DC-Build-Header: iqtree 1.6.3+dfsg-1 / 2018-05-02 12:48:23 +0000 DC-Task: type:rebuild-binarch-only source:iqtree version:1.6.3+dfsg-1 chroot:unstable esttime:262 logfile:/tmp/iqtree_1.6.3+dfsg-1_unstable_clang60.log modes:clang60:binarch-only DC-Sbuild-call: su user42 -c 'sbuild -n --arch-any --apt-update -d unstable -v --chroot-setup-commands=/tmp/clang60 iqtree_1.6.3+dfsg-1' sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on ip-172-31-10-147.eu-central-1.compute.internal +==============================================================================+ | iqtree 1.6.3+dfsg-1 (amd64) Wed, 02 May 2018 12:48:23 +0000 | +==============================================================================+ Package: iqtree Version: 1.6.3+dfsg-1 Source Version: 1.6.3+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-95e9d66a-8fd8-4143-865b-791d15fd090e' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /tmp/clang60 ------------ + echo 'Entering customization script...' Entering customization script... + CLANG_VERSION=6.0 + echo 'Install of clang-6.0' Install of clang-6.0 + apt-get update Get:1 http://127.0.0.1:9999/debian unstable InRelease [242 kB] Get:2 http://127.0.0.1:9999/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://127.0.0.1:9999/debian unstable/main Sources 2018-05-02-0830.09.pdiff [16.2 kB] Get:4 http://127.0.0.1:9999/debian unstable/main Sources 2018-05-02-0830.09.pdiff [16.2 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2018-05-02-0830.09.pdiff [1781 B] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 Packages 2018-05-02-0830.09.pdiff [1781 B] Get:6 http://127.0.0.1:9999/debian unstable/main Translation-en [6016 kB] Fetched 6332 kB in 2s (3486 kB/s) Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-6.0 Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: lib32gcc1 lib32stdc++6 libbsd0 libc6-i386 libclang-common-6.0-dev libclang1-6.0 libedit2 libjsoncpp1 libllvm6.0 libncurses5 libobjc-7-dev libobjc4 Suggested packages: gnustep gnustep-devel clang-6.0-doc Recommended packages: llvm-6.0-dev python libomp-dev libgpm2 The following NEW packages will be installed: clang-6.0 lib32gcc1 lib32stdc++6 libbsd0 libc6-i386 libclang-common-6.0-dev libclang1-6.0 libedit2 libjsoncpp1 libllvm6.0 libncurses5 libobjc-7-dev libobjc4 0 upgraded, 13 newly installed, 0 to remove and 0 not upgraded. Need to get 37.7 MB of archives. After this operation, 187 MB of additional disk space will be used. Get:1 http://127.0.0.1:9999/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 libbsd0 amd64 0.8.7-1 [92.1 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 libncurses5 amd64 6.1+20180210-2 [95.7 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libedit2 amd64 3.1-20170329-1 [85.2 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 libllvm6.0 amd64 1:6.0-3 [14.5 MB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 libobjc4 amd64 8-20180425-1 [52.4 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libobjc-7-dev amd64 7.3.0-17 [204 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 libc6-i386 amd64 2.27-3 [2855 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 lib32gcc1 amd64 1:8-20180425-1 [47.8 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 lib32stdc++6 amd64 8-20180425-1 [406 kB] Get:11 http://127.0.0.1:9999/debian unstable/main amd64 libclang-common-6.0-dev amd64 1:6.0-3 [3102 kB] Get:12 http://127.0.0.1:9999/debian unstable/main amd64 libclang1-6.0 amd64 1:6.0-3 [6995 kB] Get:13 http://127.0.0.1:9999/debian unstable/main amd64 clang-6.0 amd64 1:6.0-3 [9175 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 37.7 MB in 0s (98.4 MB/s) Selecting previously unselected package libjsoncpp1: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 ... 10022 files and directories currently installed.) Preparing to unpack .../00-libjsoncpp1_1.7.4-3_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../01-libbsd0_0.8.7-1_amd64.deb ... Unpacking libbsd0:amd64 (0.8.7-1) ... Selecting previously unselected package libncurses5:amd64. Preparing to unpack .../02-libncurses5_6.1+20180210-2_amd64.deb ... Unpacking libncurses5:amd64 (6.1+20180210-2) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../03-libedit2_3.1-20170329-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20170329-1) ... Selecting previously unselected package libllvm6.0:amd64. Preparing to unpack .../04-libllvm6.0_1%3a6.0-3_amd64.deb ... Unpacking libllvm6.0:amd64 (1:6.0-3) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../05-libobjc4_8-20180425-1_amd64.deb ... Unpacking libobjc4:amd64 (8-20180425-1) ... Selecting previously unselected package libobjc-7-dev:amd64. Preparing to unpack .../06-libobjc-7-dev_7.3.0-17_amd64.deb ... Unpacking libobjc-7-dev:amd64 (7.3.0-17) ... Selecting previously unselected package libc6-i386. Preparing to unpack .../07-libc6-i386_2.27-3_amd64.deb ... Unpacking libc6-i386 (2.27-3) ... Selecting previously unselected package lib32gcc1. Preparing to unpack .../08-lib32gcc1_1%3a8-20180425-1_amd64.deb ... Unpacking lib32gcc1 (1:8-20180425-1) ... Selecting previously unselected package lib32stdc++6. Preparing to unpack .../09-lib32stdc++6_8-20180425-1_amd64.deb ... Unpacking lib32stdc++6 (8-20180425-1) ... Selecting previously unselected package libclang-common-6.0-dev. Preparing to unpack .../10-libclang-common-6.0-dev_1%3a6.0-3_amd64.deb ... Unpacking libclang-common-6.0-dev (1:6.0-3) ... Selecting previously unselected package libclang1-6.0:amd64. Preparing to unpack .../11-libclang1-6.0_1%3a6.0-3_amd64.deb ... Unpacking libclang1-6.0:amd64 (1:6.0-3) ... Selecting previously unselected package clang-6.0. Preparing to unpack .../12-clang-6.0_1%3a6.0-3_amd64.deb ... Unpacking clang-6.0 (1:6.0-3) ... Setting up libncurses5:amd64 (6.1+20180210-2) ... Setting up libobjc4:amd64 (8-20180425-1) ... Setting up libc6-i386 (2.27-3) ... Setting up libbsd0:amd64 (0.8.7-1) ... Setting up libobjc-7-dev:amd64 (7.3.0-17) ... Processing triggers for libc-bin (2.27-3) ... Setting up lib32gcc1 (1:8-20180425-1) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libedit2:amd64 (3.1-20170329-1) ... Setting up libllvm6.0:amd64 (1:6.0-3) ... Setting up libclang1-6.0:amd64 (1:6.0-3) ... Setting up lib32stdc++6 (8-20180425-1) ... Setting up libclang-common-6.0-dev (1:6.0-3) ... Setting up clang-6.0 (1:6.0-3) ... Processing triggers for libc-bin (2.27-3) ... W: --force-yes is deprecated, use one of the options starting with --allow instead. + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSIONS='4.6 4.7 4.8 4.9 5 6 7 8' + cd /usr/bin + for VERSION in $VERSIONS + rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc + ln -s clang++-6.0 g++-4.6 + ln -s clang-6.0 gcc-4.6 + ln -s clang-6.0 cpp-4.6 + ln -s clang-6.0 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++-6.0 g++-4.7 + ln -s clang-6.0 gcc-4.7 + ln -s clang-6.0 cpp-4.7 + ln -s clang-6.0 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++-6.0 g++-4.8 + ln -s clang-6.0 gcc-4.8 + ln -s clang-6.0 cpp-4.8 + ln -s clang-6.0 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++-6.0 g++-4.9 + ln -s clang-6.0 gcc-4.9 + ln -s clang-6.0 cpp-4.9 + ln -s clang-6.0 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++-6.0 g++-5 + ln -s clang-6.0 gcc-5 + ln -s clang-6.0 cpp-5 + ln -s clang-6.0 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++-6.0 g++-6 + ln -s clang-6.0 gcc-6 + ln -s clang-6.0 cpp-6 + ln -s clang-6.0 gcc + echo 'gcc-6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-7 gcc-7 cpp-7 gcc + ln -s clang++-6.0 g++-7 + ln -s clang-6.0 gcc-7 + ln -s clang-6.0 cpp-7 + ln -s clang-6.0 gcc + echo 'gcc-7 hold' + dpkg --set-selections + echo 'g++-7 hold' + dpkg --set-selections + for VERSION in $VERSIONS + rm -f g++-8 gcc-8 cpp-8 gcc + ln -s clang++-6.0 g++-8 + ln -s clang-6.0 gcc-8 + ln -s clang-6.0 cpp-8 + ln -s clang-6.0 gcc + echo 'gcc-8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + cd - /build/iqtree-CkycGp + 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/clang60'. 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: 'iqtree' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/iqtree.git Please use: git clone https://salsa.debian.org/med-team/iqtree.