DC-Build-Header: canu 1.5+dfsg-1 / 2017-07-06 16:02:25 +0000 DC-Task: type:rebuild-binarch-only source:canu version:1.5+dfsg-1 chroot:unstable esttime: logfile:/tmp/canu_1.5+dfsg-1_unstable_clang3.9.log modes:clang:binarch-only DC-Sbuild-call: su user42 -c 'sbuild -n --arch-any --apt-update -d unstable -v --chroot-setup-commands=/tmp/clang canu_1.5+dfsg-1' sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on ip-172-31-43-122.eu-central-1.compute.internal +==============================================================================+ | canu 1.5+dfsg-1 (amd64) Thu, 06 Jul 2017 16:02:25 +0000 | +==============================================================================+ Package: canu Version: 1.5+dfsg-1 Source Version: 1.5+dfsg-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-0b69ea17-6fdb-4ca4-92c8-87df6e4e1b1c' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /tmp/clang ---------- + echo 'Entering customization script...' Entering customization script... + CLANG_VERSION=3.9 + echo 'Install of clang-3.9' Install of clang-3.9 + apt-get update Hit:1 http://127.0.0.1:9999/debian unstable InRelease Get:2 http://127.0.0.1:9999/debian unstable/main Translation-en [5730 kB] Fetched 5730 kB in 1s (3848 kB/s) Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-3.9 Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libbsd0 libclang-common-3.9-dev libclang1-3.9 libedit2 libjsoncpp1 libllvm3.9 libncurses5 libobjc-6-dev libobjc4 Suggested packages: gnustep gnustep-devel clang-3.9-doc Recommended packages: llvm-3.9-dev python libgpm2 The following NEW packages will be installed: clang-3.9 libbsd0 libclang-common-3.9-dev libclang1-3.9 libedit2 libjsoncpp1 libllvm3.9 libncurses5 libobjc-6-dev libobjc4 0 upgraded, 10 newly installed, 0 to remove and 0 not upgraded. Need to get 57.7 MB of archives. After this operation, 251 MB of additional disk space will be used. Get:1 http://127.0.0.1:9999/debian unstable/main amd64 libbsd0 amd64 0.8.5-1 [89.6 kB] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 libncurses5 amd64 6.0+20161126-1 [93.4 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 libedit2 amd64 3.1-20170329-1 [85.2 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libllvm3.9 amd64 1:3.9.1-10 [11.3 MB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 libclang1-3.9 amd64 1:3.9.1-10 [5875 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libobjc4 amd64 7.1.0-9 [51.0 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 libobjc-6-dev amd64 6.4.0-1 [197 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 libclang-common-3.9-dev amd64 1:3.9.1-10 [2573 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 clang-3.9 amd64 1:3.9.1-10 [37.4 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 57.7 MB in 0s (97.4 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 ... 9711 files and directories currently installed.) Preparing to unpack .../0-libbsd0_0.8.5-1_amd64.deb ... Unpacking libbsd0:amd64 (0.8.5-1) ... Selecting previously unselected package libncurses5:amd64. Preparing to unpack .../1-libncurses5_6.0+20161126-1_amd64.deb ... Unpacking libncurses5:amd64 (6.0+20161126-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../2-libedit2_3.1-20170329-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20170329-1) ... Selecting previously unselected package libllvm3.9:amd64. Preparing to unpack .../3-libllvm3.9_1%3a3.9.1-10_amd64.deb ... Unpacking libllvm3.9:amd64 (1:3.9.1-10) ... Selecting previously unselected package libclang1-3.9:amd64. Preparing to unpack .../4-libclang1-3.9_1%3a3.9.1-10_amd64.deb ... Unpacking libclang1-3.9:amd64 (1:3.9.1-10) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../5-libjsoncpp1_1.7.4-3_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../6-libobjc4_7.1.0-9_amd64.deb ... Unpacking libobjc4:amd64 (7.1.0-9) ... Selecting previously unselected package libobjc-6-dev:amd64. Preparing to unpack .../7-libobjc-6-dev_6.4.0-1_amd64.deb ... Unpacking libobjc-6-dev:amd64 (6.4.0-1) ... Selecting previously unselected package libclang-common-3.9-dev. Preparing to unpack .../8-libclang-common-3.9-dev_1%3a3.9.1-10_amd64.deb ... Unpacking libclang-common-3.9-dev (1:3.9.1-10) ... Selecting previously unselected package clang-3.9. Preparing to unpack .../9-clang-3.9_1%3a3.9.1-10_amd64.deb ... Unpacking clang-3.9 (1:3.9.1-10) ... Setting up libncurses5:amd64 (6.0+20161126-1) ... Setting up libobjc4:amd64 (7.1.0-9) ... Setting up libbsd0:amd64 (0.8.5-1) ... Processing triggers for libc-bin (2.24-12) ... Setting up libobjc-6-dev:amd64 (6.4.0-1) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libedit2:amd64 (3.1-20170329-1) ... Setting up libllvm3.9:amd64 (1:3.9.1-10) ... Setting up libclang-common-3.9-dev (1:3.9.1-10) ... Setting up libclang1-3.9:amd64 (1:3.9.1-10) ... Setting up clang-3.9 (1:3.9.1-10) ... Processing triggers for libc-bin (2.24-12) ... 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' + cd /usr/bin + for VERSION in $VERSIONS + rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc + ln -s clang++-3.9 g++-4.6 + ln -s clang-3.9 gcc-4.6 + ln -s clang-3.9 cpp-4.6 + ln -s clang-3.9 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++-3.9 g++-4.7 + ln -s clang-3.9 gcc-4.7 + ln -s clang-3.9 cpp-4.7 + ln -s clang-3.9 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++-3.9 g++-4.8 + ln -s clang-3.9 gcc-4.8 + ln -s clang-3.9 cpp-4.8 + ln -s clang-3.9 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++-3.9 g++-4.9 + ln -s clang-3.9 gcc-4.9 + ln -s clang-3.9 cpp-4.9 + ln -s clang-3.9 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++-3.9 g++-5 + ln -s clang-3.9 gcc-5 + ln -s clang-3.9 cpp-5 + ln -s clang-3.9 gcc + echo 'gcc-5 hold' + dpkg --set-selections + echo 'g++-5 hold' + dpkg --set-selections + for VERSION in $VERSIONS + rm -f g++-6 gcc-6 cpp-6 gcc + ln -s clang++-3.9 g++-6 + ln -s clang-3.9 gcc-6 + ln -s clang-3.9 cpp-6 + ln -s clang-3.9 gcc + echo 'gcc-6 hold' + dpkg --set-selections + echo 'g++-6 hold' + dpkg --set-selections + for VERSION in $VERSIONS + rm -f g++-7 gcc-7 cpp-7 gcc + ln -s clang++-3.9 g++-7 + ln -s clang-3.9 gcc-7 + ln -s clang-3.9 cpp-7 + ln -s clang-3.9 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 + cd - /build/canu-n9TYaB + 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/clang'. Finished processing commands. -------------------------------------------------------------------------------- +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://127.0.0.1:9999/debian unstable InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'canu' packaging is maintained in the 'Git' version control system at: https://anonscm.debian.org/git/debian-med/canu.git Please use: git clone https://anonscm.debian.org/git/debian-med/canu.