpkg-source: info: extracting ncbi-seg in ncbi-seg-0.0.20000620 dpkg-source: info: unpacking ncbi-seg_0.0.20000620.orig.tar.gz dpkg-source: info: unpacking ncbi-seg_0.0.20000620-1.debian.tar.gz dpkg-source: info: applying makefile dpkg-source: info: applying example dpkg-source: info: applying seg.c dpkg-source: info: applying genwin.c dpkg-source: info: applying autotools dpkg-source: info: applying seg.pod Check disc space ──────────────── Sufficient free space for build Hack binNMU version ─────────────────── Created changelog entry for binNMU version 0.0.20000620-1clang1 User Environment ──────────────── DEB_BUILD_OPTIONS=parallel=10 HOME=/sbuild-nonexistent LOGNAME=user PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=user SCHROOT_SESSION_ID=unstable-amd64-sbuild-db1b6fe9-c860-465e-9b5f-06ecaf8c7699 SCHROOT_UID=1000 SCHROOT_USER=user SHELL=/bin/sh USER=user dpkg-buildpackage ───────────────── dpkg-buildpackage: source package ncbi-seg dpkg-buildpackage: source version 0.0.20000620-1clang1 dpkg-buildpackage: source distribution unstable dpkg-source --before-build ncbi-seg-0.0.20000620 dpkg-buildpackage: host architecture amd64 dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file fakeroot debian/rules clean dh clean --with autoreconf dh_testdir dh_auto_clean dh_autoreconf_clean dh_clean debian/rules build-arch dh build-arch --with autoreconf dh_testdir -a debian/rules override_dh_autoreconf make[1]: Entering directory '/«PKGBUILDDIR»' dh_autoreconf -X./COPYING configure.ac:5: installing './compile' configure.ac:3: installing './install-sh' configure.ac:3: installing './missing' Makefile.am: installing './INSTALL' Makefile.am: installing './depcomp' make[1]: Leaving directory '/«PKGBUILDDIR»' dh_auto_configure -a configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking for style of include used by make... GNU checking dependency style of gcc... none checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -a make[1]: Entering directory '/«PKGBUILDDIR»' gcc -DPACKAGE_NAME=\"ncbi-seg\" -DPACKAGE_TARNAME=\"ncbi-seg\" -DPACKAGE_VERSION=\"0.0.20000620\" -DPACKAGE_STRING=\"ncbi-seg\ 0.0.20000620\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ncbi-seg\" -DVERSION=\"0.0.20000620\" -I. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o seg.o seg.c In file included from seg.c:10: ./genwin.h:146:8: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern closedbase(); ~~~~~~ ^ ./genwin.h:149:8: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern closeseq(); ~~~~~~ ^ ./genwin.h:152:8: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern shiftwin(), closewin(); ~~~~~~ ^ ./genwin.h:152:20: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern shiftwin(), closewin(); ~~~~~~ ^ ./genwin.h:154:8: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern compon(), stateon(), enton(); ~~~~~~ ^ ./genwin.h:154:18: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern compon(), stateon(), enton(); ~~~~~~ ^ ./genwin.h:154:29: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern compon(), stateon(), enton(); ~~~~~~ ^ ./genwin.h:158:8: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern closemat(); ~~~~~~ ^ ./genwin.h:160:8: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern upper(), lower(), findchar(); ~~~~~~ ^ ./genwin.h:160:17: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern upper(), lower(), findchar(); ~~~~~~ ^ ./genwin.h:160:26: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] extern upper(), lower(), findchar(); ~~~~~~ ^ seg.c:49:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] main(argc, argv) ^~~~ seg.c:58:4: warning: implicit declaration of function 'genwininit' is invalid in C99 [-Wimplicit-function-declaration] genwininit(); ^ seg.c:60:4: warning: implicit declaration of function 'getparams' is invalid in C99 [-Wimplicit-function-declaration] getparams(argc, argv); ^ seg.c:61:4: warning: implicit declaration of function 'entropy_init' is invalid in C99 [-Wimplicit-function-declaration] entropy_init(window); ^ seg.c:72:7: warning: implicit declaration of function 'segseq' is invalid in C99 [-Wimplicit-function-declaration] segseq(seq, &segs, 0); ^ seg.c:73:7: warning: implicit declaration of function 'mergesegs' is invalid in C99 [-Wimplicit-function-declaration] mergesegs(seq, segs); ^ seg.c:75:22: warning: implicit declaration of function 'singreport' is invalid in C99 [-Wimplicit-function-declaration] if (singleseq) singreport(seq, segs); ^ seg.c:76:27: warning: implicit declaration of function 'prettyreport' is invalid in C99 [-Wimplicit-function-declaration] else if (prettyseq) prettyreport(seq, segs); ^ seg.c:77:28: warning: implicit declaration of function 'pretreereport' is invalid in C99 [-Wimplicit-function-declaration] else if (prettytree) pretreereport(seq, segs); ^ seg.c:78:12: warning: implicit declaration of function 'report' is invalid in C99 [-Wimplicit-function-declaration] else report(seq, segs); ^ seg.c:80:7: warning: implicit declaration of function 'freesegs' is invalid in C99 [-Wimplicit-function-declaration] freesegs(segs); ^ seg.c:90:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] getparams(argc, argv) ^~~~~~~~~ seg.c:103:7: warning: implicit declaration of function 'usage' is invalid in C99 [-Wimplicit-function-declaration] usage(); ^ seg.c:133:17: error: non-void function 'getparams' should return a value [-Wreturn-type] if (i==argc) return; ^ seg.c:137:14: warning: implicit declaration of function 'getopt' is invalid in C99 [-Wimplicit-function-declaration] while ((c=getopt(nargc, nargv, "m:olhaxpqc:nt:"))!