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1298 kB of source archives. Get:1 http://127.0.0.1:9999/debian unstable/main iqtree 1.6.3+dfsg-1 (dsc) [2208 B] Get:2 http://127.0.0.1:9999/debian unstable/main iqtree 1.6.3+dfsg-1 (tar) [1276 kB] Get:3 http://127.0.0.1:9999/debian unstable/main iqtree 1.6.3+dfsg-1 (diff) [19.4 kB] Fetched 1298 kB in 0s (8390 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/iqtree-CkycGp/iqtree-1.6.3+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/iqtree-CkycGp' 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-e6IIuu/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-e6IIuu/apt_archive ./ InRelease Get:2 copy:/<>/resolver-e6IIuu/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-e6IIuu/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-e6IIuu/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-e6IIuu/apt_archive ./ Packages [434 B] Fetched 1740 B in 0s (0 B/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 856 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-e6IIuu/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 856 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10771 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 amd64 hurd-i386 i386 kfreebsd-amd64 kfreebsd-i386) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper (>= 11~), cmake, libeigen3-dev, libsprng2-dev, mpi-default-dev, zlib1g-dev, help2man, time Filtered Build-Depends: debhelper (>= 11~), cmake, libeigen3-dev, libsprng2-dev, mpi-default-dev, zlib1g-dev, help2man, time dpkg-deb: building package 'sbuild-build-depends-iqtree-dummy' in '/<>/resolver-e6IIuu/apt_archive/sbuild-build-depends-iqtree-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-iqtree-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-e6IIuu/apt_archive ./ InRelease Get:2 copy:/<>/resolver-e6IIuu/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-e6IIuu/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-e6IIuu/apt_archive ./ Sources [534 B] Get:5 copy:/<>/resolver-e6IIuu/apt_archive ./ Packages [617 B] Fetched 2114 B in 0s (0 B/s) Reading package lists... Reading package lists... Install iqtree 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 cmake cmake-data debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base help2man ibverbs-providers intltool-debian libarchive-zip-perl libarchive13 libcroco3 libcurl3 libeigen3-dev libevent-2.1-6 libevent-core-2.1-6 libevent-pthreads-2.1-6 libexpat1 libfabric1 libfile-stripnondeterminism-perl libgfortran4 libglib2.0-0 libgmp-dev libgmpxx4ldbl libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblocale-gettext-perl libltdl-dev libltdl7 liblzo2-2 libmagic-mgc libmagic1 libnghttp2-14 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi3 libpciaccess0 libpipeline1 libpmix2 libprocps6 libpsl5 libpsm-infinipath1 librdmacm1 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsprng2 libsprng2-dev libssh2-1 libssl1.0.2 libtimedate-perl libtool libuv1 libxml2 lsb-base m4 man-db mpi-default-dev ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client pkg-config po-debconf procps time zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation cmake-doc ninja-build dh-make dwz gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libeigen3-doc libmrpt-dev gmp-doc libgmp10-doc libmpfr-dev krb5-doc krb5-user libhwloc-contrib-plugins libtool-doc openmpi-doc pciutils libsprng2-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser opencl-icd gfortran keychain libpam-ssh monkeysphere ssh-askpass libmail-box-perl Recommended packages: curl | wget | lynx ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales publicsuffix libsasl2-modules xauth libmail-sendmail-perl psmisc The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base help2man ibverbs-providers intltool-debian libarchive-zip-perl libarchive13 libcroco3 libcurl3 libeigen3-dev libevent-2.1-6 libevent-core-2.1-6 libevent-pthreads-2.1-6 libexpat1 libfabric1 libfile-stripnondeterminism-perl libgfortran4 libglib2.0-0 libgmp-dev libgmpxx4ldbl libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblocale-gettext-perl libltdl-dev libltdl7 liblzo2-2 libmagic-mgc libmagic1 libnghttp2-14 libnl-3-200 libnl-route-3-200 libnuma-dev libnuma1 libopenmpi-dev libopenmpi3 libpciaccess0 libpipeline1 libpmix2 libprocps6 libpsl5 libpsm-infinipath1 librdmacm1 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsprng2 libsprng2-dev libssh2-1 libssl1.0.2 libtimedate-perl libtool libuv1 libxml2 lsb-base m4 man-db mpi-default-dev ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client pkg-config po-debconf procps sbuild-build-depends-iqtree-dummy time zlib1g-dev 0 upgraded, 92 newly installed, 0 to remove and 0 not upgraded. Need to get 38.0 MB of archives. After this operation, 140 MB of additional disk space will be used. Get:1 copy:/<>/resolver-e6IIuu/apt_archive ./ sbuild-build-depends-iqtree-dummy 0.invalid.0 [908 B] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 bsdmainutils amd64 11.1.2 [190 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 groff-base amd64 1.22.3-10 [1176 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libpipeline1 amd64 1.5.0-1 [29.0 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 man-db amd64 2.8.3-2 [1180 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-3+b3 [18.7 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libprocps6 amd64 2:3.3.14-1 [60.4 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 lsb-base all 9.20170808 [28.1 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 procps amd64 2:3.3.14-1 [257 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 libmagic-mgc amd64 1:5.33-2 [234 kB] Get:11 http://127.0.0.1:9999/debian unstable/main amd64 libmagic1 amd64 1:5.33-2 [113 kB] Get:12 http://127.0.0.1:9999/debian unstable/main amd64 file amd64 1:5.33-2 [65.6 kB] Get:13 http://127.0.0.1:9999/debian unstable/main amd64 gettext-base amd64 0.19.8.1-6 [122 kB] Get:14 http://127.0.0.1:9999/debian unstable/main amd64 libkeyutils1 amd64 1.5.9-9.2 [12.9 kB] Get:15 http://127.0.0.1:9999/debian unstable/main amd64 libkrb5support0 amd64 1.16-2 [62.8 kB] Get:16 http://127.0.0.1:9999/debian unstable/main amd64 libk5crypto3 amd64 1.16-2 [121 kB] Get:17 http://127.0.0.1:9999/debian unstable/main amd64 libkrb5-3 amd64 1.16-2 [316 kB] Get:18 http://127.0.0.1:9999/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.16-2 [158 kB] Get:19 http://127.0.0.1:9999/debian unstable/main amd64 libssl1.0.2 amd64 1.0.2o-1 [1296 kB] Get:20 http://127.0.0.1:9999/debian unstable/main amd64 openssh-client amd64 1:7.7p1-2 [802 kB] Get:21 http://127.0.0.1:9999/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:22 http://127.0.0.1:9999/debian unstable/main amd64 m4 amd64 1.4.18-1 [202 kB] Get:23 http://127.0.0.1:9999/debian unstable/main amd64 autoconf all 2.69-11 [341 kB] Get:24 http://127.0.0.1:9999/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:25 http://127.0.0.1:9999/debian unstable/main amd64 automake all 1:1.15.1-3.1 [736 kB] Get:26 http://127.0.0.1:9999/debian unstable/main amd64 autopoint all 0.19.8.1-6 [434 kB] Get:27 http://127.0.0.1:9999/debian unstable/main amd64 cmake-data all 3.11.1-1 [1386 kB] Get:28 http://127.0.0.1:9999/debian unstable/main amd64 liblzo2-2 amd64 2.08-1.2+b2 [55.0 kB] Get:29 http://127.0.0.1:9999/debian unstable/main amd64 libicu57 amd64 57.1-9 [7698 kB] Get:30 http://127.0.0.1:9999/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-6.1 [725 kB] Get:31 http://127.0.0.1:9999/debian unstable/main amd64 libarchive13 amd64 3.2.2-3.1 [296 kB] Get:32 http://127.0.0.1:9999/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3.1 [68.6 kB] Get:33 http://127.0.0.1:9999/debian unstable/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3.1 [105 kB] Get:34 http://127.0.0.1:9999/debian unstable/main amd64 libldap-common all 2.4.45+dfsg-1 [87.0 kB] Get:35 http://127.0.0.1:9999/debian unstable/main amd64 libldap-2.4-2 amd64 2.4.45+dfsg-1 [223 kB] Get:36 http://127.0.0.1:9999/debian unstable/main amd64 libnghttp2-14 amd64 1.31.1-1 [80.7 kB] Get:37 http://127.0.0.1:9999/debian unstable/main amd64 libpsl5 amd64 0.20.1-1 [52.6 kB] Get:38 http://127.0.0.1:9999/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-1+b1 [60.4 kB] Get:39 http://127.0.0.1:9999/debian unstable/main amd64 libssh2-1 amd64 1.8.0-1 [138 kB] Get:40 http://127.0.0.1:9999/debian unstable/main amd64 libcurl3 amd64 7.58.0-2 [312 kB] Get:41 http://127.0.0.1:9999/debian unstable/main amd64 libexpat1 amd64 2.2.5-3 [96.8 kB] Get:42 http://127.0.0.1:9999/debian unstable/main amd64 librhash0 amd64 1.3.6-2 [87.1 kB] Get:43 http://127.0.0.1:9999/debian unstable/main amd64 libuv1 amd64 1.18.0-3 [98.5 kB] Get:44 http://127.0.0.1:9999/debian unstable/main amd64 cmake amd64 3.11.1-1 [3190 kB] Get:45 http://127.0.0.1:9999/debian unstable/main amd64 libtool all 2.4.6-2.1 [547 kB] Get:46 http://127.0.0.1:9999/debian unstable/main amd64 dh-autoreconf all 17 [16.5 kB] Get:47 http://127.0.0.1:9999/debian unstable/main amd64 libarchive-zip-perl all 1.60-1 [95.6 kB] Get:48 http://127.0.0.1:9999/debian unstable/main amd64 libfile-stripnondeterminism-perl all 0.041-1 [19.9 kB] Get:49 http://127.0.0.1:9999/debian unstable/main amd64 libtimedate-perl all 2.3000-2 [42.2 kB] Get:50 http://127.0.0.1:9999/debian unstable/main amd64 dh-strip-nondeterminism all 0.041-1 [12.0 kB] Get:51 http://127.0.0.1:9999/debian unstable/main amd64 libglib2.0-0 amd64 2.56.1-2 [2928 kB] Get:52 http://127.0.0.1:9999/debian unstable/main amd64 libcroco3 amd64 0.6.12-2 [144 kB] Get:53 http://127.0.0.1:9999/debian unstable/main amd64 gettext amd64 0.19.8.1-6 [1302 kB] Get:54 http://127.0.0.1:9999/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.4 [26.3 kB] Get:55 http://127.0.0.1:9999/debian unstable/main amd64 po-debconf all 1.0.20 [247 kB] Get:56 http://127.0.0.1:9999/debian unstable/main amd64 debhelper all 11.2.1 [1013 kB] Get:57 http://127.0.0.1:9999/debian unstable/main amd64 help2man amd64 1.47.6 [169 kB] Get:58 http://127.0.0.1:9999/debian unstable/main amd64 libnl-3-200 amd64 3.2.27-2 [61.5 kB] Get:59 http://127.0.0.1:9999/debian unstable/main amd64 libnl-route-3-200 amd64 3.2.27-2 [136 kB] Get:60 http://127.0.0.1:9999/debian unstable/main amd64 libibverbs1 amd64 17.1-2 [45.2 kB] Get:61 http://127.0.0.1:9999/debian unstable/main amd64 ibverbs-providers amd64 17.1-2 [170 kB] Get:62 http://127.0.0.1:9999/debian