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1108 kB of source archives. Get:1 http://127.0.0.1:9999/debian unstable/main canu 1.5+dfsg-1 (dsc) [1943 B] Get:2 http://127.0.0.1:9999/debian unstable/main canu 1.5+dfsg-1 (tar) [1101 kB] Get:3 http://127.0.0.1:9999/debian unstable/main canu 1.5+dfsg-1 (diff) [5440 B] Fetched 1108 kB in 0s (10.9 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/canu-n9TYaB/canu-1.5+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/canu-n9TYaB' 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-gdQ8Nn/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-gdQ8Nn/apt_archive ./ InRelease Get:2 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Packages [431 B] Fetched 1737 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 784 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-gdQ8Nn/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [784 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 784 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10178 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 (>= 9), libboost-dev, libmeryl-dev, libfilesys-df-perl Filtered Build-Depends: debhelper (>= 9), libboost-dev, libmeryl-dev, libfilesys-df-perl dpkg-deb: building package 'sbuild-build-depends-canu-dummy' in '/<>/resolver-gdQ8Nn/apt_archive/sbuild-build-depends-canu-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-canu-dummy sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-gdQ8Nn/apt_archive ./ InRelease Get:2 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Sources [505 B] Get:5 copy:/<>/resolver-gdQ8Nn/apt_archive ./ Packages [591 B] Fetched 2059 B in 0s (0 B/s) Reading package lists... Reading package lists... Install canu 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-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libboost-dev libboost1.62-dev libcroco3 libfile-stripnondeterminism-perl libfilesys-df-perl libglib2.0-0 libicu57 libmagic-mgc libmagic1 libmeryl-dev libpipeline1 libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libboost-doc libboost1.62-doc libboost-atomic1.62-dev libboost-chrono1.62-dev libboost-context1.62-dev libboost-coroutine1.62-dev libboost-date-time1.62-dev libboost-exception1.62-dev libboost-fiber1.62-dev libboost-filesystem1.62-dev libboost-graph1.62-dev libboost-graph-parallel1.62-dev libboost-iostreams1.62-dev libboost-locale1.62-dev libboost-log1.62-dev libboost-math1.62-dev libboost-mpi1.62-dev libboost-mpi-python1.62-dev libboost-program-options1.62-dev libboost-python1.62-dev libboost-random1.62-dev libboost-regex1.62-dev libboost-serialization1.62-dev libboost-signals1.62-dev libboost-system1.62-dev libboost-test1.62-dev libboost-thread1.62-dev libboost-timer1.62-dev libboost-type-erasure1.62-dev libboost-wave1.62-dev libboost1.62-tools-dev libmpfrc++-dev libntl-dev libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libboost-dev libboost1.62-dev libcroco3 libfile-stripnondeterminism-perl libfilesys-df-perl libglib2.0-0 libicu57 libmagic-mgc libmagic1 libmeryl-dev libpipeline1 libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db po-debconf sbuild-build-depends-canu-dummy 0 upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 26.4 MB of archives. After this operation, 183 MB of additional disk space will be used. Get:1 copy:/<>/resolver-gdQ8Nn/apt_archive ./ sbuild-build-depends-canu-dummy 0.invalid.0 [806 B] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 groff-base amd64 1.22.3-9 [1160 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 bsdmainutils amd64 9.0.12+nmu1 [186 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libpipeline1 amd64 1.4.1-2 [27.6 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 man-db amd64 2.7.6.1-2 [1044 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 libmagic-mgc amd64 1:5.30-1 [222 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libmagic1 amd64 1:5.30-1 [111 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 file amd64 1:5.30-1 [63.9 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 gettext-base amd64 0.19.8.1-2+b1 [122 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 libicu57 amd64 57.1-6 [7701 kB] Get:11 http://127.0.0.1:9999/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-3 [715 kB] Get:12 http://127.0.0.1:9999/debian unstable/main amd64 libsigsegv2 amd64 2.11-1 [29.9 kB] Get:13 http://127.0.0.1:9999/debian unstable/main amd64 m4 amd64 1.4.18-1 [202 kB] Get:14 http://127.0.0.1:9999/debian unstable/main amd64 autoconf all 2.69-10 [338 kB] Get:15 http://127.0.0.1:9999/debian unstable/main amd64 autotools-dev all 20161112.1 [73.4 kB] Get:16 http://127.0.0.1:9999/debian unstable/main amd64 automake all 1:1.15.1-2 [736 kB] Get:17 http://127.0.0.1:9999/debian unstable/main amd64 autopoint all 0.19.8.1-2 [433 kB] Get:18 http://127.0.0.1:9999/debian unstable/main amd64 libtool all 2.4.6-2 [545 kB] Get:19 http://127.0.0.1:9999/debian unstable/main amd64 dh-autoreconf all 14 [15.9 kB] Get:20 http://127.0.0.1:9999/debian unstable/main amd64 libarchive-zip-perl all 1.59-1 [95.5 kB] Get:21 http://127.0.0.1:9999/debian unstable/main amd64 libfile-stripnondeterminism-perl all 0.035-2 [17.0 kB] Get:22 http://127.0.0.1:9999/debian unstable/main amd64 libtimedate-perl all 2.3000-2 [42.2 kB] Get:23 http://127.0.0.1:9999/debian unstable/main amd64 dh-strip-nondeterminism all 0.035-2 [10.7 kB] Get:24 http://127.0.0.1:9999/debian unstable/main amd64 libglib2.0-0 amd64 2.52.3-1 [2742 kB] Get:25 http://127.0.0.1:9999/debian unstable/main amd64 libcroco3 amd64 0.6.12-1 [144 kB] Get:26 http://127.0.0.1:9999/debian unstable/main amd64 gettext amd64 0.19.8.1-2+b1 [1301 kB] Get:27 http://127.0.0.1:9999/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.4 [26.3 kB] Get:28 http://127.0.0.1:9999/debian unstable/main amd64 po-debconf all 1.0.20 [247 kB] Get:29 http://127.0.0.1:9999/debian unstable/main amd64 debhelper all 10.6.2 [968 kB] Get:30 http://127.0.0.1:9999/debian unstable/main amd64 libboost1.62-dev amd64 1.62.0+dfsg-4+b1 [7053 kB] Get:31 http://127.0.0.1:9999/debian unstable/main amd64 libboost-dev amd64 1.62.0.1 [3632 B] Get:32 http://127.0.0.1:9999/debian unstable/main amd64 libfilesys-df-perl amd64 0.92-6+b1 [12.5 kB] Get:33 http://127.0.0.1:9999/debian unstable/main amd64 libmeryl-dev amd64 0~20150903+r2013-3 [51.