=-1) ^ seg.c:205:4: error: non-void function 'getparams' should return a value [-Wreturn-type] return; ^ seg.c:210:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] segseq(seq, segs, offset) ^~~~~~ seg.c:223:17: error: non-void function 'segseq' should return a value [-Wreturn-type] if (H==NULL) return; ^ seg.c:233:16: warning: implicit declaration of function 'findlo' is invalid in C99 [-Wimplicit-function-declaration] loi = findlo(i, lowlim, H); ^ seg.c:234:16: warning: implicit declaration of function 'findhi' is invalid in C99 [-Wimplicit-function-declaration] hii = findhi(i, last, H); ^ seg.c:239:10: warning: implicit declaration of function 'trim' is invalid in C99 [-Wimplicit-function-declaration] trim(openwin(seq, leftend, rightend-leftend+1), &leftend, &rightend); ^ seg.c:252:21: warning: implicit declaration of function 'appendseg' is invalid in C99 [-Wimplicit-function-declaration] else appendseg(*segs, leftsegs); ^ seg.c:273:14: warning: implicit declaration of function 'min' is invalid in C99 [-Wimplicit-function-declaration] i = min(hii, rightend+downset); ^ seg.c:280:4: error: non-void function 'segseq' should return a value [-Wreturn-type] return; ^ seg.c:312:31: warning: implicit declaration of function 'hasdash' is invalid in C99 [-Wimplicit-function-declaration] if (seq->punctuation && hasdash(win)) ^ seg.c:314:10: warning: implicit declaration of function 'shiftwin1' is invalid in C99 [-Wimplicit-function-declaration] shiftwin1(win); ^ seg.c:326:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] hasdash(win) ^~~~~~~ seg.c:343:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] findlo(i, limit, H) ^~~~~~ seg.c:360:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] findhi(i, limit, H) ^~~~~~ seg.c:377:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] trim(seq, leftend, rightend) ^~~~ seg.c:424:4: error: non-void function 'trim' should return a value [-Wreturn-type] return; ^ seg.c:507:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] mergesegs(seq, segs) ^~~~~~~~~ seg.c:514:18: error: non-void function 'mergesegs' should return a value [-Wreturn-type] if (overlaps) return; ^ seg.c:515:20: error: non-void function 'mergesegs' should return a value [-Wreturn-type] if (segs==NULL) return; ^ seg.c:548:4: error: non-void function 'mergesegs' should return a value [-Wreturn-type] return; ^ seg.c:553:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] report(seq, segs) ^~~~~~ seg.c:565:7: warning: implicit declaration of function 'seqout' is invalid in C99 [-Wimplicit-function-declaration] seqout(seq, hi, 1, seq->length); ^ seg.c:567:7: error: non-void function 'report' should return a value [-Wreturn-type] return; ^ seg.c:612:7: error: non-void function 'report' should return a value [-Wreturn-type] return; ^ seg.c:621:4: error: non-void function 'report' should return a value [-Wreturn-type] return; ^ seg.c:626:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] singreport(seq, segs) ^~~~~~~~~~ seg.c:663:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] prettyreport(seq, segs) ^~~~~~~~~~~~ seg.c:687:2: warning: implicit declaration of function 'space' is invalid in C99 [-Wimplicit-function-declaration] space(leftspace+1); ^ seg.c:718:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] pretreereport(seq, segs) ^~~~~~~~~~~~~ seg.c:811:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] space(len) ^~~~~ seg.c:832:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] seqout(seq, hilo, begin, end) ^~~~~~ seg.c:846:28: error: non-void function 'seqout' should return a value [-Wreturn-type] if (hionly && hilo==lo) return; ^ seg.c:847:28: error: non-void function 'seqout' should return a value [-Wreturn-type] if (loonly && hilo==hi) return; ^ seg.c:906:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] appendseg(segs, seg) ^~~~~~~~~ seg.c:925:4: error: non-void function 'appendseg' should return a value [-Wreturn-type] return; ^ seg.c:930:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] freesegs(segs) ^~~~~~~~ seg.c:945:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] usage() ^~~~~ 49 warnings and 14 errors generated. make[1]: *** [seg.o] Error 1 Makefile:389: recipe for target 'seg.o' failed make[1]: Leaving directory '/«PKGBUILDDIR»' dh_auto_build: make -j1 returned exit code 2 make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 debian/rules:41: recipe for target 'build-arch' failed ──────────────────────────────────────────────────────────────────────────────── Build finished at 20140617-1519 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: amd64 Build-Space: 1192 Build-Time: 10 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 10 Job: ncbi-seg_0.0.20000620-1 Machine Architecture: amd64 Package: ncbi-seg Package-Time: 52 Source-Version: 0.0.20000620-1 Space: 1192 Status: attempted Version: 0.0.20000620-1clang1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20140617-1519 Build needed 00:00:52, 1192k disc space DC-Status: Failed 52.514684078s DC-Time-Estimation: 52.514684078 versus expected 137 (r/m: 1.6087941383502193 ; m: 52.514684078)