unstable/main amd64 pkg-config amd64 0.29-4+b1 [63.3 kB] Get:63 http://127.0.0.1:9999/debian unstable/main amd64 libeigen3-dev all 3.3.4-4 [841 kB] Get:64 http://127.0.0.1:9999/debian unstable/main amd64 libevent-2.1-6 amd64 2.1.8-stable-4 [177 kB] Get:65 http://127.0.0.1:9999/debian unstable/main amd64 libevent-core-2.1-6 amd64 2.1.8-stable-4 [129 kB] Get:66 http://127.0.0.1:9999/debian unstable/main amd64 libevent-pthreads-2.1-6 amd64 2.1.8-stable-4 [47.9 kB] Get:67 http://127.0.0.1:9999/debian unstable/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-5 [172 kB] Get:68 http://127.0.0.1:9999/debian unstable/main amd64 librdmacm1 amd64 17.1-2 [65.8 kB] Get:69 http://127.0.0.1:9999/debian unstable/main amd64 libfabric1 amd64 1.5.3-1 [303 kB] Get:70 http://127.0.0.1:9999/debian unstable/main amd64 libgfortran4 amd64 7.3.0-17 [487 kB] Get:71 http://127.0.0.1:9999/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.1.2+dfsg-3 [22.7 kB] Get:72 http://127.0.0.1:9999/debian unstable/main amd64 libgmp-dev amd64 2:6.1.2+dfsg-3 [632 kB] Get:73 http://127.0.0.1:9999/debian unstable/main amd64 libltdl7 amd64 2.4.6-2.1 [389 kB] Get:74 http://127.0.0.1:9999/debian unstable/main amd64 libnuma1 amd64 2.0.11-2.2 [33.8 kB] Get:75 http://127.0.0.1:9999/debian unstable/main amd64 libhwloc5 amd64 1.11.10-1 [110 kB] Get:76 http://127.0.0.1:9999/debian unstable/main amd64 libnuma-dev amd64 2.0.11-2.2 [46.7 kB] Get:77 http://127.0.0.1:9999/debian unstable/main amd64 libltdl-dev amd64 2.4.6-2.1 [161 kB] Get:78 http://127.0.0.1:9999/debian unstable/main amd64 libhwloc-dev amd64 1.11.10-1 [172 kB] Get:79 http://127.0.0.1:9999/debian unstable/main amd64 libpciaccess0 amd64 0.14-1 [53.5 kB] Get:80 http://127.0.0.1:9999/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.2.12-1 [37.1 kB] Get:81 http://127.0.0.1:9999/debian unstable/main amd64 libhwloc-plugins amd64 1.11.10-1 [16.7 kB] Get:82 http://127.0.0.1:9999/debian unstable/main amd64 libibverbs-dev amd64 17.1-2 [104 kB] Get:83 http://127.0.0.1:9999/debian unstable/main amd64 libpmix2 amd64 2.1.1~rc1-4 [340 kB] Get:84 http://127.0.0.1:9999/debian unstable/main amd64 libopenmpi3 amd64 3.0.1.real-1 [2099 kB] Get:85 http://127.0.0.1:9999/debian unstable/main amd64 openmpi-common all 3.0.1.real-1 [158 kB] Get:86 http://127.0.0.1:9999/debian unstable/main amd64 openmpi-bin amd64 3.0.1.real-1 [203 kB] Get:87 http://127.0.0.1:9999/debian unstable/main amd64 libopenmpi-dev amd64 3.0.1.real-1 [936 kB] Get:88 http://127.0.0.1:9999/debian unstable/main amd64 libsprng2 amd64 2.0a-11 [75.7 kB] Get:89 http://127.0.0.1:9999/debian unstable/main amd64 libsprng2-dev amd64 2.0a-11 [78.0 kB] Get:90 http://127.0.0.1:9999/debian unstable/main amd64 mpi-default-dev amd64 1.13 [5476 B] Get:91 http://127.0.0.1:9999/debian unstable/main amd64 time amd64 1.7-25.1+b1 [31.6 kB] Get:92 http://127.0.0.1:9999/debian unstable/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1 [214 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 38.0 MB in 1s (69.8 MB/s) Selecting previously unselected package bsdmainutils. (Reading database ... 10771 files and directories currently installed.) Preparing to unpack .../00-bsdmainutils_11.1.2_amd64.deb ... Unpacking bsdmainutils (11.1.2) ... Selecting previously unselected package groff-base. Preparing to unpack .../01-groff-base_1.22.3-10_amd64.deb ... Unpacking groff-base (1.22.3-10) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../02-libpipeline1_1.5.0-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.0-1) ... Selecting previously unselected package man-db. Preparing to unpack .../03-man-db_2.8.3-2_amd64.deb ... Unpacking man-db (2.8.3-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../04-liblocale-gettext-perl_1.07-3+b3_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-3+b3) ... Selecting previously unselected package libprocps6:amd64. Preparing to unpack .../05-libprocps6_2%3a3.3.14-1_amd64.deb ... Unpacking libprocps6:amd64 (2:3.3.14-1) ... Selecting previously unselected package lsb-base. Preparing to unpack .../06-lsb-base_9.20170808_all.deb ... Unpacking lsb-base (9.20170808) ... Selecting previously unselected package procps. Preparing to unpack .../07-procps_2%3a3.3.14-1_amd64.deb ... Unpacking procps (2:3.3.14-1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../08-libmagic-mgc_1%3a5.33-2_amd64.deb ... Unpacking libmagic-mgc (1:5.33-2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../09-libmagic1_1%3a5.33-2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.33-2) ... Selecting previously unselected package file. Preparing to unpack .../10-file_1%3a5.33-2_amd64.deb ... Unpacking file (1:5.33-2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../11-gettext-base_0.19.8.1-6_amd64.deb ... Unpacking gettext-base (0.19.8.1-6) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../12-libkeyutils1_1.5.9-9.2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.5.9-9.2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../13-libkrb5support0_1.16-2_amd64.deb ... Unpacking libkrb5support0:amd64 (1.16-2) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../14-libk5crypto3_1.16-2_amd64.deb ... Unpacking libk5crypto3:amd64 (1.16-2) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../15-libkrb5-3_1.16-2_amd64.deb ... Unpacking libkrb5-3:amd64 (1.16-2) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../16-libgssapi-krb5-2_1.16-2_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.16-2) ... Selecting previously unselected package libssl1.0.2:amd64. Preparing to unpack .../17-libssl1.0.2_1.0.2o-1_amd64.deb ... Unpacking libssl1.0.2:amd64 (1.0.2o-1) ... Selecting previously unselected package openssh-client. Preparing to unpack .../18-openssh-client_1%3a7.7p1-2_amd64.deb ... Unpacking openssh-client (1:7.7p1-2) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../19-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../20-m4_1.4.18-1_amd64.deb ... Unpacking m4 (1.4.18-1) ... Selecting previously unselected package autoconf. Preparing to unpack .../21-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../22-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../23-automake_1%3a1.15.1-3.1_all.deb ... Unpacking automake (1:1.15.1-3.1) ... Selecting previously unselected package autopoint. Preparing to unpack .../24-autopoint_0.19.8.1-6_all.deb ... Unpacking autopoint (0.19.8.1-6) ... Selecting previously unselected package cmake-data. Preparing to unpack .../25-cmake-data_3.11.1-1_all.deb ... Unpacking cmake-data (3.11.1-1) ... Selecting previously unselected package liblzo2-2:amd64. Preparing to unpack .../26-liblzo2-2_2.08-1.2+b2_amd64.deb ... Unpacking liblzo2-2:amd64 (2.08-1.2+b2) ... Selecting previously unselected package libicu57:amd64. Preparing to unpack .../27-libicu57_57.1-9_amd64.deb ... Unpacking libicu57:amd64 (57.1-9) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../28-libxml2_2.9.4+dfsg1-6.1_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-6.1) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../29-libarchive13_3.2.2-3.1_amd64.deb ... Unpacking libarchive13:amd64 (3.2.2-3.1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../30-libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3.1) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../31-libsasl2-2_2.1.27~101-g0780600+dfsg-3.1_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3.1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../32-libldap-common_2.4.45+dfsg-1_all.deb ... Unpacking libldap-common (2.4.45+dfsg-1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../33-libldap-2.4-2_2.4.45+dfsg-1_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.45+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../34-libnghttp2-14_1.31.1-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.31.1-1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../35-libpsl5_0.20.1-1_amd64.deb ... Unpacking libpsl5:amd64 (0.20.1-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../36-librtmp1_2.4+20151223.gitfa8646d.1-1+b1_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../37-libssh2-1_1.8.0-1_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-1) ... Selecting previously unselected package libcurl3:amd64. Preparing to unpack .../38-libcurl3_7.58.0-2_amd64.deb ... Unpacking libcurl3:amd64 (7.58.0-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../39-libexpat1_2.2.5-3_amd64.deb ... Unpacking libexpat1:amd64 (2.2.5-3) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../40-librhash0_1.3.6-2_amd64.deb ... Unpacking librhash0:amd64 (1.3.6-2) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../41-libuv1_1.18.0-3_amd64.deb ... Unpacking libuv1:amd64 (1.18.0-3) ... Selecting previously unselected package cmake. Preparing to unpack .../42-cmake_3.11.1-1_amd64.deb ... Unpacking cmake (3.11.1-1) ... Selecting previously unselected package libtool. Preparing to unpack .../43-libtool_2.4.6-2.1_all.deb ... Unpacking libtool (2.4.6-2.1) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../44-dh-autoreconf_17_all.deb ... Unpacking dh-autoreconf (17) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../45-libarchive-zip-perl_1.60-1_all.deb ... Unpacking libarchive-zip-perl (1.60-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../46-libfile-stripnondeterminism-perl_0.041-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (0.041-1) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../47-libtimedate-perl_2.3000-2_all.deb ... Unpacking libtimedate-perl (2.3000-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../48-dh-strip-nondeterminism_0.041-1_all.deb ... Unpacking dh-strip-nondeterminism (0.041-1) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../49-libglib2.0-0_2.56.1-2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.56.1-2) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../50-libcroco3_0.6.12-2_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-2) ... Selecting previously unselected package gettext. Preparing to unpack .../51-gettext_0.19.8.1-6_amd64.deb ... Unpacking gettext (0.19.8.1-6) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../52-intltool-debian_0.35.0+20060710.4_all.deb ... Unpacking intltool-debian (0.35.0+20060710.4) ... Selecting previously unselected package po-debconf. Preparing to unpack .../53-po-debconf_1.0.20_all.deb ... Unpacking po-debconf (1.0.20) ... Selecting previously unselected package debhelper. 