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 26.4 MB in 0s (93.3 MB/s) Selecting previously unselected package groff-base. (Reading database ... 10178 files and directories currently installed.) Preparing to unpack .../00-groff-base_1.22.3-9_amd64.deb ... Unpacking groff-base (1.22.3-9) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_9.0.12+nmu1_amd64.deb ... Unpacking bsdmainutils (9.0.12+nmu1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../02-libpipeline1_1.4.1-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.4.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../03-man-db_2.7.6.1-2_amd64.deb ... Unpacking man-db (2.7.6.1-2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.30-1_amd64.deb ... Unpacking libmagic-mgc (1:5.30-1) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../05-libmagic1_1%3a5.30-1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.30-1) ... Selecting previously unselected package file. 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Setting up sbuild-build-depends-canu-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-2-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.28-6 dpkg-dev_1.18.24 g++-6_6.4.0-1 gcc-6_6.4.0-1 libc6-dev_2.24-12 libstdc++-6-dev_6.4.0-1 libstdc++6_7.1.0-9 linux-libc-dev_4.11.6-1 Package versions: adduser_3.115 apt_1.5~beta1 autoconf_2.69-10 automake_1:1.15.1-2 autopoint_0.19.8.1-2 autotools-dev_20161112.1 base-files_10 base-passwd_3.5.43 bash_4.4-5 binutils_2.28-6 bsdmainutils_9.0.12+nmu1 bsdutils_1:2.29.2-1 build-essential_12.3 bzip2_1.0.6-8.1 clang-3.9_1:3.9.1-10 coreutils_8.26-3 cpp_4:6.3.0-4d1 cpp-6_6.4.0-1 dash_0.5.8-2.4 debconf_1.5.62 debfoster_2.7-2.1+b1 debhelper_10.6.2 debian-archive-keyring_2017.5 debianutils_4.8.1.1 dh-autoreconf_14 dh-strip-nondeterminism_0.035-2 diffutils_1:3.5-3 dpkg_1.18.24 dpkg-dev_1.18.24 e2fslibs_1.43.4-2 e2fsprogs_1.43.4-2 eatmydata_105-5 fakeroot_1.21-3.1 file_1:5.30-1 findutils_4.6.0+git+20170606-2 g++_4:6.3.0-4d1 g++-6_6.4.0-1 gcc_4:6.3.0-4d1 gcc-6_6.4.0-1 gcc-6-base_6.4.0-1 gcc-7-base_7.1.0-9 gettext_0.19.8.1-2+b1 gettext-base_0.19.8.1-2+b1 gpgv_2.1.18-8 grep_2.27-2 groff-base_1.22.3-9 gzip_1.6-5+b1 hostname_3.18+b1 init-system-helpers_1.48 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3+b1 libapt-pkg5.0_1.5~beta1 libarchive-zip-perl_1.59-1 libasan3_6.4.0-1 libatomic1_7.1.0-9 libattr1_1:2.4.47-2+b2 libaudit-common_1:2.7.7-1 libaudit1_1:2.7.7-1+b1 libblkid1_2.29.2-1 libboost-dev_1.62.0.1 libboost1.62-dev_1.62.0+dfsg-4+b1 libbsd0_0.8.5-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.24-12 libc-dev-bin_2.24-12 libc6_2.24-12 libc6-dev_2.24-12 libcap-ng0_0.7.7-3+b1 libcc1-0_7.1.0-9 libcilkrts5_7.1.0-9 libclang-common-3.9-dev_1:3.9.1-10 libclang1-3.9_1:3.9.1-10 libcomerr2_1.43.4-2 libcroco3_0.6.12-1 libdb5.3_5.3.28-12+b1 libdebconfclient0_0.229 libdpkg-perl_1.18.24 libeatmydata1_105-5 libedit2_3.1-20170329-1 libfakeroot_1.21-3.1 libfdisk1_2.29.2-1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.035-2 libfilesys-df-perl_0.92-6+b1 libgc1c2_1:7.4.2-8 libgcc-6-dev_6.4.0-1 libgcc1_1:7.1.0-9 libgcrypt20_1.7.8-1 libgdbm3_1.8.3-14 libglib2.0-0_2.52.3-1 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.13-2 libgomp1_7.1.0-9 libgpg-error0_1.27-3 libhogweed4_3.3-1+b1 libicu57_57.1-6 libidn2-0_0.16-1+b1 libisl15_0.18-1 libitm1_7.1.0-9 libjsoncpp1_1.7.4-3 libllvm3.9_1:3.9.1-10 liblsan0_7.1.0-9 liblz4-1_0.0~r131-2+b1 liblzma5_5.2.2-1.2+b1 libmagic-mgc_1:5.30-1 libmagic1_1:5.30-1 libmeryl-dev_0~20150903+r2013-3 libmount1_2.29.2-1 libmpc3_1.0.3-1+b2 libmpfr4_3.1.5-1 libmpx2_7.1.0-9 libncurses5_6.0+20161126-1 libncursesw5_6.0+20161126-1 libnettle6_3.3-1+b1 libobjc-6-dev_6.4.0-1 libobjc4_7.1.0-9 libp11-kit0_0.23.7-2 libpam-modules_1.1.8-3.6 libpam-modules-bin_1.1.8-3.6 libpam-runtime_1.1.8-3.6 libpam0g_1.1.8-3.6 libpcre3_2:8.39-3 libperl5.24_5.24.1-6 libpipeline1_1.4.1-2 libquadmath0_7.1.0-9 libselinux1_2.6-3+b2 libsemanage-common_2.6-2 libsemanage1_2.6-2+b1 libsepol1_2.6-2 libsigsegv2_2.11-1 libsmartcols1_2.29.2-1 libss2_1.43.4-2 libstdc++-6-dev_6.4.0-1 libstdc++6_7.1.0-9 libsystemd0_233-10 libtasn1-6_4.12-2 libtimedate-perl_2.3000-2 libtinfo5_6.0+20161126-1 libtool_2.4.6-2 libtsan0_7.1.0-9 libubsan0_7.1.0-9 libudev1_233-10 libunistring2_0.9.7-2 libustr-1.0-1_1.0.4-6 libuuid1_2.29.2-1 libxml2_2.9.4+dfsg1-3 linux-libc-dev_4.11.6-1 login_1:4.4-4.1 m4_1.4.18-1 make_4.1-9.1 man-db_2.7.6.1-2 mawk_1.3.3-17+b3 mount_2.29.2-1 multiarch-support_2.24-12 ncurses-base_6.0+20161126-1 ncurses-bin_6.0+20161126-1 passwd_1:4.4-4.1 patch_2.7.5-1+b2 perl_5.24.1-6 perl-base_5.24.1-6 perl-modules-5.24_5.24.1-6 po-debconf_1.0.20 sbuild-build-depends-canu-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.9 sysvinit-utils_2.88dsf-59.9 tar_1.29b-1.1 util-linux_2.29.2-1 xz-utils_5.2.2-1.2+b1 zlib1g_1:1.2.8.dfsg-5 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Thu May 18 05:59:52 2017 UTC gpgv: using RSA key 59B2306F3AF9DDC1 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./canu_1.5+dfsg-1.dsc dpkg-source: info: extracting canu in /<>/canu-1.5+dfsg dpkg-source: info: unpacking canu_1.5+dfsg.orig.tar.gz dpkg-source: info: unpacking canu_1.5+dfsg-1.debian.tar.xz dpkg-source: info: applying external-deps.patch dpkg-source: info: applying relative-paths.patch dpkg-source: info: applying use-debian-mhap-at-runtime.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-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1001 SCHROOT_GROUP=user42 SCHROOT_SESSION_ID=unstable-amd64-sbuild-0b69ea17-6fdb-4ca4-92c8-87df6e4e1b1c SCHROOT_UID=1001 SCHROOT_USER=user42 SHELL=/bin/sh USER=user42 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package canu dpkg-buildpackage: info: source version 1.5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Afif Elghraoui dpkg-source --before-build canu-1.5+dfsg dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --parallel --sourcedirectory=src/ dh_testdir -O--parallel -O--sourcedirectory=src/ dh_auto_clean -O--parallel -O--sourcedirectory=src/ make -j16 clean make[1]: Entering directory '/<>/canu-1.5+dfsg/src' Building for 'Linux' '4.9.0-2-amd64' as 'amd64' into '/<>/canu-1.5+dfsg/Linux-amd64/{bin,obj}' CC cc CXX g++ rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/libcanu.a /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_global.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_decodeRange.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_fasta.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_fileIO.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_reverseComplement.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_stackTrace.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_alloc.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/bitEncodings.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/bitPackedFile.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/bitPackedArray.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/dnaAlphabets.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/hexDump.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/md5.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/mt19937ar.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/readBuffer.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/speedCounter.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/sweatShop.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/timeAndSize.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/kMer.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/falcon_sense/libfalcon/falcon.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStore.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStoreEncode.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovOverlap.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStore.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreWriter.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFilter.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFile.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreHistogram.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgStore.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTig.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigSizeAnalysis.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigMultiAlignDisplay.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/libsnappy/snappy-sinksource.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/libsnappy/snappy-stubs-internal.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/libsnappy/snappy.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libmeryl.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/overlapReadCache.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapErrorAdjustment/analyzeAlignment.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/liboverlap/Binomial_Bound.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/liboverlap/Display_Alignment.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/liboverlap/prefixEditDistance.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-allocateMoreSpace.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-extend.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-forward.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-reverse.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/overlapInCore/libedlib/edlib.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDalign/NDalign.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDalign/Binomial_Bound.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDalign/NDalgorithm.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDalign/NDalgorithm-allocateMoreSpace.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDalign/NDalgorithm-extend.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDalign/NDalgorithm-forward.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDalign/NDalgorithm-reverse.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus-addRead.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus-appendBases.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus-applyAlignment.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus-baseCall.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus-mergeRefine.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus-refine.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus-refreshMultiAlign.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abAbacus.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abColumn.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/abMultiAlign.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libcns/unitigConsensus.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libpbutgcns/Alignment.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libpbutgcns/AlnGraphBoost.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/utgcns/libNDFalcon/dw.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/gfa/gfa.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/existDB-create-from-fasta.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/existDB-create-from-meryl.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/existDB-create-from-sequence.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/existDB-state.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/existDB.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/positionDB-access.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/positionDB-dump.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/positionDB-file.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/positionDB-mismatch.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/positionDB-sort.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/meryl/libkmer/positionDB.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/atomic.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/backtrace.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/dwarf.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/elf.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/fileline.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/mmap.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/mmapio.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/posix.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/print.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/simple.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/sort.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/state.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/libbacktrace/unknown.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/gatekeeperCreate /<>/canu-1.5+dfsg/Linux-amd64/obj/gatekeeperCreate/stores/gatekeeperCreate.