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Setting up libpsl5:amd64 (0.20.1-1) ... Setting up libsprng2 (2.0a-11) ... Setting up libnuma1:amd64 (2.0.11-2.2) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:amd64 (2.56.1-2) ... No schema files found: doing nothing. Setting up libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3.1) ... Setting up libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3.1) ... Setting up gettext-base (0.19.8.1-6) ... Setting up cmake-data (3.11.1-1) ... Setting up libpipeline1:amd64 (1.5.0-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Setting up m4 (1.4.18-1) ... Setting up libicu57:amd64 (57.1-9) ... Setting up libprocps6:amd64 (2:3.3.14-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-6.1) ... Setting up libmagic-mgc (1:5.33-2) ... Setting up libmagic1:amd64 (1:5.33-2) ... Setting up lsb-base (9.20170808) ... Setting up librhash0:amd64 (1.3.6-2) ... Setting up procps (2:3.3.14-1) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libcroco3:amd64 (0.6.12-2) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-5) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libssl1.0.2:amd64 (1.0.2o-1) ... Setting up pkg-config (0.29-4+b1) ... Setting up libssh2-1:amd64 (1.8.0-1) ... Setting up libevent-pthreads-2.1-6:amd64 (2.1.8-stable-4) ... Setting up openmpi-common (3.0.1.real-1) ... Processing triggers for libc-bin (2.27-3) ... Setting up autotools-dev (20180224.1) ... Setting up libldap-2.4-2:amd64 (2.4.45+dfsg-1) ... Setting up libltdl7:amd64 (2.4.6-2.1) ... Setting up liblocale-gettext-perl (1.07-3+b3) ... Setting up libpciaccess0:amd64 (0.14-1) ... Setting up libnuma-dev:amd64 (2.0.11-2.2) ... Setting up ocl-icd-libopencl1:amd64 (2.2.12-1) ... Setting up libkeyutils1:amd64 (1.5.9-9.2) ... Setting up bsdmainutils (11.1.2) ... 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 libgmpxx4ldbl:amd64 (2:6.1.2+dfsg-3) ... Setting up libnl-3-200:amd64 (3.2.27-2) ... Setting up autopoint (0.19.8.1-6) ... Setting up liblzo2-2:amd64 (2.08-1.2+b2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-1) ... Setting up libfile-stripnondeterminism-perl (0.041-1) ... Setting up libgmp-dev:amd64 (2:6.1.2+dfsg-3) ... Setting up libltdl-dev:amd64 (2.4.6-2.1) ... Setting up gettext (0.19.8.1-6) ... Setting up libarchive13:amd64 (3.2.2-3.1) ... Setting up libeigen3-dev (3.3.4-4) ... Setting up libnl-route-3-200:amd64 (3.2.27-2) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.33-2) ... Setting up libhwloc5:amd64 (1.11.10-1) ... Setting up libkrb5support0:amd64 (1.16-2) ... Setting up libhwloc-plugins (1.11.10-1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libsprng2-dev (2.0a-11) ... Setting up automake (1:1.15.1-3.1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up help2man (1.47.6) ... Setting up man-db (2.8.3-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libtool (2.4.6-2.1) ... Setting up libibverbs1:amd64 (17.1-2) ... Setting up libk5crypto3:amd64 (1.16-2) ... Setting up po-debconf (1.0.20) ... Setting up libhwloc-dev:amd64 (1.11.10-1) ... Setting up libpmix2:amd64 (2.1.1~rc1-4) ... Setting up librdmacm1:amd64 (17.1-2) ... Setting up ibverbs-providers:amd64 (17.1-2) ... Setting up libkrb5-3:amd64 (1.16-2) ... Setting up libibverbs-dev:amd64 (17.1-2) ... Setting up libfabric1 (1.5.3-1) ... Setting up libgssapi-krb5-2:amd64 (1.16-2) ... Setting up openssh-client (1:7.7p1-2) ... Setting up libopenmpi3:amd64 (3.0.1.real-1) ... Setting up libcurl3:amd64 (7.58.0-2) ... Setting up openmpi-bin (3.0.1.real-1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: error: no alternatives for mpi update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up cmake (3.11.1-1) ... Setting up libopenmpi-dev:amd64 (3.0.1.real-1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up mpi-default-dev (1.13) ... Setting up dh-autoreconf (17) ... Setting up dh-strip-nondeterminism (0.041-1) ... Setting up debhelper (11.2.1) ... Setting up sbuild-build-depends-iqtree-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.27-3) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-5-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.30-16 dpkg-dev_1.19.0.5 g++-7_7.3.0-17 gcc-7_7.3.0-17 libc6-dev_2.27-3 libstdc++-7-dev_7.3.0-17 libstdc++6_8-20180425-1 linux-libc-dev_4.15.17-1 Package versions: adduser_3.117 apt_1.6.1 autoconf_2.69-11 automake_1:1.15.1-3.1 autopoint_0.19.8.1-6 autotools-dev_20180224.1 base-files_10.1 base-passwd_3.5.45 bash_4.4.18-2 binutils_2.30-16 binutils-common_2.30-16 binutils-x86-64-linux-gnu_2.30-16 bsdmainutils_11.1.2 bsdutils_1:2.31.1-0.5 build-essential_12.5 bzip2_1.0.6-8.1 clang-6.0_1:6.0-3 cmake_3.11.1-1 cmake-data_3.11.1-1 coreutils_8.28-1 cpp_4:7.3.0-3 cpp-7_7.3.0-17 dash_0.5.8-2.10 debconf_1.5.66 debfoster_2.7-2.1+b1 debhelper_11.2.1 debian-archive-keyring_2017.7 debianutils_4.8.4 dh-autoreconf_17 dh-strip-nondeterminism_0.041-1 diffutils_1:3.6-1 dpkg_1.19.0.5 dpkg-dev_1.19.0.5 e2fslibs_1.44.1-2 e2fsprogs_1.44.1-2 eatmydata_105-6 fakeroot_1.22-2 fdisk_2.31.1-0.5 file_1:5.33-2 findutils_4.6.0+git+20171230-2 g++_4:7.3.0-3 g++-7_7.3.0-17 gcc_4:7.3.0-3 gcc-6-base_6.4.0-17 gcc-7_7.3.0-17 gcc-7-base_7.3.0-17 gcc-8-base_8-20180425-1 gettext_0.19.8.1-6 gettext-base_0.19.8.1-6 gpgv_2.2.5-1 grep_3.1-2 groff-base_1.22.3-10 gzip_1.6-5+b1 help2man_1.47.6 hostname_3.20 ibverbs-providers_17.1-2 init-system-helpers_1.51 intltool-debian_0.35.0+20060710.4 lib32gcc1_1:8-20180425-1 lib32stdc++6_8-20180425-1 libacl1_2.2.52-3+b1 libapt-pkg5.0_1.6.1 libarchive-zip-perl_1.60-1 libarchive13_3.2.2-3.1 libasan4_7.3.0-17 libatomic1_8-20180425-1 libattr1_1:2.4.47-2+b2 libaudit-common_1:2.8.3-1 libaudit1_1:2.8.3-1 libbinutils_2.30-16 libblkid1_2.31.1-0.5 libbsd0_0.8.7-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.27-3 libc-dev-bin_2.27-3 libc6_2.27-3 libc6-dev_2.27-3 libc6-i386_2.27-3 libcap-ng0_0.7.9-1 libcc1-0_8-20180425-1 libcilkrts5_7.3.0-17 libclang-common-6.0-dev_1:6.0-3 libclang1-6.0_1:6.0-3 libcom-err2_1.44.1-2 libcomerr2_1.44.1-2 libcroco3_0.6.12-2 libcurl3_7.58.0-2 libdb5.3_5.3.28-13.1+b1 libdebconfclient0_0.243 libdpkg-perl_1.19.0.5 libeatmydata1_105-6 libedit2_3.1-20170329-1 libeigen3-dev_3.3.4-4 libevent-2.1-6_2.1.8-stable-4 libevent-core-2.1-6_2.1.8-stable-4 libevent-pthreads-2.1-6_2.1.8-stable-4 libexpat1_2.2.5-3 libext2fs2_1.44.1-2 libfabric1_1.5.3-1 libfakeroot_1.22-2 libfdisk1_2.31.1-0.5 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.041-1 libgc1c2_1:7.4.2-8.2 libgcc-7-dev_7.3.0-17 libgcc1_1:8-20180425-1 libgcrypt20_1.8.2-2 libgdbm-compat4_1.14.1-6 libgdbm3_1.8.3-14 libgdbm5_1.14.1-6 libgfortran4_7.3.0-17 libglib2.0-0_2.56.1-2 libgmp-dev_2:6.1.2+dfsg-3 libgmp10_2:6.1.2+dfsg-3 libgmpxx4ldbl_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1 libgomp1_8-20180425-1 libgpg-error0_1.29-4 libgssapi-krb5-2_1.16-2 libhogweed4_3.4-1 libhwloc-dev_1.11.10-1 libhwloc-plugins_1.11.10-1 libhwloc5_1.11.10-1 libibverbs-dev_17.1-2 libibverbs1_17.1-2 libicu57_57.1-9 libidn2-0_2.0.4-1.1 libisl15_0.18-4 libisl19_0.19-1 libitm1_8-20180425-1 libjsoncpp1_1.7.4-3 libk5crypto3_1.16-2 libkeyutils1_1.5.9-9.2 libkrb5-3_1.16-2 libkrb5support0_1.16-2 libldap-2.4-2_2.4.45+dfsg-1 libldap-common_2.4.45+dfsg-1 libllvm6.0_1:6.0-3 liblocale-gettext-perl_1.07-3+b3 liblsan0_8-20180425-1 libltdl-dev_2.4.6-2.1 libltdl7_2.4.6-2.1 liblz4-1_1.8.1.2-1 liblzma5_5.2.2-1.3 liblzo2-2_2.08-1.2+b2 libmagic-mgc_1:5.33-2 libmagic1_1:5.33-2 libmount1_2.31.1-0.5 libmpc3_1.1.0-1 libmpfr4_3.1.6-1 libmpfr6_4.0.1-1 libmpx2_8-20180425-1 libncurses5_6.1+20180210-2 libncursesw5_6.1+20180210-2 libnettle6_3.4-1 libnghttp2-14_1.31.1-1 libnl-3-200_3.2.27-2 libnl-route-3-200_3.2.27-2 libnuma-dev_2.0.11-2.2 libnuma1_2.0.11-2.2 libobjc-7-dev_7.3.0-17 libobjc4_8-20180425-1 libopenmpi-dev_3.0.1.real-1 libopenmpi3_3.0.1.real-1 libp11-kit0_0.23.10-2 libpam-modules_1.1.8-3.7 libpam-modules-bin_1.1.8-3.7 libpam-runtime_1.1.8-3.7 libpam0g_1.1.8-3.7 libpciaccess0_0.14-1 libpcre3_2:8.39-9 libperl5.26_5.26.2-3 libpipeline1_1.5.0-1 libpmix2_2.1.1~rc1-4 libprocps6_2:3.3.14-1 libpsl5_0.20.1-1 libpsm-infinipath1_3.3+20.604758e7-5 libquadmath0_8-20180425-1 librdmacm1_17.1-2 librhash0_1.3.6-2 librtmp1_2.4+20151223.gitfa8646d.1-1+b1 