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/gatekeeperDumpFASTQ /<>/canu-1.5+dfsg/Linux-amd64/obj/gatekeeperDumpFASTQ/stores/gatekeeperDumpFASTQ.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/gatekeeperDumpMetaData /<>/canu-1.5+dfsg/Linux-amd64/obj/gatekeeperDumpMetaData/stores/gatekeeperDumpMetaData.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/gatekeeperPartition /<>/canu-1.5+dfsg/Linux-amd64/obj/gatekeeperPartition/stores/gatekeeperPartition.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/ovStoreBuild /<>/canu-1.5+dfsg/Linux-amd64/obj/ovStoreBuild/stores/ovStoreBuild.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/ovStoreBucketizer /<>/canu-1.5+dfsg/Linux-amd64/obj/ovStoreBucketizer/stores/ovStoreBucketizer.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/ovStoreSorter /<>/canu-1.5+dfsg/Linux-amd64/obj/ovStoreSorter/stores/ovStoreSorter.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/ovStoreIndexer /<>/canu-1.5+dfsg/Linux-amd64/obj/ovStoreIndexer/stores/ovStoreIndexer.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/ovStoreDump /<>/canu-1.5+dfsg/Linux-amd64/obj/ovStoreDump/stores/ovStoreDump.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/ovStoreStats /<>/canu-1.5+dfsg/Linux-amd64/obj/ovStoreStats/stores/ovStoreStats.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/tgStoreCompress /<>/canu-1.5+dfsg/Linux-amd64/obj/tgStoreCompress/stores/tgStoreCompress.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/tgStoreDump /<>/canu-1.5+dfsg/Linux-amd64/obj/tgStoreDump/stores/tgStoreDump.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/tgStoreDump/stores/tgTigSizeAnalysis.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/tgStoreLoad /<>/canu-1.5+dfsg/Linux-amd64/obj/tgStoreLoad/stores/tgStoreLoad.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/tgStoreFilter /<>/canu-1.5+dfsg/Linux-amd64/obj/tgStoreFilter/stores/tgStoreFilter.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/tgStoreCoverageStat /<>/canu-1.5+dfsg/Linux-amd64/obj/tgStoreCoverageStat/stores/tgStoreCoverageStat.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/tgTigDisplay /<>/canu-1.5+dfsg/Linux-amd64/obj/tgTigDisplay/stores/tgTigDisplay.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/libleaff.a /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/fastaFile.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/fastaStdin.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/fastqFile.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/fastqStdin.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/gkStoreFile.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/merStream.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/seqCache.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/seqFactory.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/seqStore.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/seqStream.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/libleaff.a/meryl/libleaff/sffFile.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/leaff /<>/canu-1.5+dfsg/Linux-amd64/obj/leaff/meryl/leaff-blocks.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/leaff/meryl/leaff-duplicates.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/leaff/meryl/leaff-gc.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/leaff/meryl/leaff-partition.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/leaff/meryl/leaff-simulate.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/leaff/meryl/leaff-statistics.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/leaff/meryl/leaff.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/meryl /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl-args.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl-binaryOp.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl-build.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl-dump.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl-estimate.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl-merge.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl-unaryOp.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/meryl/meryl/meryl.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/maskMers /<>/canu-1.5+dfsg/Linux-amd64/obj/maskMers/meryl/maskMers.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/simple /<>/canu-1.5+dfsg/Linux-amd64/obj/simple/meryl/simple.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/estimate-mer-threshold /<>/canu-1.5+dfsg/Linux-amd64/obj/estimate-mer-threshold/meryl/estimate-mer-threshold.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/existDB /<>/canu-1.5+dfsg/Linux-amd64/obj/existDB/meryl/existDB.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/positionDB /<>/canu-1.5+dfsg/Linux-amd64/obj/positionDB/meryl/positionDB.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/merTrim /<>/canu-1.5+dfsg/Linux-amd64/obj/merTrim/merTrim/merTrim.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/overlapInCore /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapInCore/overlapInCore/overlapInCore.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapInCore/overlapInCore/overlapInCore-Build_Hash_Index.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapInCore/overlapInCore/overlapInCore-Find_Overlaps.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapInCore/overlapInCore/overlapInCore-Output.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapInCore/overlapInCore/overlapInCore-Process_Overlaps.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapInCore/overlapInCore/overlapInCore-Process_String_Overlaps.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/overlapInCorePartition /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapInCorePartition/overlapInCore/overlapInCorePartition.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/overlapConvert /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapConvert/overlapInCore/overlapConvert.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/overlapImport /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapImport/overlapInCore/overlapImport.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/overlapPair /<>/canu-1.5+dfsg/Linux-amd64/obj/overlapPair/overlapInCore/overlapPair.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/prefixEditDistance-matchLimitGenerate /<>/canu-1.5+dfsg/Linux-amd64/obj/prefixEditDistance-matchLimitGenerate/overlapInCore/liboverlap/prefixEditDistance-matchLimitGenerate.