libsasl2-2_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1 libseccomp2_2.3.3-1 libselinux1_2.7-2+b2 libsemanage-common_2.7-2 libsemanage1_2.7-2+b2 libsepol1_2.7-1 libsigsegv2_2.12-2 libsmartcols1_2.31.1-0.5 libsprng2_2.0a-11 libsprng2-dev_2.0a-11 libss2_1.44.1-2 libssh2-1_1.8.0-1 libssl1.0.2_1.0.2o-1 libstdc++-7-dev_7.3.0-17 libstdc++6_8-20180425-1 libsystemd0_238-4 libtasn1-6_4.13-2 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-2 libtinfo6_6.1+20180210-2 libtool_2.4.6-2.1 libtsan0_8-20180425-1 libubsan0_7.3.0-17 libudev1_238-4 libunistring2_0.9.8-1 libustr-1.0-1_1.0.4-6 libuuid1_2.31.1-0.5 libuv1_1.18.0-3 libxml2_2.9.4+dfsg1-6.1 libzstd1_1.3.4+dfsg-1 linux-libc-dev_4.15.17-1 login_1:4.5-1 lsb-base_9.20170808 m4_1.4.18-1 make_4.2.1-1 man-db_2.8.3-2 mawk_1.3.3-17+b3 mount_2.31.1-0.5 mpi-default-dev_1.13 multiarch-support_2.27-3 ncurses-base_6.1+20180210-2 ncurses-bin_6.1+20180210-2 ocl-icd-libopencl1_2.2.12-1 openmpi-bin_3.0.1.real-1 openmpi-common_3.0.1.real-1 openssh-client_1:7.7p1-2 passwd_1:4.5-1 patch_2.7.6-2 perl_5.26.2-3 perl-base_5.26.2-3 perl-modules-5.26_5.26.2-3 pkg-config_0.29-4+b1 po-debconf_1.0.20 procps_2:3.3.14-1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-iqtree-dummy_0.invalid.0 sed_4.4-2 sensible-utils_0.0.12 sysvinit-utils_2.88dsf-59.10 tar_1.30+dfsg-1 time_1.7-25.1+b1 util-linux_2.31.1-0.5 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Thu Apr 26 13:49:41 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./iqtree_1.6.3+dfsg-1.dsc dpkg-source: info: extracting iqtree in /<>/iqtree-1.6.3+dfsg dpkg-source: info: unpacking iqtree_1.6.3+dfsg.orig.tar.xz dpkg-source: info: unpacking iqtree_1.6.3+dfsg-1.debian.tar.xz 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-95e9d66a-8fd8-4143-865b-791d15fd090e SCHROOT_UID=1001 SCHROOT_USER=user42 SHELL=/bin/sh USER=user42 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package iqtree dpkg-buildpackage: info: source version 1.6.3+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build iqtree-1.6.3+dfsg dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>/iqtree-1.6.3+dfsg' dh_auto_clean -Bbuild.omp dh_auto_clean -Bbuild.serial dh_auto_clean -Bbuild.mpi dh override_dh_auto_clean make[1]: Leaving directory '/<>/iqtree-1.6.3+dfsg' dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/<>/iqtree-1.6.3+dfsg' dh_auto_configure -Bbuild.omp -- -DIQTREE_FLAGS="omp" cd build.omp && cmake .. -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DIQTREE_FLAGS=omp -- The C compiler identification is Clang 6.0.0 -- The CXX compiler identification is Clang 6.0.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done IQ-TREE flags : omp Target OS : Unix Compiler : Clang Target binary : 64-bit OpenMP : Yes MPI : NONE Vectorization : SSE3/AVX/AVX2 LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--gc-sections -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for GlobalMemoryStatusEx -- Looking for GlobalMemoryStatusEx - not found -- Looking for strndup -- Looking for strndup - found -- Looking for strtok_r -- Looking for strtok_r - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") Using system zlib -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /<>/iqtree-1.6.3+dfsg/build.omp dh_auto_configure -Bbuild.serial -- -DIQTREE_FLAGS="" cd build.serial && cmake .. -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DIQTREE_FLAGS= -- The C compiler identification is Clang 6.0.0 -- The CXX compiler identification is Clang 6.0.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done IQ-TREE flags : Target OS : Unix Compiler : Clang Target binary : 64-bit OpenMP : Yes MPI : NONE Vectorization : SSE3/AVX/AVX2 LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--gc-sections -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for GlobalMemoryStatusEx -- Looking for GlobalMemoryStatusEx - not found -- Looking for strndup -- Looking for strndup - found -- Looking for strtok_r -- Looking for strtok_r - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") Using system zlib -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /<>/iqtree-1.6.3+dfsg/build.serial dh_auto_configure -Bbuild.mpi -- -DIQTREE_FLAGS="mpi" cd build.mpi && cmake .. -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DIQTREE_FLAGS=mpi -- The C compiler identification is Clang 6.0.0 -- The CXX compiler identification is Clang 6.0.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done IQ-TREE flags : mpi Target OS : Unix Compiler : Clang -- Found MPI_C: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so (found version "3.1") -- Found MPI: TRUE (found version "3.1") Target binary : 64-bit OpenMP : Yes MPI : Yes Vectorization : SSE3/AVX/AVX2 LINKER flags : -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--gc-sections -- Looking for gettimeofday -- Looking for gettimeofday - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for GlobalMemoryStatusEx -- Looking for GlobalMemoryStatusEx - not found -- Looking for strndup -- Looking for strndup - found -- Looking for strtok_r -- Looking for strtok_r - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") Using system zlib -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /<>/iqtree-1.6.3+dfsg/build.mpi dh override_dh_auto_configure make[1]: Leaving directory '/<>/iqtree-1.6.3+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/<>/iqtree-1.6.3+dfsg' dh_auto_build -Bbuild.omp cd build.omp && make -j8 -Oline "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' /usr/bin/cmake -H/<>/iqtree-1.6.3+dfsg -B/<>/iqtree-1.6.3+dfsg/build.omp --check-build-system 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gsl/CMakeFiles/gsl.dir/build.make gsl/CMakeFiles/gsl.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/CMakeFiles/kernelfma.dir/DependInfo.cmake --color= Scanning dependencies of target kernelfma make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f CMakeFiles/kernelfma.dir/build.make CMakeFiles/kernelfma.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/lbfgsb /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/lbfgsb /<>/iqtree-1.6.3+dfsg/build.omp/lbfgsb/CMakeFiles/lbfgsb.dir/DependInfo.cmake --color= Scanning dependencies of target lbfgsb make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f lbfgsb/CMakeFiles/lbfgsb.dir/build.make lbfgsb/CMakeFiles/lbfgsb.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/ncl /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/ncl /<>/iqtree-1.6.3+dfsg/build.omp/ncl/CMakeFiles/ncl.dir/DependInfo.cmake --color= Scanning dependencies of target ncl make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f ncl/CMakeFiles/ncl.dir/build.make ncl/CMakeFiles/ncl.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 1%] Building CXX object gsl/CMakeFiles/gsl.dir/binomial_tpe.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 2%] Building CXX object lbfgsb/CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 2%] Building C object pll/CMakeFiles/pllavx.dir/avxLikelihood.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 2%] Building CXX object CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/CMakeFiles/kernelavx.dir/DependInfo.cmake --color= Scanning dependencies of target kernelavx make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f CMakeFiles/kernelavx.dir/build.make CMakeFiles/kernelavx.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 3%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/pll /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/pll /<>/iqtree-1.6.3+dfsg/build.omp/pll/CMakeFiles/pll.dir/DependInfo.cmake --color= Scanning dependencies of target pll make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f pll/CMakeFiles/pll.dir/build.make pll/CMakeFiles/pll.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 3%] Building CXX object CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/CMakeFiles/kernelsse.dir/DependInfo.cmake --color= Scanning dependencies of target kernelsse make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f CMakeFiles/kernelsse.dir/build.make CMakeFiles/kernelsse.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 4%] Building C object pll/CMakeFiles/pll.dir/alignment.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 4%] Building CXX object CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/binomial_tpe.cpp.o -c /<>/iqtree-1.6.3+dfsg/gsl/binomial_tpe.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 4%] Building CXX object gsl/CMakeFiles/gsl.dir/multinomial.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/multinomial.cpp.o -c /<>/iqtree-1.6.3+dfsg/gsl/multinomial.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/alignment.c.o -c /<>/iqtree-1.6.3+dfsg/pll/alignment.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/pow_int.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 5%] Building C object pll/CMakeFiles/pll.dir/bipartitionList.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/pow_int.cpp.o -c /<>/iqtree-1.6.3+dfsg/gsl/pow_int.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 5%] Building CXX object gsl/CMakeFiles/gsl.dir/gauss.