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/mhapConvert /<>/canu-1.5+dfsg/Linux-amd64/obj/mhapConvert/mhap/mhapConvert.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/mmapConvert /<>/canu-1.5+dfsg/Linux-amd64/obj/mmapConvert/minimap/mmapConvert.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/filterCorrectionOverlaps /<>/canu-1.5+dfsg/Linux-amd64/obj/filterCorrectionOverlaps/correction/filterCorrectionOverlaps.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/generateCorrectionLayouts /<>/canu-1.5+dfsg/Linux-amd64/obj/generateCorrectionLayouts/correction/generateCorrectionLayouts.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/generateCorrectionLayouts/utgcns/stashContains.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/generateCorrectionLayouts/falcon_sense/outputFalcon.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/readConsensus /<>/canu-1.5+dfsg/Linux-amd64/obj/readConsensus/correction/readConsensus.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/errorEstimate /<>/canu-1.5+dfsg/Linux-amd64/obj/errorEstimate/correction/errorEstimate.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/createFalconSenseInputs /<>/canu-1.5+dfsg/Linux-amd64/obj/createFalconSenseInputs/falcon_sense/createFalconSenseInputs.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/createFalconSenseInputs/falcon_sense/outputFalcon.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/falcon_sense /<>/canu-1.5+dfsg/Linux-amd64/obj/falcon_sense/falcon_sense/falcon_sense.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/trimReads /<>/canu-1.5+dfsg/Linux-amd64/obj/trimReads/overlapBasedTrimming/trimReads.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/trimReads/overlapBasedTrimming/trimReads-bestEdge.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/trimReads/overlapBasedTrimming/trimReads-largestCovered.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/trimReads/overlapBasedTrimming/trimReads-quality.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/splitReads /<>/canu-1.5+dfsg/Linux-amd64/obj/splitReads/overlapBasedTrimming/splitReads.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/splitReads/overlapBasedTrimming/splitReads-workUnit.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/splitReads/overlapBasedTrimming/splitReads-subReads.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/splitReads/overlapBasedTrimming/splitReads-trimBad.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/splitReads/overlapBasedTrimming/adjustNormal.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/splitReads/overlapBasedTrimming/adjustFlipped.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/findErrors /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors/overlapErrorAdjustment/findErrors.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors/overlapErrorAdjustment/findErrors-Analyze_Alignment.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors/overlapErrorAdjustment/findErrors-Output.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors/overlapErrorAdjustment/findErrors-Prefix_Edit_Distance.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors/overlapErrorAdjustment/findErrors-Process_Olap.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors/overlapErrorAdjustment/findErrors-Read_Frags.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors/overlapErrorAdjustment/findErrors-Read_Olaps.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/findErrors-Dump /<>/canu-1.5+dfsg/Linux-amd64/obj/findErrors-Dump/overlapErrorAdjustment/findErrors-Dump.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/correctOverlaps /<>/canu-1.5+dfsg/Linux-amd64/obj/correctOverlaps/overlapErrorAdjustment/correctOverlaps.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Correct_Frags.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Read_Olaps.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Redo_Olaps.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Prefix_Edit_Distance.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/bogart /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/bogart.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_AssemblyGraph.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_BestOverlapGraph.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_ChunkGraph.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_CreateUnitigs.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_Instrumentation.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_Logging.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_MarkRepeatReads.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_MergeOrphans.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_Outputs.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_OverlapCache.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_PlaceContains.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_PlaceReadUsingOverlaps.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_PopulateUnitig.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_PromoteToSingleton.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_ReadInfo.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_SetParentAndHang.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_SplitDiscontinuous.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_TigGraph.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_TigVector.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_Unitig.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_Unitig_AddRead.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogart/bogart/AS_BAT_Unitig_PlaceReadUsingEdges.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/bogus /<>/canu-1.5+dfsg/Linux-amd64/obj/bogus/bogus/bogus.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/bogus/bogus/bogusUtil.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/erateEstimate /<>/canu-1.5+dfsg/Linux-amd64/obj/erateEstimate/erateEstimate/erateEstimate.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/utgcns /<>/canu-1.5+dfsg/Linux-amd64/obj/utgcns/utgcns/utgcns.[doP] /<>/canu-1.5+dfsg/Linux-amd64/obj/utgcns/utgcns/stashContains.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/alignGFA /<>/canu-1.5+dfsg/Linux-amd64/obj/alignGFA/gfa/alignGFA.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/fastqAnalyze /<>/canu-1.5+dfsg/Linux-amd64/obj/fastqAnalyze/fastq-utilities/fastqAnalyze.