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/bipartitionList.c.o -c /<>/iqtree-1.6.3+dfsg/pll/bipartitionList.c /<>/iqtree-1.6.3+dfsg/pll/bipartitionList.c:332:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(e->bitVector), PLL_BYTE_ALIGNMENT, (size_t)vectorLength * sizeof(unsigned int)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ 1 warning generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 6%] Building C object pll/CMakeFiles/pll.dir/evaluateGenericSpecial.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gauss.cpp.o -c /<>/iqtree-1.6.3+dfsg/gsl/gauss.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 7%] Building CXX object gsl/CMakeFiles/gsl.dir/gaussinv.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gaussinv.cpp.o -c /<>/iqtree-1.6.3+dfsg/gsl/gaussinv.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 8%] Building CXX object gsl/CMakeFiles/gsl.dir/gausspdf.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -o CMakeFiles/gsl.dir/gausspdf.cpp.o -c /<>/iqtree-1.6.3+dfsg/gsl/gausspdf.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 8%] Linking CXX static library libgsl.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/cmake -P CMakeFiles/gsl.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/gsl && /usr/bin/cmake -E cmake_link_script CMakeFiles/gsl.dir/link.txt --verbose=1 /usr/bin/ar qc libgsl.a CMakeFiles/gsl.dir/binomial_tpe.cpp.o CMakeFiles/gsl.dir/multinomial.cpp.o CMakeFiles/gsl.dir/pow_int.cpp.o CMakeFiles/gsl.dir/gauss.cpp.o CMakeFiles/gsl.dir/gaussinv.cpp.o CMakeFiles/gsl.dir/gausspdf.cpp.o /usr/bin/ranlib libgsl.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 8%] Built target gsl make[3]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/depend make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/nclextra /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/nclextra /<>/iqtree-1.6.3+dfsg/build.omp/nclextra/CMakeFiles/nclextra.dir/DependInfo.cmake --color= Scanning dependencies of target nclextra make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f nclextra/CMakeFiles/nclextra.dir/build.make nclextra/CMakeFiles/nclextra.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 9%] Building CXX object nclextra/CMakeFiles/nclextra.dir/mpdablock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -D__AVX -mavx -o CMakeFiles/pllavx.dir/avxLikelihood.c.o -c /<>/iqtree-1.6.3+dfsg/pll/avxLikelihood.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 10%] Linking C static library libpllavx.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cmake -P CMakeFiles/pllavx.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pllavx.dir/link.txt --verbose=1 /usr/bin/ar qc libpllavx.a CMakeFiles/pllavx.dir/avxLikelihood.c.o /usr/bin/ranlib libpllavx.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 10%] Built target pllavx make[3]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/depend make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/iqtree-1.6.3+dfsg /<>/iqtree-1.6.3+dfsg/whtest /<>/iqtree-1.6.3+dfsg/build.omp /<>/iqtree-1.6.3+dfsg/build.omp/whtest /<>/iqtree-1.6.3+dfsg/build.omp/whtest/CMakeFiles/whtest.dir/DependInfo.cmake --color= Scanning dependencies of target whtest make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make -f whtest/CMakeFiles/whtest.dir/build.make whtest/CMakeFiles/whtest.dir/build make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 11%] Building C object whtest/CMakeFiles/whtest.dir/eigen.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsassumptionsblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 11%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o -c /<>/iqtree-1.6.3+dfsg/pll/evaluateGenericSpecial.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 11%] Building C object pll/CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -msse3 -o CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o -c /<>/iqtree-1.6.3+dfsg/tree/phylokernelsse.cpp In file included from /<>/iqtree-1.6.3+dfsg/tree/phylokernelsse.cpp:17: /<>/iqtree-1.6.3+dfsg/tree/phylokernelnew.h:21:10: fatal error: 'omp.h' file not found #include ^~~~~~~ 1 error generated. make[4]: *** [CMakeFiles/kernelsse.dir/build.make:66: CMakeFiles/kernelsse.dir/tree/phylokernelsse.cpp.o] Error 1 make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: *** [CMakeFiles/Makefile2:198: CMakeFiles/kernelsse.dir/all] Error 2 make[3]: *** Waiting for unfinished jobs.... make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 12%] Building C object pll/CMakeFiles/pll.dir/fastDNAparsimony.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/lbfgsb && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o -c /<>/iqtree-1.6.3+dfsg/lbfgsb/lbfgsb_new.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 12%] Linking CXX static library liblbfgsb.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/lbfgsb && /usr/bin/cmake -P CMakeFiles/lbfgsb.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/lbfgsb && /usr/bin/cmake -E cmake_link_script CMakeFiles/lbfgsb.dir/link.txt --verbose=1 /usr/bin/ar qc liblbfgsb.a CMakeFiles/lbfgsb.dir/lbfgsb_new.cpp.o /usr/bin/ranlib liblbfgsb.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 12%] Built target lbfgsb make[3]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 13%] Building C object pll/CMakeFiles/pll.dir/hardware.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hardware.c.o -c /<>/iqtree-1.6.3+dfsg/pll/hardware.c /<>/iqtree-1.6.3+dfsg/pll/hardware.c:93:9: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] fscanf (fd, "%d", &id); ^~~~~~ ~~~~~~~~~~~~~ 1 warning generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 13%] Building C object pll/CMakeFiles/pll.dir/hash.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -D__AVX -mavx -o CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o -c /<>/iqtree-1.6.3+dfsg/tree/phylotreeavx.cpp In file included from /<>/iqtree-1.6.3+dfsg/tree/phylotreeavx.cpp:17: /<>/iqtree-1.6.3+dfsg/tree/phylokernelnew.h:21:10: fatal error: 'omp.h' file not found #include ^~~~~~~ 1 error generated. make[4]: *** [CMakeFiles/kernelavx.dir/build.make:66: CMakeFiles/kernelavx.dir/tree/phylotreeavx.cpp.o] Error 1 make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: *** [CMakeFiles/Makefile2:71: CMakeFiles/kernelavx.dir/all] Error 2 make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 14%] Building C object pll/CMakeFiles/pll.dir/lexer.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -I/usr/include/eigen3 -DUSE_EIGEN3 -D__SSE3 -D__AVX -mavx -mfma -o CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o -c /<>/iqtree-1.6.3+dfsg/tree/phylokernelfma.cpp In file included from /<>/iqtree-1.6.3+dfsg/tree/phylokernelfma.cpp:17: /<>/iqtree-1.6.3+dfsg/tree/phylokernelnew.h:21:10: fatal error: 'omp.h' file not found #include ^~~~~~~ 1 error generated. make[4]: *** [CMakeFiles/kernelfma.dir/build.make:66: CMakeFiles/kernelfma.dir/tree/phylokernelfma.cpp.o] Error 1 make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: *** [CMakeFiles/Makefile2:108: CMakeFiles/kernelfma.dir/all] Error 2 make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 14%] Building C object pll/CMakeFiles/pll.dir/makenewzGenericSpecial.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/hash.c.o -c /<>/iqtree-1.6.3+dfsg/pll/hash.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 15%] Building C object pll/CMakeFiles/pll.dir/models.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/lexer.c.o -c /<>/iqtree-1.6.3+dfsg/pll/lexer.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 16%] Building C object pll/CMakeFiles/pll.dir/newick.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 17%] Building CXX object ncl/CMakeFiles/ncl.dir/nxscharactersblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o -c /<>/iqtree-1.6.3+dfsg/pll/evaluatePartialGenericSpecial.c /<>/iqtree-1.6.3+dfsg/pll/evaluatePartialGenericSpecial.c:936:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 80 * mxtips); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/evaluatePartialGenericSpecial.c:1017:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 16 * mxtips); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/evaluatePartialGenericSpecial.c:1175:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **) &lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 4 * mxtips); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/evaluatePartialGenericSpecial.c:1326:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&lVector, PLL_BYTE_ALIGNMENT, sizeof(double) * 20 * mxtips); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ 4 warnings generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/mpdablock.cpp.o -c /<>/iqtree-1.6.3+dfsg/nclextra/mpdablock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 17%] Building C object pll/CMakeFiles/pll.dir/newviewGenericSpecial.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 17%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msetsblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newick.c.o -c /<>/iqtree-1.6.3+dfsg/pll/newick.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 18%] Building C object pll/CMakeFiles/pll.dir/genericParallelization.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen.c.o -c /<>/iqtree-1.6.3+dfsg/whtest/eigen.c /<>/iqtree-1.6.3+dfsg/whtest/eigen.c:67:38: warning: for loop has empty body [-Wempty-body] { int i; for (i=0; i>/iqtree-1.6.3+dfsg/whtest/eigen.c:67:38: note: put the semicolon on a separate line to silence this warning /<>/iqtree-1.6.3+dfsg/whtest/eigen.c:69:40: warning: for loop has empty body [-Wempty-body] { int i; for (i=0; i>/iqtree-1.6.3+dfsg/whtest/eigen.c:69:40: note: put the semicolon on a separate line to silence this warning 2 warnings generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 18%] Building C object whtest/CMakeFiles/whtest.dir/eigen_sym.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/fastDNAparsimony.c.o -c /<>/iqtree-1.6.3+dfsg/pll/fastDNAparsimony.c /<>/iqtree-1.6.3+dfsg/pll/fastDNAparsimony.c:1692:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **) &(pr->partitionData[model]->parsVect), PLL_BYTE_ALIGNMENT, (size_t)compressedEntriesPadded * states * totalNodes * sizeof(parsimonyNumber)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/fastDNAparsimony.c:1768:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **) &(tr->parsimonyScore), PLL_BYTE_ALIGNMENT, sizeof(unsigned int) * totalNodes); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ 2 warnings generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 18%] Building C object pll/CMakeFiles/pll.dir/optimizeModel.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/eigen_sym.c.o -c /<>/iqtree-1.6.3+dfsg/whtest/eigen_sym.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 19%] Building C object whtest/CMakeFiles/whtest.dir/random.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/random.c.o -c /<>/iqtree-1.6.3+dfsg/whtest/random.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 20%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda.c.o -c /<>/iqtree-1.6.3+dfsg/whtest/weisslambda.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 20%] Building C object whtest/CMakeFiles/whtest.dir/weisslambda_sub.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/weisslambda_sub.c.o -c /<>/iqtree-1.6.3+dfsg/whtest/weisslambda_sub.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 21%] Building C object whtest/CMakeFiles/whtest.dir/whtest.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest.c.o -c /<>/iqtree-1.6.3+dfsg/whtest/whtest.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 21%] Building C object whtest/CMakeFiles/whtest.dir/whtest_sub.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/genericParallelization.c.o -c /<>/iqtree-1.6.3+dfsg/pll/genericParallelization.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 22%] Building C object pll/CMakeFiles/pll.dir/parsePartition.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/optimizeModel.c.o -c /<>/iqtree-1.6.3+dfsg/pll/optimizeModel.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 22%] Building C object pll/CMakeFiles/pll.dir/queue.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/queue.c.o -c /<>/iqtree-1.6.3+dfsg/pll/queue.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 23%] Building C object pll/CMakeFiles/pll.dir/randomTree.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/parsePartition.c.o -c /<>/iqtree-1.6.3+dfsg/pll/parsePartition.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 24%] Building C object pll/CMakeFiles/pll.dir/recom.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/randomTree.c.o -c /<>/iqtree-1.6.3+dfsg/pll/randomTree.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 24%] Building C object pll/CMakeFiles/pll.dir/restartHashTable.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/models.c.o -c /<>/iqtree-1.6.3+dfsg/pll/models.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 25%] Building C object pll/CMakeFiles/pll.dir/searchAlgo.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/restartHashTable.c.o -c /<>/iqtree-1.6.3+dfsg/pll/restartHashTable.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 25%] Building C object pll/CMakeFiles/pll.dir/ssort.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/recom.c.o -c /<>/iqtree-1.6.3+dfsg/pll/recom.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 26%] Building C object pll/CMakeFiles/pll.dir/stack.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msetsblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/nclextra/msetsblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 27%] Building CXX object nclextra/CMakeFiles/nclextra.dir/msplitsblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/stack.c.o -c /<>/iqtree-1.6.3+dfsg/pll/stack.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 28%] Building C object pll/CMakeFiles/pll.dir/topologies.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/ssort.c.o -c /<>/iqtree-1.6.3+dfsg/pll/ssort.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 28%] Building C object pll/CMakeFiles/pll.dir/trash.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_sub.c.o -c /<>/iqtree-1.6.3+dfsg/whtest/whtest_sub.c /<>/iqtree-1.6.3+dfsg/whtest/whtest_sub.c:205:4: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~ ~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/whtest/whtest_sub.c:221:4: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] fscanf ( ifp, "%c", &c ); ^~~~~~ ~~~~~~~~~~~~~ 2 warnings generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 29%] Building CXX object whtest/CMakeFiles/whtest.dir/whtest_wrapper.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o -c /<>/iqtree-1.6.3+dfsg/pll/makenewzGenericSpecial.c /<>/iqtree-1.6.3+dfsg/pll/makenewzGenericSpecial.c:67:5: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] #if IS_PARALLEL ^ /<>/iqtree-1.6.3+dfsg/pll/genericParallelization.h:53:22: note: expanded from macro 'IS_PARALLEL' #define IS_PARALLEL (defined(_USE_PTHREADS) || defined(_FINE_GRAIN_MPI)) ^ /<>/iqtree-1.6.3+dfsg/pll/makenewzGenericSpecial.c:67:5: warning: macro expansion producing 'defined' has undefined behavior [-Wexpansion-to-defined] /<>/iqtree-1.6.3+dfsg/pll/genericParallelization.h:53:48: note: expanded from macro 'IS_PARALLEL' #define IS_PARALLEL (defined(_USE_PTHREADS) || defined(_FINE_GRAIN_MPI)) ^ /<>/iqtree-1.6.3+dfsg/pll/makenewzGenericSpecial.c:2699:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **) &d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 4 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/makenewzGenericSpecial.c:3074:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&d_start, PLL_BYTE_ALIGNMENT, numberOfCategories * 20 * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ 4 warnings generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 30%] Building C object pll/CMakeFiles/pll.dir/treeIO.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/trash.c.o -c /<>/iqtree-1.6.3+dfsg/pll/trash.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 30%] Building C object pll/CMakeFiles/pll.dir/utils.c.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/treeIO.c.o -c /<>/iqtree-1.6.3+dfsg/pll/treeIO.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 30%] Building CXX object nclextra/CMakeFiles/nclextra.dir/modelsblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/topologies.c.o -c /<>/iqtree-1.6.3+dfsg/pll/topologies.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 30%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdatablock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/searchAlgo.c.o -c /<>/iqtree-1.6.3+dfsg/pll/searchAlgo.c make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 31%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdatablock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsdatablock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 32%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o -c /<>/iqtree-1.6.3+dfsg/whtest/whtest_wrapper.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 33%] Linking CXX static library libwhtest.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cmake -P CMakeFiles/whtest.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/whtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/whtest.dir/link.txt --verbose=1 /usr/bin/ar qc libwhtest.a CMakeFiles/whtest.dir/eigen.c.o CMakeFiles/whtest.dir/eigen_sym.c.o CMakeFiles/whtest.dir/random.c.o CMakeFiles/whtest.dir/weisslambda.c.o CMakeFiles/whtest.dir/weisslambda_sub.c.o CMakeFiles/whtest.dir/whtest.c.o CMakeFiles/whtest.dir/whtest_sub.c.o CMakeFiles/whtest.dir/whtest_wrapper.cpp.o /usr/bin/ranlib libwhtest.