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/fastqSample /<>/canu-1.5+dfsg/Linux-amd64/obj/fastqSample/fastq-utilities/fastqSample.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/fastqSimulate /<>/canu-1.5+dfsg/Linux-amd64/obj/fastqSimulate/fastq-utilities/fastqSimulate.[doP] rm -f /<>/canu-1.5+dfsg/Linux-amd64/bin/fastqSimulate-sort /<>/canu-1.5+dfsg/Linux-amd64/obj/fastqSimulate-sort/fastq-utilities/fastqSimulate-sort.[doP] make[1]: Leaving directory '/<>/canu-1.5+dfsg/src' dh_clean -O--parallel -O--sourcedirectory=src/ debian/rules build-arch dh build-arch --parallel --sourcedirectory=src/ dh_testdir -a -O--parallel -O--sourcedirectory=src/ dh_update_autotools_config -a -O--parallel -O--sourcedirectory=src/ dh_auto_configure -a -O--parallel -O--sourcedirectory=src/ debian/rules override_dh_auto_build make[1]: Entering directory '/<>/canu-1.5+dfsg' dh_auto_build make -j16 make[2]: Entering directory '/<>/canu-1.5+dfsg/src' Building for 'Linux' '4.9.0-2-amd64' as 'amd64' into '/<>/canu-1.5+dfsg/Linux-amd64/{bin,obj}' CC cc CXX g++ g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_decodeRange.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/AS_UTL_decodeRange.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_fasta.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/AS_UTL_fasta.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_fileIO.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/AS_UTL_fileIO.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_reverseComplement.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/AS_UTL_reverseComplement.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_stackTrace.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/AS_UTL_stackTrace.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/bitEncodings.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/bitEncodings.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/AS_UTL_alloc.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/AS_UTL_alloc.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/bitPackedFile.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/bitPackedFile.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/dnaAlphabets.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/dnaAlphabets.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/hexDump.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/hexDump.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/bitPackedArray.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/bitPackedArray.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/md5.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/md5.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/mt19937ar.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/mt19937ar.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/speedCounter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/speedCounter.C Building snapshot v1.5 g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/sweatShop.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/sweatShop.C clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clangclang: : warningwarning: : clang-O4 is equivalent to -O3-O4 is equivalent to -O3: warning : optimization flag '-fexpensive-optimizations' is not supported clangclang: : warningwarning: : optimization flag '-fexpensive-optimizations' is not supportedoptimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3clang : warning: clang-O4 is equivalent to -O3: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/readBuffer.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/readBuffer.C clang: warning: -O4 is equivalent to -O3 clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/timeAndSize.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/timeAndSize.C AS_UTL/AS_UTL_stackTrace.C:77:2: warning: LIBBACKTRACE [-W#warnings] #warning LIBBACKTRACE ^ AS_UTL/AS_UTL_stackTrace.C:86:30: warning: unused parameter 'data' [-Wunused-parameter] AS_UTL_catchCrash_full(void *data, ^ AS_UTL/AS_UTL_stackTrace.C:87:34: warning: unused parameter 'pc' [-Wunused-parameter] uintptr_t pc, ^ clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/AS_UTL/kMer.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon AS_UTL/kMer.C clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported 3 warnings generated. g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/falcon_sense/libfalcon/falcon.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon falcon_sense/libfalcon/falcon.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStoreEncode.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/gkStoreEncode.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/gkStore.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovOverlap.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/ovOverlap.C clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/ovStore.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreWriter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/ovStoreWriter.C clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFilter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/ovStoreFilter.C clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreHistogram.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/ovStoreHistogram.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFile.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/ovStoreFile.C clangclang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported : warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgStore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/tgStore.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTig.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/tgTig.C clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigSizeAnalysis.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/tgTigSizeAnalysis.C g++ -o /<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigMultiAlignDisplay.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/canu-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -D_GLIBCXX_PARALLEL -pthread -fopenmp -fPIC -Wall -Wextra -Wno-write-strings -Wno-unused -Wno-char-subscripts -Wno-sign-compare -Wformat -g3 -O4 -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -DLIBBACKTRACE -I/<>/canu-1.5+dfsg/src -IAS_UTL -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -Imeryl/libleaff -IoverlapInCore -IoverlapInCore/libedlib -IoverlapInCore/liboverlap -Ifalcon_sense/libfalcon stores/tgTigMultiAlignDisplay.C clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported clang: warning: -O4 is equivalent to -O3 clang: warning: optimization flag '-fexpensive-optimizations' is not supported In file included from stores/gkStoreEncode.C:26: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ In file included from stores/ovOverlap.C:34: In file included from stores/ovStore.H:38: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStoreEncode.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStoreEncode.o] Error 1 make[2]: *** Waiting for unfinished jobs.... In file included from stores/gkStore.C:34: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovOverlap.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovOverlap.o] Error 1 stores/gkStore.C:716:34: error: use of undeclared identifier 'omp_get_max_threads' _blobsFiles = new FILE * [omp_get_max_threads()]; ^ stores/gkStore.C:720:26: error: use of undeclared identifier 'omp_get_max_threads' for (uint32 ii=0; iigkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ stores/gkStore.C:1095:32: error: use of undeclared identifier 'omp_get_thread_num' FILE *file = blobsFiles[omp_get_thread_num()]; ^ In file included from stores/ovStoreFilter.C:30: In file included from stores/ovStore.H:38: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ 6 errors generated. In file included from stores/ovStoreWriter.C:30: In file included from stores/ovStore.H:38: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ falcon_sense/libfalcon/falcon.C:633:35: warning: unused parameter 'K' [-Wunused-parameter] uint32 K, ^ Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStore.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/gkStore.o] Error 1 stores/ovStoreFilter.C:241:34: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if ((foverlap.dat.ovl.forDUP == true)) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ stores/ovStoreFilter.C:241:34: note: remove extraneous parentheses around the comparison to silence this warning if ((foverlap.dat.ovl.forDUP == true)) { ~ ^ ~ stores/ovStoreFilter.C:241:34: note: use '=' to turn this equality comparison into an assignment if ((foverlap.dat.ovl.forDUP == true)) { ^~ = stores/ovStoreFilter.C:246:34: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if ((roverlap.dat.ovl.forDUP == true)) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ stores/ovStoreFilter.C:246:34: note: remove extraneous parentheses around the comparison to silence this warning if ((roverlap.dat.ovl.forDUP == true)) { ~ ^ ~ stores/ovStoreFilter.C:246:34: note: use '=' to turn this equality comparison into an assignment if ((roverlap.dat.ovl.forDUP == true)) { ^~ = 2 warnings and 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFilter.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFilter.o] Error 1 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStore.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStore.o] Error 1 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreWriter.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreWriter.o] Error 1 In file included from stores/ovStoreHistogram.C:26: In file included from stores/ovStoreHistogram.H:34: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ In file included from stores/ovStoreFile.C:47: In file included from stores/ovStore.H:38: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreHistogram.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreHistogram.o] Error 1 In file included from stores/tgTig.C:34: In file included from stores/tgTig.H:35: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ In file included from stores/tgTigSizeAnalysis.C:38: In file included from stores/tgTigSizeAnalysis.H:41: In file included from stores/tgTig.H:35: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ In file included from stores/tgStore.C:44: In file included from stores/tgStore.H:43: In file included from stores/tgTig.H:35: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgStore.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgStore.o] Error 1 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFile.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/ovStoreFile.o] Error 1 stores/tgTig.C:647:9: warning: variable 'pos' is incremented both in the loop header and in the loop body [-Wfor-loop-analysis] pos++; ^ stores/tgTig.C:635:49: note: incremented here for (uint32 pos=10; (pos < W.numWords()); pos++) { ^ 1 error generated. 1 warning and 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigSizeAnalysis.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigSizeAnalysis.o] Error 1 Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTig.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTig.o] Error 1 In file included from stores/tgTigMultiAlignDisplay.C:41: stores/gkStore.H:543:59: error: use of undeclared identifier 'omp_get_thread_num' read->gkRead_loadDataFromFile(readData, _blobsFiles[omp_get_thread_num()]); ^ 1 error generated. Makefile:640: recipe for target '/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigMultiAlignDisplay.o' failed make[2]: *** [/<>/canu-1.5+dfsg/Linux-amd64/obj/libcanu.a/stores/tgTigMultiAlignDisplay.o] Error 1 1 warning generated. make[2]: Leaving directory '/<>/canu-1.5+dfsg/src' dh_auto_build: make -j16 returned exit code 2 debian/rules:14: recipe for target 'override_dh_auto_build' failed make[1]: *** [override_dh_auto_build] Error 2 make[1]: Leaving directory '/<>/canu-1.5+dfsg' debian/rules:11: recipe for target 'build-arch' failed make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 -------------------------------------------------------------------------------- Build finished at 2017-07-06T16:02:52Z 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: 8384 Build-Time: 4 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 8 Job: canu_1.5+dfsg-1 Machine Architecture: amd64 Package: canu Package-Time: 27 Source-Version: 1.5+dfsg-1 Space: 8384 Status: attempted Version: 1.5+dfsg-1 -------------------------------------------------------------------------------- Finished at 2017-07-06T16:02:52Z Build needed 00:00:27, 8384k disk space E: Build failure (dpkg-buildpackage died) DC-Status: Failed 27.979834374s DC-Time-Estimation: 27.979834374 versus expected 1 (r/m: 26.979834374 ; m: 1.0)