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 33%] Built target whtest make[3]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 33%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/msplitsblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/nclextra/msplitsblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 34%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/utils.c.o -c /<>/iqtree-1.6.3+dfsg/pll/utils.c /<>/iqtree-1.6.3+dfsg/pll/utils.c:609:15: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV_LG4[k]), PLL_BYTE_ALIGNMENT, pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:613:15: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector_LG4[k]), PLL_BYTE_ALIGNMENT, pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:748:11: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->gapColumn),PLL_BYTE_ALIGNMENT, ((size_t)localTree->mxtips) * ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:588:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->left), PLL_BYTE_ALIGNMENT, (size_t)pl->leftLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:589:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->right), PLL_BYTE_ALIGNMENT, (size_t)pl->rightLength * (maxCategories + 1) * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:591:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->EV), PLL_BYTE_ALIGNMENT, (size_t)pl->evLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:597:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->tipVector), PLL_BYTE_ALIGNMENT, (size_t)pl->tipVectorLength * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:679:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->sumBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:686:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->perSiteLikelihoods), PLL_BYTE_ALIGNMENT, width * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:716:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->ancestralBuffer), PLL_BYTE_ALIGNMENT, width * ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/utils.c:736:7: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&(localPartitions->partitionData[model]->wgt), PLL_BYTE_ALIGNMENT, width * sizeof(int)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ 11 warnings generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 34%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsemptyblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsdiscretedatum.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 35%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsexception.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/nclextra && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/nclextra.dir/modelsblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/nclextra/modelsblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 36%] Linking CXX static library libnclextra.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/nclextra && /usr/bin/cmake -P CMakeFiles/nclextra.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/nclextra && /usr/bin/cmake -E cmake_link_script CMakeFiles/nclextra.dir/link.txt --verbose=1 /usr/bin/ar qc libnclextra.a CMakeFiles/nclextra.dir/mpdablock.cpp.o CMakeFiles/nclextra.dir/msetsblock.cpp.o CMakeFiles/nclextra.dir/msplitsblock.cpp.o CMakeFiles/nclextra.dir/modelsblock.cpp.o /usr/bin/ranlib libnclextra.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 36%] Built target nclextra make[3]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 36%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsreader.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsdistancedatum.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 37%] Building CXX object ncl/CMakeFiles/ncl.dir/nxssetreader.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cc -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -D__SSE3 -msse3 -o CMakeFiles/pll.dir/newviewGenericSpecial.c.o -c /<>/iqtree-1.6.3+dfsg/pll/newviewGenericSpecial.c /<>/iqtree-1.6.3+dfsg/pll/newviewGenericSpecial.c:2763:13: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&x3_start, PLL_BYTE_ALIGNMENT, requiredLength); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/newviewGenericSpecial.c:2792:17: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&ex3, PLL_BYTE_ALIGNMENT, requiredExpLength); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/newviewGenericSpecial.c:3730:11: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof(double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/newviewGenericSpecial.c:3800:3: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result] rax_posix_memalign ((void **)&diagptable, PLL_BYTE_ALIGNMENT, categories * states * states * sizeof (double)); ^~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/iqtree-1.6.3+dfsg/pll/mem_alloc.h:39:32: note: expanded from macro 'rax_posix_memalign' #define rax_posix_memalign posix_memalign ^~~~~~~~~~~~~~ 4 warnings generated. make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 38%] Linking C static library libpll.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cmake -P CMakeFiles/pll.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/pll && /usr/bin/cmake -E cmake_link_script CMakeFiles/pll.dir/link.txt --verbose=1 /usr/bin/ar qc libpll.a CMakeFiles/pll.dir/alignment.c.o CMakeFiles/pll.dir/bipartitionList.c.o CMakeFiles/pll.dir/evaluateGenericSpecial.c.o CMakeFiles/pll.dir/evaluatePartialGenericSpecial.c.o CMakeFiles/pll.dir/fastDNAparsimony.c.o CMakeFiles/pll.dir/hardware.c.o CMakeFiles/pll.dir/hash.c.o CMakeFiles/pll.dir/lexer.c.o CMakeFiles/pll.dir/makenewzGenericSpecial.c.o CMakeFiles/pll.dir/models.c.o CMakeFiles/pll.dir/newick.c.o CMakeFiles/pll.dir/newviewGenericSpecial.c.o CMakeFiles/pll.dir/genericParallelization.c.o CMakeFiles/pll.dir/optimizeModel.c.o CMakeFiles/pll.dir/parsePartition.c.o CMakeFiles/pll.dir/queue.c.o CMakeFiles/pll.dir/randomTree.c.o CMakeFiles/pll.dir/recom.c.o CMakeFiles/pll.dir/restartHashTable.c.o CMakeFiles/pll.dir/searchAlgo.c.o CMakeFiles/pll.dir/ssort.c.o CMakeFiles/pll.dir/stack.c.o CMakeFiles/pll.dir/topologies.c.o CMakeFiles/pll.dir/trash.c.o CMakeFiles/pll.dir/treeIO.c.o CMakeFiles/pll.dir/utils.c.o /usr/bin/ranlib libpll.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 38%] Built target pll make[3]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 39%] Building CXX object ncl/CMakeFiles/ncl.dir/nxsstring.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsdiscretematrix.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 39%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstaxablock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsemptyblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstoken.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxscharactersblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 40%] Building CXX object ncl/CMakeFiles/ncl.dir/nxstreesblock.cpp.o make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsexception.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsexception.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsdistancesblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsreader.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsreader.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxssetreader.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxssetreader.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstoken.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxstoken.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxsstring.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxsstring.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstaxablock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxstaxablock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/c++ -DIQ_TREE -D_USE_PTHREADS -I/<>/iqtree-1.6.3+dfsg -I/<>/iqtree-1.6.3+dfsg/build.omp -g -O2 -fdebug-prefix-map=/<>/iqtree-1.6.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fopenmp=libomp -pthread -D__SSE3 -msse3 -o CMakeFiles/ncl.dir/nxstreesblock.cpp.o -c /<>/iqtree-1.6.3+dfsg/ncl/nxstreesblock.cpp make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 41%] Linking CXX static library libncl.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/cmake -P CMakeFiles/ncl.dir/cmake_clean_target.cmake make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[4]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' cd /<>/iqtree-1.6.3+dfsg/build.omp/ncl && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncl.dir/link.txt --verbose=1 /usr/bin/ar qc libncl.a CMakeFiles/ncl.dir/nxsassumptionsblock.cpp.o CMakeFiles/ncl.dir/nxsblock.cpp.o CMakeFiles/ncl.dir/nxscharactersblock.cpp.o CMakeFiles/ncl.dir/nxsdatablock.cpp.o CMakeFiles/ncl.dir/nxsdiscretedatum.cpp.o CMakeFiles/ncl.dir/nxsdiscretematrix.cpp.o CMakeFiles/ncl.dir/nxsdistancedatum.cpp.o CMakeFiles/ncl.dir/nxsdistancesblock.cpp.o CMakeFiles/ncl.dir/nxsemptyblock.cpp.o CMakeFiles/ncl.dir/nxsexception.cpp.o CMakeFiles/ncl.dir/nxsreader.cpp.o CMakeFiles/ncl.dir/nxssetreader.cpp.o CMakeFiles/ncl.dir/nxsstring.cpp.o CMakeFiles/ncl.dir/nxstaxablock.cpp.o CMakeFiles/ncl.dir/nxstoken.cpp.o CMakeFiles/ncl.dir/nxstreesblock.cpp.o /usr/bin/ranlib libncl.a make[4]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[3]: Entering directory '/<>/iqtree-1.6.3+dfsg/build.omp' [ 41%] Built target ncl make[3]: Leaving directory '/<>/iqtree-1.6.3+dfsg/build.omp' make[2]: *** [Makefile:155: all] Error 2 dh_auto_build: cd build.omp && make -j8 -Oline "INSTALL=install --strip-program=true" returned exit code 2 make[1]: *** [debian/rules:31: dh_auto_build_omp] Error 25 make[1]: Leaving directory '/<>/iqtree-1.6.3+dfsg' make: *** [debian/rules:12: build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2018-05-02T12:49:07Z 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: 37780 Build-Time: 21 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 9 Job: iqtree_1.6.3+dfsg-1 Machine Architecture: amd64 Package: iqtree Package-Time: 44 Source-Version: 1.6.3+dfsg-1 Space: 37780 Status: attempted Version: 1.6.3+dfsg-1 -------------------------------------------------------------------------------- Finished at 2018-05-02T12:49:07Z Build needed 00:00:44, 37780k disk space E: Build failure (dpkg-buildpackage died) DC-Status: Failed 44.843403814s DC-Time-Estimation: 44.843403814 versus expected 262 (r/m: 4.8425538143071165 ; m: 44.843403814)